Merge remote-tracking branch 'origin/master'

+
+python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run1 --version _v11 > ../outputs/Run1_v11.txt
+python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run2 --version _v11 --S1 > ../outputs/Run2_v11.txt
+python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run3 --version _v11 --S2 > ../outputs/Run3_v11.txt
+python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run4 --version _v11 --S1 --S2 > ../outputs/Run4_v11.txt
+python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run5 --version _v11 --S3 > ../outputs/Run5_v11.txt
+python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run6 --version _v11 --S1 --S3 > ../outputs/Run6_v11.txt
+python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run7 --version _v11 --S2 --S3 > ../outputs/Run7_v11.txt
+python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run8 --version _v11 --S1 --S2 --S3 > ../outputs/Run8_v11.txt
+
+

-python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run1 --version _v1
-python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run2 --version _v1 --S1
-python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run3 --version _v1 --S2
-python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run4 --version _v1 --S1 --S2
-python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run5 --version _v1 --S3
-python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run6 --version _v1 --S1 --S3
-python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run7 --version _v1 --S2 --S3
-python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run8 --version _v1 --S1 --S2 --S3

+# -*- coding: UTF-8 -*-
+
+import os
+from itertools import chain
+from optparse import OptionParser
+from time import time
+from collections import Counter
+import re
+
+import nltk
+import sklearn
+import scipy.stats
+import sys
+
+from sklearn.externals import joblib
+from sklearn.metrics import make_scorer
+from sklearn.cross_validation import cross_val_score
+from sklearn.grid_search import RandomizedSearchCV
+
+import sklearn_crfsuite
+from sklearn_crfsuite import scorers
+from sklearn_crfsuite import metrics
+
+from pandas import DataFrame as DF
+from nltk.corpus import stopwords
+
+
+# Objective
+# Training and evaluation of CRFs with sklearn-crfsuite.
+#
+# Input parameters
+# --inputPath=PATH    	Path of training and test data set
+# --trainingFile        File with training data set
+# --testFile        	File with test data set
+# --outputPath=PATH    	Output path to place output files
+# --nameGrid            Number of run
+# --version    		    Version Report
+
+# Output
+# 1) Best model
+# 2) Report
+
+# Examples
+# python training_validation_v10.py
+# --inputPath 			/home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+# --trainingFile 		training-data-set-70.txt
+# --testFile			test-data-set-30.txt
+# --outputPath 			/home/egaytan/automatic-extraction-growth-conditions/CRF/
+# --version    		    _v1
+# python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --nameGrid Run1 --version _v1 --S1 --S2 --S3 
+
+##################################################################
+#                             FEATURES                           # 
+##################################################################
+
+#================== COMPLETE WORD FEATURES ======================#
+
+def isGreek(word):
+    ## Complete word are greek letters
+    alphabet = ['Α','Β','Γ','Δ','Ε','Ζ','Η','Θ','Ι','Κ','Λ','Μ','Ν','Ξ','Ο','Π','Ρ','Σ','Τ','Υ','Φ','Χ','Ψ','Ω',
+    'α','β','γ','δ','ε','ζ','η','θ','ι','κ','λ','μ','ν','ξ','ο','π','ρ','ς','σ','τ','υ','φ','χ','ψ','ω']
+    if word in alphabet:
+        return True
+    else:
+        return False 
+
+#================ INNER OF THE WORD FEATURES ====================#
+
+def hNumber(word):
+    ## Al leats has one greek letter
+    for l in word:
+        if l.isdigit():
+            return True
+    return False
+
+def symb(word):
+    n=0
+    ## At least a not alphanumeric character
+    for l in word:
+        if l.isdigit(): n = n+1
+        if l.isalpha(): n = n+1
+        #Exclude Greek letters
+        if isGreek(l): n = n+1
+
+    if n<len(word): return True
+    else: return False
+
+def hUpper(word):
+    ## At least an upper letter
+    for l in word:
+        if l.isupper(): return True
+    return False
+
+def hLower(word):
+    ## At least a lower letter
+    for l in word:
+        if l.islower(): return True
+    return False 
+
+def hGreek(word):
+    ## At least a greek letter
+    for l in word:
+        if isGreek(l): return True
+    return False    
+
+#============================FEATURES===========================#
+
+def word2features(sent, i, S1, S2, S3):
+    ## Getting word features
+
+    ## Saving CoreNLP annotations
+    listElem = sent[i].split('|')
+    word = listElem[0]
+    lemma = listElem[1]
+    postag = listElem[2]
+    #ner = listElem[4]
+
+    #=========================== G =============================#
+    ## NAME LEVEL G
+    ## FUTURE TYPE General features
+
+    features = {
+        ## basal features
+        'lemma': lemma,
+        'postag': postag
+        }
+
+    ## more tha one word in sentence
+    if i > 0:        
+        ## Anterior word
+        listElem = sent[i - 1].split('|')
+
+        ## Saving CoreNLP annotations
+        lemma0 = listElem[1]
+        postag0 = listElem[2]        
+        features.update({            
+            #LemaG anterior      
+            '-1:lemma': lemma0,
+            #Postag anterior 
+            '-1:postag': postag0,
+        })
+
+    ## is not the last word
+    if i < len(sent) - 1:
+        ## Posterior word 
+        listElem = sent[i + 1].split('|')
+        ## Saving CoreNLP annotations       
+        lemma2 = listElem[1]
+        postag2 = listElem[2]
+
+        features.update({           
+            #LemaG  posterior      
+            '+1:lemma': lemma2,
+            #Postag posterior 
+            '+1:postag': postag2,
+        })    
+
+    #=========================== S1 =============================#
+    ## NAME LEVEL S1
+    ## FEATURE TYPE Inner word features
+
+    if S1:
+        #Add features
+        features['hUpper']=  hUpper(word)
+        features['hLower']=  hUpper(word)
+        features['hGreek']=  hGreek(word)        
+        features['symb']= symb(word)
+        #word firstChar
+        features['word[:1]']= word[:1]    
+        #word secondChar
+        if len(word)>1:
+            features['word[:2]']= word[:2]        
+        '''
+        #lemma and postag firstChar
+        features['lemma[:1]']= lemma[:1]
+        features['postag[:1]']= postag[:1]
+        #lemma and postag secondChar
+        if len(lemma)>1:
+            features['lemma[:2]']= lemma[:2]
+        if len(postag)>1:
+            features['postag[:2]']= postag[:2]
+        '''
+    #=========================== S2 =============================#
+    ## NAME LEVEL S2
+    ## FEATURE TYPE Complete word features
+
+    if S2:
+        #Add features
+        features['word']=  word
+        features['isUpper']=  word.isupper()
+        features['isLower']=  word.islower()
+        features['isGreek']=  isGreek(word)       
+        features['isNumber']= word.isdigit()
+        ## more tha one word in sentence
+        if i > 0:        
+            ## Anterior word
+            listElem = sent[i - 1].split('|')
+            ## Saving CoreNLP annotations
+            word0 = listElem[0]
+            features['-1:word']=  word0
+
+        ## is not the last word
+        if i < len(sent)-1:
+            listElem = sent[i + 1].split('|')
+            ## Saving CoreNLP annotations       
+            word2 = listElem[0]
+            ## Posterior word 
+            features['+1:word']=  word2
+    
+    #=========================== S3 =============================#
+    ## NAME LEVEL S3
+    ## FEATURE TYPE Extended context features
+    if S3:            
+        ## more tha two words in sentence
+        if i > 1:        
+            ## two anterior lemma and postag
+            listElem = sent[i - 2].split('|')
+            ## Saving CoreNLP annotations
+            lemma01 = listElem[1]
+            postag01 = listElem[2]
+            features['-2:lemma']=  lemma01
+            features['-2:postag']=  postag01
+
+        ## is not the penultimate word
+        if i < len(sent) - 2:
+            listElem = sent[i + 2].split('|')
+            ## Saving CoreNLP annotations       
+            lemma02 = listElem[1]
+            postag02 = listElem[2]
+            ## two posterior lemma and postag
+            features['+2:lemma']=  lemma02
+            features['+2:postag']=  postag02
+
+    return features
+
+def sent2features(sent, S1, S2, S3):
+    ## Itering in sentence for each word and saving its features
+    return [word2features(sent, i, S1, S2, S3) for i in range(len(sent))]
+
+def sent2labels(sent):
+    ## 3rd position by word is the label
+    return [elem.split('|')[3] for elem in sent]
+
+def sent2tokens(sent):
+    return [token for token, postag, label in sent]
+
+def print_transitions(trans_features, f):
+    for (label_from, label_to), weight in trans_features:
+        f.write("{:6} -> {:7} {:0.6f}\n".format(label_from, label_to, weight))
+
+def print_state_features(state_features, f):
+    for (attr, label), weight in state_features:
+        f.write("{:0.6f} {:8} {}\n".format(weight, label, attr.encode("utf-8")))
+
+
+__author__ = 'egaytan'
+
+##################################################################
+#                            MAIN PROGRAM                        #
+##################################################################
+
+if __name__ == "__main__":
+    ## Defining parameters
+    parser = OptionParser()
+    parser.add_option("--inputPath",        dest="inputPath",       help="Path of training data set",           metavar="PATH")
+    parser.add_option("--outputPath",       dest="outputPath",      help="Output path to place output files",   metavar="PATH")
+    parser.add_option("--trainingFile",     dest="trainingFile",    help="File with training data set",         metavar="FILE")
+    parser.add_option("--testFile",         dest="testFile",        help="File with test data set",             metavar="FILE")
+    parser.add_option("--Gridname",         dest="Gridname",        help="Report number run",                   metavar="FILE")
+    parser.add_option("--version",          dest="version",         help="Report file",                         metavar="FILE")
+    parser.add_option("--S1",               dest="S1",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--S2",               dest="S2",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--S3",               dest="S3",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--excludeStopWords", dest="excludeStopWords",help="Exclude stop words",          action="store_true", default=False)
+    parser.add_option("--excludeSymbols",   dest="excludeSymbols",  help="Exclude punctuation marks",   action="store_true", default=False)
+
+
+    (options, args) = parser.parse_args()
+    if len(args) > 0:
+        parser.error("Any parameter given.")
+        sys.exit(1)
+
+    print('-------------------------------- PARAMETERS --------------------------------')
+    print("Path of training data set: " + options.inputPath)
+    print("File with training data set: " + str(options.trainingFile))
+    print("Path of test data set: " + options.inputPath)
+    print("File with test data set: " + str(options.testFile))
+    print("Exclude stop words: " + str(options.excludeStopWords))
+    print("Levels: " + str(options.S1) + " " + str(options.S2))
+    print("Report file: " + str(options.version))
+
+    
+    symbols = ['.', ',', ':', ';', '?', '!', '\'', '"', '<', '>', '(', ')', '-', '_', '/', '\\', '¿', '¡', '+', '{',
+               '}', '[', ']', '*', '%', '$', '#', '&', '°', '`', '...']   
+    print("Exclude symbols: " + str(options.excludeSymbols))
+
+    print('-------------------------------- PROCESSING --------------------------------')
+    print('Reading corpus...')
+    t0 = time()
+
+    sentencesTrainingData = []
+    sentencesTestData = []
+
+    stopwords = [word for word in stopwords.words('english')]
+
+    with open(os.path.join(options.inputPath, options.trainingFile), "r") as iFile:
+        for line in iFile.readlines():
+            listLine = []
+            line = line.strip('\n')
+            for token in line.split():
+                if options.excludeStopWords:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in stopwords:
+                        continue
+                if options.excludeSymbols:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in symbols:
+                        continue
+                listLine.append(token)
+            sentencesTrainingData.append(listLine)
+        print("   Sentences training data: " + str(len(sentencesTrainingData)))
+
+    with open(os.path.join(options.inputPath, options.testFile), "r") as iFile:
+        for line in iFile.readlines():
+            listLine = []
+            line = line.strip('\n')
+            for token in line.split():
+                if options.excludeStopWords:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in stopwords:
+                        continue
+                if options.excludeSymbols:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in symbols:
+                        continue
+                listLine.append(token)
+            sentencesTestData.append(listLine)
+        print("   Sentences test data: " + str(len(sentencesTestData)))
+
+    print("Reading corpus done in: %fs" % (time() - t0))
+
+    print('-------------------------------- FEATURES --------------------------------')
+
+    Dtraning = sent2features(sentencesTrainingData[0], options.S1, options.S2, options.S3)[2]
+    Dtest = sent2features(sentencesTestData[0], options.S1, options.S2, options.S3)[2]
+    print('--------------------------Features Training ---------------------------')
+    print(DF(list(Dtraning.items())))
+    print('--------------------------- FeaturesTest -----------------------------')
+    print(DF(list(Dtest.items())))
+
+    t0 = time()
+
+    X_train = [sent2features(s, options.S1, options.S2, options.S3) for s in sentencesTrainingData]
+    y_train = [sent2labels(s) for s in sentencesTrainingData]
+
+    X_test = [sent2features(s, options.S1, options.S2, options.S3) for s in sentencesTestData]
+    # print X_test
+    y_test = [sent2labels(s) for s in sentencesTestData]
+
+    # Fixed parameters
+    # crf = sklearn_crfsuite.CRF(
+    #     algorithm='lbfgs',
+    #     c1=0.1,
+    #     c2=0.1,
+    #     max_iterations=100,
+    #     all_pgossible_transitions=True
+    # )
+
+    # Hyperparameter Optimization
+    crf = sklearn_crfsuite.CRF(
+        algorithm='lbfgs',
+        max_iterations=100,
+        all_possible_transitions=True
+    )
+    params_space = {
+        'c1': scipy.stats.expon(scale=0.5),
+        'c2': scipy.stats.expon(scale=0.05),
+    }
+
+    # Original: labels = list(crf.classes_)
+    # Original: labels.remove('O')
+    labels = list(['Gtype', 'Gversion', 'Med', 'Phase', 'Strain', 'Substrain', 'Supp', 'Technique', 'Temp', 'OD', 'Anti', 'Agit', 'Air', 'Vess', 'pH'])
+
+    # use the same metric for evaluation
+    f1_scorer = make_scorer(metrics.flat_f1_score,
+                            average='weighted', labels=labels)
+
+    # search
+    rs = RandomizedSearchCV(crf, params_space,
+                            cv=10,
+                            verbose=3,
+                            n_jobs=-1,
+                            n_iter=20,
+                            # n_iter=50,
+                            scoring=f1_scorer)
+    rs.fit(X_train, y_train)
+
+    # Fixed parameters
+    # crf.fit(X_train, y_train)
+
+    # Best hiperparameters
+    # crf = rs.best_estimator_
+  
+    nameReport = str(options.Gridname) + str(options.version) + '.txt'
+    with open(os.path.join(options.outputPath, "reports", "report_" + nameReport), mode="w") as oFile:
+        oFile.write("********** TRAINING AND TESTING REPORT **********\n")
+        oFile.write("Training file: " + options.trainingFile + '\n')
+        oFile.write('\n')
+        oFile.write('best params:' + str(rs.best_params_) + '\n')
+        oFile.write('best CV score:' + str(rs.best_score_) + '\n')
+        oFile.write('model size: {:0.2f}M\n'.format(rs.best_estimator_.size_ / 1000000))
+
+    print("Training done in: %fs" % (time() - t0))
+    t0 = time()
+
+    # Update best crf
+    crf = rs.best_estimator_
+
+    # Saving model
+    print("     Saving training model...")
+    t1 = time()
+    nameModel = 'model_S1_' + str(options.S1) + '_S2_' + str(options.S2) + str(options.version) + '.mod'
+    joblib.dump(crf, os.path.join(options.outputPath, "models", nameModel))
+    print("        Saving training model done in: %fs" % (time() - t1))
+
+    # Evaluation against test data
+    y_pred = crf.predict(X_test)
+    print("*********************************")
+    print("Prediction done in: %fs" % (time() - t0))
+
+    # labels = list(crf.classes_)
+    # labels.remove('O')
+
+    with open(os.path.join(options.outputPath, "reports", "report_" + nameReport), mode="a") as oFile:
+        oFile.write('\n')
+        oFile.write("Flat F1: " + str(metrics.flat_f1_score(y_test, y_pred, average='weighted', labels=labels)))
+        oFile.write('\n')
+        # labels = list(crf.classes_)
+        sorted_labels = sorted(
+            labels,
+            key=lambda name: (name[1:], name[0])
+        )
+        oFile.write(metrics.flat_classification_report(
+            y_test, y_pred, labels=sorted_labels, digits=3
+        ))
+        oFile.write('\n')
+
+        oFile.write("\nTop likely transitions:\n")
+        print_transitions(Counter(crf.transition_features_).most_common(50), oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop unlikely transitions:\n")
+        print_transitions(Counter(crf.transition_features_).most_common()[-50:], oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop positive:\n")
+        print_state_features(Counter(crf.state_features_).most_common(200), oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop negative:\n")
+        print_state_features(Counter(crf.state_features_).most_common()[-200:], oFile)
+        oFile.write('\n')
+

+# -*- coding: UTF-8 -*-
+
+import os
+from itertools import chain
+from optparse import OptionParser
+from time import time
+from collections import Counter
+import re
+
+import nltk
+import sklearn
+import scipy.stats
+import sys
+
+from sklearn.externals import joblib
+from sklearn.metrics import make_scorer
+from sklearn.cross_validation import cross_val_score
+from sklearn.grid_search import RandomizedSearchCV
+
+import sklearn_crfsuite
+from sklearn_crfsuite import scorers
+from sklearn_crfsuite import metrics
+
+from pandas import DataFrame as DF
+from nltk.corpus import stopwords
+
+
+# Objective
+# Training and evaluation of CRFs with sklearn-crfsuite.
+#
+# Input parameters
+# --inputPath=PATH    	Path of training and test data set
+# --trainingFile        File with training data set
+# --testFile        	File with test data set
+# --outputPath=PATH    	Output path to place output files
+# --nameGrid            Number of run
+# --version    		    Version Report
+
+# Output
+# 1) Best model
+# 2) Report
+
+# Examples
+# python training_validation_v10.py
+# --inputPath 			/home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+# --trainingFile 		training-data-set-70.txt
+# --testFile			test-data-set-30.txt
+# --outputPath 			/home/egaytan/automatic-extraction-growth-conditions/CRF/
+# --version    		    _v1
+# python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --nameGrid Run1 --version _v1 --S1 --S2 --S3 
+
+##################################################################
+#                             FEATURES                           # 
+##################################################################
+
+#================== COMPLETE WORD FEATURES ======================#
+
+def isGreek(word):
+    ## Complete word are greek letters
+    alphabet = ['Α','Β','Γ','Δ','Ε','Ζ','Η','Θ','Ι','Κ','Λ','Μ','Ν','Ξ','Ο','Π','Ρ','Σ','Τ','Υ','Φ','Χ','Ψ','Ω',
+    'α','β','γ','δ','ε','ζ','η','θ','ι','κ','λ','μ','ν','ξ','ο','π','ρ','ς','σ','τ','υ','φ','χ','ψ','ω']
+    if word in alphabet:
+        return True
+    else:
+        return False 
+
+#================ INNER OF THE WORD FEATURES ====================#
+
+def hNumber(word):
+    ## Al leats has one greek letter
+    for l in word:
+        if l.isdigit():
+            return True
+    return False
+
+def symb(word):
+    n=0
+    ## At least a not alphanumeric character
+    for l in word:
+        if l.isdigit(): n = n+1
+        if l.isalpha(): n = n+1
+        #Exclude Greek letters
+        if isGreek(l): n = n+1
+
+    if n<len(word): return True
+    else: return False
+
+def hUpper(word):
+    ## At least an upper letter
+    for l in word:
+        if l.isupper(): return True
+    return False
+
+def hLower(word):
+    ## At least a lower letter
+    for l in word:
+        if l.islower(): return True
+    return False 
+
+def hGreek(word):
+    ## At least a greek letter
+    for l in word:
+        if isGreek(l): return True
+    return False    
+
+#============================FEATURES===========================#
+
+def word2features(sent, i, S1, S2, S3):
+    ## Getting word features
+
+    ## Saving CoreNLP annotations
+    listElem = sent[i].split('|')
+    word = listElem[0]
+    lemma = listElem[1]
+    postag = listElem[2]
+    #ner = listElem[4]
+
+    #=========================== G =============================#
+    ## NAME LEVEL G
+    ## FUTURE TYPE General features
+
+    features = {
+        ## basal features
+        'lemma': lemma,
+        'postag': postag
+        }
+
+    ## more tha one word in sentence
+    if i > 0:        
+        ## Anterior word
+        listElem = sent[i - 1].split('|')
+
+        ## Saving CoreNLP annotations
+        lemma0 = listElem[1]
+        postag0 = listElem[2]        
+        features.update({            
+            #LemaG anterior      
+            '-1:lemma': lemma0,
+            #Postag anterior 
+            '-1:postag': postag0,
+        })
+
+    ## is not the last word
+    if i < len(sent) - 1:
+        ## Posterior word 
+        listElem = sent[i + 1].split('|')
+        ## Saving CoreNLP annotations       
+        lemma2 = listElem[1]
+        postag2 = listElem[2]
+
+        features.update({           
+            #LemaG  posterior      
+            '+1:lemma': lemma2,
+            #Postag posterior 
+            '+1:postag': postag2,
+        })    
+
+    #=========================== S1 =============================#
+    ## NAME LEVEL S1
+    ## FEATURE TYPE Inner word features
+
+    if S1:
+        #Add features
+        features['hUpper']=  hUpper(word)
+        features['hLower']=  hUpper(word)
+        features['hGreek']=  hGreek(word)        
+        features['symb']= symb(word)
+        '''
+        #word firstChar
+        features['word[:1]']= word[:1]    
+        #word secondChar
+        if len(word)>1:
+            features['word[:2]']= word[:2]        
+        '''
+        #lemma and postag firstChar
+        features['lemma[:1]']= lemma[:1]
+        features['postag[:1]']= postag[:1]
+        #lemma and postag secondChar
+        if len(lemma)>1:
+            features['lemma[:2]']= lemma[:2]
+        if len(postag)>1:
+            features['postag[:2]']= postag[:2]        
+    #=========================== S2 =============================#
+    ## NAME LEVEL S2
+    ## FEATURE TYPE Complete word features
+
+    if S2:
+        #Add features
+        features['word']=  word
+        features['isUpper']=  word.isupper()
+        features['isLower']=  word.islower()
+        features['isGreek']=  isGreek(word)       
+        features['isNumber']= word.isdigit()
+        ## more tha one word in sentence
+        if i > 0:        
+            ## Anterior word
+            listElem = sent[i - 1].split('|')
+            ## Saving CoreNLP annotations
+            word0 = listElem[0]
+            features['-1:word']=  word0
+
+        ## is not the last word
+        if i < len(sent)-1:
+            listElem = sent[i + 1].split('|')
+            ## Saving CoreNLP annotations       
+            word2 = listElem[0]
+            ## Posterior word 
+            features['+1:word']=  word2
+    
+    #=========================== S3 =============================#
+    ## NAME LEVEL S3
+    ## FEATURE TYPE Extended context features
+    if S3:            
+        ## more tha two words in sentence
+        if i > 1:        
+            ## two anterior lemma and postag
+            listElem = sent[i - 2].split('|')
+            ## Saving CoreNLP annotations
+            lemma01 = listElem[1]
+            postag01 = listElem[2]
+            features['-2:lemma']=  lemma01
+            features['-2:postag']=  postag01
+
+        ## is not the penultimate word
+        if i < len(sent) - 2:
+            listElem = sent[i + 2].split('|')
+            ## Saving CoreNLP annotations       
+            lemma02 = listElem[1]
+            postag02 = listElem[2]
+            ## two posterior lemma and postag
+            features['+2:lemma']=  lemma02
+            features['+2:postag']=  postag02
+
+    return features
+
+def sent2features(sent, S1, S2, S3):
+    ## Itering in sentence for each word and saving its features
+    return [word2features(sent, i, S1, S2, S3) for i in range(len(sent))]
+
+def sent2labels(sent):
+    ## 3rd position by word is the label
+    return [elem.split('|')[3] for elem in sent]
+
+def sent2tokens(sent):
+    return [token for token, postag, label in sent]
+
+def print_transitions(trans_features, f):
+    for (label_from, label_to), weight in trans_features:
+        f.write("{:6} -> {:7} {:0.6f}\n".format(label_from, label_to, weight))
+
+def print_state_features(state_features, f):
+    for (attr, label), weight in state_features:
+        f.write("{:0.6f} {:8} {}\n".format(weight, label, attr.encode("utf-8")))
+
+
+__author__ = 'egaytan'
+
+##################################################################
+#                            MAIN PROGRAM                        #
+##################################################################
+
+if __name__ == "__main__":
+    ## Defining parameters
+    parser = OptionParser()
+    parser.add_option("--inputPath",        dest="inputPath",       help="Path of training data set",           metavar="PATH")
+    parser.add_option("--outputPath",       dest="outputPath",      help="Output path to place output files",   metavar="PATH")
+    parser.add_option("--trainingFile",     dest="trainingFile",    help="File with training data set",         metavar="FILE")
+    parser.add_option("--testFile",         dest="testFile",        help="File with test data set",             metavar="FILE")
+    parser.add_option("--Gridname",         dest="Gridname",        help="Report number run",                   metavar="FILE")
+    parser.add_option("--version",          dest="version",         help="Report file",                         metavar="FILE")
+    parser.add_option("--S1",               dest="S1",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--S2",               dest="S2",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--S3",               dest="S3",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--excludeStopWords", dest="excludeStopWords",help="Exclude stop words",          action="store_true", default=False)
+    parser.add_option("--excludeSymbols",   dest="excludeSymbols",  help="Exclude punctuation marks",   action="store_true", default=False)
+
+
+    (options, args) = parser.parse_args()
+    if len(args) > 0:
+        parser.error("Any parameter given.")
+        sys.exit(1)
+
+    print('-------------------------------- PARAMETERS --------------------------------')
+    print("Path of training data set: " + options.inputPath)
+    print("File with training data set: " + str(options.trainingFile))
+    print("Path of test data set: " + options.inputPath)
+    print("File with test data set: " + str(options.testFile))
+    print("Exclude stop words: " + str(options.excludeStopWords))
+    print("Levels: " + str(options.S1) + " " + str(options.S2))
+    print("Report file: " + str(options.version))
+
+    
+    symbols = ['.', ',', ':', ';', '?', '!', '\'', '"', '<', '>', '(', ')', '-', '_', '/', '\\', '¿', '¡', '+', '{',
+               '}', '[', ']', '*', '%', '$', '#', '&', '°', '`', '...']   
+    print("Exclude symbols: " + str(options.excludeSymbols))
+
+    print('-------------------------------- PROCESSING --------------------------------')
+    print('Reading corpus...')
+    t0 = time()
+
+    sentencesTrainingData = []
+    sentencesTestData = []
+
+    stopwords = [word for word in stopwords.words('english')]
+
+    with open(os.path.join(options.inputPath, options.trainingFile), "r") as iFile:
+        for line in iFile.readlines():
+            listLine = []
+            line = line.strip('\n')
+            for token in line.split():
+                if options.excludeStopWords:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in stopwords:
+                        continue
+                if options.excludeSymbols:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in symbols:
+                        continue
+                listLine.append(token)
+            sentencesTrainingData.append(listLine)
+        print("   Sentences training data: " + str(len(sentencesTrainingData)))
+
+    with open(os.path.join(options.inputPath, options.testFile), "r") as iFile:
+        for line in iFile.readlines():
+            listLine = []
+            line = line.strip('\n')
+            for token in line.split():
+                if options.excludeStopWords:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in stopwords:
+                        continue
+                if options.excludeSymbols:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in symbols:
+                        continue
+                listLine.append(token)
+            sentencesTestData.append(listLine)
+        print("   Sentences test data: " + str(len(sentencesTestData)))
+
+    print("Reading corpus done in: %fs" % (time() - t0))
+
+    print('-------------------------------- FEATURES --------------------------------')
+
+    Dtraning = sent2features(sentencesTrainingData[0], options.S1, options.S2, options.S3)[2]
+    Dtest = sent2features(sentencesTestData[0], options.S1, options.S2, options.S3)[2]
+    print('--------------------------Features Training ---------------------------')
+    print(DF(list(Dtraning.items())))
+    print('--------------------------- FeaturesTest -----------------------------')
+    print(DF(list(Dtest.items())))
+
+    t0 = time()
+
+    X_train = [sent2features(s, options.S1, options.S2, options.S3) for s in sentencesTrainingData]
+    y_train = [sent2labels(s) for s in sentencesTrainingData]
+
+    X_test = [sent2features(s, options.S1, options.S2, options.S3) for s in sentencesTestData]
+    # print X_test
+    y_test = [sent2labels(s) for s in sentencesTestData]
+
+    # Fixed parameters
+    # crf = sklearn_crfsuite.CRF(
+    #     algorithm='lbfgs',
+    #     c1=0.1,
+    #     c2=0.1,
+    #     max_iterations=100,
+    #     all_pgossible_transitions=True
+    # )
+
+    # Hyperparameter Optimization
+    crf = sklearn_crfsuite.CRF(
+        algorithm='lbfgs',
+        max_iterations=100,
+        all_possible_transitions=True
+    )
+    params_space = {
+        'c1': scipy.stats.expon(scale=0.5),
+        'c2': scipy.stats.expon(scale=0.05),
+    }
+
+    # Original: labels = list(crf.classes_)
+    # Original: labels.remove('O')
+    labels = list(['Gtype', 'Gversion', 'Med', 'Phase', 'Strain', 'Substrain', 'Supp', 'Technique', 'Temp', 'OD', 'Anti', 'Agit', 'Air', 'Vess', 'pH'])
+
+    # use the same metric for evaluation
+    f1_scorer = make_scorer(metrics.flat_f1_score,
+                            average='weighted', labels=labels)
+
+    # search
+    rs = RandomizedSearchCV(crf, params_space,
+                            cv=10,
+                            verbose=3,
+                            n_jobs=-1,
+                            n_iter=20,
+                            # n_iter=50,
+                            scoring=f1_scorer)
+    rs.fit(X_train, y_train)
+
+    # Fixed parameters
+    # crf.fit(X_train, y_train)
+
+    # Best hiperparameters
+    # crf = rs.best_estimator_
+  
+    nameReport = str(options.Gridname) + str(options.version) + '.txt'
+    with open(os.path.join(options.outputPath, "reports", "report_" + nameReport), mode="w") as oFile:
+        oFile.write("********** TRAINING AND TESTING REPORT **********\n")
+        oFile.write("Training file: " + options.trainingFile + '\n')
+        oFile.write('\n')
+        oFile.write('best params:' + str(rs.best_params_) + '\n')
+        oFile.write('best CV score:' + str(rs.best_score_) + '\n')
+        oFile.write('model size: {:0.2f}M\n'.format(rs.best_estimator_.size_ / 1000000))
+
+    print("Training done in: %fs" % (time() - t0))
+    t0 = time()
+
+    # Update best crf
+    crf = rs.best_estimator_
+
+    # Saving model
+    print("     Saving training model...")
+    t1 = time()
+    nameModel = 'model_S1_' + str(options.S1) + '_S2_' + str(options.S2) + str(options.version) + '_S3_' + str(options.S3) + '.mod'
+    joblib.dump(crf, os.path.join(options.outputPath, "models", nameModel))
+    print("        Saving training model done in: %fs" % (time() - t1))
+
+    # Evaluation against test data
+    y_pred = crf.predict(X_test)
+    print("*********************************")
+    print("Prediction done in: %fs" % (time() - t0))
+
+    # labels = list(crf.classes_)
+    # labels.remove('O')
+
+    with open(os.path.join(options.outputPath, "reports", "report_" + nameReport), mode="a") as oFile:
+        oFile.write('\n')
+        oFile.write("Flat F1: " + str(metrics.flat_f1_score(y_test, y_pred, average='weighted', labels=labels)))
+        oFile.write('\n')
+        # labels = list(crf.classes_)
+        sorted_labels = sorted(
+            labels,
+            key=lambda name: (name[1:], name[0])
+        )
+        oFile.write(metrics.flat_classification_report(
+            y_test, y_pred, labels=sorted_labels, digits=3
+        ))
+        oFile.write('\n')
+
+        oFile.write("\nTop likely transitions:\n")
+        print_transitions(Counter(crf.transition_features_).most_common(50), oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop unlikely transitions:\n")
+        print_transitions(Counter(crf.transition_features_).most_common()[-50:], oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop positive:\n")
+        print_state_features(Counter(crf.state_features_).most_common(200), oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop negative:\n")
+        print_state_features(Counter(crf.state_features_).most_common()[-200:], oFile)
+        oFile.write('\n')
+

+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ Anaerobic|anaerobic|JJ|Air  cultures|culture|NNS|O 
+ All|all|DT|O  strains|strain|NNS|O  used|use|VBN|O  in|in|IN|O  this|this|DT|O  study|study|NN|O  were|be|VBD|O  E.|e.|FW|O  coli|coli|FW|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  and|and|CC|O  its|its|PRP$|O  derivatives|derivative|NNS|O  .|.|.|O  The|the|DT|O  deletion|deletion|NN|O  mutants|mutant|NNS|O  -LRB-|-lrb-|-LRB-|O  Δfnr|δfnr|NN|O  and|and|CC|O  ΔarcA|δarca|NN|O  -RRB-|-rrb-|-RRB-|O  were|be|VBD|O  constructed|construct|VBN|O  by|by|IN|O  a|a|DT|O  λ|λ|NN|O  red|red|JJ|O  and|and|CC|O  FLP-mediated|flp-mediated|JJ|O  site-specific|site-specific|JJ|O  recombination|recombination|NN|O  method|method|NN|O  .|.|.|O  Glycerol|glycerol|NN|O  stocks|stock|NNS|O  of|of|IN|O  E.|e.|FW|O  coli|coli|FW|O  strains|strain|NNS|O  were|be|VBD|O  inoculated|inoculate|VBN|O  into|into|IN|O  M9|m9|NN|O  minimal|minimal|JJ|O  medium|medium|NN|O  containing|contain|VBG|O  0.2|0.2|CD|O  %|%|NN|O  -LRB-|-lrb-|-LRB-|O  w/v|w/v|NN|O  -RRB-|-rrb-|-RRB-|O  carbon|carbon|NN|O  source|source|NN|O  -LRB-|-lrb-|-LRB-|O  glucose|glucose|NN|O  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  0.1|0.1|CD|O  %|%|NN|O  -LRB-|-lrb-|-LRB-|O  w/v|w/v|NN|O  -RRB-|-rrb-|-RRB-|O  nitrogen|nitrogen|NN|O  source|source|NN|O  -LRB-|-lrb-|-LRB-|O  NH4Cl|nh4cl|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  and|and|CC|O  cultured|culture|VBN|O  overnight|overnight|JJ|O  at|at|IN|O  37|37|CD|O  °C|°c|NN|O  with|with|IN|O  constant|constant|JJ|O  agitation|agitation|NN|O  .|.|.|O  The|the|DT|O  cultures|culture|NNS|O  were|be|VBD|O  diluted|dilute|VBN|O  1:100|1:100|CD|O  into|into|IN|O  fresh|fresh|JJ|O  minimal|minimal|JJ|Med  medium|medium|NN|Med  and|and|CC|O  then|then|RB|O  cultured|culture|VBN|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  to|to|TO|O  an|a|DT|O  appropriate|appropriate|JJ|O  cell|cell|NN|O  density|density|NN|O  with|with|IN|O  constant|constant|JJ|O  agitation|agitation|NN|O  .|.|.|O  For|for|IN|O  the|the|DT|O  anaerobic|anaerobic|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  minimal|minimal|JJ|O  medium|medium|NN|O  were|be|VBD|O  flushed|flush|VBN|O  with|with|IN|O  nitrogen|nitrogen|NN|O  and|and|CC|O  then|then|RB|O  continuously|continuously|RB|O  monitored|monitor|VBN|O  using|use|VBG|O  a|a|DT|O  polarographic-dissolved|polarographic-dissolved|JJ|O  oxygen|oxygen|NN|O  probe|probe|NN|O  -LRB-|-lrb-|-LRB-|O  Cole-Parmer|Cole-Parmer|NNP|O  Instruments|Instruments|NNP|O  -RRB-|-rrb-|-RRB-|O  to|to|TO|O  ensure|ensure|VB|O  anaerobicity|anaerobicity|NN|O  .|.|.|O  For|for|IN|O  nitrate|nitrate|JJ|O  respiration|respiration|NN|O  20|20|CD|Supp  mmol|mmol|NN|Supp  potassium|potassium|NN|Supp  nitrate|nitrate|JJ|Supp  was|be|VBD|O  added|add|VBN|O  .|.|.|O 
+ antibody|antibody|NN|O  :|:|:|O  9E10|9e10|CD|Anti  Myc|myc|NN|Anti  tag|tag|NN|Anti  antibody|antibody|NN|O 
+ antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  FNR|fnr|NN|Anti  antibody|antibody|NN|Anti 
+ antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  H-NS|h-ns|NN|Anti  polyclonal|polyclonal|JJ|Anti  antibody|antibody|NN|Anti 
+ ArgR|argr|NN|O  _|_|CD|O  Arginine|arginine|NN|Supp  _|_|NN|O  2|2|CD|O 
+ ArgR|argr|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  2|2|CD|O 
+ At|at|IN|O  OD450|od450|NN|OD  =|=|JJ|OD  0.3|0.3|CD|OD  ,|,|,|O  cultures|culture|NNS|O  induced|induce|VBN|O  with|with|IN|O  1|1|CD|Supp  mM|mm|NN|Supp  IPTG|iptg|NN|Supp  .|.|.|O  Cells|cell|NNS|O  harvested|harvest|VBD|O  10|10|CD|O  min|min|NN|O  after|after|IN|O  induction|induction|NN|O 
+ carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  fructose|fructose|NN|Supp 
+ carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  glucose|glucose|NN|Supp 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  25|25|CD|Air  %|%|NN|Air  O2|o2|CD|Air  ,|,|,|Air  70|70|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.35|0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  70|70|CD|Air  %|%|NN|Air  N2|n2|NN|Air  ,|,|,|Air  25|25|CD|Air  %|%|NN|Air  O2|o2|CD|Air  ,|,|,|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  or|or|CC|O  anaerobically|anaerobically|RB|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  N2|n2|NN|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  70|70|CD|Air  %|%|NN|Air  N2|n2|NN|Air  ,|,|,|Air  25|25|CD|Air  %|%|NN|Air  O2|o2|CD|Air  ,|,|,|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  or|or|CC|O  anaerobically|anaerobically|RB|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  N2|n2|NN|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  in|in|IN|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  10|10|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp  .|.|.|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  65|65|CD|O  ml|ml|NN|O  LB|lb|NN|O  medium|medium|NN|O  at|at|IN|O  30|30|CD|O  °C|°c|NN|O  to|to|TO|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  about|about|IN|OD  0.3|0.3|CD|OD  .|.|.|O  Subsequently|subsequently|RB|O  30|30|CD|O  ml|ml|NN|O  of|of|IN|O  culture|culture|NN|O  were|be|VBD|O  transformed|transform|VBN|O  to|to|TO|O  a|a|DT|O  pre|pre|JJ|O  warmed|warm|VBN|O  flask|flask|NN|Vess  at|at|IN|O  43|43|CD|Temp  °C|°c|NN|Temp  -LRB-|-lrb-|-LRB-|Temp  see|see|VB|Temp  heat|heat|NN|Temp  sample|sample|NN|Temp  -RRB-|-rrb-|-RRB-|Temp  and|and|CC|O  the|the|DT|O  remainder|remainder|NN|O  kept|keep|VBD|O  at|at|IN|O  30|30|CD|Temp  °C|°c|NN|Temp  .|.|.|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  LB|LB|NNP|Med  media|media|NNS|Med  with|with|IN|O  1mM|1mm|NN|Supp  IPTG|iptg|NN|Supp  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  with|with|IN|O  shaking|shake|VBG|O  for|for|IN|O  2|2|CD|Supp  hours|hour|NNS|Supp 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-rpoB|anti-rpob|JJ|Anti  -LRB-|-lrb-|-LRB-|O  Santa|Santa|NNP|O  Cruz|Cruz|NNP|O  Biotech|Biotech|NNP|O  ,|,|,|O  sc-56766|sc-56766|NN|O  -RRB-|-rrb-|-RRB-|O 
+ chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O 
+ chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O 
+ chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O 
+ chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O 
+ Cra|Cra|NNP|O  glucose|glucose|NN|Supp  2|2|CD|O 
+ culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  Aerobic|Aerobic|NNP|Air  cultures|culture|NNS|O 
+ Ecoli|ecolus|NNS|O  _|_|VBP|O  dFNR|dfnr|NN|Gtype  _|_|CD|O  rep1|rep1|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Fur-8-myc|fur-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|O  mM|mm|NN|O  of|of|IN|O  FeCl2|fecl2|NN|O  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  DPD|dpd|NN|Supp  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|Supp  .|.|.|O  For|for|IN|O  the|the|DT|O  rifampicin-treated|rifampicin-treated|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  rifampicin|rifampicin|NN|Supp  dissolved|dissolve|VBN|Supp  in|in|IN|Supp  methanol|methanol|NN|Supp  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  concentration|concentration|NN|O  of|of|IN|O  150|150|CD|Supp  mg/mL|mg/ml|NN|Supp  at|at|IN|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  and|and|CC|O  stirred|stir|VBD|O  for|for|IN|O  20|20|CD|Supp  min|min|NN|Supp  .|.|.|O 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Fur-8-myc|fur-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  FeCl2|fecl2|NN|Supp  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|O  mM|mm|NN|O  of|of|IN|O  DPD|dpd|NN|O  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|Supp  .|.|.|O  For|for|IN|O  the|the|DT|O  rifampicin-treated|rifampicin-treated|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  rifampicin|rifampicin|NN|O  dissolved|dissolve|VBN|O  in|in|IN|O  methanol|methanol|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  concentration|concentration|NN|O  of|of|IN|O  150|150|CD|O  mg/mL|mg/ml|NN|O  at|at|IN|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  and|and|CC|O  stirred|stir|VBD|O  for|for|IN|O  20|20|CD|O  min|min|NN|O  .|.|.|O 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|WT|NNP|O  ,|,|,|O  and|and|CC|O  Δcra|Δcra|NNP|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  ,|,|,|O  fructose|fructose|NN|O  and|and|CC|O  acetate|acetate|NN|O  .|.|.|O 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Δfur|δfur|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  FeCl2|fecl2|NN|Supp  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|O  mM|mm|NN|O  of|of|IN|O  DPD|dpd|NN|O  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|O  .|.|.|O 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  ,|,|,|O  ΔoxyR|δoxyr|NN|O  ,|,|,|O  ΔsoxR|δsoxr|NN|O  ,|,|,|O  and|and|CC|O  ΔsoxS|δsoxs|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  Then|then|RB|O  cells|cell|NNS|O  were|be|VBD|O  treated|treat|VBN|O  with|with|IN|O  250|250|CD|O  uM|um|NN|O  of|of|IN|O  paraquat|paraquat|NN|O  at|at|IN|O  mid-log|mid-log|JJ|O  pahse|pahse|NN|O  for|for|IN|O  20|20|CD|O  min|min|NN|O  with|with|IN|O  agitation|agitation|NN|O  .|.|.|O 
+ E.|E.|NNP|O  coli|coli|NN|O  strains|strain|NNS|O  harboring|harbor|VBG|O  PurR-8myc|purr-8myc|NN|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  minimal|minimal|JJ|O  M9|m9|NN|O  medium|medium|NN|O  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|O  -LRB-|-lrb-|-LRB-|O  2|2|CD|O  g/L|g/l|NN|O  -RRB-|-rrb-|-RRB-|O  then|then|RB|O  inoculated|inoculate|VBN|O  into|into|IN|O  100mL|100ml|NN|O  of|of|IN|O  fresh|fresh|JJ|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  100ug/L|100ug/l|NN|Supp  adenine|adenine|NN|Supp  .|.|.|O 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  and|and|CC|O  nitrate|nitrate|VBP|Supp  .|.|.|O 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  A|a|NN|O 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  Affinity|affinity|NN|O  Purified|purify|VBN|O  -|-|:|O  B|b|NN|O 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  C|c|NN|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|Anaerobic|NNP|Air  A|A|NNP|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|anaerobic|JJ|Air  C|c|NN|O 
+ Fur|Fur|NNP|O  with|with|IN|O  DPD|dpd|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ genotype|genotype|NN|O  :|:|:|O  delta|delta|NN|O  -|-|:|O  crp|crp|NN|Gtype  Knock-out|knock-out|JJ|Gtype  strain|strain|NN|Gtype 
+ genotype|genotype|NN|O  :|:|:|O  Lrp-8myc|lrp-8myc|JJ|Gtype 
+ genotype|genotype|NN|O  :|:|:|O  ompR|ompr|NN|Gtype  deletion|deletion|NN|Gtype  mutant|mutant|JJ|Gtype 
+ genotype|genotype|NN|O  :|:|:|O  PurR-8myc|purr-8myc|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadW|delta-gadw|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-oxyR|delta-oxyr|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  lacking|lack|VBG|Gtype  the|the|DT|Gtype  small|small|JJ|Gtype  RNA|rna|NN|Gtype  RyhB|ryhb|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  lacking|lack|VBG|Gtype  the|the|DT|Gtype  transcription|transcription|NN|Gtype  factor|factor|NN|Gtype  Fur|Fur|NNP|Gtype  and|and|CC|Gtype  the|the|DT|Gtype  small|small|JJ|Gtype  RNA|rna|NN|Gtype  RyhB|ryhb|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  soxR-8myc|soxr-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  Wild-type|wild-type|JJ|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  Δfur|δfur|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  harboring|harbor|VBG|O  Fnr-8myc|fnr-8myc|JJ|Gtype 
+ genoype|genoype|NN|O  :|:|:|O  Wild-Type|wild-type|JJ|Gtype 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Anaerobic|anaerobic|JJ|Air 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  glucose|glucose|NN|Supp 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep2|rep2|NN|O 
+ Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  B|b|NN|O  -|-|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  B|b|NN|O  -|-|:|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  10|10|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
+ Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  20|20|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
+ WT|wt|JJ|Gtype  acetate|acetate|NN|Supp  2|2|CD|O 
+ WT|wt|JJ|Gtype  fructose|fructose|NN|Supp  1|1|CD|O 
+ WT|wt|JJ|Gtype  fructose|fructose|NN|Supp  2|2|CD|O 
+ WT|wt|JJ|Gtype  glucose|glucose|NN|Supp  1|1|CD|O 
+ WT|wt|JJ|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
+ WT|wt|JJ|Gtype  with|with|IN|O  Fe|Fe|NNP|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ Δcra|δcra|NN|Gtype  acetate|acetate|NN|Supp  1|1|CD|O 
+ ΔgadX|δgadx|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ ΔompR|δompr|NN|Gtype  NaCl|nacl|NN|Supp  2|2|CD|O 
+ ΔoxyR|δoxyr|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
+ ΔsoxS|δsoxs|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
+ ΔsoxS|δsoxs|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
+ HNS|hns|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  A|a|DT|O 
+ HNS|hns|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  1|1|CD|O 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  2|2|CD|O 
+ Lrp|lrp|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  3|3|CD|O 
+ medium|medium|NN|O  :|:|:|O  LB|LB|NNP|Med 
+ medium|medium|NN|O  :|:|:|O  M63|m63|NN|Med 
+ LB|lb|NN|Med  0.4|0.4|CD|O  B1|b1|NN|O  TEX|tex|NN|O  neg|neg|NN|O  L1|l1|NN|O  GA|ga|NN|O 
+ LB|lb|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS1|hs1|NN|O 
+ LB|lb|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS2|hs2|NN|O 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS2|hs2|NN|O 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS2|hs2|NN|O 
+ M63|m63|NN|Med  0.4|0.4|CD|O  B1|b1|NN|O  TEX|tex|NN|O  neg|neg|NN|O  L1|l1|NN|O  GA|ga|NN|O 
+ M63|m63|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS2|hs2|NN|O 
+ NtrC|ntrc|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
+ OmpR|ompr|NN|O  NaCl|nacl|NN|Supp  2|2|CD|O 
+ OmpR|ompr|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
+ OxyR|oxyr|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
+ pT7|pt7|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  2|2|CD|O 
+ PurR|purr|NN|O  _|_|SYM|O  Adenine|Adenine|NNP|Supp  _|_|SYM|O  1|1|CD|O 
+ PurR|purr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp  _|_|NN|O  1|1|CD|O 
+ RpoB|rpob|NN|O  ∆|∆|CD|Gtype  cra|cra|NN|Gtype  1|1|CD|O 
+ RpoB|rpob|NN|O  ∆|∆|CD|Gtype  crp|crp|NN|Gtype  1|1|CD|O 
+ RpoB|rpob|NN|O  ∆|∆|CD|Gtype  crp|crp|NN|Gtype  2|2|CD|O 
+ RpoB|rpob|NN|O  with|with|IN|O  DPD|dpd|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ RpoB|rpob|NN|O  with|with|IN|O  Fe|Fe|NNP|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ RpoB|rpob|NN|O  with|with|IN|O  Fe|Fe|NNP|Supp  and|and|CC|O  rifampicin|rifampicin|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ SeqA|seqa|NN|O  new|new|JJ|O  deltaSeqA|deltaseqa|NN|Gtype 
+ Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|NN|Phase  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  3500|3500|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O  Cell|cell|NN|O  pellets|pellet|NNS|O  -LRB-|-lrb-|-LRB-|O  from|from|IN|O  initial|initial|JJ|O  250|250|CD|O  mL|ml|NN|O  of|of|IN|O  culture|culture|NN|O  -RRB-|-rrb-|-RRB-|O  were|be|VBD|O  thawed|thaw|VBN|O  and|and|CC|O  resuspended|resuspend|VBN|O  in|in|IN|O  250|250|CD|O  μL|μl|NN|O  of|of|IN|O  IP|IP|NNP|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  100|100|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  300|300|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  ,|,|,|O  1|1|CD|O  %|%|NN|O  TritonX-100|tritonx-100|NN|O  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  sonicated|sonicate|VBN|O  using|use|VBG|O  a|a|DT|O  microtip|microtip|NN|O  sonicator|sonicator|NN|O  set|set|VBN|O  at|at|IN|O  10|10|CD|O  %|%|NN|O  output|output|NN|O  for|for|IN|O  20|20|CD|O  second|second|JJ|O  intervals|interval|NNS|O  with|with|IN|O  periods|period|NNS|O  of|of|IN|O  cooling|cool|VBG|O  in|in|IN|O  between|between|IN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  then|then|RB|O  treated|treat|VBN|O  for|for|IN|O  one|one|CD|O  hour|hour|NN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  RNase|rnase|NN|O  A|a|NN|O  -LRB-|-lrb-|-LRB-|O  2|2|CD|O  ng/ml|ng/ml|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  micrococcal|micrococcal|JJ|O  nuclease|nuclease|NN|O  -LRB-|-lrb-|-LRB-|O  50|50|CD|O  units|unit|NNS|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  20|20|CD|O  μM|μm|NN|O  CaCl2|cacl2|NN|O  ,1.2|,1.2|CD|O  mM|mm|NN|O  KCl|kcl|NN|O  ,|,|,|O  0.3|0.3|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  ,|,|,|O  6|6|CD|O  mM|mm|NN|O  sucrose|sucrose|NN|O  ,|,|,|O  and|and|CC|O  10|10|CD|O  μM|μm|NN|O  DTT|dtt|NN|O  .|.|.|O  EDTA|edta|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  10|10|CD|O  mM|mm|NN|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  micrococcal|micrococcal|JJ|O  nuclease|nuclease|NN|O  and|and|CC|O  the|the|DT|O  samples|sample|NNS|O  were|be|VBD|O  spun|spin|VBN|O  down|down|RP|O  to|to|TO|O  remove|remove|VB|O  cell|cell|NN|O  debris|debris|NN|O  .|.|.|O  The|the|DT|O  lysate|lysate|NN|O  was|be|VBD|O  then|then|RB|O  precleared|preclear|VBN|O  through|through|IN|O  incubation|incubation|NN|O  with|with|IN|O  a|a|DT|O  50/50|50/50|CD|O  slurry|slurry|NN|O  of|of|IN|O  sepharose|sepharose|NN|O  protein|protein|NN|O  A|a|NN|O  beads|bead|NNS|O  in|in|IN|O  IP|IP|NNP|O  buffer|buffer|NN|O  for|for|IN|O  2-3|2-3|CD|O  hours|hour|NNS|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  .|.|.|O  The|the|DT|O  beads|bead|NNS|O  were|be|VBD|O  removed|remove|VBN|O  by|by|IN|O  centrifugation|centrifugation|NN|O  and|and|CC|O  antibody|antibody|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  pre-cleared|pre-cleared|JJ|O  lysate|lysate|NN|O  for|for|IN|O  an|a|DT|O  overnight|overnight|JJ|O  incubation|incubation|NN|O  .|.|.|O  The|the|DT|O  next|next|JJ|O  day|day|NN|O  ,|,|,|O  30|30|CD|O  μl|μl|NN|O  of|of|IN|O  a|a|DT|O  50/50|50/50|CD|O  slurry|slurry|NN|O  of|of|IN|O  sepharose|sepharose|NN|O  protein|protein|NN|O  A|a|NN|O  beads|bead|NNS|O  in|in|IN|O  IP|IP|NNP|O  buffer|buffer|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  lysate|lysate|NN|O  to|to|TO|O  capture|capture|VB|O  antibody-protein-DNA|antibody-protein-dna|JJ|O  complex|complex|NN|O  for|for|IN|O  one|one|CD|O  hour|hour|NN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  .|.|.|O  Beads|bead|NNS|O  were|be|VBD|O  then|then|RB|O  washed|wash|VBN|O  once|once|RB|O  with|with|IN|O  1|1|CD|O  ml|ml|NN|O  of|of|IN|O  LiCl|licl|NN|O  wash|wash|NN|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  100|100|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  250|250|CD|O  mM|mm|NN|O  LiCl|licl|NN|O  ,|,|,|O  2|2|CD|O  %|%|NN|O  TritonX-100|tritonx-100|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  twice|twice|RB|O  with|with|IN|O  600|600|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  wash|wash|NN|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  100|100|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  600|600|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  ,|,|,|O  2|2|CD|O  %|%|NN|O  TritonX-100|tritonx-100|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  twice|twice|RB|O  with|with|IN|O  300|300|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  wash|wash|NN|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  100|100|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  300|300|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  ,|,|,|O  2|2|CD|O  %|%|NN|O  TritonX-100|tritonx-100|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  and|and|CC|O  twice|twice|RB|O  with|with|IN|O  TE|te|NN|O  .|.|.|O  Elution|elution|NN|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  50|50|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  10|10|CD|O  mM|mm|NN|O  EDTA|edta|NN|O  ,|,|,|O  1|1|CD|O  %|%|NN|O  SDS|sds|NN|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  after|after|IN|O  the|the|DT|O  final|final|JJ|O  wash|wash|NN|O  step|step|NN|O  ,|,|,|O  and|and|CC|O  beads|bead|NNS|O  were|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  65|65|CD|O  °C|°c|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  remove|remove|VB|O  the|the|DT|O  crosslinked|crosslink|VBN|O  protein-DNA|protein-dna|JJ|O  complexes|complex|NNS|O  from|from|IN|O  the|the|DT|O  beads|bead|NNS|O  .|.|.|O  After|after|IN|O  centrifugation|centrifugation|NN|O  to|to|TO|O  remove|remove|VB|O  the|the|DT|O  beads|bead|NNS|O  ,|,|,|O  the|the|DT|O  samples|sample|NNS|O  were|be|VBD|O  incubated|incubate|VBN|O  overnight|overnight|RB|O  at|at|IN|O  65|65|CD|O  °C|°c|NN|O  to|to|TO|O  reverse|reverse|VB|O  the|the|DT|O  protein-DNA|protein-dna|JJ|O  formaldehyde|formaldehyde|NN|O  crosslinks|crosslink|NNS|O  .|.|.|O  DNA|dna|NN|O  was|be|VBD|O  purified|purify|VBN|O  using|use|VBG|O  Qiagen|Qiagen|NNP|O  's|'s|POS|O  PCR|pcr|NN|O  Purification|purification|NN|O  kit|kit|NN|O  and|and|CC|O  eluted|elute|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  volume|volume|NN|O  of|of|IN|O  50|50|CD|O  μl|μl|NN|O  with|with|IN|O  EB|EB|NNP|O  .|.|.|O 
+ ß|ß|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  -|-|:|O  B|b|NN|O 
+ ß|ß|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  A|a|NN|O 
+ strain|strain|NN|O  :|:|:|O  PK4854|pk4854|NN|Gtype 
+ strain|strain|NN|O  :|:|:|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  WT|wt|JJ|Gtype 
+ strain|strain|NN|O  :|:|:|O  K-12|k-12|NN|Strain 
+ ChIP-exo|chip-exo|NN|Technique  GadX|gadx|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ ChIP-exo|chip-exo|NN|Technique  GadX|gadx|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ ChIP-exo|ChIP-exo|NNP|Technique  RpoS|rpos|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ To|to|TO|O  harvest|harvest|VB|O  total|total|JJ|O  RNA|rna|NN|O  samples|sample|NNS|O  ,|,|,|O  overnight|overnight|JJ|O  cultures|culture|NNS|O  of|of|IN|O  wild|wild|JJ|Gtype  type|type|NN|Gtype  MG1655|mg1655|NN|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  at|at|IN|O  37|37|CD|O  ˚C|˚c|NN|O  were|be|VBD|O  diluted|dilute|VBN|O  back|back|RB|O  1:500|1:500|CD|O  in|in|IN|O  either|either|CC|O  fresh|fresh|JJ|O  LB|lb|NN|O  or|or|CC|O  M63|m63|NN|O  minimal|minimal|JJ|O  glucose|glucose|NN|O  medium|medium|NN|O  and|and|CC|O  allowed|allow|VBN|O  to|to|TO|O  grow|grow|VB|O  until|until|IN|O  the|the|DT|O  cultures|culture|NNS|O  reached|reach|VBD|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  and|and|CC|O  2.0|2.0|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  and|and|CC|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  M63|m63|NN|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.4|0.4|CD|OD  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  25|25|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  Ethanol|ethanol|NN|O  ,|,|,|O  5|5|CD|O  %|%|NN|O  acid|acid|NN|O  phenol|phenol|NN|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|O  of|of|IN|O  2.0|2.0|CD|O  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  1|1|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  .|.|.|O 
+ treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  M9|m9|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  without|without|IN|O  10|10|CD|Supp  mM|mm|NN|Supp  leucine|leucine|NN|Supp  .|.|.|O 
+ treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  M9|m9|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  20|20|CD|Supp  mg/L|mg/l|NN|Supp  tryptophan|tryptophan|NN|Supp  .|.|.|O 
+ TrpR|trpr|NN|O  _|_|CD|O  Trp|Trp|NNP|Supp 
+ σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  rep1|rep1|NN|O 
+ σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  short|short|JJ|O  RNase|rnase|NN|O 
+ σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  rep1|rep1|NN|O 
\ No newline at end of file

- affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- agent|agent|NN|O  :|:|:|O  DPD|dpd|NN|Supp  and|and|CC|Supp  rifampicin|rifampicin|NN|Supp 
- Anaerobic|anaerobic|JJ|Air  cultures|culture|NNS|O 
- All|all|DT|O  strains|strain|NNS|O  used|use|VBN|O  in|in|IN|O  this|this|DT|O  study|study|NN|O  were|be|VBD|O  E.|e.|FW|O  coli|coli|FW|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  and|and|CC|O  its|its|PRP$|O  derivatives|derivative|NNS|O  .|.|.|O  The|the|DT|O  deletion|deletion|NN|O  mutants|mutant|NNS|O  -LRB-|-lrb-|-LRB-|O  Δfnr|δfnr|NN|O  and|and|CC|O  ΔarcA|δarca|NN|O  -RRB-|-rrb-|-RRB-|O  were|be|VBD|O  constructed|construct|VBN|O  by|by|IN|O  a|a|DT|O  λ|λ|NN|O  red|red|JJ|O  and|and|CC|O  FLP-mediated|flp-mediated|JJ|O  site-specific|site-specific|JJ|O  recombination|recombination|NN|O  method|method|NN|O  .|.|.|O  Glycerol|glycerol|NN|O  stocks|stock|NNS|O  of|of|IN|O  E.|e.|FW|O  coli|coli|FW|O  strains|strain|NNS|O  were|be|VBD|O  inoculated|inoculate|VBN|O  into|into|IN|O  M9|m9|NN|O  minimal|minimal|JJ|O  medium|medium|NN|O  containing|contain|VBG|O  0.2|0.2|CD|O  %|%|NN|O  -LRB-|-lrb-|-LRB-|O  w/v|w/v|NN|O  -RRB-|-rrb-|-RRB-|O  carbon|carbon|NN|O  source|source|NN|O  -LRB-|-lrb-|-LRB-|O  glucose|glucose|NN|O  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  0.1|0.1|CD|O  %|%|NN|O  -LRB-|-lrb-|-LRB-|O  w/v|w/v|NN|O  -RRB-|-rrb-|-RRB-|O  nitrogen|nitrogen|NN|O  source|source|NN|O  -LRB-|-lrb-|-LRB-|O  NH4Cl|nh4cl|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  and|and|CC|O  cultured|culture|VBN|O  overnight|overnight|JJ|O  at|at|IN|O  37|37|CD|O  °C|°c|NN|O  with|with|IN|O  constant|constant|JJ|O  agitation|agitation|NN|O  .|.|.|O  The|the|DT|O  cultures|culture|NNS|O  were|be|VBD|O  diluted|dilute|VBN|O  1:100|1:100|CD|O  into|into|IN|O  fresh|fresh|JJ|O  minimal|minimal|JJ|Med  medium|medium|NN|Med  and|and|CC|O  then|then|RB|O  cultured|culture|VBN|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  to|to|TO|O  an|a|DT|O  appropriate|appropriate|JJ|O  cell|cell|NN|O  density|density|NN|O  with|with|IN|O  constant|constant|JJ|O  agitation|agitation|NN|O  .|.|.|O  For|for|IN|O  the|the|DT|O  anaerobic|anaerobic|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  minimal|minimal|JJ|O  medium|medium|NN|O  were|be|VBD|O  flushed|flush|VBN|O  with|with|IN|O  nitrogen|nitrogen|NN|O  and|and|CC|O  then|then|RB|O  continuously|continuously|RB|O  monitored|monitor|VBN|O  using|use|VBG|O  a|a|DT|O  polarographic-dissolved|polarographic-dissolved|JJ|O  oxygen|oxygen|NN|O  probe|probe|NN|O  -LRB-|-lrb-|-LRB-|O  Cole-Parmer|Cole-Parmer|NNP|O  Instruments|Instruments|NNP|O  -RRB-|-rrb-|-RRB-|O  to|to|TO|O  ensure|ensure|VB|O  anaerobicity|anaerobicity|NN|O  .|.|.|O  For|for|IN|O  nitrate|nitrate|JJ|O  respiration|respiration|NN|O  20|20|CD|Supp  mmol|mmol|NN|Supp  potassium|potassium|NN|Supp  nitrate|nitrate|JJ|Supp  was|be|VBD|O  added|add|VBN|O  .|.|.|O 
- All|All|NNP|O  strains|strain|NNS|O  used|use|VBN|O  in|in|IN|O  this|this|DT|O  study|study|NN|O  were|be|VBD|O  E.|e.|FW|O  coli|coli|FW|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  and|and|CC|O  its|its|PRP$|O  derivatives|derivative|NNS|O  .|.|.|O  The|the|DT|O  deletion|deletion|NN|O  mutants|mutant|NNS|O  -LRB-|-lrb-|-LRB-|O  Δfnr|δfnr|NN|O  and|and|CC|O  ΔarcA|δarca|NN|O  -RRB-|-rrb-|-RRB-|O  were|be|VBD|O  constructed|construct|VBN|O  by|by|IN|O  a|a|DT|O  λ|λ|NN|O  red|red|JJ|O  and|and|CC|O  FLP-mediated|flp-mediated|JJ|O  site-specific|site-specific|JJ|O  recombination|recombination|NN|O  method|method|NN|O  .|.|.|O  Glycerol|glycerol|NN|O  stocks|stock|NNS|O  of|of|IN|O  E.|e.|FW|O  coli|coli|FW|O  strains|strain|NNS|O  were|be|VBD|O  inoculated|inoculate|VBN|O  into|into|IN|O  M9|m9|NN|O  minimal|minimal|JJ|O  medium|medium|NN|O  containing|contain|VBG|O  0.2|0.2|CD|O  %|%|NN|O  -LRB-|-lrb-|-LRB-|O  w/v|w/v|NN|O  -RRB-|-rrb-|-RRB-|O  carbon|carbon|NN|O  source|source|NN|O  -LRB-|-lrb-|-LRB-|O  glucose|glucose|NN|O  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  0.1|0.1|CD|O  %|%|NN|O  -LRB-|-lrb-|-LRB-|O  w/v|w/v|NN|O  -RRB-|-rrb-|-RRB-|O  nitrogen|nitrogen|NN|O  source|source|NN|O  -LRB-|-lrb-|-LRB-|O  NH4Cl|nh4cl|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  and|and|CC|O  cultured|culture|VBN|O  overnight|overnight|JJ|O  at|at|IN|O  37|37|CD|O  °C|°c|NN|O  with|with|IN|O  constant|constant|JJ|O  agitation|agitation|NN|O  .|.|.|O  The|the|DT|O  cultures|culture|NNS|O  were|be|VBD|O  diluted|dilute|VBN|O  1:100|1:100|CD|O  into|into|IN|O  fresh|fresh|JJ|O  minimal|minimal|JJ|Med  medium|medium|NN|Med  and|and|CC|O  then|then|RB|O  cultured|culture|VBN|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  to|to|TO|O  an|a|DT|O  appropriate|appropriate|JJ|O  cell|cell|NN|O  density|density|NN|O  with|with|IN|O  constant|constant|JJ|O  agitation|agitation|NN|O  .|.|.|O  For|for|IN|O  the|the|DT|O  anaerobic|anaerobic|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  minimal|minimal|JJ|O  medium|medium|NN|O  were|be|VBD|O  flushed|flush|VBN|O  with|with|IN|O  nitrogen|nitrogen|NN|Supp  and|and|CC|O  then|then|RB|O  continuously|continuously|RB|O  monitored|monitor|VBN|O  using|use|VBG|O  a|a|DT|O  polarographic-dissolved|polarographic-dissolved|JJ|O  oxygen|oxygen|NN|O  probe|probe|NN|O  -LRB-|-lrb-|-LRB-|O  Cole-Parmer|Cole-Parmer|NNP|O  Instruments|Instruments|NNP|O  -RRB-|-rrb-|-RRB-|O  to|to|TO|O  ensure|ensure|VB|O  anaerobicity|anaerobicity|NN|O  .|.|.|O  For|for|IN|O  nitrate|nitrate|JJ|O  respiration|respiration|NN|O  20|20|CD|O  mmol|mmol|NN|O  potassium|potassium|NN|O  nitrate|nitrate|NN|O  was|be|VBD|O  added|add|VBN|O  .|.|.|O 
- antibody|antibody|NN|O  :|:|:|O  9E10|9e10|CD|Anti  Myc|myc|NN|Anti  tag|tag|NN|Anti  antibody|antibody|NN|O 
- antibody|antibody|NN|O  :|:|:|O  anti-FLAG|anti-flag|JJ|Anti  mAb|mab|NN|Anti 
- A|a|NN|OD  total|total|NN|OD  of|of|IN|OD  six|six|CD|OD  samples|sample|NNS|OD  were|be|VBD|OD  analyzed|analyze|VBN|OD  .|.|.|OD  oxyR-8myc|oxyr-8myc|NN|OD  ,|,|,|OD  soxR-8myc|soxr-8myc|NN|OD  ,|,|,|OD  and|and|CC|OD  soxS-8myc|soxs-8myc|NN|OD  tagged|tag|VBD|OD  cells|cell|NNS|OD  were|be|VBD|OD  cultured|culture|VBN|OD  in|in|IN|OD  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  Then|then|RB|O  cells|cell|NNS|O  were|be|VBD|O  treated|treat|VBN|O  with|with|IN|O  250|250|CD|O  uM|um|NN|O  of|of|IN|O  paraquat|paraquat|NN|O  at|at|IN|O  mid-log|mid-log|JJ|O  pahse|pahse|NN|O  for|for|IN|O  20|20|CD|O  min|min|NN|O  with|with|IN|O  agitation|agitation|NN|O  .|.|.|O 
- A|a|NN|O  total|total|NN|O  of|of|IN|O  two|two|CD|O  samples|sample|NNS|O  were|be|VBD|O  analyzed|analyze|VBN|O  .|.|.|O  ompR-8myc|ompr-8myc|NN|O  tagged|tag|VBD|O  cells|cell|NNS|O  were|be|VBD|O  cultured|culture|VBN|O  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  Then|then|RB|O  cells|cell|NNS|O  were|be|VBD|O  treated|treat|VBN|O  with|with|IN|O  0.3|0.3|CD|Supp  M|m|NN|Supp  of|of|IN|Supp  NaCl|nacl|NN|Supp  at|at|IN|O  mid-log|mid-log|NN|Phase  pahse|pahse|NN|Phase  for|for|IN|O  30|30|CD|Supp  min|min|NN|Supp  with|with|IN|O  agitation|agitation|NN|O  .|.|.|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  70|70|CD|Air  %|%|NN|Air  N2|n2|NN|Air  ,|,|,|Air  25|25|CD|Air  %|%|NN|Air  O2|o2|CD|Air  ,|,|,|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  or|or|CC|O  anaerobically|anaerobically|RB|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  N2|n2|NN|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  to|to|TO|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  about|about|IN|OD  0.15|0.15|CD|OD  in|in|IN|O  100|100|CD|O  ml|ml|NN|O  LB|lb|NN|Med  -LRB-|-lrb-|-LRB-|O  +|+|CC|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  with|with|IN|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp  and|and|CC|Supp  300|300|CD|Supp  µL|µl|NN|Supp  Cm20|cm20|NN|Supp  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  with|with|IN|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp  and|and|CC|Supp  300|300|CD|Supp  µL|µl|NN|Supp  Cm20|cm20|NN|Supp  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-myc|anti-myc|JJ|Anti  -LRB-|-lrb-|-LRB-|O  Santa|Santa|NNP|O  Cruz|Cruz|NNP|O  Biotech|Biotech|NNP|O  ,|,|,|O  sc-28207|sc-28207|NN|O  -RRB-|-rrb-|-RRB-|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-RpoB|anti-rpob|JJ|Anti  -LRB-|-lrb-|-LRB-|O  Neoclone|Neoclone|NNP|O  ,|,|,|O  WP002|wp002|NN|O  -RRB-|-rrb-|-RRB-|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-rpoB|anti-rpob|JJ|Anti  -LRB-|-lrb-|-LRB-|O  Santa|Santa|NNP|O  Cruz|Cruz|NNP|O  Biotech|Biotech|NNP|O  ,|,|,|O  sc-56766|sc-56766|NN|O  -RRB-|-rrb-|-RRB-|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  σ32|σ32|NN|Anti 
- chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O 
- chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O 
- CsiR|csir|NN|O  _|_|CD|O  RNASeq|rnaseq|NN|Technique 
- cultured|culture|VBN|O  in|in|IN|O  :|:|:|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  fructose|fructose|NN|Supp 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Fur-8-myc|fur-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  FeCl2|fecl2|NN|Supp  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|O  mM|mm|NN|O  of|of|IN|O  DPD|dpd|NN|O  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|Supp  .|.|.|O  For|for|IN|O  the|the|DT|O  rifampicin-treated|rifampicin-treated|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  rifampicin|rifampicin|NN|O  dissolved|dissolve|VBN|O  in|in|IN|O  methanol|methanol|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  concentration|concentration|NN|O  of|of|IN|O  150|150|CD|O  mg/mL|mg/ml|NN|O  at|at|IN|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  and|and|CC|O  stirred|stir|VBD|O  for|for|IN|O  20|20|CD|O  min|min|NN|O  .|.|.|O 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|WT|NNP|O  ,|,|,|O  and|and|CC|O  Δcra|Δcra|NNP|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  ,|,|,|O  fructose|fructose|NN|O  and|and|CC|O  acetate|acetate|NN|O  .|.|.|O 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  ΔompR|δompr|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  Then|then|RB|O  cells|cell|NNS|O  were|be|VBD|O  treated|treat|VBN|O  with|with|IN|O  0.3|0.3|CD|Supp  M|m|NN|Supp  of|of|IN|Supp  NaCl|nacl|NN|Supp  at|at|IN|O  mid-log|mid-log|JJ|O  pahse|pahse|NN|O  for|for|IN|O  30|30|CD|Supp  min|min|NN|Supp  with|with|IN|O  agitation|agitation|NN|O  .|.|.|O 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|WT|NNP|O  ,|,|,|O  GadE-8-myc|gade-8-myc|NN|O  ,|,|,|O  GadW-8-myc|gadw-8-myc|NN|O  ,|,|,|O  and|and|CC|O  GadX-8-myc|gadx-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD 
- E.|E.|NNP|O  coli|coli|NN|O  strains|strain|NNS|O  harboring|harbor|VBG|O  PurR-8myc|purr-8myc|NN|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  minimal|minimal|JJ|O  M9|m9|NN|O  medium|medium|NN|O  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|O  -LRB-|-lrb-|-LRB-|O  2|2|CD|O  g/L|g/l|NN|O  -RRB-|-rrb-|-RRB-|O  then|then|RB|O  inoculated|inoculate|VBN|O  into|into|IN|O  100mL|100ml|NN|O  of|of|IN|O  fresh|fresh|JJ|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  medium|medium|NN|Med  .|.|.|O 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  .|.|.|O 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  .|.|.|O 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  dFNR|dfnr|NN|Gtype  -LRB-|-lrb-|-LRB-|Gtype  PK4854|pk4854|NN|Gtype  -RRB-|-rrb-|-RRB-|Gtype 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  A|a|NN|O 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  Affinity|affinity|NN|O  Purified|purify|VBN|O  -|-|:|O  B|b|NN|O 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  C|c|NN|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|Anaerobic|NNP|Air  A|A|NNP|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- Fur|Fur|NNP|O  with|with|IN|O  Fe|Fe|NNP|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- Fur|Fur|NNP|O  with|with|IN|O  Fe|Fe|NNP|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- genotype|genotype|NN|O  :|:|:|O  delta|delta|NN|O  -|-|:|O  crp|crp|NN|Gtype  Knock-out|knock-out|JJ|Gtype  strain|strain|NN|Gtype 
- genotype|genotype|NN|O  :|:|:|O  gadX-8myc|gadx-8myc|NN|Gtype 
- genotype|genotype|NN|O  :|:|:|O  ompR-8myc|ompr-8myc|NN|Gtype 
- genotype|genotype|NN|O  :|:|:|O  wildtype|wildtype|JJ|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta|delta|NN|Gtype  _|_|SYM|Gtype  cra|cra|FW|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadE|delta-gade|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-soxS|delta-soxs|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  tonB|tonb|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  feoA|feoa|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  zupT|zupt|NN|Gtype  K12|k12|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  lacking|lack|VBG|Gtype  the|the|DT|Gtype  transcription|transcription|NN|Gtype  factor|factor|NN|Gtype  Fur|Fur|NNP|Gtype  and|and|CC|Gtype  the|the|DT|Gtype  small|small|JJ|Gtype  RNA|rna|NN|Gtype  RyhB|ryhb|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  lacking|lack|VBG|Gtype  the|the|DT|Gtype  transcription|transcription|NN|Gtype  factor|factor|NN|Gtype  Fur|Fur|NNP|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  oxyR-8myc|oxyr-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  Wild-type|wild-type|JJ|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  harboring|harbor|VBG|O  ArcA-8myc|arca-8myc|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  harboring|harbor|VBG|O  Fnr-8myc|fnr-8myc|JJ|Gtype 
- genoype|genoype|NN|O  :|:|:|O  Wild-Type|wild-type|JJ|Gtype 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Aerobic|Aerobic|NNP|Air 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  anaerobic|anaerobic|JJ|Air 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Anaerobic|anaerobic|JJ|Air 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Adenine|Adenine|NNP|Supp 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  glucose|glucose|NN|Supp 
- growth|growth|NN|O  medium|medium|NN|O  :|:|:|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  1|1|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp 
- growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  exponential|exponential|JJ|Phase 
- growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  mid-log|mid-log|NN|Phase 
- ∆|∆|CD|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  Anaeroibc|anaeroibc|NN|Air 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  -LSB-|-lsb-|-LRB-|O  IP|IP|NNP|O  vs|vs|CC|O  nput|nput|NN|O  -RSB-|-rsb-|-RRB-|O 
- Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  A|a|NN|O  -|-|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  A|a|NN|O  -|-|:|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air 
- Wild-type|wild-type|JJ|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
- Wild-type|wild-type|JJ|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- Wild-type|wild-type|JJ|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  10|10|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
- Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  5|5|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
- WT|wt|JJ|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- WT|wt|JJ|Gtype  acetate|acetate|NN|Supp  2|2|CD|O 
- WT|wt|JJ|Gtype  NaCl|nacl|NN|Supp  1|1|CD|O 
- WT|wt|JJ|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
- WT|wt|JJ|Gtype  _|_|NN|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  1|1|CD|O 
- WT|wt|JJ|Gtype  _|_|NN|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  2|2|CD|O 
- Δcra|δcra|NN|Gtype  glucose|glucose|NN|Supp  1|1|CD|O 
- Δfur|δfur|NN|Gtype  with|with|IN|O  DPD|dpd|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- ΔgadE|δgade|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- ΔgadE|δgade|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- ΔgadX|δgadx|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- ΔompR|δompr|NN|Gtype  NaCl|nacl|NN|Supp  1|1|CD|O 
- ΔoxyR|δoxyr|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
- ΔsoxR|δsoxr|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
- HNS|hns|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  A|a|DT|O 
- HNS|hns|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- IHF|ihf|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- medium|medium|NN|O  :|:|:|O  M63|m63|NN|Med 
- LB|lb|NN|Med  2.0|2.0|CD|O  B1|b1|NN|O  TEX|tex|NN|O  neg|neg|NN|O  L1|l1|NN|O  GA|ga|NN|O 
- LB|lb|NN|Med  2.0|2.0|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  GA|ga|NN|O 
- LB|lb|NN|Med  2.0|2.0|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L2|l2|NN|O  HS2|hs2|NN|O 
- LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS2|hs2|NN|O 
- M63|m63|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS1|hs1|NN|O 
- M63|m63|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS2|hs2|NN|O 
- OmpR|ompr|NN|O  NaCl|nacl|NN|Supp  1|1|CD|O 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  str|str|NN|O  .|.|.|O  K-12|k-12|NN|Strain  substr|substr|NN|O  .|.|.|O  MG1655star|mg1655star|NN|Substrain 
- RpoB|rpob|NN|O  ∆|∆|CD|Gtype  cra|cra|NN|Gtype  1|1|CD|O 
- RpoB|rpob|NN|O  with|with|IN|O  DPD|dpd|NN|Supp  and|and|CC|O  rifampicin|rifampicin|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- RpoB|rpob|NN|O  with|with|IN|O  Fe|Fe|NNP|Supp  and|and|CC|O  rifampicin|rifampicin|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- SeqA|seqa|NN|O  new|new|JJ|O  deltaSeqA|deltaseqa|NN|Gtype 
- SoxR|soxr|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
- SoxS|soxs|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
- ß|ß|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  B|b|NN|O 
- strain|strain|NN|O  :|:|:|O  PK4854|pk4854|NN|Gtype 
- strain|strain|NN|O  :|:|:|O  PK8263|pk8263|NN|Gtype 
- strain|strain|NN|O  :|:|:|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  WT|wt|JJ|Gtype 
- Sodium|sodium|NN|Supp  phosphate|phosphate|NN|Supp  -LRB-|-lrb-|-LRB-|Supp  1/100|1/100|CD|Supp  vol|vol|NN|Supp  .|.|.|Supp  of|of|IN|Supp  1M|1m|NN|Supp  ,|,|,|Supp  pH|ph|NN|Supp  7.6|7.6|CD|Supp  ;|;|:|Supp  10|10|CD|Supp  mM|mm|NN|Supp  final|final|JJ|Supp  -RRB-|-rrb-|-RRB-|Supp  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|NN|Phase  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  aerobic|aerobic|JJ|O  or|or|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  aerobic|aerobic|JJ|O  or|or|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  3500|3500|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
- ChIP-exo|chip-exo|NN|Technique  GadX|gadx|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- ChIP-exo|chip-exo|NN|Technique  GadX|gadx|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- To|to|TO|O  harvest|harvest|VB|O  total|total|JJ|O  RNA|rna|NN|O  samples|sample|NNS|O  ,|,|,|O  overnight|overnight|JJ|O  cultures|culture|NNS|O  of|of|IN|O  wild|wild|JJ|Gtype  type|type|NN|Gtype  MG1655|mg1655|NN|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  at|at|IN|O  37|37|CD|O  ˚C|˚c|NN|O  were|be|VBD|O  diluted|dilute|VBN|O  back|back|RB|O  1:500|1:500|CD|O  in|in|IN|O  either|either|CC|O  fresh|fresh|JJ|O  LB|lb|NN|O  or|or|CC|O  M63|m63|NN|O  minimal|minimal|JJ|O  glucose|glucose|NN|O  medium|medium|NN|O  and|and|CC|O  allowed|allow|VBN|O  to|to|TO|O  grow|grow|VB|O  until|until|IN|O  the|the|DT|O  cultures|culture|NNS|O  reached|reach|VBD|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  and|and|CC|O  2.0|2.0|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  and|and|CC|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  M63|m63|NN|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  25|25|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  Ethanol|ethanol|NN|O  ,|,|,|O  5|5|CD|O  %|%|NN|O  acid|acid|NN|O  phenol|phenol|NN|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|OD  of|of|IN|OD  2.0|2.0|CD|OD  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  1|1|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  .|.|.|O 
- treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  M9|m9|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  without|without|IN|O  10|10|CD|Supp  mM|mm|NN|Supp  leucine|leucine|NN|Supp  .|.|.|O 
- treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  M9|m9|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  without|without|IN|O  20|20|CD|Supp  mg/L|mg/l|NN|Supp  tryptophan|tryptophan|NN|Supp  .|.|.|O 
- TrpR|trpr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp 
- TrpR|trpr|NN|O  _|_|CD|O  Trp|Trp|NNP|Supp 
- σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  rep2|rep2|NN|O 
- σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  short|short|JJ|O  RNase|rnase|NN|O 
- σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  rep2|rep2|NN|O 
\ No newline at end of file

+ Cra|Cra|NNP|O  fructose|fructose|NN|Supp  2|2|CD|O 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L2|l2|NN|O  HS2|hs2|NN|O 
+ genotype|genotype|NN|O  :|:|:|O  ompR-8myc|ompr-8myc|NN|Gtype 
+ chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  fur-8myc|fur-8myc|JJ|Gtype 
+ Cra|Cra|NNP|O  fructose|fructose|NN|Supp  1|1|CD|O 
+ genotype|genotype|NN|O  :|:|:|O  WT|WT|NNP|Gtype 
+ growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  =|=|JJ|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O 
+ chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O 
+ RpoB|rpob|NN|O  ∆|∆|CD|Gtype  cra|cra|NN|Gtype  2|2|CD|O 
+ RpoB|rpob|NN|O  with|with|IN|O  Fe|Fe|NNP|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  ΔompR|δompr|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  Then|then|RB|O  cells|cell|NNS|O  were|be|VBD|O  treated|treat|VBN|O  with|with|IN|O  0.3|0.3|CD|Supp  M|m|NN|Supp  of|of|IN|Supp  NaCl|nacl|NN|Supp  at|at|IN|O  mid-log|mid-log|JJ|O  pahse|pahse|NN|O  for|for|IN|O  30|30|CD|Supp  min|min|NN|Supp  with|with|IN|O  agitation|agitation|NN|O  .|.|.|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  to|to|TO|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  about|about|IN|OD  0.15|0.15|CD|OD  in|in|IN|O  50|50|CD|O  ml|ml|NN|O  LB|lb|NN|Med  -LRB-|-lrb-|-LRB-|O  +|+|CC|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  -RRB-|-rrb-|-RRB-|O  before|before|IN|O  crosslinking|crosslink|VBG|O  .|.|.|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  cra-8myc-tagged|cra-8myc-tagged|JJ|Gtype 
+ Δcra|δcra|NN|Gtype  fructose|fructose|NN|Supp  1|1|CD|O 
+ Δcra|δcra|NN|Gtype  fructose|fructose|NN|Supp  2|2|CD|O 
+ MG1655|mg1655|NN|Substrain  PhtpG|phtpg|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  lacZ|lacz|NN|Gtype  delta|delta|NN|Gtype  lacX74/pTG2|lacx74/ptg2|NN|Gtype  -LRB-|-lrb-|-LRB-|Gtype  vector|vector|NN|Gtype  carrying|carrying|NN|Gtype  inducible|inducible|JJ|Gtype  Ptrc|ptrc|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  rpoH|rpoh|NN|Gtype  -RRB-|-rrb-|-RRB-|Gtype 
+ Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  A|a|NN|O  -|-|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  WT|wt|NN|O  and|and|CC|O  ∆|∆|NN|O  fnr|fnr|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  O.D.|o.d.|NN|OD  600nm|600nm|JJ|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  anerobically|anerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  ,|,|,|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  MOPS|MOPS|NNP|Med  +|+|CC|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  media|media|NNS|O  -LRB-|-lrb-|-LRB-|O  Ref|ref|NN|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
+ Fur|Fur|NNP|O  with|with|IN|O  Fe|Fe|NNP|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ agent|agent|NN|O  :|:|:|O  Fe|Fe|NNP|Supp 
+ SoxS|soxs|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-myc|anti-myc|JJ|Anti 
+ Fur|Fur|NNP|O  with|with|IN|O  DPD|dpd|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  str|str|NN|O  .|.|.|O  K-12|k-12|NN|Strain  substr|substr|NN|O  .|.|.|O  MG1655|mg1655|NN|Substrain 
+ σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  short|short|JJ|O  RNase|rnase|NN|O 
+ CsiR|csir|NN|O  _|_|CD|O  RNASeq|rnaseq|NN|Technique 
+ ChIP-exo|chip-exo|NN|O  reads|read|VBZ|O  were|be|VBD|O  aligned|align|VBN|O  to|to|TO|O  the|the|DT|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion  genome|genome|NN|O  reference|reference|NN|O  sequence|sequence|NN|O  using|use|VBG|O  using|use|VBG|O  bowtie|bowtie|NN|O  v1|v1|NN|O  .0.0|.0.0|CD|O  with|with|IN|O  parameters|parameter|NNS|O  -|-|:|O  S|s|NN|O 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  .|.|.|O 
+ WT|wt|JJ|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ WT|wt|JJ|Gtype  _|_|NN|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  2|2|CD|O 
+ LB|lb|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS2|hs2|NN|O 
+ pT7|pt7|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  1|1|CD|O 
+ growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  exponential|exponential|JJ|Phase 
+ All|All|NNP|O  strains|strain|NNS|O  used|use|VBN|O  in|in|IN|O  this|this|DT|O  study|study|NN|O  were|be|VBD|O  E.|e.|FW|O  coli|coli|FW|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  and|and|CC|O  its|its|PRP$|O  derivatives|derivative|NNS|O  .|.|.|O  The|the|DT|O  deletion|deletion|NN|O  mutants|mutant|NNS|O  -LRB-|-lrb-|-LRB-|O  Δfnr|δfnr|NN|O  and|and|CC|O  ΔarcA|δarca|NN|O  -RRB-|-rrb-|-RRB-|O  were|be|VBD|O  constructed|construct|VBN|O  by|by|IN|O  a|a|DT|O  λ|λ|NN|O  red|red|JJ|O  and|and|CC|O  FLP-mediated|flp-mediated|JJ|O  site-specific|site-specific|JJ|O  recombination|recombination|NN|O  method|method|NN|O  .|.|.|O  Glycerol|glycerol|NN|O  stocks|stock|NNS|O  of|of|IN|O  E.|e.|FW|O  coli|coli|FW|O  strains|strain|NNS|O  were|be|VBD|O  inoculated|inoculate|VBN|O  into|into|IN|O  M9|m9|NN|O  minimal|minimal|JJ|O  medium|medium|NN|O  containing|contain|VBG|O  0.2|0.2|CD|O  %|%|NN|O  -LRB-|-lrb-|-LRB-|O  w/v|w/v|NN|O  -RRB-|-rrb-|-RRB-|O  carbon|carbon|NN|O  source|source|NN|O  -LRB-|-lrb-|-LRB-|O  glucose|glucose|NN|O  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  0.1|0.1|CD|O  %|%|NN|O  -LRB-|-lrb-|-LRB-|O  w/v|w/v|NN|O  -RRB-|-rrb-|-RRB-|O  nitrogen|nitrogen|NN|O  source|source|NN|O  -LRB-|-lrb-|-LRB-|O  NH4Cl|nh4cl|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  and|and|CC|O  cultured|culture|VBN|O  overnight|overnight|JJ|O  at|at|IN|O  37|37|CD|O  °C|°c|NN|O  with|with|IN|O  constant|constant|JJ|O  agitation|agitation|NN|O  .|.|.|O  The|the|DT|O  cultures|culture|NNS|O  were|be|VBD|O  diluted|dilute|VBN|O  1:100|1:100|CD|O  into|into|IN|O  fresh|fresh|JJ|O  minimal|minimal|JJ|Med  medium|medium|NN|Med  and|and|CC|O  then|then|RB|O  cultured|culture|VBN|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  to|to|TO|O  an|a|DT|O  appropriate|appropriate|JJ|O  cell|cell|NN|O  density|density|NN|O  with|with|IN|O  constant|constant|JJ|O  agitation|agitation|NN|O  .|.|.|O  For|for|IN|O  the|the|DT|O  anaerobic|anaerobic|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  minimal|minimal|JJ|O  medium|medium|NN|O  were|be|VBD|O  flushed|flush|VBN|O  with|with|IN|O  nitrogen|nitrogen|NN|Supp  and|and|CC|O  then|then|RB|O  continuously|continuously|RB|O  monitored|monitor|VBN|O  using|use|VBG|O  a|a|DT|O  polarographic-dissolved|polarographic-dissolved|JJ|O  oxygen|oxygen|NN|O  probe|probe|NN|O  -LRB-|-lrb-|-LRB-|O  Cole-Parmer|Cole-Parmer|NNP|O  Instruments|Instruments|NNP|O  -RRB-|-rrb-|-RRB-|O  to|to|TO|O  ensure|ensure|VB|O  anaerobicity|anaerobicity|NN|O  .|.|.|O  For|for|IN|O  nitrate|nitrate|JJ|O  respiration|respiration|NN|O  20|20|CD|O  mmol|mmol|NN|O  potassium|potassium|NN|O  nitrate|nitrate|NN|O  was|be|VBD|O  added|add|VBN|O  .|.|.|O 
+ MG1655|mg1655|NN|Substrain  PhtpG|phtpg|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  lacZ|lacz|NN|Gtype  delta|delta|NN|Gtype  lacX74/ptrc99A|lacx74/ptrc99a|NN|Gtype  -LRB-|-lrb-|-LRB-|Gtype  control|control|NN|Gtype  vector|vector|NN|Gtype  -RRB-|-rrb-|-RRB-|Gtype 
+ affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ WT|wt|JJ|Gtype  acetate|acetate|NN|Supp  1|1|CD|O 
+ SoxR|soxr|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  σ32|σ32|NN|Anti 
+ HNS|hns|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  B|b|NN|O 
+ Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  0|0|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  -LSB-|-lsb-|-LRB-|O  IP|IP|NNP|O  vs|vs|CC|O  nput|nput|NN|O  -RSB-|-rsb-|-RRB-|O 
+ ΔgadW|δgadw|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ cultured|culture|VBN|O  in|in|IN|O  :|:|:|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  fructose|fructose|NN|Supp 
+ chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  ,|,|,|O  gadE|gade|NN|O  ,|,|,|O  gadW|gadw|NN|O  and|and|CC|O  gadX|gadx|NN|O  mutant|mutant|JJ|O  cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|O  =|=|JJ|O  0.3|0.3|CD|O  -RRB-|-rrb-|-RRB-|O  aerobically|aerobically|RB|Air  -LRB-|-lrb-|-LRB-|O  250|250|CD|Agit  rpm|rpm|NN|Agit  -RRB-|-rrb-|-RRB-|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  at|at|IN|O  pH|ph|NN|pH  5.5|5.5|CD|pH  .|.|.|O 
+ At|at|IN|O  OD450|od450|NN|OD  =|=|JJ|OD  0.3|0.3|CD|OD  ,|,|,|O  cultures|culture|NNS|O  induced|induce|VBN|O  with|with|IN|O  1|1|CD|Supp  mM|mm|NN|Supp  IPTG|iptg|NN|Supp  .|.|.|O  Cells|cell|NNS|O  harvested|harvest|VBN|O  5|5|CD|O  min|min|NN|O  after|after|IN|O  induction|induction|NN|O 
+ acetate|acetate|NN|Supp 
+ Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  65|65|CD|O  ml|ml|NN|O  LB|lb|NN|O  medium|medium|NN|O  at|at|IN|O  30|30|CD|O  °C|°c|NN|O  to|to|TO|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  about|about|IN|OD  0.3|0.3|CD|OD  .|.|.|O  Subsequently|subsequently|RB|O  30|30|CD|O  ml|ml|NN|O  of|of|IN|O  culture|culture|NN|O  were|be|VBD|O  transformed|transform|VBN|O  to|to|TO|O  a|a|DT|O  pre|pre|JJ|O  warmed|warm|VBN|O  flask|flask|NN|Vess  at|at|IN|O  43|43|CD|Temp  °C|°c|NN|Temp  and|and|CC|O  the|the|DT|O  remainder|remainder|NN|O  kept|keep|VBD|O  at|at|IN|O  30|30|CD|Temp  °C|°c|NN|Temp  -LRB-|-lrb-|-LRB-|Temp  see|see|VB|Temp  control|control|JJ|Temp  sample|sample|NN|Temp  -RRB-|-rrb-|-RRB-|Temp  .|.|.|O 
+ At|at|IN|O  OD450|od450|NN|OD  =|=|JJ|OD  0.3|0.3|CD|OD  ,|,|,|O  cultures|culture|NNS|O  induced|induce|VBN|O  with|with|IN|O  1|1|CD|Supp  mM|mm|NN|Supp  IPTG|iptg|NN|Supp  .|.|.|O  Cells|cell|NNS|O  harvested|harvest|VBN|O  20|20|CD|O  min|min|NN|O  after|after|IN|O  induction|induction|NN|O 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  .|.|.|O 
+ WT|wt|JJ|Gtype  NaCl|nacl|NN|Supp  2|2|CD|O 
+ Cra|cra|NN|O  acetate|acetate|NN|Supp  1|1|CD|O 
+ ∆|∆|CD|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  Anaeroibc|anaeroibc|NN|Air 
+ ChIP-exo|chip-exo|NN|O  reads|read|VBZ|O  were|be|VBD|O  aligned|align|VBN|O  to|to|TO|O  the|the|DT|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion  genome|genome|NN|O  reference|reference|NN|O  sequence|sequence|NN|O  using|use|VBG|O  using|use|VBG|O  bowtie|bowtie|NN|O  v1|v1|NN|O  .0.0|.0.0|CD|O  with|with|IN|O  parameters|parameter|NNS|O  -|-|:|O  S|s|NN|O 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ Sodium|sodium|NN|Supp  phosphate|phosphate|NN|Supp  -LRB-|-lrb-|-LRB-|Supp  1/100|1/100|CD|Supp  vol|vol|NN|Supp  .|.|.|Supp  of|of|IN|Supp  1M|1m|NN|Supp  ,|,|,|Supp  pH|ph|NN|Supp  7.6|7.6|CD|Supp  ;|;|:|Supp  10|10|CD|Supp  mM|mm|NN|Supp  final|final|JJ|Supp  -RRB-|-rrb-|-RRB-|Supp  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|NN|Phase  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  aerobic|aerobic|JJ|O  or|or|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  aerobic|aerobic|JJ|O  or|or|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  3500|3500|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
+ WT|wt|JJ|Gtype  _|_|NN|O  RNASeq|rnaseq|NN|Technique 
+ RpoB|rpob|NN|O  with|with|IN|O  DPD|dpd|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  anaerobic|anaerobic|JJ|Air 
+ NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep3|rep3|NN|O 
+ IHF|ihf|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  C|C|NNP|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  B|b|NN|O 
+ RpoB|rpob|NN|O  WT|wt|JJ|Gtype  2|2|CD|O 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS1|hs1|NN|O 
+ genotype|genotype|NN|O  :|:|:|O  Wildtype|wildtype|NN|Gtype 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L2|l2|NN|O  HS2|hs2|NN|O 
+ cultured|culture|VBN|O  in|in|IN|O  :|:|:|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  none|none|NN|Anti 
+ genotype|genotype|NN|O  :|:|:|O  TrpR-8myc|trpr-8myc|NN|Gtype 
+ affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ WT|wt|JJ|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-RpoB|anti-rpob|JJ|Anti  -LRB-|-lrb-|-LRB-|O  Neoclone|Neoclone|NNP|O  ,|,|,|O  WP002|wp002|NN|O  -RRB-|-rrb-|-RRB-|O 
+ OxyR|oxyr|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
+ chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O 
+ Sequenced|sequence|VBN|O  reads|read|VBZ|O  were|be|VBD|O  mapped|map|VBN|O  onto|onto|IN|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion  reference|reference|NN|O  genome|genome|NN|O  sequence|sequence|NN|O  using|use|VBG|O  bowtie|bowtie|NN|O  v1|v1|NN|O  .0.0|.0.0|CD|O  with|with|IN|O  parameters|parameter|NNS|O  -|-|:|O  X|x|NN|O  1000|1000|CD|O  -|-|:|O  n|n|NN|O  2|2|CD|O  -3|-3|CD|O  3|3|LS|O  -|-|:|O  S|s|NN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  lacking|lack|VBG|Gtype  the|the|DT|Gtype  transcription|transcription|NN|Gtype  factor|factor|NN|Gtype  Fur|Fur|NNP|Gtype 
+ ΔsoxR|δsoxr|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
+ NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep1|rep1|NN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  harboring|harbor|VBG|O  ArcA-8myc|arca-8myc|NN|Gtype 
+ genotype|genotype|NN|O  :|:|:|O  delta|delta|NN|O  -|-|:|O  cra|cra|NN|Gtype  Knock-out|knock-out|JJ|Gtype  strain|strain|NN|Gtype 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  RNA|rna|NN|Anti  polymerase|polymerase|NN|Anti  subunit|subunit|NN|Anti  β|β|NN|Anti 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  GA|ga|NN|O 
+ OmpR|ompr|NN|O  NaCl|nacl|NN|Supp  1|1|CD|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|O  -LRB-|-lrb-|-LRB-|O  70|70|CD|O  %|%|NN|O  N2|n2|NN|O  ,|,|,|O  25|25|CD|O  %|%|NN|O  O2|o2|CD|O  ,|,|,|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  or|or|CC|O  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ At|at|IN|O  OD450|od450|NN|OD  =|=|JJ|OD  0.3|0.3|CD|OD  ,|,|,|O  cultures|culture|NNS|O  induced|induce|VBN|O  with|with|IN|O  1|1|CD|Supp  mM|mm|NN|Supp  IPTG|iptg|NN|Supp  .|.|.|O  Cells|cell|NNS|O  harvested|harvest|VBD|O  0|0|CD|O  min|min|NN|O  after|after|IN|O  induction|induction|NN|O 
+ M9|m9|NN|Med  minimal|minimal|JJ|Med  complete|complete|JJ|Med  media|media|NNS|Med  ,|,|,|O  cultures|culture|NNS|O  grown|grow|VBN|O  aerobically|aerobically|RB|Air  at|at|IN|O  30|30|CD|Temp  degrees|degree|NNS|Temp  C|c|NN|Temp  in|in|IN|O  a|a|DT|O  gyratory|gyratory|JJ|Agit  water|water|NN|Agit  bath|bath|NN|Agit  shaking|shake|VBG|Agit  at|at|IN|Agit  240|240|CD|Agit  rpm|rpm|NN|Agit 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  .|.|.|O 
+ LB|lb|NN|Med  0.4|0.4|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  GA|ga|NN|O 
+ culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  anaerobic|anaerobic|JJ|Air  fermentive|fermentive|JJ|O  condition|condition|NN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  oxyR-8myc|oxyr-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
+ treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  W2|w2|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  1g/L|1g/l|NN|Supp  arginine|arginine|NN|Supp  .|.|.|O 
+ Wild-type|wild-type|JJ|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ WT|wt|JJ|Gtype  with|with|IN|O  DPD|dpd|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ ß|ß|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  B|b|NN|O 
+ ArgR|argr|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  1|1|CD|O 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  dFNR|dfnr|NN|Gtype  -LRB-|-lrb-|-LRB-|Gtype  PK4854|pk4854|NN|Gtype  -RRB-|-rrb-|-RRB-|Gtype 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ genotype|genotype|NN|O  :|:|:|O  gadW-8myc|gadw-8myc|NN|Gtype 
+ SeqA|seqa|NN|O  old|old|JJ|O  deltaSeqA|deltaseqa|NN|Gtype 
+ agent|agent|NN|O  :|:|:|O  DPD|dpd|NN|Supp 
+ Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  A|a|NN|O  -|-|:|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadE|delta-gade|NN|Gtype 
+ agent|agent|NN|O  :|:|:|O  Fe|Fe|NNP|Supp  and|and|CC|Supp  rifampicin|rifampicin|NN|Supp 
+ ChIP-Seq|chip-seq|NN|Technique 
+ CsiR|csir|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
+ genoype|genoype|NN|O  :|:|:|O  dFNR|dfnr|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  wild|wild|JJ|Gtype  type|type|NN|Gtype 
+ Resulting|result|VBG|O  reads|read|VBZ|O  were|be|VBD|O  aligned|align|VBN|O  to|to|TO|O  the|the|DT|O  published|publish|VBN|O  E.|e.|FW|O  coli|coli|FW|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  genome|genome|NN|O  -LRB-|-lrb-|-LRB-|O  U00096|u00096|NN|Gversion  .2|.2|NN|Gversion  -RRB-|-rrb-|-RRB-|O  using|use|VBG|O  the|the|DT|O  software|software|NN|O  package|package|NN|O  SOAP|soap|NN|O  -LRB-|-lrb-|-LRB-|O  Li|Li|NNP|O  et|et|FW|O  al|al|FW|O  ,|,|,|O  2009|2009|CD|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  allowing|allow|VBG|O  no|no|RB|O  more|more|JJR|O  than|than|IN|O  two|two|CD|O  mismatches|mismatch|NNS|O  -LRB-|-lrb-|-LRB-|O  Supplemental|Supplemental|NNP|O  File|File|NNP|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  Reads|read|VBZ|O  aligning|align|VBG|O  to|to|TO|O  repeated|repeated|JJ|O  elements|element|NNS|O  in|in|IN|O  the|the|DT|O  genome|genome|NN|O  -LRB-|-lrb-|-LRB-|O  e.g.|e.g.|FW|O  rRNA|rrna|NN|O  -RRB-|-rrb-|-RRB-|O  were|be|VBD|O  removed|remove|VBN|O  from|from|IN|O  analysis|analysis|NN|O  .|.|.|O  For|for|IN|O  reads|read|VBZ|O  that|that|IN|O  had|have|VBD|O  no|no|DT|O  mapping|mapping|NN|O  locations|location|NNS|O  for|for|IN|O  the|the|DT|O  first|first|JJ|O  36|36|CD|O  bp|bp|NN|O  ,|,|,|O  the|the|DT|O  3-30|3-30|CD|O  bp|bp|NN|O  subsequences|subsequence|NNS|O  were|be|VBD|O  used|use|VBN|O  in|in|IN|O  the|the|DT|O  subsequent|subsequent|JJ|O  mapping|mapping|NN|O  to|to|TO|O  the|the|DT|O  reference|reference|NN|O  genome|genome|NN|O  .|.|.|O  Reads|read|NNS|O  that|that|WDT|O  had|have|VBD|O  unique|unique|JJ|O  mapping|mapping|NN|O  locations|location|NNS|O  and|and|CC|O  did|do|VBD|O  not|not|RB|O  match|match|VB|O  annotated|annotated|JJ|O  rRNA|rrna|NN|O  genes|gene|NNS|O  were|be|VBD|O  used|use|VBN|O  for|for|IN|O  further|further|JJ|O  analysis|analysis|NN|O  .|.|.|O  For|for|IN|O  each|each|DT|O  gene|gene|NN|O  ,|,|,|O  the|the|DT|O  tag|tag|NN|O  density|density|NN|O  was|be|VBD|O  estimated|estimate|VBN|O  as|as|IN|O  the|the|DT|O  number|number|NN|O  of|of|IN|O  aligned|align|VBN|O  sequencing|sequencing|NN|O  tags|tag|NNS|O  divided|divide|VBN|O  by|by|IN|O  gene|gene|NN|O  size|size|NN|O  in|in|IN|O  kb|kb|NN|O  .|.|.|O  Per-gene|per-gene|JJ|O  tag|tag|NN|O  density|density|NN|O  was|be|VBD|O  normalized|normalize|VBN|O  using|use|VBG|O  quantile|quantile|JJ|O  normalization|normalization|NN|O  -LRB-|-lrb-|-LRB-|O  Supplemental|Supplemental|NNP|O  Files|Files|NNP|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  The|the|DT|O  tag|tag|NN|O  density|density|NN|O  data|datum|NNS|O  were|be|VBD|O  analyzed|analyze|VBN|O  for|for|IN|O  statistically|statistically|RB|O  significant|significant|JJ|O  differential|differential|JJ|O  expression|expression|NN|O  using|use|VBG|O  BaySeq|BaySeq|NNP|O  -LRB-|-lrb-|-LRB-|O  Hardcastle|Hardcastle|NNP|O  &|&|CC|O  Kelly|Kelly|NNP|O  ,|,|,|O  2010|2010|CD|O  -RRB-|-rrb-|-RRB-|O  with|with|IN|O  a|a|DT|O  FDR|FDR|NNP|O  of|of|IN|O  0.01|0.01|CD|O  ,|,|,|O  and|and|CC|O  genes|gene|NNS|O  were|be|VBD|O  organized|organize|VBN|O  into|into|IN|O  operons|operon|NNS|O  using|use|VBG|O  data|datum|NNS|O  from|from|IN|O  EcoCyc|EcoCyc|NNP|O  -LRB-|-lrb-|-LRB-|O  Keseler|Keseler|NNP|O  et|et|FW|O  al|al|FW|O  ,|,|,|O  2011|2011|CD|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
+ affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ genotype|genotype|NN|O  :|:|:|O  wildtype|wildtype|JJ|Gtype 
+ ∆|∆|CD|Gtype  fnr|fnr|NN|Gtype  ChIP|chip|NN|O  DNA|dna|NN|O  from|from|IN|O  PK4854|pk4854|NN|Gtype 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
+ Ecoli|ecolus|NNS|O  _|_|VBP|O  dFNR|dfnr|NN|Gtype  _|_|CD|O  rep2|rep2|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
+ M63|m63|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS1|hs1|NN|O 
+ growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  mid-log|mid-log|NN|Phase 
+ Cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  10|10|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp 
+ Wild-type|wild-type|JJ|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
+ Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  C|c|NN|O  -|-|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|Anaerobic|NNP|Air  ,|,|,|O  Iron|Iron|NNP|Supp  Deficient|Deficient|NNP|O  A|A|NNP|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  with|with|IN|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp  and|and|CC|Supp  300|300|CD|Supp  µL|µl|NN|Supp  Cm20|cm20|NN|Supp  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
+ Aerobic|Aerobic|NNP|Air  cultures|culture|NNS|O 
+ antibody|antibody|NN|O  :|:|:|O  anti-FLAG|anti-flag|JJ|Anti  mAb|mab|NN|Anti 
+ RpoB|rpob|NN|O  with|with|IN|O  Fe|Fe|NNP|Supp  and|and|CC|O  rifampicin|rifampicin|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ M63|m63|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS1|hs1|NN|O 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L2|l2|NN|O  HS2|hs2|NN|O 
+ Δfur|δfur|NN|Gtype  with|with|IN|O  Fe|Fe|NNP|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  ASM584v2|asm584v2|NN|Gversion 
+ Nac|Nac|NNP|O  _|_|NNP|O  ChIPSeq|ChIPSeq|NNP|Technique 
+ Δfur|δfur|NN|Gtype  with|with|IN|O  Fe|Fe|NNP|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ Δcra|δcra|NN|Gtype  glucose|glucose|NN|Supp  2|2|CD|O 
+ ChIP-exo|ChIP-exo|NNP|Technique  GadE|gade|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  soxS-8myc|soxs-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
+ Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  Escherichia|escherichia|FW|O  coli|coli|FW|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  genome|genome|NN|O  version|version|NN|O  U00096|u00096|NN|Gversion  .2|.2|NN|Gversion 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  B|b|NN|O 
+ Δfur|δfur|NN|Gtype  with|with|IN|O  DPD|dpd|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  biotin|biotin|NN|Anti  conjugated|conjugate|VBN|Anti  anti-c-myc|anti-c-myc|JJ|Anti  antibody|antibody|NN|Anti 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-soxS|delta-soxs|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  Combined|Combined|NNP|Gtype  input|input|NN|Gtype 
+ treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  M9|m9|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  without|without|IN|O  20|20|CD|Supp  mg/L|mg/l|NN|Supp  tryptophan|tryptophan|NN|Supp  .|.|.|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  WT|WT|NNP|Gtype 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
+ strain|strain|NN|O  :|:|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  /|/|:|Gtype  ∆|∆|SYM|Gtype  stpA|stpa|NN|Gtype 
+ To|to|TO|O  harvest|harvest|VB|O  total|total|JJ|O  RNA|rna|NN|O  samples|sample|NNS|O  ,|,|,|O  overnight|overnight|JJ|O  cultures|culture|NNS|O  of|of|IN|O  wild|wild|JJ|Gtype  type|type|NN|Gtype  MG1655|mg1655|NN|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  at|at|IN|O  37|37|CD|O  ˚C|˚c|NN|O  were|be|VBD|O  diluted|dilute|VBN|O  back|back|RB|O  1:500|1:500|CD|O  in|in|IN|O  either|either|CC|O  fresh|fresh|JJ|O  LB|lb|NN|O  or|or|CC|O  M63|m63|NN|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  medium|medium|NN|O  and|and|CC|O  allowed|allow|VBN|O  to|to|TO|O  grow|grow|VB|O  until|until|IN|O  the|the|DT|O  cultures|culture|NNS|O  reached|reach|VBD|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  and|and|CC|O  2.0|2.0|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  and|and|CC|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.4|0.4|CD|OD  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  M63|m63|NN|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  25|25|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  Ethanol|ethanol|NN|O  ,|,|,|O  5|5|CD|O  %|%|NN|O  acid|acid|NN|O  phenol|phenol|NN|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|O  of|of|IN|O  2.0|2.0|CD|O  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  1|1|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  .|.|.|O 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|SYM|O  1|1|CD|O 
+ A|a|NN|O  total|total|NN|O  of|of|IN|O  six|six|CD|O  samples|sample|NNS|O  were|be|VBD|O  analyzed|analyze|VBN|O  .|.|.|O  oxyR-8myc|oxyr-8myc|NN|O  ,|,|,|O  soxR-8myc|soxr-8myc|NN|O  ,|,|,|O  and|and|CC|O  soxS-8myc|soxs-8myc|NN|O  tagged|tag|VBD|O  cells|cell|NNS|O  were|be|VBD|O  cultured|culture|VBN|O  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  Then|then|RB|O  cells|cell|NNS|O  were|be|VBD|O  treated|treat|VBN|O  with|with|IN|O  250|250|CD|O  uM|um|NN|O  of|of|IN|O  paraquat|paraquat|NN|O  at|at|IN|O  mid-log|mid-log|JJ|O  pahse|pahse|NN|O  for|for|IN|O  20|20|CD|O  min|min|NN|O  with|with|IN|O  agitation|agitation|NN|O  .|.|.|O 
+ Δcra|δcra|NN|Gtype  glucose|glucose|NN|Supp  1|1|CD|O 
+ HNS|hns|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  Affinity|affinity|NN|O  Purified|purify|VBN|O  -|-|:|O  A|a|NN|O 
+ SoxR|soxr|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
+ Fur|Fur|NNP|O  with|with|IN|O  Fe|Fe|NNP|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|O  -LRB-|-lrb-|-LRB-|O  70|70|CD|O  %|%|NN|O  N2|n2|NN|O  ,|,|,|O  25|25|CD|O  %|%|NN|O  O2|o2|CD|O  ,|,|,|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  or|or|CC|O  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  in|in|IN|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  10|10|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp  .|.|.|O 
+ RNA-Seq|rna-seq|NN|Technique 
+ Δfur|δfur|NN|Gtype  with|with|IN|O  DPD|dpd|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  nitrate|nitrate|JJ|Supp  respiratory|respiratory|JJ|O  condition|condition|NN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  ΔarcA|δarca|NN|Gtype 
+ ΔgadW|δgadw|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Fur-8-myc|fur-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|O  mM|mm|NN|O  of|of|IN|O  FeCl2|fecl2|NN|O  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  DPD|dpd|NN|Supp  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|Supp  .|.|.|O  For|for|IN|O  the|the|DT|O  rifampicin-treated|rifampicin-treated|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  rifampicin|rifampicin|NN|O  dissolved|dissolve|VBN|O  in|in|IN|O  methanol|methanol|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  concentration|concentration|NN|O  of|of|IN|O  150|150|CD|O  mg/mL|mg/ml|NN|O  at|at|IN|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  and|and|CC|O  stirred|stir|VBD|O  for|for|IN|O  20|20|CD|O  min|min|NN|O  .|.|.|O 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|SYM|O  3|3|CD|O 
+ RpoB|rpob|NN|O  WT|wt|JJ|Gtype  1|1|CD|O 
+ IHF|ihf|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ genotype|genotype|NN|O  :|:|:|O  gadE-8myc|gade-8myc|NN|Gtype 
+ Δcra|δcra|NN|Gtype  acetate|acetate|NN|Supp  2|2|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadX|delta-gadx|NN|Gtype 
+ ChIP-exo|ChIP-exo|NNP|Technique  GadW|gadw|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ ChIP-Seq|chip-seq|NN|Gversion 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-RpoS|anti-rpos|JJ|Anti  -LRB-|-lrb-|-LRB-|O  neoclone|neoclone|NN|O  ,|,|,|O  WP009|wp009|NN|O  -RRB-|-rrb-|-RRB-|O 
+ E.|E.|NNP|O  coli|coli|NN|O  strains|strain|NNS|O  harboring|harbor|VBG|O  PurR-8myc|purr-8myc|NN|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  minimal|minimal|JJ|O  M9|m9|NN|O  medium|medium|NN|O  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|O  -LRB-|-lrb-|-LRB-|O  2|2|CD|O  g/L|g/l|NN|O  -RRB-|-rrb-|-RRB-|O  then|then|RB|O  inoculated|inoculate|VBN|O  into|into|IN|O  100mL|100ml|NN|O  of|of|IN|O  fresh|fresh|JJ|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  medium|medium|NN|Med  .|.|.|O 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS1|hs1|NN|O 
+ Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  5|5|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
+ strain|strain|NN|O  :|:|:|O  PK8263|pk8263|NN|Gtype 
+ ß|ß|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  -|-|:|O  A|a|NN|O 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L2|l2|NN|O  HS2|hs2|NN|O 
+ ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air 
+ σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  rep2|rep2|NN|O 
+ growth|growth|NN|O  medium|medium|NN|O  :|:|:|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  1|1|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp 
+ At|at|IN|O  OD450|od450|NN|OD  =|=|JJ|OD  0.3|0.3|CD|OD  ,|,|,|O  cultures|culture|NNS|O  induced|induce|VBN|O  with|with|IN|O  1|1|CD|Supp  mM|mm|NN|Supp  IPTG|iptg|NN|Supp  .|.|.|O  Cells|cell|NNS|O  harvested|harvest|VBN|O  2.5|2.5|CD|O  min|min|NN|O  after|after|IN|O  induction|induction|NN|O 
+ ChIP-exo|ChIP-exo|NNP|Technique  RpoS|rpos|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ TrpR|trpr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp 
+ antibody|antibody|NN|O  :|:|:|O  Affinity|Affinity|NNP|Anti  Purified|purify|VBN|Anti  FNR|fnr|NN|Anti  antibody|antibody|NN|Anti 
+ ip|ip|NN|O  antibody|antibody|NN|O  :|:|:|O  affinity|affinity|NN|Anti  purified|purify|VBN|Anti  anti-Fur|anti-fur|JJ|Anti  antibody|antibody|NN|Anti 
+ WT|wt|JJ|Gtype  with|with|IN|O  Fe|Fe|NNP|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ LB|lb|NN|Med  2.0|2.0|CD|O  B1|b1|NN|O  TEX|tex|NN|O  neg|neg|NN|O  L1|l1|NN|O  GA|ga|NN|O 
+ Nac|Nac|NNP|O  _|_|SYM|O  RNASeq|rnaseq|NN|Technique 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  Custom|Custom|NNP|O  anti-Fur|anti-fur|JJ|Anti  polyclonal|polyclonal|JJ|Anti  antibody|antibody|NN|Anti 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  to|to|TO|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  about|about|IN|OD  0.15|0.15|CD|OD  in|in|IN|O  100|100|CD|O  ml|ml|NN|O  LB|lb|NN|Med  -LRB-|-lrb-|-LRB-|O  +|+|CC|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
+ Wild-type|wild-type|JJ|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
+ antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  IHF|ihf|NN|Anti  polyclonal|polyclonal|JJ|Anti  antibody|antibody|NN|Anti 
+ chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  lacZ|lacz|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  tonB|tonb|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  feoA|feoa|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  zupT|zupt|NN|Gtype  K12|k12|NN|Gtype 
+ To|to|TO|O  harvest|harvest|VB|O  total|total|JJ|O  RNA|rna|NN|O  samples|sample|NNS|O  ,|,|,|O  overnight|overnight|JJ|O  cultures|culture|NNS|O  of|of|IN|O  wild|wild|JJ|Gtype  type|type|NN|Gtype  MG1655|mg1655|NN|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  at|at|IN|O  37|37|CD|O  ˚C|˚c|NN|O  were|be|VBD|O  diluted|dilute|VBN|O  back|back|RB|O  1:500|1:500|CD|O  in|in|IN|O  either|either|CC|O  fresh|fresh|JJ|O  LB|lb|NN|O  or|or|CC|O  M63|m63|NN|O  minimal|minimal|JJ|O  glucose|glucose|NN|O  medium|medium|NN|O  and|and|CC|O  allowed|allow|VBN|O  to|to|TO|O  grow|grow|VB|O  until|until|IN|O  the|the|DT|O  cultures|culture|NNS|O  reached|reach|VBD|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  and|and|CC|O  2.0|2.0|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  and|and|CC|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  M63|m63|NN|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  25|25|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  Ethanol|ethanol|NN|O  ,|,|,|O  5|5|CD|O  %|%|NN|O  acid|acid|NN|O  phenol|phenol|NN|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|OD  of|of|IN|OD  2.0|2.0|CD|OD  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  1|1|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  .|.|.|O 
+ genotype|genotype|NN|O  :|:|:|O  ArgR-8myc|argr-8myc|NN|Gtype 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|WT|NNP|O  ,|,|,|O  GadE-8-myc|gade-8-myc|NN|O  ,|,|,|O  GadW-8-myc|gadw-8-myc|NN|O  ,|,|,|O  and|and|CC|O  GadX-8-myc|gadx-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  =|=|JJ|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  aerobically|aerobically|RB|Air  -LRB-|-lrb-|-LRB-|O  250|250|CD|Agit  rpm|rpm|NN|Agit  -RRB-|-rrb-|-RRB-|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  at|at|IN|O  pH|ph|NN|pH  5.5|5.5|CD|pH  .|.|.|O 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|NN|O  2|2|CD|O 
+ Samples|sample|NNS|O  for|for|IN|O  transcriptome|transcriptome|NN|O  analysis|analysis|NN|O  were|be|VBD|O  taken|take|VBN|O  from|from|IN|O  exponentially|exponentially|RB|Phase  growing|grow|VBG|Phase  cells|cell|NNS|Phase  .|.|.|O  From|from|IN|O  the|the|DT|O  cells|cell|NNS|O  treated|treat|VBN|O  by|by|IN|O  RNAprotect|rnaprotect|NN|O  Bacteria|bacterium|NNS|O  Reagent|reagent|NN|O  -LRB-|-lrb-|-LRB-|O  Qiagen|qiagen|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  total|total|JJ|O  RNA|rna|NN|O  samples|sample|NNS|O  were|be|VBD|O  isolated|isolate|VBN|O  using|use|VBG|O  RNeasy|rneasy|JJ|O  columns|column|NNS|O  -LRB-|-lrb-|-LRB-|O  Qiagen|Qiagen|NNP|O  -RRB-|-rrb-|-RRB-|O  in|in|IN|O  accordance|accordance|NN|O  with|with|IN|O  manufacturer|manufacturer|NN|O  's|'s|POS|O  instruction|instruction|NN|O  .|.|.|O 
+ ΔsoxR|δsoxr|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
+ genotype|genotype|NN|O  :|:|:|O  ΔseqA|δseqa|NN|Gtype 
+ agent|agent|NN|O  :|:|:|O  DPD|dpd|NN|Supp  and|and|CC|Supp  rifampicin|rifampicin|NN|Supp 
+ carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  acetate|acetate|NN|Supp 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ PurR|purr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp  _|_|NN|O  2|2|CD|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  with|with|IN|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp  and|and|CC|Supp  300|300|CD|Supp  µL|µl|NN|Supp  Cm20|cm20|NN|Supp  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Δfur|δfur|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|O  mM|mm|NN|O  of|of|IN|O  FeCl2|fecl2|NN|O  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  DPD|dpd|NN|Supp  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|O  .|.|.|O 
+ antibody|antibody|NN|O  :|:|:|O  RNA|rna|NN|Anti  Polymerase|polymerase|NN|Anti  ß|ß|NN|Anti  monoclonal|monoclonal|JJ|Anti  antibody|antibody|NN|Anti  from|from|IN|O  NeoClone|NeoClone|NNP|O  -LRB-|-lrb-|-LRB-|O  W0002|w0002|NN|O  -RRB-|-rrb-|-RRB-|O 
+ growth|growth|NN|O  medium|medium|NN|O  :|:|:|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  10|10|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp 
+ PurR|purr|NN|O  _|_|CD|O  Adenine|Adenine|NNP|Supp  _|_|NN|O  2|2|CD|O 
+ WT|wt|JJ|Gtype  NaCl|nacl|NN|Supp  1|1|CD|O 
+ genotype|genotype|NN|O  :|:|:|O  gadX-8myc|gadx-8myc|NN|Gtype 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  str|str|NN|O  .|.|.|O  K-12|k-12|NN|Strain  substr|substr|NN|O  .|.|.|O  MG1655star|mg1655star|NN|Substrain 
+ library|library|NN|O  strategy|strategy|NN|O  :|:|:|O  ChIP-exo|ChIP-exo|NNP|Technique 
+ affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  M9|m9|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  10|10|CD|Supp  mM|mm|NN|Supp  leucine|leucine|NN|Supp  .|.|.|O 
+ treated|treat|VBN|O  with|with|IN|O  :|:|:|O  250|250|CD|Supp  uM|um|NN|Supp  of|of|IN|Supp  paraquat|paraquat|NN|Supp  at|at|IN|O  mid-log|mid-log|NN|Phase  pahse|pahse|NN|Phase  for|for|IN|O  20|20|CD|Supp  min|min|NN|Supp 
+ ΔoxyR|δoxyr|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
+ SoxS|soxs|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-soxR|delta-soxr|NN|Gtype 
+ M63|m63|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS2|hs2|NN|O 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  SeqA|seqa|NN|Anti 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  Δfnr|δfnr|NN|Gtype 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
+ E.|e.|FW|O  coli|coli|FW|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  cra-8myc|cra-8myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  was|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|O  minimal|minimal|JJ|O  media|media|NNS|O  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|O  %|%|NN|O  glucose|glucose|NN|O  ,|,|,|O  fructose|fructose|NN|O  and|and|CC|O  acetate|acetate|NN|O  .|.|.|O 
+ Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  U00096|u00096|NN|Gversion  .2|.2|NN|Gversion  -LRB-|-lrb-|-LRB-|O  GenBank|genbank|NN|O  -RRB-|-rrb-|-RRB-|O 
+ M63|m63|NN|Med  0.4|0.4|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  GA|ga|NN|O 
+ WT|wt|JJ|Gtype  _|_|NN|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  1|1|CD|O 
+ Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  2.5|2.5|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
+ chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O 
+ cultured|culture|VBN|O  in|in|IN|O  :|:|:|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  acetate|acetate|NN|Supp 
+ Cra|Cra|NNP|O  glucose|glucose|NN|Supp  1|1|CD|O 
+ ΔgadX|δgadx|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ LB|lb|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS1|hs1|NN|O 
+ WT|wt|JJ|Gtype  glucose|glucose|NN|Supp  2|2|CD|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|Anaerobic|NNP|Air  ,|,|,|O  Iron|Iron|NNP|Supp  Deficient|deficient|JJ|O  B|b|NN|O 
+ Wild-type|wild-type|JJ|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  A|a|NN|O  -|-|:|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ Ecoli|ecolus|NNS|O  _|_|VBP|O  wild-type|wild-type|JJ|Gtype  _|_|NN|O  rep2|rep2|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
+ ΔgadE|δgade|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ FNR|fnr|SYM|O  -|-|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  ∆|∆|VBP|Gtype  stpA|stpa|NN|Gtype  B|b|NN|O 
+ WT|wt|JJ|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
+ RpoB|rpob|NN|O  with|with|IN|O  DPD|dpd|NN|Supp  and|and|CC|O  rifampicin|rifampicin|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ Ecoli|ecolus|NNS|O  _|_|VBP|O  wild-type|wild-type|JJ|Gtype  _|_|NN|O  rep1|rep1|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
+ A|a|NN|O  total|total|NN|O  of|of|IN|O  two|two|CD|O  samples|sample|NNS|O  were|be|VBD|O  analyzed|analyze|VBN|O  .|.|.|O  ompR-8myc|ompr-8myc|NN|O  tagged|tag|VBD|O  cells|cell|NNS|O  were|be|VBD|O  cultured|culture|VBN|O  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  Then|then|RB|O  cells|cell|NNS|O  were|be|VBD|O  treated|treat|VBN|O  with|with|IN|O  0.3|0.3|CD|Supp  M|m|NN|Supp  of|of|IN|Supp  NaCl|nacl|NN|Supp  at|at|IN|O  mid-log|mid-log|NN|Phase  pahse|pahse|NN|Phase  for|for|IN|O  30|30|CD|Supp  min|min|NN|Supp  with|with|IN|O  agitation|agitation|NN|O  .|.|.|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|O  -LRB-|-lrb-|-LRB-|O  70|70|CD|O  %|%|NN|O  N2|n2|NN|O  ,|,|,|O  25|25|CD|O  %|%|NN|O  O2|o2|CD|O  ,|,|,|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  or|or|CC|O  anaerobically|anaerobically|RB|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  N2|n2|NN|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
+ Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  B|b|NN|O  -|-|:|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Fur-8-myc|fur-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  FeCl2|fecl2|NN|Supp  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|O  mM|mm|NN|O  of|of|IN|O  DPD|dpd|NN|O  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|Supp  .|.|.|O  For|for|IN|O  the|the|DT|O  rifampicin-treated|rifampicin-treated|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  rifampicin|rifampicin|NN|Supp  dissolved|dissolve|VBN|Supp  in|in|IN|Supp  methanol|methanol|NN|Supp  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  concentration|concentration|NN|O  of|of|IN|O  150|150|CD|Supp  mg/mL|mg/ml|NN|Supp  at|at|IN|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  and|and|CC|O  stirred|stir|VBD|O  for|for|IN|O  20|20|CD|Supp  min|min|NN|Supp  .|.|.|O 
+ σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  rep2|rep2|NN|O 
+ WT|wt|JJ|Gtype  with|with|IN|O  DPD|dpd|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  tonB|tonb|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  feoA|feoa|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  zupT|zupt|NN|Gtype  K12|k12|NN|Gtype 
+ ChIP-exo|ChIP-exo|NNP|Technique  GadE|gade|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta|delta|NN|Gtype  _|_|SYM|Gtype  cra|cra|FW|Gtype 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  9E10|9e10|CD|Anti  Myc|myc|NN|Anti  tag|tag|NN|Anti  antibody|antibody|NN|O 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Aerobic|Aerobic|NNP|Air 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-myc|anti-myc|JJ|Anti  -LRB-|-lrb-|-LRB-|O  Santa|Santa|NNP|O  Cruz|Cruz|NNP|O  Biotech|Biotech|NNP|O  ,|,|,|O  sc-28207|sc-28207|NN|O  -RRB-|-rrb-|-RRB-|O 
+ ΔompR|δompr|NN|Gtype  NaCl|nacl|NN|Supp  1|1|CD|O 
+ RpoB|rpob|NN|O  with|with|IN|O  DPD|dpd|NN|Supp  and|and|CC|O  rifampicin|rifampicin|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
+ growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  stationary|stationary|JJ|Phase 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  A|A|NNP|O 
+ ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air 
+ affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
+ Input|input|NN|O  ChIP-Seq|chip-seq|NN|Technique 
+ FNR|fnr|SYM|O  -|-|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  ∆|∆|VBP|Gtype  stpA|stpa|NN|Gtype  A|a|NN|O 
+ treated|treat|VBN|O  with|with|IN|O  :|:|:|O  250|250|CD|Supp  uM|um|NN|Supp  of|of|IN|Supp  paraquat|paraquat|NN|Supp  at|at|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  for|for|IN|O  20|20|CD|Supp  min|min|NN|Supp 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ Cra|Cra|NNP|O  acetate|acetate|NN|Supp  2|2|CD|O 
+ ArgR|argr|NN|O  _|_|CD|O  Arginine|arginine|NN|Supp  _|_|NN|O  1|1|CD|O 
+ treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  W2|w2|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  2g/L|2g/l|NN|Supp  glutamine|glutamine|NN|Supp  .|.|.|O 
+ chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O 
+ ΔgadE|δgade|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  Anaerobic|anaerobic|JJ|Air  cultures|culture|NNS|O 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Adenine|Adenine|NNP|Supp 
+ Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  and|and|CC|O  nitrate|nitrate|VBP|Supp  .|.|.|O 
+ Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  with|with|IN|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp  and|and|CC|Supp  300|300|CD|Supp  µL|µl|NN|Supp  Cm20|cm20|NN|Supp  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
+ ChIP-exo|ChIP-exo|NNP|Technique  GadW|gadw|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913.2|000913.2|CD|Gversion 
+ E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|WT|NNP|O  ,|,|,|O  and|and|CC|O  Δcra|Δcra|NNP|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|O  ,|,|,|O  fructose|fructose|NN|O  and|and|CC|O  acetate|acetate|NN|O  .|.|.|O 
\ No newline at end of file

- ΔsoxS|δsoxs|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  soxS-8myc|soxs-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
- WT|wt|JJ|Gtype  with|with|IN|O  DPD|dpd|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadW|delta-gadw|NN|Gtype 
- antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  IHF|ihf|NN|Anti  polyclonal|polyclonal|JJ|Anti  antibody|antibody|NN|Anti 
- Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  U00096|u00096|NN|Gversion  .2|.2|NN|Gversion  -LRB-|-lrb-|-LRB-|O  GenBank|genbank|NN|O  -RRB-|-rrb-|-RRB-|O 
- cultured|culture|VBN|O  in|in|IN|O  :|:|:|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  acetate|acetate|NN|Supp 
- RpoB|rpob|NN|O  with|with|IN|O  Fe|Fe|NNP|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- Cra|Cra|NNP|O  fructose|fructose|NN|Supp  1|1|CD|O 
- WT|wt|JJ|Gtype  glucose|glucose|NN|Supp  2|2|CD|O 
- ΔoxyR|δoxyr|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
- ip|ip|NN|O  antibody|antibody|NN|O  :|:|:|O  affinity|affinity|NN|Anti  purified|purify|VBN|Anti  anti-Fur|anti-fur|JJ|Anti  antibody|antibody|NN|Anti 
- σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  rep1|rep1|NN|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  RNA|rna|NN|Anti  polymerase|polymerase|NN|Anti  subunit|subunit|NN|Anti  β|β|NN|Anti 
- Lrp|Lrp|NNP|O  _|_|SYM|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  2|2|CD|O 
- chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS1|hs1|NN|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  lacking|lack|VBG|Gtype  the|the|DT|Gtype  small|small|JJ|Gtype  RNA|rna|NN|Gtype  RyhB|ryhb|NN|Gtype 
- RpoB|rpob|NN|O  with|with|IN|O  Fe|Fe|NNP|Supp  and|and|CC|O  rifampicin|rifampicin|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air 
- IHF|ihf|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- PurR|purr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp  _|_|NN|O  1|1|CD|O 
- E.|e.|FW|O  coli|coli|FW|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  cra-8myc|cra-8myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  was|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|O  minimal|minimal|JJ|O  media|media|NNS|O  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|O  %|%|NN|O  glucose|glucose|NN|O  ,|,|,|O  fructose|fructose|NN|O  and|and|CC|O  acetate|acetate|NN|O  .|.|.|O 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
- E.|e.|FW|OD  coli|coli|FW|OD  K-12|k-12|NN|OD  MG1655|mg1655|NN|OD  WT|wt|NN|OD  ,|,|,|OD  ΔoxyR|δoxyr|NN|OD  ,|,|,|OD  ΔsoxR|δsoxr|NN|OD  ,|,|,|OD  and|and|CC|OD  ΔsoxS|δsoxs|NN|OD  were|be|VBD|OD  grown|grow|VBN|OD  to|to|TO|OD  mid-log|mid-log|JJ|OD  phase|phase|NN|OD  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  Then|then|RB|O  cells|cell|NNS|O  were|be|VBD|O  treated|treat|VBN|O  with|with|IN|O  250|250|CD|O  uM|um|NN|O  of|of|IN|O  paraquat|paraquat|NN|O  at|at|IN|O  mid-log|mid-log|JJ|O  pahse|pahse|NN|O  for|for|IN|O  20|20|CD|O  min|min|NN|O  with|with|IN|O  agitation|agitation|NN|O  .|.|.|O 
- ArgR|argr|NN|O  _|_|CD|O  Arginine|arginine|NN|Supp  _|_|NN|O  1|1|CD|O 
- treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  W2|w2|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  1g/L|1g/l|NN|Supp  arginine|arginine|NN|Supp  .|.|.|O 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  and|and|CC|O  nitrate|nitrate|VBP|Supp  .|.|.|O 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  LB|LB|NNP|Med  media|media|NNS|Med  with|with|IN|O  1mM|1mm|NN|Supp  IPTG|iptg|NN|Supp  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  with|with|IN|O  shaking|shake|VBG|O  for|for|IN|O  2|2|CD|Supp  hours|hour|NNS|Supp 
- medium|medium|NN|O  :|:|:|O  LB|LB|NNP|Med 
- MG1655|mg1655|NN|Substrain  PhtpG|phtpg|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  lacZ|lacz|NN|Gtype  delta|delta|NN|Gtype  lacX74/pTG2|lacx74/ptg2|NN|Gtype  -LRB-|-lrb-|-LRB-|Gtype  vector|vector|NN|Gtype  carrying|carrying|NN|Gtype  inducible|inducible|JJ|Gtype  Ptrc|ptrc|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  rpoH|rpoh|NN|Gtype  -RRB-|-rrb-|-RRB-|Gtype 
- Ecoli|ecolus|NNS|O  _|_|VBP|O  dFNR|dfnr|NN|Gtype  _|_|CD|O  rep2|rep2|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
- affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  70|70|CD|Air  %|%|NN|Air  N2|n2|NN|Air  ,|,|,|Air  25|25|CD|Air  %|%|NN|Air  O2|o2|CD|Air  ,|,|,|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  or|or|CC|O  anaerobically|anaerobically|RB|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  N2|n2|NN|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  in|in|IN|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  10|10|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp  .|.|.|O 
- ChIP-Seq|chip-seq|NN|Gversion 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  WT|WT|NNP|Gtype 
- affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Δfur|δfur|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  FeCl2|fecl2|NN|Supp  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|O  mM|mm|NN|O  of|of|IN|O  DPD|dpd|NN|O  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|O  .|.|.|O 
- M9|m9|NN|Med  minimal|minimal|JJ|Med  complete|complete|JJ|Med  media|media|NNS|Med  ,|,|,|O  cultures|culture|NNS|O  grown|grow|VBN|O  aerobically|aerobically|RB|Air  at|at|IN|O  30|30|CD|Temp  degrees|degree|NNS|Temp  C|c|NN|Temp  in|in|IN|O  a|a|DT|O  gyratory|gyratory|JJ|Agit  water|water|NN|Agit  bath|bath|NN|Agit  shaking|shake|VBG|Agit  at|at|IN|Agit  240|240|CD|Agit  rpm|rpm|NN|Agit 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  cra-8myc-tagged|cra-8myc-tagged|JJ|Gtype 
- ΔgadW|δgadw|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- E.|E.|NNP|O  coli|coli|NN|O  strains|strain|NNS|O  harboring|harbor|VBG|O  PurR-8myc|purr-8myc|NN|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  minimal|minimal|JJ|O  M9|m9|NN|O  medium|medium|NN|O  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|O  -LRB-|-lrb-|-LRB-|O  2|2|CD|O  g/L|g/l|NN|O  -RRB-|-rrb-|-RRB-|O  then|then|RB|O  inoculated|inoculate|VBN|O  into|into|IN|O  100mL|100ml|NN|O  of|of|IN|O  fresh|fresh|JJ|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  100ug/L|100ug/l|NN|Supp  adenine|adenine|NN|Supp  .|.|.|O 
- WT|wt|JJ|Gtype  with|with|IN|O  DPD|dpd|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- genotype|genotype|NN|O  :|:|:|O  ompR|ompr|NN|Gtype  deletion|deletion|NN|Gtype  mutant|mutant|JJ|Gtype 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  20|20|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
- ΔsoxS|δsoxs|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
- pT7|pt7|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  1|1|CD|O 
- Ecoli|ecolus|NNS|O  _|_|VBP|O  wild-type|wild-type|JJ|Gtype  _|_|NN|O  rep1|rep1|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
- Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  ASM584v2|asm584v2|NN|Gversion 
- LB|lb|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS2|hs2|NN|O 
- M63|m63|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS2|hs2|NN|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  Δfur|δfur|NN|Gtype 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  str|str|NN|O  .|.|.|O  K-12|k-12|NN|Strain  substr|substr|NN|O  .|.|.|O  MG1655|mg1655|NN|Substrain 
- Sequenced|sequence|VBN|O  reads|read|VBZ|O  were|be|VBD|O  mapped|map|VBN|O  onto|onto|IN|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion  reference|reference|NN|O  genome|genome|NN|O  sequence|sequence|NN|O  using|use|VBG|O  bowtie|bowtie|NN|O  v1|v1|NN|O  .0.0|.0.0|CD|O  with|with|IN|O  parameters|parameter|NNS|O  -|-|:|O  X|x|NN|O  1000|1000|CD|O  -|-|:|O  n|n|NN|O  2|2|CD|O  -3|-3|CD|O  3|3|LS|O  -|-|:|O  S|s|NN|O 
- Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|NN|O  2|2|CD|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  B|b|NN|O 
- Samples|sample|NNS|O  for|for|IN|O  transcriptome|transcriptome|NN|O  analysis|analysis|NN|O  were|be|VBD|O  taken|take|VBN|O  from|from|IN|O  exponentially|exponentially|RB|Phase  growing|grow|VBG|Phase  cells|cell|NNS|Phase  .|.|.|O  From|from|IN|O  the|the|DT|O  cells|cell|NNS|O  treated|treat|VBN|O  by|by|IN|O  RNAprotect|rnaprotect|NN|O  Bacteria|bacterium|NNS|O  Reagent|reagent|NN|O  -LRB-|-lrb-|-LRB-|O  Qiagen|qiagen|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  total|total|JJ|O  RNA|rna|NN|O  samples|sample|NNS|O  were|be|VBD|O  isolated|isolate|VBN|O  using|use|VBG|O  RNeasy|rneasy|JJ|O  columns|column|NNS|O  -LRB-|-lrb-|-LRB-|O  Qiagen|Qiagen|NNP|O  -RRB-|-rrb-|-RRB-|O  in|in|IN|O  accordance|accordance|NN|O  with|with|IN|O  manufacturer|manufacturer|NN|O  's|'s|POS|O  instruction|instruction|NN|O  .|.|.|O 
- Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|SYM|O  1|1|CD|O 
- Fur|Fur|NNP|O  with|with|IN|O  DPD|dpd|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- treated|treat|VBN|O  with|with|IN|O  :|:|:|O  250|250|CD|Supp  uM|um|NN|Supp  of|of|IN|Supp  paraquat|paraquat|NN|Supp  at|at|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  for|for|IN|O  20|20|CD|Supp  min|min|NN|Supp 
- Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  C|c|NN|O  -|-|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913.2|000913.2|CD|Gversion 
- treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  W2|w2|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  2g/L|2g/l|NN|Supp  glutamine|glutamine|NN|Supp  .|.|.|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|Anaerobic|NNP|Air  ,|,|,|O  Iron|Iron|NNP|Supp  Deficient|deficient|JJ|O  B|b|NN|O 
- Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  B|b|NN|O  -|-|:|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  B|b|NN|O 
- RNA-Seq|rna-seq|NN|Technique 
- LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L2|l2|NN|O  HS2|hs2|NN|O 
- LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS2|hs2|NN|O 
- strain|strain|NN|O  :|:|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  /|/|:|Gtype  ∆|∆|SYM|Gtype  stpA|stpa|NN|Gtype 
- MG1655|mg1655|NN|Substrain  PhtpG|phtpg|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  lacZ|lacz|NN|Gtype  delta|delta|NN|Gtype  lacX74/ptrc99A|lacx74/ptrc99a|NN|Gtype  -LRB-|-lrb-|-LRB-|Gtype  control|control|NN|Gtype  vector|vector|NN|Gtype  -RRB-|-rrb-|-RRB-|Gtype 
- σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  rep1|rep1|NN|O 
- chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-myc|anti-myc|JJ|Anti 
- Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  B|b|NN|O  -|-|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  0|0|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
- genotype|genotype|NN|O  :|:|:|O  WT|WT|NNP|Gtype 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|Anaerobic|NNP|Air  ,|,|,|O  Iron|Iron|NNP|Supp  Deficient|Deficient|NNP|O  A|A|NNP|O 
- culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  Aerobic|Aerobic|NNP|Air  cultures|culture|NNS|O 
- Wild-type|wild-type|JJ|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  65|65|CD|O  ml|ml|NN|O  LB|lb|NN|O  medium|medium|NN|O  at|at|IN|O  30|30|CD|O  °C|°c|NN|O  to|to|TO|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  about|about|IN|OD  0.3|0.3|CD|OD  .|.|.|O  Subsequently|subsequently|RB|O  30|30|CD|O  ml|ml|NN|O  of|of|IN|O  culture|culture|NN|O  were|be|VBD|O  transformed|transform|VBN|O  to|to|TO|O  a|a|DT|O  pre|pre|JJ|O  warmed|warm|VBN|O  flask|flask|NN|Vess  at|at|IN|O  43|43|CD|Temp  °C|°c|NN|Temp  -LRB-|-lrb-|-LRB-|Temp  see|see|VB|Temp  heat|heat|NN|Temp  sample|sample|NN|Temp  -RRB-|-rrb-|-RRB-|Temp  and|and|CC|O  the|the|DT|O  remainder|remainder|NN|O  kept|keep|VBD|O  at|at|IN|O  30|30|CD|Temp  °C|°c|NN|Temp  .|.|.|O 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  and|and|CC|O  nitrate|nitrate|VBP|Supp  .|.|.|O 
- RpoB|rpob|NN|O  WT|wt|JJ|Gtype  2|2|CD|O 
- LB|lb|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L1|l1|NN|O  HS1|hs1|NN|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- cultured|culture|VBN|O  in|in|IN|O  :|:|:|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp 
- LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS1|hs1|NN|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  fur-8myc|fur-8myc|JJ|Gtype 
- Cra|Cra|NNP|O  glucose|glucose|NN|Supp  2|2|CD|O 
- Lrp|lrp|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  3|3|CD|O 
- WT|wt|JJ|Gtype  with|with|IN|O  Fe|Fe|NNP|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O 
- chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O 
- OmpR|ompr|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
- treated|treat|VBN|O  with|with|IN|O  :|:|:|O  250|250|CD|Supp  uM|um|NN|Supp  of|of|IN|Supp  paraquat|paraquat|NN|Supp  at|at|IN|O  mid-log|mid-log|NN|Phase  pahse|pahse|NN|Phase  for|for|IN|O  20|20|CD|Supp  min|min|NN|Supp 
- treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  M9|m9|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  20|20|CD|Supp  mg/L|mg/l|NN|Supp  tryptophan|tryptophan|NN|Supp  .|.|.|O 
- Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  to|to|TO|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  about|about|IN|OD  0.15|0.15|CD|OD  in|in|IN|O  50|50|CD|O  ml|ml|NN|O  LB|lb|NN|Med  -LRB-|-lrb-|-LRB-|O  +|+|CC|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  -RRB-|-rrb-|-RRB-|O  before|before|IN|O  crosslinking|crosslink|VBG|O  .|.|.|O 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- ChIP-exo|ChIP-exo|NNP|Technique  GadW|gadw|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- Δfur|δfur|NN|Gtype  with|with|IN|O  Fe|Fe|NNP|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- PurR|purr|NN|O  _|_|CD|O  Adenine|Adenine|NNP|Supp  _|_|NN|O  2|2|CD|O 
- Fur|Fur|NNP|O  with|with|IN|O  DPD|dpd|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- ChIP-exo|ChIP-exo|NNP|Technique  RpoS|rpos|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  anaerobic|anaerobic|JJ|Air  fermentive|fermentive|JJ|O  condition|condition|NN|O 
- OxyR|oxyr|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
- growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD 
- ß|ß|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  A|a|NN|O 
- M63|m63|NN|Med  0.4|0.4|CD|O  B1|b1|NN|O  TEX|tex|NN|O  neg|neg|NN|O  L1|l1|NN|O  GA|ga|NN|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- ß|ß|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  -|-|:|O  B|b|NN|O 
- Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  Escherichia|escherichia|FW|O  coli|coli|FW|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  genome|genome|NN|O  version|version|NN|O  U00096|u00096|NN|Gversion  .2|.2|NN|Gversion 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  Δfnr|δfnr|NN|Gtype 
- PurR|purr|NN|O  _|_|SYM|O  Adenine|Adenine|NNP|Supp  _|_|SYM|O  1|1|CD|O 
- genotype|genotype|NN|O  :|:|:|O  ΔseqA|δseqa|NN|Gtype 
- Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|SYM|O  3|3|CD|O 
- FNR|fnr|SYM|O  -|-|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  ∆|∆|VBP|Gtype  stpA|stpa|NN|Gtype  A|a|NN|O 
- LB|lb|NN|Med  2.0|2.0|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  neg|neg|NNP|O  L2|l2|NN|O  HS2|hs2|NN|O 
- ChIP-exo|ChIP-exo|NNP|Technique  GadE|gade|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- WT|wt|JJ|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
- treatment|treatment|NN|O  :|:|:|O  glucose|glucose|NN|Med  -LRB-|-lrb-|-LRB-|Med  2|2|CD|Med  g/L|g/l|NN|Med  -RRB-|-rrb-|-RRB-|Med  minimal|minimal|JJ|Med  M9|m9|NN|Med  medium|medium|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  10|10|CD|Supp  mM|mm|NN|Supp  leucine|leucine|NN|Supp  .|.|.|O 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  Affinity|affinity|NN|O  Purified|purify|VBN|O  -|-|:|O  A|a|NN|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  C|C|NNP|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  A|A|NNP|O 
- antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  FNR|fnr|NN|Anti  antibody|antibody|NN|Anti 
- NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep2|rep2|NN|O 
- OmpR|ompr|NN|O  NaCl|nacl|NN|Supp  2|2|CD|O 
- genotype|genotype|NN|O  :|:|:|O  TrpR-8myc|trpr-8myc|NN|Gtype 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
- genotype|genotype|NN|O  :|:|:|O  gadE-8myc|gade-8myc|NN|Gtype 
- genotype|genotype|NN|O  :|:|:|O  Lrp-8myc|lrp-8myc|JJ|Gtype 
- ChIP-Seq|chip-seq|NN|Technique 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|WT|NNP|O  ,|,|,|O  and|and|CC|O  Δcra|Δcra|NNP|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|O  ,|,|,|O  fructose|fructose|NN|O  and|and|CC|O  acetate|acetate|NN|O  .|.|.|O 
- RpoB|rpob|NN|O  ∆|∆|CD|Gtype  crp|crp|NN|Gtype  2|2|CD|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  in|in|IN|O  65|65|CD|O  ml|ml|NN|O  LB|lb|NN|O  medium|medium|NN|O  at|at|IN|O  30|30|CD|O  °C|°c|NN|O  to|to|TO|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  about|about|IN|OD  0.3|0.3|CD|OD  .|.|.|O  Subsequently|subsequently|RB|O  30|30|CD|O  ml|ml|NN|O  of|of|IN|O  culture|culture|NN|O  were|be|VBD|O  transformed|transform|VBN|O  to|to|TO|O  a|a|DT|O  pre|pre|JJ|O  warmed|warm|VBN|O  flask|flask|NN|Vess  at|at|IN|O  43|43|CD|Temp  °C|°c|NN|Temp  and|and|CC|O  the|the|DT|O  remainder|remainder|NN|O  kept|keep|VBD|O  at|at|IN|O  30|30|CD|Temp  °C|°c|NN|Temp  -LRB-|-lrb-|-LRB-|Temp  see|see|VB|Temp  control|control|JJ|Temp  sample|sample|NN|Temp  -RRB-|-rrb-|-RRB-|Temp  .|.|.|O 
- chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  2|2|CD|O 
- At|at|IN|O  OD450|od450|NN|OD 
- strain|strain|NN|O  :|:|:|O  K-12|k-12|NN|Strain 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  H-NS|h-ns|NN|Anti  polyclonal|polyclonal|JJ|Anti  antibody|antibody|NN|Anti 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Δfur|δfur|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|O  mM|mm|NN|O  of|of|IN|O  FeCl2|fecl2|NN|O  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  DPD|dpd|NN|Supp  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|O  .|.|.|O 
- LB|lb|NN|Med  0.4|0.4|CD|O  B1|b1|NN|O  TEX|tex|NN|O  neg|neg|NN|O  L1|l1|NN|O  GA|ga|NN|O 
- genotype|genotype|NN|O  :|:|:|O  gadW-8myc|gadw-8myc|NN|Gtype 
- antibody|antibody|NN|O  :|:|:|O  Affinity|Affinity|NNP|Anti  Purified|purify|VBN|Anti  FNR|fnr|NN|Anti  antibody|antibody|NN|Anti 
- ΔgadW|δgadw|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- pT7|pt7|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  2|2|CD|O 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Fur-8-myc|fur-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|O  mM|mm|NN|O  of|of|IN|O  FeCl2|fecl2|NN|O  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  DPD|dpd|NN|Supp  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|Supp  .|.|.|O  For|for|IN|O  the|the|DT|O  rifampicin-treated|rifampicin-treated|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  rifampicin|rifampicin|NN|Supp  dissolved|dissolve|VBN|Supp  in|in|IN|Supp  methanol|methanol|NN|Supp  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  concentration|concentration|NN|O  of|of|IN|O  150|150|CD|Supp  mg/mL|mg/ml|NN|Supp  at|at|IN|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  and|and|CC|O  stirred|stir|VBD|O  for|for|IN|O  20|20|CD|Supp  min|min|NN|Supp  .|.|.|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- ArgR|argr|NN|O  _|_|CD|O  Arginine|arginine|NN|Supp  _|_|NN|O  2|2|CD|O 
- PurR|purr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp  _|_|NN|O  2|2|CD|O 
- RpoB|rpob|NN|O  with|with|IN|O  Fe|Fe|NNP|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- HNS|hns|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  B|b|NN|O 
- ArgR|argr|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  2|2|CD|O 
- chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  ,|,|,|O  expressing|express|VBG|O  NsrR|nsrr|NN|Gtype  with|with|IN|O  a|a|DT|O  C-terminal|c-terminal|JJ|O  Flag-tag|flag-tag|NN|Gtype  ,|,|,|O  was|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  in|in|IN|O  L|L|NNP|Med  broth|broth|NN|Med  supplemented|supplement|VBN|O  with|with|IN|O  glucose|glucose|NN|Supp  .|.|.|O 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  acetate|acetate|NN|Supp 
- WT|wt|JJ|Gtype  fructose|fructose|NN|Supp  1|1|CD|O 
- LB|lb|NN|Med  2.0|2.0|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L2|l2|NN|O  HS2|hs2|NN|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  25|25|CD|Air  %|%|NN|Air  O2|o2|CD|Air  ,|,|,|Air  70|70|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.35|0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
- agent|agent|NN|O  :|:|:|O  Fe|Fe|NNP|Supp 
- RpoB|rpob|NN|O  WT|wt|JJ|Gtype  1|1|CD|O 
- Input|input|NN|O  ChIP-Seq|chip-seq|NN|Technique 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  lacZ|lacz|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  tonB|tonb|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  feoA|feoa|NN|Gtype  ,|,|,|Gtype  -LCB-|-lcb-|-LRB-|Gtype  delta|delta|NN|Gtype  -RCB-|-rcb-|-RRB-|Gtype  zupT|zupt|NN|Gtype  K12|k12|NN|Gtype 
- WT|wt|JJ|Gtype  acetate|acetate|NN|Supp  1|1|CD|O 
- library|library|NN|O  strategy|strategy|NN|O  :|:|:|O  ChIP-exo|ChIP-exo|NNP|Technique 
- ArgR|argr|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  1|1|CD|O 
- Lrp|Lrp|NNP|O  _|_|SYM|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  1|1|CD|O 
- WT|wt|JJ|Gtype  _|_|NN|O  RNASeq|rnaseq|NN|Technique 
- antibody|antibody|NN|O  :|:|:|O  RNA|rna|NN|Anti  Polymerase|polymerase|NN|Anti  ß|ß|NN|Anti  monoclonal|monoclonal|JJ|Anti  antibody|antibody|NN|Anti  from|from|IN|O  NeoClone|NeoClone|NNP|O  -LRB-|-lrb-|-LRB-|O  W0002|w0002|NN|O  -RRB-|-rrb-|-RRB-|O 
- Δcra|δcra|NN|Gtype  acetate|acetate|NN|Supp  1|1|CD|O 
- genotype|genotype|NN|O  :|:|:|O  PurR-8myc|purr-8myc|NN|Gtype 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|O  -LRB-|-lrb-|-LRB-|O  70|70|CD|O  %|%|NN|O  N2|n2|NN|O  ,|,|,|O  25|25|CD|O  %|%|NN|O  O2|o2|CD|O  ,|,|,|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  or|or|CC|O  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-soxR|delta-soxr|NN|Gtype 
- Cra|Cra|NNP|O  acetate|acetate|NN|Supp  2|2|CD|O 
- To|to|TO|O  harvest|harvest|VB|O  total|total|JJ|O  RNA|rna|NN|O  samples|sample|NNS|O  ,|,|,|O  overnight|overnight|JJ|O  cultures|culture|NNS|O  of|of|IN|O  wild|wild|JJ|Gtype  type|type|NN|Gtype  MG1655|mg1655|NN|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  at|at|IN|O  37|37|CD|O  ˚C|˚c|NN|O  were|be|VBD|O  diluted|dilute|VBN|O  back|back|RB|O  1:500|1:500|CD|O  in|in|IN|O  either|either|CC|O  fresh|fresh|JJ|O  LB|lb|NN|O  or|or|CC|O  M63|m63|NN|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  medium|medium|NN|O  and|and|CC|O  allowed|allow|VBN|O  to|to|TO|O  grow|grow|VB|O  until|until|IN|O  the|the|DT|O  cultures|culture|NNS|O  reached|reach|VBD|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  and|and|CC|O  2.0|2.0|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  and|and|CC|O  an|a|DT|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.4|0.4|CD|OD  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  M63|m63|NN|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  25|25|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  Ethanol|ethanol|NN|O  ,|,|,|O  5|5|CD|O  %|%|NN|O  acid|acid|NN|O  phenol|phenol|NN|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|O  of|of|IN|O  2.0|2.0|CD|O  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  1|1|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  .|.|.|O 
- ΔompR|δompr|NN|Gtype  NaCl|nacl|NN|Supp  2|2|CD|O 
- Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  A|a|NN|O  -|-|:|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|anaerobic|JJ|Air  C|c|NN|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|O  -LRB-|-lrb-|-LRB-|O  70|70|CD|O  %|%|NN|O  N2|n2|NN|O  ,|,|,|O  25|25|CD|O  %|%|NN|O  O2|o2|CD|O  ,|,|,|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  or|or|CC|O  anaerobically|anaerobically|RB|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  N2|n2|NN|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
- ΔgadX|δgadx|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-RpoS|anti-rpos|JJ|Anti  -LRB-|-lrb-|-LRB-|O  neoclone|neoclone|NN|O  ,|,|,|O  WP009|wp009|NN|O  -RRB-|-rrb-|-RRB-|O 
- chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O 
- CsiR|csir|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
- Δfur|δfur|NN|Gtype  with|with|IN|O  DPD|dpd|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- WT|wt|JJ|Gtype  NaCl|nacl|NN|Supp  2|2|CD|O 
- chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|CD|O  3|3|CD|O 
- WT|wt|JJ|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- ChIP-exo|ChIP-exo|NNP|Technique  RpoS|rpos|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- genotype|genotype|NN|O  :|:|:|O  delta|delta|NN|O  -|-|:|O  cra|cra|NN|Gtype  Knock-out|knock-out|JJ|Gtype  strain|strain|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadX|delta-gadx|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  soxR-8myc|soxr-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
- NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep3|rep3|NN|O 
- σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  short|short|JJ|O  RNase|rnase|NN|O 
- growth|growth|NN|O  medium|medium|NN|O  :|:|:|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  10|10|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp 
- Cra|Cra|NNP|O  glucose|glucose|NN|Supp  1|1|CD|O 
- HNS|hns|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-arcA|delta-arca|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  SeqA|seqa|NN|Anti 
- SeqA|seqa|NN|O  old|old|JJ|O  deltaSeqA|deltaseqa|NN|Gtype 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
- genoype|genoype|NN|O  :|:|:|O  dFNR|dfnr|NN|Gtype 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  9E10|9e10|CD|Anti  Myc|myc|NN|Anti  tag|tag|NN|Anti  antibody|antibody|NN|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  wt|wt|JJ|Gtype  _|_|NN|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  3|3|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- RpoB|rpob|NN|O  with|with|IN|O  DPD|dpd|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- Nac|Nac|NNP|O  _|_|NNP|O  ChIPSeq|ChIPSeq|NNP|Technique 
- Aerobic|Aerobic|NNP|Air  cultures|culture|NNS|O 
- Δcra|δcra|NN|Gtype  glucose|glucose|NN|Supp  2|2|CD|O 
- WT|wt|JJ|Gtype  with|with|IN|O  Fe|Fe|NNP|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- SoxS|soxs|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
- chip-Fnr|chip-fnr|JJ|O  _|_|NN|O  Fnr8myc|fnr8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  2|2|CD|O 
- LB|lb|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS1|hs1|NN|O 
- acetate|acetate|NN|Supp 
- LB|lb|NN|Med  0.4|0.4|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  GA|ga|NN|O 
- WT|wt|JJ|Gtype  glucose|glucose|NN|Supp  1|1|CD|O 
- SoxR|soxr|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
- RpoB|rpob|NN|O  with|with|IN|O  DPD|dpd|NN|Supp  and|and|CC|O  rifampicin|rifampicin|NN|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- ChIP-exo|chip-exo|NN|O  reads|read|VBZ|O  were|be|VBD|O  aligned|align|VBN|O  to|to|TO|O  the|the|DT|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion  genome|genome|NN|O  reference|reference|NN|O  sequence|sequence|NN|O  using|use|VBG|O  using|use|VBG|O  bowtie|bowtie|NN|O  v1|v1|NN|O  .0.0|.0.0|CD|O  with|with|IN|O  parameters|parameter|NNS|O  -|-|:|O  S|s|NN|O 
- Ecoli|ecolus|NNS|O  _|_|VBP|O  wild-type|wild-type|JJ|Gtype  _|_|NN|O  rep2|rep2|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  with|with|IN|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp  and|and|CC|Supp  300|300|CD|Supp  µL|µl|NN|Supp  Cm20|cm20|NN|Supp  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  treated|treat|VBN|O  with|with|IN|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  volumen|voluman|NNS|O  formaldehyde|formaldehyde|NN|O  for|for|IN|O  ten|ten|CD|O  minutes|minute|NNS|O  .|.|.|O  Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|JJ|O  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  ,|,|,|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  5000|5000|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  Custom|Custom|NNP|O  anti-Fur|anti-fur|JJ|Anti  polyclonal|polyclonal|JJ|Anti  antibody|antibody|NN|Anti 
- Δcra|δcra|NN|Gtype  acetate|acetate|NN|Supp  2|2|CD|O 
- ∆|∆|CD|Gtype  fnr|fnr|NN|Gtype  ChIP|chip|NN|O  DNA|dna|NN|O  from|from|IN|O  PK4854|pk4854|NN|Gtype 
- M63|m63|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS1|hs1|NN|O 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  none|none|NN|Anti 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  wild|wild|JJ|Gtype  type|type|NN|Gtype 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  biotin|biotin|NN|Anti  conjugated|conjugate|VBN|Anti  anti-c-myc|anti-c-myc|JJ|Anti  antibody|antibody|NN|Anti 
- OxyR|oxyr|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
- ΔsoxR|δsoxr|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
- carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  glucose|glucose|NN|Supp 
- FNR|fnr|SYM|O  -|-|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  ∆|∆|VBP|Gtype  stpA|stpa|NN|Gtype  B|b|NN|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-oxyR|delta-oxyr|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  Combined|Combined|NNP|Gtype  input|input|NN|Gtype 
- agent|agent|NN|O  :|:|:|O  Fe|Fe|NNP|Supp  and|and|CC|Supp  rifampicin|rifampicin|NN|Supp 
- Cra|Cra|NNP|O  fructose|fructose|NN|Supp  2|2|CD|O 
- Nac|Nac|NNP|O  _|_|SYM|O  RNASeq|rnaseq|NN|Technique 
- ß|ß|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  -|-|:|O  A|a|NN|O 
- Ptac|ptac|NN|Gtype  :|:|:|Gtype  :|:|:|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  B|b|NN|O  -|-|:|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- RpoB|rpob|NN|O  with|with|IN|O  DPD|dpd|NN|Supp  2|2|CD|O  -LRB-|-lrb-|-LRB-|Technique  ChIP-exo|chip-exo|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
- LB|lb|NN|Med  0.4|0.4|CD|O  B2|b2|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  HS2|hs2|NN|O 
- Resulting|result|VBG|O  reads|read|VBZ|O  were|be|VBD|O  aligned|align|VBN|O  to|to|TO|O  the|the|DT|O  published|publish|VBN|O  E.|e.|FW|O  coli|coli|FW|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  genome|genome|NN|O  -LRB-|-lrb-|-LRB-|O  U00096|u00096|NN|Gversion  .2|.2|NN|Gversion  -RRB-|-rrb-|-RRB-|O  using|use|VBG|O  the|the|DT|O  software|software|NN|O  package|package|NN|O  SOAP|soap|NN|O  -LRB-|-lrb-|-LRB-|O  Li|Li|NNP|O  et|et|FW|O  al|al|FW|O  ,|,|,|O  2009|2009|CD|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  allowing|allow|VBG|O  no|no|RB|O  more|more|JJR|O  than|than|IN|O  two|two|CD|O  mismatches|mismatch|NNS|O  -LRB-|-lrb-|-LRB-|O  Supplemental|Supplemental|NNP|O  File|File|NNP|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  Reads|read|VBZ|O  aligning|align|VBG|O  to|to|TO|O  repeated|repeated|JJ|O  elements|element|NNS|O  in|in|IN|O  the|the|DT|O  genome|genome|NN|O  -LRB-|-lrb-|-LRB-|O  e.g.|e.g.|FW|O  rRNA|rrna|NN|O  -RRB-|-rrb-|-RRB-|O  were|be|VBD|O  removed|remove|VBN|O  from|from|IN|O  analysis|analysis|NN|O  .|.|.|O  For|for|IN|O  reads|read|VBZ|O  that|that|IN|O  had|have|VBD|O  no|no|DT|O  mapping|mapping|NN|O  locations|location|NNS|O  for|for|IN|O  the|the|DT|O  first|first|JJ|O  36|36|CD|O  bp|bp|NN|O  ,|,|,|O  the|the|DT|O  3-30|3-30|CD|O  bp|bp|NN|O  subsequences|subsequence|NNS|O  were|be|VBD|O  used|use|VBN|O  in|in|IN|O  the|the|DT|O  subsequent|subsequent|JJ|O  mapping|mapping|NN|O  to|to|TO|O  the|the|DT|O  reference|reference|NN|O  genome|genome|NN|O  .|.|.|O  Reads|read|NNS|O  that|that|WDT|O  had|have|VBD|O  unique|unique|JJ|O  mapping|mapping|NN|O  locations|location|NNS|O  and|and|CC|O  did|do|VBD|O  not|not|RB|O  match|match|VB|O  annotated|annotated|JJ|O  rRNA|rrna|NN|O  genes|gene|NNS|O  were|be|VBD|O  used|use|VBN|O  for|for|IN|O  further|further|JJ|O  analysis|analysis|NN|O  .|.|.|O  For|for|IN|O  each|each|DT|O  gene|gene|NN|O  ,|,|,|O  the|the|DT|O  tag|tag|NN|O  density|density|NN|O  was|be|VBD|O  estimated|estimate|VBN|O  as|as|IN|O  the|the|DT|O  number|number|NN|O  of|of|IN|O  aligned|align|VBN|O  sequencing|sequencing|NN|O  tags|tag|NNS|O  divided|divide|VBN|O  by|by|IN|O  gene|gene|NN|O  size|size|NN|O  in|in|IN|O  kb|kb|NN|O  .|.|.|O  Per-gene|per-gene|JJ|O  tag|tag|NN|O  density|density|NN|O  was|be|VBD|O  normalized|normalize|VBN|O  using|use|VBG|O  quantile|quantile|JJ|O  normalization|normalization|NN|O  -LRB-|-lrb-|-LRB-|O  Supplemental|Supplemental|NNP|O  Files|Files|NNP|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  The|the|DT|O  tag|tag|NN|O  density|density|NN|O  data|datum|NNS|O  were|be|VBD|O  analyzed|analyze|VBN|O  for|for|IN|O  statistically|statistically|RB|O  significant|significant|JJ|O  differential|differential|JJ|O  expression|expression|NN|O  using|use|VBG|O  BaySeq|BaySeq|NNP|O  -LRB-|-lrb-|-LRB-|O  Hardcastle|Hardcastle|NNP|O  &|&|CC|O  Kelly|Kelly|NNP|O  ,|,|,|O  2010|2010|CD|O  -RRB-|-rrb-|-RRB-|O  with|with|IN|O  a|a|DT|O  FDR|FDR|NNP|O  of|of|IN|O  0.01|0.01|CD|O  ,|,|,|O  and|and|CC|O  genes|gene|NNS|O  were|be|VBD|O  organized|organize|VBN|O  into|into|IN|O  operons|operon|NNS|O  using|use|VBG|O  data|datum|NNS|O  from|from|IN|O  EcoCyc|EcoCyc|NNP|O  -LRB-|-lrb-|-LRB-|O  Keseler|Keseler|NNP|O  et|et|FW|O  al|al|FW|O  ,|,|,|O  2011|2011|CD|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
- Δcra|δcra|NN|Gtype  fructose|fructose|NN|Supp  2|2|CD|O 
- Wild|Wild|NNP|Gtype  type|type|NN|Gtype  control|control|NN|O  -LRB-|-lrb-|-LRB-|O  2.5|2.5|CD|O  min|min|NN|O  -RRB-|-rrb-|-RRB-|O 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
- RpoB|rpob|NN|O  ∆|∆|CD|Gtype  crp|crp|NN|Gtype  1|1|CD|O 
- chip-ArcA|chip-arca|NN|O  _|_|CD|O  ArcA8myc|arca8myc|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  NO3|no3|NN|Supp  _|_|NN|O  1|1|CD|O 
- NtrC|ntrc|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
- WT|wt|JJ|Gtype  fructose|fructose|NN|Supp  2|2|CD|O 
- RpoB|rpob|NN|O  ∆|∆|CD|Gtype  cra|cra|NN|Gtype  2|2|CD|O 
- affyexp|affyexp|JJ|O  _|_|NN|O  delta-fnr|delta-fnr|NN|Gtype  _|_|CD|O  glucose|glucose|NN|Supp  _|_|CD|O  NH4CL|nh4cl|NN|Supp  _|_|CD|O  anaerobic|anaerobic|JJ|Air  _|_|NN|O  1|1|CD|O  .|.|.|O  CEL|CEL|NNP|O 
- E.|e.|FW|OD  coli|coli|FW|OD  K-12|k-12|NN|OD  MG1655|mg1655|NN|OD  WT|wt|NN|OD  ,|,|,|OD  gadE|gade|NN|OD  ,|,|,|OD  gadW|gadw|NN|OD  and|and|CC|OD  gadX|gadx|NN|OD  mutant|mutant|JJ|OD  cells|cell|NNS|OD  were|be|VBD|OD  grown|grow|VBN|OD  to|to|TO|OD  mid-log|mid-log|JJ|OD  phase|phase|NN|OD  -LRB-|-lrb-|-LRB-|OD  OD600|od600|NN|OD 
- Escherichia|escherichia|FW|O  coli|coli|FW|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  WT|wt|NN|O  and|and|CC|O  ∆|∆|NN|O  fnr|fnr|NN|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  O.D.|o.d.|NN|OD  600nm|600nm|JJ|OD  0.3|0.3|CD|OD  -RRB-|-rrb-|-RRB-|O  anerobically|anerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  ,|,|,|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  MOPS|MOPS|NNP|Med  +|+|CC|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  media|media|NNS|O  -LRB-|-lrb-|-LRB-|O  Ref|ref|NN|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O 
- Δfur|δfur|NN|Gtype  with|with|IN|O  Fe|Fe|NNP|Supp  1|1|CD|O  -LRB-|-lrb-|-LRB-|Technique  RNA-seq|rna-seq|NN|Technique  -RRB-|-rrb-|-RRB-|Technique 
- Ecoli|ecolus|NNS|O  _|_|VBP|O  dFNR|dfnr|NN|Gtype  _|_|CD|O  rep1|rep1|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
- carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  fructose|fructose|NN|Supp 
- Cra|cra|NN|O  acetate|acetate|NN|Supp  1|1|CD|O 
- culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  nitrate|nitrate|JJ|Supp  respiratory|respiratory|JJ|O  condition|condition|NN|O 
- genotype|genotype|NN|O  :|:|:|O  ArgR-8myc|argr-8myc|NN|Gtype 
- ChIP-exo|chip-exo|NN|O  reads|read|VBZ|O  were|be|VBD|O  aligned|align|VBN|O  to|to|TO|O  the|the|DT|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion  genome|genome|NN|O  reference|reference|NN|O  sequence|sequence|NN|O  using|use|VBG|O  using|use|VBG|O  bowtie|bowtie|NN|O  v1|v1|NN|O  .0.0|.0.0|CD|O  with|with|IN|O  parameters|parameter|NNS|O  -|-|:|O  S|s|NN|O 
- Cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  10|10|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp 
- ChIP-exo|ChIP-exo|NNP|Technique  GadE|gade|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- M63|m63|NN|Med  0.4|0.4|CD|O  B1|b1|NN|O  TEX|TEX|NNP|O  pos|po|VBZ|O  L1|l1|NN|O  GA|ga|NN|O 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Fur-8-myc|fur-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  FeCl2|fecl2|NN|Supp  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|O  mM|mm|NN|O  of|of|IN|O  DPD|dpd|NN|O  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|Supp  .|.|.|O  For|for|IN|O  the|the|DT|O  rifampicin-treated|rifampicin-treated|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  rifampicin|rifampicin|NN|Supp  dissolved|dissolve|VBN|Supp  in|in|IN|Supp  methanol|methanol|NN|Supp  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  concentration|concentration|NN|O  of|of|IN|O  150|150|CD|Supp  mg/mL|mg/ml|NN|Supp  at|at|IN|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  and|and|CC|O  stirred|stir|VBD|O  for|for|IN|O  20|20|CD|Supp  min|min|NN|Supp  .|.|.|O 
- ChIP-exo|ChIP-exo|NNP|Technique  GadW|gadw|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- Sodium|sodium|NN|O  phosphate|phosphate|NN|O  -LRB-|-lrb-|-LRB-|O  1/100|1/100|CD|O  vol|vol|NN|O  .|.|.|O  of|of|IN|O  1M|1m|NN|O  ,|,|,|O  pH|ph|NN|O  7.6|7.6|CD|O  ;|;|:|O  10|10|CD|O  mM|mm|NN|O  final|final|JJ|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  mid-log|mid-log|NN|Phase  cultures|culture|NNS|O  followed|follow|VBN|O  by|by|IN|O  formaldehyde|formaldehyde|NN|O  to|to|TO|O  1|1|CD|O  %|%|NN|O  final|final|JJ|O  and|and|CC|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  was|be|VBD|O  continued|continue|VBN|O  for|for|IN|O  10|10|CD|O  min|min|NN|O  .|.|.|O  Cold|Cold|NNP|O  2.5|2.5|CD|O  M|m|NN|O  glycine|glycine|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  100mM|100mm|NN|O  and|and|CC|O  the|the|DT|O  mixture|mixture|NN|O  was|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  anaerobic|anaerobic|JJ|O  sparging|sparging|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  crosslinking|crosslinking|NN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  spun|spin|VBN|O  at|at|IN|O  3500|3500|CD|O  x|x|CC|O  g|g|NN|O  ,|,|,|O  and|and|CC|O  washed|wash|VBN|O  repeatedly|repeatedly|RB|O  with|with|IN|O  phosphate|phosphate|NN|O  buffered|buffer|VBN|O  saline|saline|NN|O  before|before|IN|O  being|be|VBG|O  frozen|freeze|VBN|O  at|at|IN|O  -80|-80|CD|O  °C|°c|NN|O  .|.|.|O  Cell|cell|NN|O  pellets|pellet|NNS|O  -LRB-|-lrb-|-LRB-|O  from|from|IN|O  initial|initial|JJ|O  250|250|CD|O  mL|ml|NN|O  of|of|IN|O  culture|culture|NN|O  -RRB-|-rrb-|-RRB-|O  were|be|VBD|O  thawed|thaw|VBN|O  and|and|CC|O  resuspended|resuspend|VBN|O  in|in|IN|O  250|250|CD|O  μL|μl|NN|O  of|of|IN|O  IP|IP|NNP|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  100|100|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  300|300|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  ,|,|,|O  1|1|CD|O  %|%|NN|O  TritonX-100|tritonx-100|NN|O  -RRB-|-rrb-|-RRB-|O  and|and|CC|O  sonicated|sonicate|VBN|O  using|use|VBG|O  a|a|DT|O  microtip|microtip|NN|O  sonicator|sonicator|NN|O  set|set|VBN|O  at|at|IN|O  10|10|CD|O  %|%|NN|O  output|output|NN|O  for|for|IN|O  20|20|CD|O  second|second|JJ|O  intervals|interval|NNS|O  with|with|IN|O  periods|period|NNS|O  of|of|IN|O  cooling|cool|VBG|O  in|in|IN|O  between|between|IN|O  .|.|.|O  Cells|cell|NNS|O  were|be|VBD|O  then|then|RB|O  treated|treat|VBN|O  for|for|IN|O  one|one|CD|O  hour|hour|NN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  with|with|IN|O  RNase|rnase|NN|O  A|a|NN|O  -LRB-|-lrb-|-LRB-|O  2|2|CD|O  ng/ml|ng/ml|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  micrococcal|micrococcal|JJ|O  nuclease|nuclease|NN|O  -LRB-|-lrb-|-LRB-|O  50|50|CD|O  units|unit|NNS|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  20|20|CD|O  μM|μm|NN|O  CaCl2|cacl2|NN|O  ,1.2|,1.2|CD|O  mM|mm|NN|O  KCl|kcl|NN|O  ,|,|,|O  0.3|0.3|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  ,|,|,|O  6|6|CD|O  mM|mm|NN|O  sucrose|sucrose|NN|O  ,|,|,|O  and|and|CC|O  10|10|CD|O  μM|μm|NN|O  DTT|dtt|NN|O  .|.|.|O  EDTA|edta|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  10|10|CD|O  mM|mm|NN|O  to|to|TO|O  stop|stop|VB|O  the|the|DT|O  micrococcal|micrococcal|JJ|O  nuclease|nuclease|NN|O  and|and|CC|O  the|the|DT|O  samples|sample|NNS|O  were|be|VBD|O  spun|spin|VBN|O  down|down|RP|O  to|to|TO|O  remove|remove|VB|O  cell|cell|NN|O  debris|debris|NN|O  .|.|.|O  The|the|DT|O  lysate|lysate|NN|O  was|be|VBD|O  then|then|RB|O  precleared|preclear|VBN|O  through|through|IN|O  incubation|incubation|NN|O  with|with|IN|O  a|a|DT|O  50/50|50/50|CD|O  slurry|slurry|NN|O  of|of|IN|O  sepharose|sepharose|NN|O  protein|protein|NN|O  A|a|NN|O  beads|bead|NNS|O  in|in|IN|O  IP|IP|NNP|O  buffer|buffer|NN|O  for|for|IN|O  2-3|2-3|CD|O  hours|hour|NNS|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  .|.|.|O  The|the|DT|O  beads|bead|NNS|O  were|be|VBD|O  removed|remove|VBN|O  by|by|IN|O  centrifugation|centrifugation|NN|O  and|and|CC|O  antibody|antibody|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  pre-cleared|pre-cleared|JJ|O  lysate|lysate|NN|O  for|for|IN|O  an|a|DT|O  overnight|overnight|JJ|O  incubation|incubation|NN|O  .|.|.|O  The|the|DT|O  next|next|JJ|O  day|day|NN|O  ,|,|,|O  30|30|CD|O  μl|μl|NN|O  of|of|IN|O  a|a|DT|O  50/50|50/50|CD|O  slurry|slurry|NN|O  of|of|IN|O  sepharose|sepharose|NN|O  protein|protein|NN|O  A|a|NN|O  beads|bead|NNS|O  in|in|IN|O  IP|IP|NNP|O  buffer|buffer|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  the|the|DT|O  lysate|lysate|NN|O  to|to|TO|O  capture|capture|VB|O  antibody-protein-DNA|antibody-protein-dna|JJ|O  complex|complex|NN|O  for|for|IN|O  one|one|CD|O  hour|hour|NN|O  at|at|IN|O  4|4|CD|O  °C|°c|NN|O  .|.|.|O  Beads|bead|NNS|O  were|be|VBD|O  then|then|RB|O  washed|wash|VBN|O  once|once|RB|O  with|with|IN|O  1|1|CD|O  ml|ml|NN|O  of|of|IN|O  LiCl|licl|NN|O  wash|wash|NN|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  100|100|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  250|250|CD|O  mM|mm|NN|O  LiCl|licl|NN|O  ,|,|,|O  2|2|CD|O  %|%|NN|O  TritonX-100|tritonx-100|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  twice|twice|RB|O  with|with|IN|O  600|600|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  wash|wash|NN|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  100|100|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  600|600|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  ,|,|,|O  2|2|CD|O  %|%|NN|O  TritonX-100|tritonx-100|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  twice|twice|RB|O  with|with|IN|O  300|300|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  wash|wash|NN|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  100|100|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  300|300|CD|O  mM|mm|NN|O  NaCl|nacl|NN|O  ,|,|,|O  2|2|CD|O  %|%|NN|O  TritonX-100|tritonx-100|NN|O  -RRB-|-rrb-|-RRB-|O  ,|,|,|O  and|and|CC|O  twice|twice|RB|O  with|with|IN|O  TE|te|NN|O  .|.|.|O  Elution|elution|NN|O  buffer|buffer|NN|O  -LRB-|-lrb-|-LRB-|O  50|50|CD|O  mM|mm|NN|O  Tris|Tris|NNP|O  pH|ph|NN|O  8|8|CD|O  ,|,|,|O  10|10|CD|O  mM|mm|NN|O  EDTA|edta|NN|O  ,|,|,|O  1|1|CD|O  %|%|NN|O  SDS|sds|NN|O  -RRB-|-rrb-|-RRB-|O  was|be|VBD|O  added|add|VBN|O  after|after|IN|O  the|the|DT|O  final|final|JJ|O  wash|wash|NN|O  step|step|NN|O  ,|,|,|O  and|and|CC|O  beads|bead|NNS|O  were|be|VBD|O  incubated|incubate|VBN|O  at|at|IN|O  65|65|CD|O  °C|°c|NN|O  for|for|IN|O  30|30|CD|O  minutes|minute|NNS|O  to|to|TO|O  remove|remove|VB|O  the|the|DT|O  crosslinked|crosslink|VBN|O  protein-DNA|protein-dna|JJ|O  complexes|complex|NNS|O  from|from|IN|O  the|the|DT|O  beads|bead|NNS|O  .|.|.|O  After|after|IN|O  centrifugation|centrifugation|NN|O  to|to|TO|O  remove|remove|VB|O  the|the|DT|O  beads|bead|NNS|O  ,|,|,|O  the|the|DT|O  samples|sample|NNS|O  were|be|VBD|O  incubated|incubate|VBN|O  overnight|overnight|RB|O  at|at|IN|O  65|65|CD|O  °C|°c|NN|O  to|to|TO|O  reverse|reverse|VB|O  the|the|DT|O  protein-DNA|protein-dna|JJ|O  formaldehyde|formaldehyde|NN|O  crosslinks|crosslink|NNS|O  .|.|.|O  DNA|dna|NN|O  was|be|VBD|O  purified|purify|VBN|O  using|use|VBG|O  Qiagen|Qiagen|NNP|O  's|'s|POS|O  PCR|pcr|NN|O  Purification|purification|NN|O  kit|kit|NN|O  and|and|CC|O  eluted|elute|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  volume|volume|NN|O  of|of|IN|O  50|50|CD|O  μl|μl|NN|O  with|with|IN|O  EB|EB|NNP|O  .|.|.|O 
- To|to|TO|O  harvest|harvest|VB|O  total|total|JJ|O  RNA|rna|NN|O  samples|sample|NNS|O  ,|,|,|O  overnight|overnight|JJ|O  cultures|culture|NNS|O  of|of|IN|O  wild|wild|JJ|Gtype  type|type|NN|Gtype  MG1655|mg1655|NN|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  at|at|IN|O  37|37|CD|O  ˚C|˚c|NN|O  were|be|VBD|O  diluted|dilute|VBN|O  back|back|RB|O  1:500|1:500|CD|O  in|in|IN|O  either|either|CC|O  fresh|fresh|JJ|O  LB|lb|NN|O  or|or|CC|O  M63|m63|NN|O  minimal|minimal|JJ|O  glucose|glucose|NN|O  medium|medium|NN|O  and|and|CC|O  allowed|allow|VBN|O  to|to|TO|O  grow|grow|VB|O  until|until|IN|O  the|the|DT|O  cultures|culture|NNS|O  reached|reach|VBD|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  and|and|CC|O  2.0|2.0|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  LB|lb|NN|O  and|and|CC|O  an|a|DT|O  OD600|od600|NN|O  of|of|IN|O  ~|~|NN|O  0.4|0.4|CD|O  for|for|IN|O  cultures|culture|NNS|O  grown|grow|VBN|O  in|in|IN|O  M63|m63|NN|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.4|0.4|CD|OD  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  25|25|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  -LRB-|-lrb-|-LRB-|O  95|95|CD|O  %|%|NN|O  Ethanol|ethanol|NN|O  ,|,|,|O  5|5|CD|O  %|%|NN|O  acid|acid|NN|O  phenol|phenol|NN|O  -RRB-|-rrb-|-RRB-|O  .|.|.|O  For|for|IN|O  samples|sample|NNS|O  grown|grow|VBN|O  to|to|TO|O  OD600|od600|NN|O  of|of|IN|O  2.0|2.0|CD|O  a|a|DT|O  total|total|JJ|O  volume|volume|NN|O  of|of|IN|O  5|5|CD|O  ml|ml|NN|O  of|of|IN|O  cells|cell|NNS|O  were|be|VBD|O  harvested|harvest|VBN|O  and|and|CC|O  combined|combine|VBN|O  with|with|IN|O  1|1|CD|O  ml|ml|NN|O  of|of|IN|O  stop|stop|NN|O  solution|solution|NN|O  .|.|.|O 
- culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  Anaerobic|anaerobic|JJ|Air  cultures|culture|NNS|O 
- Cells|cell|NNS|O  were|be|VBD|O  grown|grow|VBN|O  aerobically|aerobically|RB|O  -LRB-|-lrb-|-LRB-|O  70|70|CD|O  %|%|NN|O  N2|n2|NN|O  ,|,|,|O  25|25|CD|O  %|%|NN|O  O2|o2|CD|O  ,|,|,|O  and|and|CC|O  5|5|CD|O  %|%|NN|O  CO2|co2|NN|O  -RRB-|-rrb-|-RRB-|O  or|or|CC|O  anaerobically|anaerobically|RB|Air  -LRB-|-lrb-|-LRB-|Air  95|95|CD|Air  %|%|NN|Air  N2|n2|NN|Air  and|and|CC|Air  5|5|CD|Air  %|%|NN|Air  CO2|co2|NN|Air  -RRB-|-rrb-|-RRB-|Air  until|until|IN|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  -LRB-|-lrb-|-LRB-|O  OD600|od600|NN|OD  of|of|IN|OD  ~|~|NN|OD  0.3-0.35|0.3-0.35|CD|OD  -RRB-|-rrb-|-RRB-|O  in|in|IN|O  MOPS|MOPS|NNP|Med  minimal|minimal|JJ|Med  glucose|glucose|NN|Med  media|media|NNS|Med  containing|contain|VBG|O  10|10|CD|Supp  µM|µm|NN|Supp  FeSO4|feso4|NN|Supp  .|.|.|O 
- genotype|genotype|NN|O  :|:|:|O  Wildtype|wildtype|NN|Gtype 
- agent|agent|NN|O  :|:|:|O  DPD|dpd|NN|Supp 
- growth|growth|NN|OD  phase|phase|NN|OD  :|:|:|OD  stationary|stationary|JJ|Phase 
- E.|E.|NNP|O  coli|coli|NN|O  K-12|k-12|NN|O  MG1655|mg1655|NN|O  WT|wt|NN|O  and|and|CC|O  Fur-8-myc|fur-8-myc|NN|O  tagged|tag|VBD|O  strains|strain|NNS|O  were|be|VBD|O  grown|grow|VBN|O  to|to|TO|O  mid-log|mid-log|JJ|Phase  phase|phase|NN|Phase  aerobically|aerobically|RB|Air  at|at|IN|O  37|37|CD|Temp  °C|°c|NN|Temp  in|in|IN|O  M9|m9|NN|Med  minimal|minimal|JJ|Med  media|media|NNS|Med  supplemented|supplement|VBN|O  with|with|IN|O  0.2|0.2|CD|Supp  %|%|NN|Supp  glucose|glucose|NN|Supp  .|.|.|O  For|for|IN|O  iron|iron|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.1|0.1|CD|O  mM|mm|NN|O  of|of|IN|O  FeCl2|fecl2|NN|O  were|be|VBD|O  treated|treat|VBN|O  from|from|IN|O  the|the|DT|O  beginning|beginning|NN|O  of|of|IN|O  culture|culture|NN|O  ,|,|,|O  and|and|CC|O  for|for|IN|O  DPD|dpd|NN|O  treated|treat|VBN|O  cells|cell|NNS|O  ,|,|,|O  0.2|0.2|CD|Supp  mM|mm|NN|Supp  of|of|IN|Supp  DPD|dpd|NN|Supp  were|be|VBD|O  added|add|VBN|O  at|at|IN|O  early-log|early-log|JJ|O  phase|phase|NN|O  and|and|CC|O  continued|continue|VBD|O  to|to|TO|O  culture|culture|NN|O  for|for|IN|O  additional|additional|JJ|O  2h|2h|NN|Supp  .|.|.|O  For|for|IN|O  the|the|DT|O  rifampicin-treated|rifampicin-treated|JJ|O  cultures|culture|NNS|O  ,|,|,|O  the|the|DT|O  rifampicin|rifampicin|NN|O  dissolved|dissolve|VBN|O  in|in|IN|O  methanol|methanol|NN|O  was|be|VBD|O  added|add|VBN|O  to|to|TO|O  a|a|DT|O  final|final|JJ|O  concentration|concentration|NN|O  of|of|IN|O  150|150|CD|O  mg/mL|mg/ml|NN|O  at|at|IN|O  mid-log|mid-log|JJ|O  phase|phase|NN|O  and|and|CC|O  stirred|stir|VBD|O  for|for|IN|O  20|20|CD|O  min|min|NN|O  .|.|.|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  ΔarcA|δarca|NN|Gtype 
- NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep1|rep1|NN|O 
- Δcra|δcra|NN|Gtype  fructose|fructose|NN|Supp  1|1|CD|O 
\ No newline at end of file

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: False False
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003661s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+           0         1
+0      lemma         2
+1     postag        CD
+2   -1:lemma  fructose
+3  -1:postag        NN
+--------------------------- FeaturesTest -----------------------------
+           0           1
+0      lemma  delta-arca
+1     postag          NN
+2   -1:lemma           _
+3  -1:postag          NN
+4   +1:lemma           _
+5  +1:postag          CD
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.862849 -   1.1s
+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
+[CV]  c1=0.08128668233823869, c2=0.015540324479165422, score=0.919033 -   1.1s
+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
+[CV]  c1=0.5160556959866659, c2=0.00838831450556026, score=0.906157 -   1.3s
+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
+[CV]  c1=1.7122140999971878, c2=0.05658957314559598, score=0.844021 -   1.1s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.808915 -   0.7s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.792622 -   1.1s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.755521 -   1.1s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.792622 -   1.2s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.832821 -   1.2s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.844183 -   0.9s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.911899 -   1.1s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.848019 -   1.0s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.794216 -   1.2s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.929943 -   1.0s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.874938 -   1.1s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.869971 -   0.9s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.862491 -   1.2s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.868591 -   1.1s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.892921 -   1.0s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.849102 -   1.0s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.927140 -   1.2s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.595497 -   1.1s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.708368 -   1.1s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.791386 -   1.0s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.903946 -   1.0s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.698765 -   1.0s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.807845 -   1.2s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.827517 -   1.0s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.862849 -   1.1s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.848019 -   1.0s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.856620 -   1.0s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.794216 -   1.1s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.851982 -   1.2s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.902103 -   1.2s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.874938 -   0.9s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.923212 -   1.0s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.726136 -   1.0s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.907748 -   1.2s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.846394 -   1.1s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.912263 -   0.8s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.868591 -   1.0s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.634294 -   1.1s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.708368 -   1.2s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.794216 -   1.1s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.821993 -   0.9s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.920954 -   1.1s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.765873 -   1.1s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.812884 -   1.1s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.935212 -   1.1s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.915096 -   1.0s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.878466 -   1.1s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.729107 -   1.0s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.913639 -   1.1s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.839637 -   0.9s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.842269 -   1.1s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.823692 -   1.1s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.766586 -   1.1s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.868591 -   1.0s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.885444 -   1.0s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.848671 -   0.9s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.855076 -   1.0s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.686315 -   1.1s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.780953 -   1.1s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.794216 -   1.1s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.683676 -   1.0s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.794216 -   1.1s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.869930 -   1.2s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.920954 -   1.1s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.687408 -   1.1s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.894596 -   0.9s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.703882 -   1.1s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.894596 -   1.1s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.921051 -   1.1s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.683676 -   1.2s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.752527 -   1.2s
+[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
+[CV]  c1=0.3416431887936145, c2=0.0064368649263298276, score=0.812884 -   1.1s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.935314 -   1.2s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.911899 -   1.0s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.661486 -   1.2s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.794216 -   1.0s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.813681 -   1.1s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.788431 -   1.1s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.861776 -   1.1s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.880614 -   0.9s
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.908739 -   0.9s
+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
+[CV]  c1=0.08128668233823869, c2=0.015540324479165422, score=0.683676 -   1.0s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.908218 -   1.1s
+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
+[CV]  c1=1.7122140999971878, c2=0.05658957314559598, score=0.656228 -   0.9s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.857498 -   0.8s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.912263 -   1.0s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.907875 -   1.1s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.858613 -   1.1s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.794216 -   1.1s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.865939 -   1.1s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.858405 -   1.1s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.895946 -   1.0s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.704949 -   1.1s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.928184 -   1.1s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.927590 -   1.0s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.936885 -   1.1s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.931384 -   1.1s
+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
+[CV]  c1=0.5160556959866659, c2=0.00838831450556026, score=0.827517 -   1.0s
+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
+[CV]  c1=1.7122140999971878, c2=0.05658957314559598, score=0.675699 -   1.1s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.908106 -   0.8s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.708368 -   1.0s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.842508 -   1.0s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.905836 -   1.2s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.867117 -   1.1s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.937126 -   0.9s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.708368 -   1.1s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.914857 -   1.0s
+[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
+[CV]  c1=0.9870335277617494, c2=0.04765866813729092, score=0.848732 -   1.1s
+[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
+[CV]  c1=0.4739364495651378, c2=0.008016632345172418, score=0.812884 -   1.1s
+[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
+[CV]  c1=0.7148705150289486, c2=0.0060592676388864924, score=0.804678 -   1.1s
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.703882 -   1.1s
+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
+[CV]  c1=0.08128668233823869, c2=0.015540324479165422, score=0.794216 -   1.1s
+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
+[CV]  c1=0.5160556959866659, c2=0.00838831450556026, score=0.911899 -   1.0s
+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
+[CV]  c1=1.7122140999971878, c2=0.05658957314559598, score=0.533949 -   1.1s
+[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.879947 -   0.9s
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.848671 -   1.0s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.905220 -   1.1s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.764186 -   1.1s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.926291 -   1.1s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.836791 -   0.9s
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.932540 -   1.2s
+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
+[CV]  c1=0.08128668233823869, c2=0.015540324479165422, score=0.853754 -   1.0s
+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
+[CV]  c1=0.5160556959866659, c2=0.00838831450556026, score=0.794216 -   1.1s
+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
+[CV]  c1=1.7122140999971878, c2=0.05658957314559598, score=0.692122 -   1.1s
+[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.898568 -   0.8s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.915096 -   1.1s
+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
+[CV]  c1=0.08128668233823869, c2=0.015540324479165422, score=0.879947 -   1.0s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.850379 -   1.1s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.864469 -   1.0s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.921051 -   1.0s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.830456 -   1.1s
+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
+[CV]  c1=0.08128668233823869, c2=0.015540324479165422, score=0.913940 -   1.1s
+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
+[CV]  c1=0.5160556959866659, c2=0.00838831450556026, score=0.772194 -   1.0s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.849711 -   1.1s
+[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.857683 -   0.9s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.869930 -   1.2s
+[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
+[CV]  c1=0.016682035458511702, c2=0.007521135075766578, score=0.926291 -   1.1s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.759391 -   1.1s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.879947 -   1.1s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.846481 -   1.1s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.931111 -   1.2s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.875460 -   1.2s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.893737 -   1.0s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.925597 -   1.1s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.794216 -   1.0s
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.915096 -   1.1s
+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
+[CV]  c1=0.08128668233823869, c2=0.015540324479165422, score=0.907503 -   1.1s
+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
+[CV]  c1=0.5160556959866659, c2=0.00838831450556026, score=0.868591 -   1.1s
+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
+[CV]  c1=1.7122140999971878, c2=0.05658957314559598, score=0.693320 -   1.1s
+[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.876457 -   0.8s
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.842269 -   1.4s
+[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
+[CV]  c1=0.4088757117025328, c2=0.09168395187353322, score=0.825809 -   1.0s
+[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
+[CV]  c1=0.38466523790200696, c2=0.014294801698835725, score=0.827517 -   0.9s
+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
+[CV]  c1=1.7122140999971878, c2=0.05658957314559598, score=0.785357 -   1.0s
+[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.859998 -   0.9s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.931576 -   1.2s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.889676 -   1.1s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.794238 -   1.1s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.703530 -   1.1s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.708368 -   1.1s
+[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
+[CV]  c1=0.25680804182641076, c2=0.0023964124558177556, score=0.858405 -   1.1s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.683676 -   1.2s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.852946 -   1.1s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.859998 -   1.1s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.862849 -   1.0s
+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
+[CV]  c1=0.4946687667859687, c2=0.0542592515703674, score=0.804678 -   1.3s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.857679 -   1.1s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.619013 -   1.1s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.799910 -   1.2s
+[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.679174 -   1.0s
+[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
+[CV]  c1=0.28200022301003685, c2=0.0010305816691186325, score=0.892591 -   1.0s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.794216 -   1.2s
+[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
+[CV]  c1=0.4978424280676325, c2=0.20578681248358272, score=0.780410 -   1.0s
+[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
+[CV]  c1=0.02176968258286127, c2=0.02945484477062978, score=0.883209 -   1.2s
+[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.781269 -   1.0s
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.899140 -   1.0s
+[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
+[CV]  c1=0.12930688817551622, c2=0.07034964230848688, score=0.824977 -   1.2s
+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
+[CV]  c1=0.5160556959866659, c2=0.00838831450556026, score=0.708368 -   1.1s
+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
+[CV]  c1=1.7122140999971878, c2=0.05658957314559598, score=0.829117 -   1.0s
+[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
+[CV]  c1=0.1700832520653568, c2=0.028556204986796993, score=0.931384 -   1.1s
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
+[CV]  c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.822899 -   1.4s
+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
+[CV]  c1=0.08128668233823869, c2=0.015540324479165422, score=0.930828 -   1.1s
+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
+[CV]  c1=0.5160556959866659, c2=0.00838831450556026, score=0.920058 -   1.3s
+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
+[CV]  c1=0.16523896983656627, c2=0.036164164069576, score=0.857498 -   0.9s
+[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.910520 -   0.9s
+Training done in: 7.066632s
+     Saving training model...
+        Saving training model done in: 0.014236s
+*********************************
+Prediction done in: 0.026365s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: True False
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003565s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+             0         1
+0        lemma         2
+1       postag        CD
+2     -1:lemma  fructose
+3    -1:postag        NN
+4       hUpper     False
+5       hLower     False
+6       hGreek     False
+7         symb     False
+8    lemma[:1]         2
+9   postag[:1]         C
+10  postag[:2]        CD
+--------------------------- FeaturesTest -----------------------------
+             0           1
+0        lemma  delta-arca
+1       postag          NN
+2     -1:lemma           _
+3    -1:postag          NN
+4     +1:lemma           _
+5    +1:postag          CD
+6       hUpper        True
+7       hLower        True
+8       hGreek       False
+9         symb        True
+10   lemma[:1]           d
+11  postag[:1]           N
+12   lemma[:2]          de
+13  postag[:2]          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.896342 -   1.4s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.924267 -   1.2s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.924608 -   1.4s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.814051 -   1.4s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.867984 -   1.3s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.768346 -   1.5s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.885181 -   1.6s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.889263 -   1.5s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.869411 -   1.6s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.896342 -   1.5s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.807845 -   1.6s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.726535 -   1.4s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.688144 -   1.6s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.939372 -   1.5s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.745590 -   1.4s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.859656 -   1.3s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.668205 -   1.2s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.836822 -   1.2s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.796207 -   1.4s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.826447 -   1.2s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.878690 -   1.4s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.800403 -   1.4s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.790879 -   1.4s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.884837 -   1.4s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.914124 -   1.3s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.751364 -   1.3s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.857689 -   1.5s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.856261 -   1.4s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.735586 -   1.5s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.914124 -   1.0s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.773694 -   1.3s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.761785 -   1.7s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.546879 -   1.7s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.935664 -   1.4s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.939675 -   1.4s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.881870 -   1.5s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.826784 -   1.2s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.823347 -   1.3s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.591566 -   1.3s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.845585 -   1.3s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.891072 -   1.4s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.755838 -   1.3s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.850014 -   1.3s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.830232 -   1.3s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.847686 -   1.4s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.806456 -   1.5s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.726728 -   1.4s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.860459 -   1.2s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.840020 -   1.4s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.912280 -   1.3s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.908551 -   1.4s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.900097 -   1.4s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.880185 -   1.6s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.802723 -   1.4s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.845585 -   1.3s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.891072 -   1.5s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.918264 -   1.6s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.914124 -   1.3s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.867984 -   1.3s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.827976 -   1.3s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.939372 -   1.4s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.853551 -   1.4s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.897553 -   1.3s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.806456 -   1.4s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.916493 -   1.4s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.853411 -   1.4s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.852407 -   1.5s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.736415 -   1.5s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.826784 -   1.3s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.831922 -   1.5s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.839590 -   1.3s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.768346 -   1.3s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.845585 -   1.2s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.885181 -   1.5s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.849959 -   1.4s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.899678 -   1.3s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.530224 -   1.4s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.741087 -   1.4s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.890597 -   1.4s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.728849 -   1.5s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.889041 -   1.0s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.706265 -   1.4s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.924267 -   1.2s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.826784 -   1.2s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.840177 -   1.5s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.739247 -   1.6s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.709882 -   1.2s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.889263 -   1.5s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.672608 -   1.4s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.860459 -   1.4s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.807845 -   1.5s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.706226 -   1.5s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.796207 -   1.4s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.805762 -   1.5s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.801168 -   1.4s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.790879 -   1.4s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.741087 -   1.2s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.936198 -   1.2s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.836822 -   1.4s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.880765 -   1.2s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.820017 -   1.3s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.906023 -   1.5s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.830019 -   1.3s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.839590 -   1.3s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.735586 -   1.5s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.573609 -   1.4s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.801075 -   1.3s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.893806 -   1.1s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.889041 -   1.3s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.822297 -   1.3s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.844665 -   1.3s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.613393 -   1.6s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.905986 -   1.4s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.765595 -   1.0s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.866785 -   1.5s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.736570 -   1.7s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.862239 -   1.9s
+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
+[CV]  c1=0.1388422147182745, c2=0.019507314290179247, score=0.926835 -   1.4s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.903487 -   1.4s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.820852 -   1.4s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.897652 -   1.4s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.845585 -   1.4s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.845585 -   1.4s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.718760 -   1.5s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.914124 -   1.3s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.823347 -   1.5s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.820017 -   1.5s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.914124 -   1.3s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.914124 -   1.3s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.935664 -   1.5s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.735583 -   1.4s
+[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
+[CV]  c1=2.7077934374074655, c2=0.11493498577823619, score=0.621203 -   1.7s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.819458 -   1.3s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.845585 -   1.4s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.741087 -   1.4s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.909411 -   1.5s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.839590 -   1.4s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.872053 -   1.4s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.768346 -   1.4s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.862696 -   1.4s
+[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
+[CV]  c1=0.7398050605125945, c2=0.05046057309258661, score=0.807845 -   1.7s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.872150 -   1.6s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.935664 -   1.3s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.715337 -   1.3s
+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
+[CV]  c1=0.19109403616449935, c2=0.0010764561143359712, score=0.905256 -   1.5s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.768346 -   1.5s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.909411 -   1.4s
+[CV] c1=0.09054223875215395, c2=0.0023518182968725273 ................
+[CV]  c1=0.09054223875215395, c2=0.0023518182968725273, score=0.741087 -   1.4s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.796207 -   1.5s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.878690 -   1.4s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.833201 -   1.5s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.891072 -   1.4s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.836882 -   1.2s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.839313 -   1.5s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.936836 -   1.4s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.845585 -   1.5s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.745538 -   1.7s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.918303 -   1.1s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.833121 -   1.3s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.741087 -   1.2s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.801168 -   1.5s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.678722 -   1.3s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
+[CV]  c1=1.5847200457248953, c2=0.006014325493850365, score=0.718760 -   1.4s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.807845 -   0.9s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.924267 -   1.3s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.899844 -   1.3s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.718760 -   1.6s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.918303 -   1.4s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.793667 -   1.3s
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
+[CV]  c1=0.0861167403673638, c2=0.04828247009963213, score=0.919031 -   1.5s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.848615 -   1.4s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.872150 -   1.5s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.897652 -   1.6s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.791968 -   1.2s
+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
+[CV]  c1=1.3822985394905212, c2=0.018122887822950486, score=0.790879 -   1.4s
+[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
+[CV]  c1=0.3175148951065869, c2=0.037005562427169, score=0.946103 -   1.6s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.688144 -   1.3s
+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
+[CV]  c1=0.020561906935503537, c2=0.058243167770064976, score=0.926835 -   1.6s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.735583 -   1.3s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.927877 -   1.6s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.939372 -   1.4s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.836822 -   1.3s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.878690 -   1.6s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.891072 -   1.1s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.914124 -   1.3s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.756130 -   1.4s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.920610 -   1.5s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.801168 -   1.6s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.878690 -   1.2s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.900097 -   1.3s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.826784 -   1.2s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.735583 -   1.5s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.765646 -   1.3s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.816050 -   1.5s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.869411 -   1.1s
+Training done in: 9.362880s
+     Saving training model...
+        Saving training model done in: 0.013935s
+*********************************
+Prediction done in: 0.035958s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: False True
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003641s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+           0         1
+0      lemma         2
+1     postag        CD
+2   -1:lemma  fructose
+3  -1:postag        NN
+4       word         2
+5    isUpper     False
+6    isLower     False
+7    isGreek     False
+8   isNumber      True
+9    -1:word  fructose
+--------------------------- FeaturesTest -----------------------------
+            0           1
+0       lemma  delta-arca
+1      postag          NN
+2    -1:lemma           _
+3   -1:postag          NN
+4    +1:lemma           _
+5   +1:postag          CD
+6        word  delta-arcA
+7     isUpper       False
+8     isLower       False
+9     isGreek       False
+10   isNumber       False
+11    -1:word           _
+12    +1:word           _
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.908106 -   1.6s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.920093 -   1.3s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.849130 -   1.6s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.853878 -   1.5s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.852298 -   1.2s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.863495 -   1.2s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.918743 -   1.3s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.935722 -   1.4s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.923212 -   1.3s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.794216 -   1.3s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.773435 -   1.2s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.674636 -   1.4s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.848937 -   1.3s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.840107 -   1.4s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.869790 -   1.3s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.853491 -   1.3s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.926918 -   1.2s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.862849 -   1.3s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.839700 -   1.1s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.846616 -   1.2s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.930828 -   1.3s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.725919 -   1.4s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.879946 -   1.3s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.906184 -   1.3s
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.830873 -   1.1s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.855715 -   1.2s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.879946 -   1.3s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.927937 -   1.3s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.839942 -   1.2s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.826386 -   1.0s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.910672 -   1.4s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.930828 -   1.5s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.809719 -   1.5s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.814300 -   1.6s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.841339 -   1.1s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.839499 -   1.3s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.895946 -   1.3s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.794216 -   1.2s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.852010 -   1.5s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.794216 -   1.4s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.869790 -   1.3s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.794216 -   1.5s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.856620 -   1.5s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.930828 -   1.4s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.926918 -   1.1s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.854345 -   1.3s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.857663 -   1.4s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.759504 -   1.6s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.857803 -   1.4s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.863576 -   1.3s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.927937 -   1.2s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.660059 -   1.5s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.926918 -   1.3s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.694239 -   1.5s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.930828 -   1.2s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.704991 -   1.4s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.674636 -   1.4s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.678668 -   1.3s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.794216 -   1.2s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.888761 -   1.2s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.853754 -   1.3s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.927937 -   1.3s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.678668 -   1.5s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.830776 -   1.6s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.923212 -   1.3s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.794216 -   1.4s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.863495 -   1.4s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.926918 -   1.3s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.862849 -   1.2s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.694239 -   1.3s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.928690 -   1.3s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.928690 -   1.4s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.809719 -   1.3s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.927937 -   1.3s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.849711 -   1.3s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.838382 -   1.4s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.687196 -   1.4s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.808847 -   1.2s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.795085 -   1.2s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.830776 -   1.3s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.955586 -   1.4s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.928690 -   1.4s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.851982 -   1.4s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.926918 -   1.1s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.791788 -   1.5s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.875374 -   1.2s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.863495 -   1.5s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.905115 -   1.3s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.684751 -   1.5s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.814733 -   1.3s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.927937 -   1.2s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.725919 -   1.4s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.931384 -   1.4s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.941978 -   1.2s
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.926918 -   1.4s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.803015 -   1.4s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.870142 -   1.2s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.686058 -   1.4s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.808847 -   1.1s
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.823253 -   1.5s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.840984 -   1.5s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.926390 -   1.3s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.578993 -   1.5s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.883486 -   0.9s
+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
+[CV]  c1=0.022102126823387226, c2=0.06924520730038973, score=0.911584 -   1.5s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.846764 -   1.4s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.706892 -   1.5s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.605839 -   1.2s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.813651 -   1.2s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.936685 -   1.3s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.934894 -   1.4s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.824977 -   1.6s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.830793 -   1.7s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.851982 -   1.3s
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.688783 -   1.4s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.857498 -   1.2s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.875374 -   1.2s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.770027 -   1.5s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.679139 -   1.4s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.824254 -   1.2s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.709493 -   1.5s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.862849 -   1.6s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.684280 -   1.8s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.799176 -   1.4s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.813649 -   1.4s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.839700 -   1.3s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.785527 -   1.3s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.955586 -   1.7s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.935722 -   1.3s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.780680 -   1.5s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.808847 -   1.4s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.808847 -   1.5s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.799176 -   1.6s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.879946 -   1.3s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.879946 -   1.2s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.732067 -   1.3s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.795527 -   1.4s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.928690 -   1.8s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.919979 -   1.5s
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.922832 -   1.6s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.797099 -   1.4s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.738861 -   1.3s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.668895 -   1.3s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.736650 -   1.0s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.818546 -   1.4s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.926918 -   1.3s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.926918 -   1.3s
+[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
+[CV]  c1=0.3861841949004038, c2=0.03323132379303178, score=0.780680 -   1.8s
+[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
+[CV]  c1=0.1962647469141778, c2=0.03287380929699173, score=0.892921 -   1.6s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.921133 -   1.2s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.674636 -   1.3s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.799176 -   1.4s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.843632 -   1.0s
+[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
+[CV]  c1=0.017720414748734287, c2=0.14805811330028124, score=0.852298 -   1.2s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.699470 -   1.0s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.926918 -   1.3s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.786229 -   1.4s
+[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
+[CV]  c1=0.5698075862470543, c2=0.010481334464662654, score=0.921976 -   1.7s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.879946 -   1.5s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.928690 -   1.3s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.658227 -   1.4s
+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
+[CV]  c1=0.6378651675797636, c2=0.013941131343344033, score=0.910205 -   1.7s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.780680 -   1.4s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.936685 -   1.6s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.637084 -   1.3s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.928690 -   1.7s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.899878 -   1.3s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.799176 -   1.7s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.532681 -   1.5s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.864828 -   1.2s
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.849047 -   1.6s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.955586 -   1.5s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.758571 -   1.3s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.717659 -   1.2s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.757382 -   1.2s
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.848937 -   1.5s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.927937 -   1.3s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.560775 -   1.5s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.785802 -   1.3s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.676325 -   1.4s
+[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
+[CV]  c1=0.2912635826026504, c2=0.02156672100740503, score=0.679139 -   1.3s
+[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
+[CV]  c1=0.03425956492795125, c2=0.007813038595582533, score=0.803831 -   1.4s
+[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
+[CV]  c1=0.20126118928313821, c2=0.08056323897622286, score=0.935722 -   1.8s
+[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
+[CV]  c1=0.12681094579027236, c2=0.0036690595009708006, score=0.844100 -   1.5s
+[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
+[CV]  c1=0.4918515596977871, c2=0.0022814573087973607, score=0.779170 -   1.6s
+[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
+[CV]  c1=0.30533486314094455, c2=0.0914754586936966, score=0.935722 -   1.6s
+[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
+[CV]  c1=0.1339240355864409, c2=0.020293819707040375, score=0.922160 -   1.3s
+[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
+[CV]  c1=0.6125085358121363, c2=0.029808644201330697, score=0.904039 -   1.5s
+[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
+[CV]  c1=0.4770198491983926, c2=0.011670029650325785, score=0.928690 -   1.5s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.567922 -   1.4s
+[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
+[CV]  c1=0.23106473162087696, c2=0.015694520156649943, score=0.794216 -   1.4s
+[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.705243 -   1.5s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.839761 -   1.3s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.617476 -   1.5s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.846283 -   1.3s
+Training done in: 8.982838s
+     Saving training model...
+        Saving training model done in: 0.013084s
+*********************************
+Prediction done in: 0.033790s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: True True
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003649s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+             0         1
+0        lemma         2
+1       postag        CD
+2     -1:lemma  fructose
+3    -1:postag        NN
+4       hUpper     False
+5       hLower     False
+6       hGreek     False
+7         symb     False
+8    lemma[:1]         2
+9   postag[:1]         C
+10  postag[:2]        CD
+11        word         2
+12     isUpper     False
+13     isLower     False
+14     isGreek     False
+15    isNumber      True
+16     -1:word  fructose
+--------------------------- FeaturesTest -----------------------------
+             0           1
+0        lemma  delta-arca
+1       postag          NN
+2     -1:lemma           _
+3    -1:postag          NN
+4     +1:lemma           _
+5    +1:postag          CD
+6       hUpper        True
+7       hLower        True
+8       hGreek       False
+9         symb        True
+10   lemma[:1]           d
+11  postag[:1]           N
+12   lemma[:2]          de
+13  postag[:2]          NN
+14        word  delta-arcA
+15     isUpper       False
+16     isLower       False
+17     isGreek       False
+18    isNumber       False
+19     -1:word           _
+20     +1:word           _
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.789624 -   1.3s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.813743 -   1.7s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.949229 -   1.6s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.843361 -   1.9s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.820019 -   1.6s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.921016 -   1.6s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.892120 -   1.7s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.969625 -   1.9s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.896961 -   1.9s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.824874 -   1.5s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.851303 -   1.9s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.799176 -   1.7s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.923027 -   1.6s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.912280 -   1.6s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.834170 -   1.6s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.923027 -   1.5s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.921016 -   1.6s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.909289 -   1.5s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.718722 -   1.6s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.814665 -   1.3s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.823347 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.827976 -   1.8s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.826784 -   2.0s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.734353 -   1.7s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.730238 -   1.5s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.923027 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.794216 -   1.9s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.900463 -   1.9s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.847287 -   1.7s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.719240 -   1.7s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.924709 -   1.6s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.892120 -   1.5s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.741087 -   1.9s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.865380 -   1.5s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.867165 -   1.7s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.844380 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.865097 -   1.9s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.851303 -   1.8s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.843486 -   1.8s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.747025 -   1.7s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.820019 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.914885 -   1.8s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.899524 -   1.9s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.923027 -   1.7s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.914885 -   1.6s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.936198 -   1.7s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.820852 -   1.8s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.923229 -   1.8s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.916002 -   1.8s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.843908 -   1.7s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.719240 -   1.7s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.783387 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.718722 -   1.7s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.816050 -   1.5s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.830456 -   1.7s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.923229 -   1.8s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.797998 -   1.6s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.956017 -   2.0s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.817424 -   1.6s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.941585 -   1.8s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.733882 -   1.6s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.841027 -   1.8s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.823347 -   1.7s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.869064 -   1.9s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.799746 -   1.6s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.912280 -   1.5s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.740042 -   1.8s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.862696 -   1.8s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.946646 -   1.7s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.855838 -   1.6s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.827913 -   1.7s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.922774 -   1.7s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.917968 -   1.8s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.892120 -   1.6s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.913219 -   1.9s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.799176 -   1.8s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.933588 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.866290 -   1.6s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.723924 -   1.6s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.820752 -   1.6s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.816050 -   1.7s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.883328 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.922774 -   1.7s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.843908 -   1.4s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.920107 -   1.7s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.912280 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.920107 -   1.7s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.839590 -   1.8s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.936885 -   1.8s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.830598 -   1.7s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.867165 -   1.6s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.837807 -   1.6s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.938245 -   1.6s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.922774 -   1.4s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.926210 -   1.3s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.731210 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.824947 -   2.0s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.801005 -   1.9s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.949482 -   1.4s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.929494 -   1.7s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.851303 -   1.6s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.946646 -   1.8s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.851303 -   1.9s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.926364 -   1.6s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.801762 -   1.7s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.827108 -   1.8s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.784408 -   1.6s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.923229 -   1.8s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.690220 -   1.6s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.936149 -   1.7s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.818102 -   1.7s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.925096 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.816050 -   1.6s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.807845 -   1.4s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.922774 -   1.7s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.866290 -   1.7s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.718722 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.799176 -   1.7s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.765595 -   1.4s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.816050 -   1.7s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.921016 -   1.6s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.922774 -   1.5s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.792619 -   1.8s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.799176 -   1.6s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.880765 -   1.6s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.946646 -   1.8s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.902567 -   1.8s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.820752 -   1.5s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.870314 -   1.5s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.799176 -   1.9s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.839427 -   1.8s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.818335 -   1.7s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.794216 -   1.5s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.943466 -   1.4s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.683743 -   1.8s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.936198 -   2.0s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.816050 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.880765 -   1.6s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.901751 -   1.6s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.794216 -   1.7s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.922774 -   1.6s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.769157 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.925096 -   1.7s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.728530 -   1.5s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.887115 -   1.8s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.803184 -   1.8s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.799176 -   1.9s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.841965 -   1.9s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.922774 -   1.3s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.922774 -   1.6s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.714606 -   1.7s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.900463 -   1.7s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.922774 -   1.6s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.799176 -   1.4s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.950725 -   1.8s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.916139 -   1.7s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.923229 -   1.8s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.820852 -   1.7s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.928279 -   1.3s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.923027 -   1.2s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.909646 -   1.8s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.742060 -   1.7s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.733882 -   1.6s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.921016 -   1.7s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.856402 -   1.3s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.884935 -   1.7s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.946646 -   1.9s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.924267 -   1.6s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.865380 -   1.8s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.824874 -   1.4s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.719240 -   1.7s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.794216 -   1.9s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.837271 -   1.8s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.946646 -   1.9s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.932069 -   1.2s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.816050 -   1.7s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.830113 -   1.8s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.851303 -   1.7s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.920107 -   1.8s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.816050 -   1.2s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.807845 -   1.6s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.923027 -   1.4s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.946103 -   1.8s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.924267 -   1.5s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.837553 -   1.7s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.804464 -   1.6s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.909646 -   1.8s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.865380 -   1.6s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.805596 -   1.8s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.794216 -   1.8s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.946646 -   1.7s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.884120 -   1.7s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.880765 -   1.9s
+[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
+[CV]  c1=0.3444576411414005, c2=0.0178963036693645, score=0.734741 -   1.6s
+[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
+[CV]  c1=0.649548584923434, c2=0.09611048012847326, score=0.774513 -   1.2s
+Training done in: 11.158256s
+     Saving training model...
+        Saving training model done in: 0.014234s
+*********************************
+Prediction done in: 0.048239s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: False False
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003735s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+           0         1
+0      lemma         2
+1     postag        CD
+2   -1:lemma  fructose
+3  -1:postag        NN
+4   -2:lemma       Cra
+5  -2:postag       NNP
+--------------------------- FeaturesTest -----------------------------
+           0           1
+0      lemma  delta-arca
+1     postag          NN
+2   -1:lemma           _
+3  -1:postag          NN
+4   +1:lemma           _
+5  +1:postag          CD
+6   -2:lemma     affyexp
+7  -2:postag          JJ
+8   +2:lemma     glucose
+9  +2:postag          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.876754 -   1.0s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.870921 -   1.0s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.911799 -   1.4s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.911799 -   1.1s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.722395 -   1.2s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.853481 -   1.0s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.679217 -   1.3s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.870921 -   1.2s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.801130 -   1.0s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.954937 -   1.1s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.903499 -   1.4s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.874448 -   1.3s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.816898 -   1.3s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.942868 -   1.4s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.866353 -   1.1s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.854935 -   1.2s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.787478 -   1.4s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.783151 -   1.2s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.796785 -   1.3s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.836305 -   1.1s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.924842 -   1.2s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.692146 -   1.5s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.820836 -   1.1s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.864680 -   1.2s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.859890 -   1.5s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.907893 -   1.2s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.925933 -   1.4s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.839355 -   1.4s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.924118 -   1.3s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.695802 -   1.1s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.854874 -   1.3s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.626801 -   1.3s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.854811 -   1.4s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.931824 -   1.1s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.801531 -   1.4s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.884047 -   1.1s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.924842 -   1.1s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.888803 -   1.1s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.931814 -   1.1s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.824358 -   1.4s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.597112 -   1.3s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.912409 -   1.3s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.931814 -   1.3s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.831726 -   1.2s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.566809 -   1.3s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.672936 -   1.3s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.878774 -   1.2s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.843508 -   1.4s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.888803 -   1.2s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.779035 -   1.3s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.931824 -   1.4s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.863374 -   1.2s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.916685 -   1.4s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.722395 -   1.2s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.897917 -   1.2s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.854811 -   1.2s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.857192 -   1.2s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.934983 -   1.0s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.722395 -   1.1s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.717373 -   1.4s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.883573 -   1.4s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.843546 -   1.2s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.722395 -   1.3s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.896731 -   1.1s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.754955 -   1.3s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.710551 -   1.3s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.816898 -   1.1s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.854935 -   1.2s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.893442 -   1.1s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.934983 -   1.2s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.934983 -   1.1s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.907893 -   1.0s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.897917 -   1.2s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.851449 -   1.2s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.688062 -   1.2s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.795650 -   1.3s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.868208 -   1.1s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.792736 -   1.4s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.736861 -   1.2s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.773166 -   1.2s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.694375 -   1.3s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.782242 -   1.4s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.874448 -   1.3s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.835567 -   1.2s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.722395 -   1.3s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.796785 -   1.2s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.883247 -   1.1s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.897917 -   1.2s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.904317 -   1.3s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.681687 -   1.2s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.942944 -   1.5s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.801520 -   1.3s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.892074 -   1.2s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.854811 -   1.3s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.854935 -   1.1s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.865485 -   1.0s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.912963 -   1.2s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.874448 -   1.1s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.889632 -   1.2s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.892921 -   1.3s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.812584 -   1.4s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.691907 -   1.3s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.911518 -   1.3s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.796785 -   1.2s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.905627 -   1.4s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.722550 -   1.3s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.791992 -   1.3s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.939034 -   1.3s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.787478 -   1.3s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.884047 -   1.1s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.824676 -   1.3s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.857192 -   1.2s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.836305 -   1.3s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.835967 -   1.2s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.946778 -   1.2s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.836305 -   1.2s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.942944 -   1.2s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.836305 -   1.1s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.867620 -   1.1s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.850992 -   1.3s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.722395 -   1.3s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.924842 -   1.2s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.722395 -   1.1s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.805308 -   1.5s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.892074 -   1.1s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.859890 -   1.3s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.899124 -   1.2s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.942868 -   1.1s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.851656 -   1.2s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.854811 -   1.2s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.916469 -   1.2s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.779035 -   1.3s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.854935 -   1.2s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.921438 -   1.1s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.867486 -   1.3s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.835967 -   1.4s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.816898 -   1.2s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.913784 -   1.2s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.934983 -   1.4s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.934983 -   1.2s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.930914 -   1.2s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.934983 -   1.1s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.881266 -   1.1s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.716783 -   1.2s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.796785 -   1.2s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.846343 -   1.3s
+[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
+[CV]  c1=0.42180099361133494, c2=0.054830905439908206, score=0.691907 -   1.3s
+[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
+[CV]  c1=0.15129291116762528, c2=0.040969962486065804, score=0.796785 -   1.2s
+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
+[CV]  c1=0.3021941878425496, c2=0.003216589098510098, score=0.824358 -   1.3s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.864680 -   1.3s
+[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
+[CV]  c1=0.04758003297351373, c2=0.10579732691225392, score=0.935724 -   1.3s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.883247 -   1.2s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.866353 -   1.1s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.859890 -   1.2s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.942868 -   1.4s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.759434 -   1.4s
+[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
+[CV]  c1=0.4238319563930542, c2=0.08124852735361125, score=0.939034 -   1.1s
+[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
+[CV]  c1=0.22568008528765934, c2=0.025016650518504283, score=0.954937 -   1.3s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.946778 -   1.4s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.850062 -   1.1s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.860215 -   1.1s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.854935 -   1.2s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.886265 -   1.0s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.928006 -   1.1s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.922360 -   1.4s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.872512 -   1.1s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.897917 -   1.3s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.707667 -   1.1s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.836305 -   1.4s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.942868 -   1.2s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.939034 -   1.1s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.874448 -   1.2s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.797327 -   1.0s
+[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
+[CV]  c1=0.14521637026904505, c2=0.02160263268998293, score=0.954937 -   1.0s
+[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
+[CV]  c1=0.20607603990598763, c2=0.0747627966661754, score=0.897917 -   1.2s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.793257 -   1.3s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.814901 -   0.9s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.788819 -   1.4s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.846642 -   1.0s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.884047 -   1.1s
+[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
+[CV]  c1=0.02350745992548303, c2=0.05840652032018121, score=0.852136 -   1.3s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.863743 -   1.3s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.722395 -   1.4s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.931824 -   1.0s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.927980 -   1.5s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.796785 -   1.2s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.782886 -   1.4s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.836305 -   1.3s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.907780 -   0.9s
+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
+[CV]  c1=0.04963393265100299, c2=0.088551724674726, score=0.796785 -   1.4s
+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
+[CV]  c1=0.1938501827725464, c2=0.060963666181269166, score=0.722395 -   1.2s
+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
+[CV]  c1=0.46250133950837036, c2=0.03491945784167068, score=0.702493 -   1.4s
+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
+[CV]  c1=0.16709072688926693, c2=0.03966093568152965, score=0.913784 -   1.4s
+[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.815919 -   0.9s
+Training done in: 8.310973s
+     Saving training model...
+        Saving training model done in: 0.013086s
+*********************************
+Prediction done in: 0.030126s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: True False
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003670s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+             0         1
+0        lemma         2
+1       postag        CD
+2     -1:lemma  fructose
+3    -1:postag        NN
+4       hUpper     False
+5       hLower     False
+6       hGreek     False
+7         symb     False
+8    lemma[:1]         2
+9   postag[:1]         C
+10  postag[:2]        CD
+11    -2:lemma       Cra
+12   -2:postag       NNP
+--------------------------- FeaturesTest -----------------------------
+             0           1
+0        lemma  delta-arca
+1       postag          NN
+2     -1:lemma           _
+3    -1:postag          NN
+4     +1:lemma           _
+5    +1:postag          CD
+6       hUpper        True
+7       hLower        True
+8       hGreek       False
+9         symb        True
+10   lemma[:1]           d
+11  postag[:1]           N
+12   lemma[:2]          de
+13  postag[:2]          NN
+14    -2:lemma     affyexp
+15   -2:postag          JJ
+16    +2:lemma     glucose
+17   +2:postag          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.744355 -   1.3s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.822757 -   1.4s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.918061 -   1.9s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.894139 -   1.6s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.864177 -   1.5s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.876836 -   1.2s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.820742 -   1.6s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.825305 -   1.4s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.918061 -   1.4s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.683730 -   1.5s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.862409 -   1.2s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.974589 -   1.8s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.852603 -   1.6s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.856825 -   1.4s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.823313 -   1.6s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.892089 -   1.5s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.862528 -   1.6s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.926731 -   1.4s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.839218 -   1.6s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.843508 -   1.3s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.808908 -   1.2s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.850984 -   1.6s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.844946 -   1.6s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.854858 -   2.1s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.913115 -   1.5s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.817270 -   1.8s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.927009 -   2.0s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.593314 -   1.9s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.893806 -   1.5s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.593314 -   1.8s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.727632 -   1.5s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.877930 -   1.4s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.931609 -   1.4s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.738299 -   1.4s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.884690 -   1.4s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.889202 -   1.4s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.928892 -   1.4s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.818750 -   1.3s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.621607 -   1.4s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.821991 -   1.5s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.901996 -   1.6s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.928660 -   1.9s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.825305 -   1.7s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.918674 -   1.5s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.932900 -   1.6s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.925560 -   1.6s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.841914 -   1.5s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.800885 -   1.7s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.871570 -   1.6s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.782611 -   1.4s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.729474 -   1.6s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.702472 -   1.6s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.810655 -   1.4s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.868123 -   1.5s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.759234 -   1.4s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.923594 -   1.5s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.825609 -   1.7s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.918674 -   1.4s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.929634 -   1.4s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.633367 -   1.5s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.946672 -   1.5s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.691973 -   1.7s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.818750 -   2.0s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.931609 -   1.7s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.872081 -   1.4s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.867416 -   1.6s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.876526 -   1.7s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.873607 -   2.0s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.812173 -   1.7s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.925560 -   1.6s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.839327 -   1.9s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.923229 -   2.0s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.927148 -   1.6s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.918835 -   1.6s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.818165 -   1.6s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.913446 -   1.5s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.818750 -   1.3s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.925560 -   1.2s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.946685 -   1.5s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.609476 -   1.7s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.888815 -   1.4s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.929634 -   1.5s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.969625 -   1.3s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.730024 -   1.6s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.905760 -   1.5s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.881315 -   1.7s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.916643 -   1.6s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.811582 -   1.6s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.860761 -   1.6s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.824101 -   1.6s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.858859 -   1.6s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.950946 -   1.6s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.845991 -   1.5s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.886827 -   1.5s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.927302 -   1.8s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.872077 -   1.5s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.868123 -   1.8s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.823092 -   1.2s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.894139 -   1.3s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.718921 -   1.6s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.823313 -   1.6s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.777170 -   1.6s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.839218 -   2.0s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.818750 -   1.7s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.824733 -   1.5s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.843508 -   1.6s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.767841 -   1.6s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.900263 -   1.6s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.907943 -   1.6s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.827435 -   1.6s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.824101 -   1.5s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.861991 -   1.6s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.898170 -   1.3s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.908836 -   1.5s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.925560 -   1.6s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.923585 -   1.6s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.727632 -   1.4s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.837210 -   1.4s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.934961 -   1.6s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.700167 -   1.6s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.718975 -   1.7s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.871570 -   1.7s
+[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
+[CV]  c1=0.7691901366762777, c2=0.018786342851753436, score=0.820742 -   1.7s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.811582 -   1.6s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.801739 -   1.8s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.922590 -   1.7s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.839383 -   1.6s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.828771 -   1.6s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.827010 -   1.6s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.828771 -   1.5s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.886827 -   1.5s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.913115 -   1.7s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.850984 -   1.6s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.878770 -   1.4s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.834850 -   1.6s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.836321 -   1.6s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.691973 -   1.7s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.881315 -   1.5s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.873287 -   1.6s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.923259 -   1.5s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.931609 -   1.7s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.683730 -   2.0s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.913115 -   1.6s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.727632 -   1.2s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.848986 -   1.6s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.893806 -   1.3s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.727632 -   1.6s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.918061 -   1.5s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.888270 -   1.0s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.790879 -   1.6s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.904751 -   1.5s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.918674 -   1.5s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.784927 -   1.6s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.729474 -   1.7s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.946685 -   1.2s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.813790 -   1.5s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.917828 -   1.5s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.927564 -   1.6s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.803211 -   1.6s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.819619 -   1.1s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.864462 -   1.6s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.862528 -   1.5s
+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
+[CV]  c1=0.41069923197664315, c2=0.02601572011706776, score=0.820742 -   1.9s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.777170 -   1.5s
+[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
+[CV]  c1=0.16617627893415826, c2=0.016246283722594547, score=0.848986 -   1.6s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.781951 -   1.5s
+[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
+[CV]  c1=0.3279727332028919, c2=0.004720316064409802, score=0.813790 -   1.8s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.830388 -   1.5s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.819787 -   1.7s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.679842 -   1.4s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.751773 -   1.7s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.818750 -   1.5s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.817260 -   1.7s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.633367 -   1.8s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.868123 -   1.3s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.854858 -   1.6s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.767841 -   1.6s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.905632 -   1.5s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.889572 -   1.5s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.828274 -   1.5s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.925560 -   1.4s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.946646 -   1.6s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.941948 -   1.7s
+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
+[CV]  c1=0.6526918794500971, c2=0.014168653025375195, score=0.932900 -   1.7s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.775915 -   1.6s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.881315 -   1.6s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.874304 -   1.6s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.881315 -   1.7s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.821991 -   1.7s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.929634 -   1.3s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.856896 -   1.7s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.791058 -   1.6s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.722450 -   1.9s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.868514 -   1.6s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.898935 -   1.4s
+Training done in: 10.548893s
+     Saving training model...
+        Saving training model done in: 0.013080s
+*********************************
+Prediction done in: 0.041656s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: False True
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003621s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+            0         1
+0       lemma         2
+1      postag        CD
+2    -1:lemma  fructose
+3   -1:postag        NN
+4        word         2
+5     isUpper     False
+6     isLower     False
+7     isGreek     False
+8    isNumber      True
+9     -1:word  fructose
+10   -2:lemma       Cra
+11  -2:postag       NNP
+--------------------------- FeaturesTest -----------------------------
+            0           1
+0       lemma  delta-arca
+1      postag          NN
+2    -1:lemma           _
+3   -1:postag          NN
+4    +1:lemma           _
+5   +1:postag          CD
+6        word  delta-arcA
+7     isUpper       False
+8     isLower       False
+9     isGreek       False
+10   isNumber       False
+11    -1:word           _
+12    +1:word           _
+13   -2:lemma     affyexp
+14  -2:postag          JJ
+15   +2:lemma     glucose
+16  +2:postag          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.612088 -   1.6s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.807235 -   1.7s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.913784 -   1.8s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.882162 -   1.6s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.846837 -   1.6s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.932685 -   1.8s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.832339 -   1.5s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.787078 -   1.5s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.839624 -   1.3s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.832339 -   1.3s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.918345 -   1.7s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.631304 -   1.5s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.601824 -   1.6s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.856398 -   1.3s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.853493 -   1.4s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.851448 -   1.5s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.818750 -   1.7s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.902496 -   1.5s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.917433 -   1.4s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.896776 -   1.4s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.712169 -   1.7s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.862900 -   1.5s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.885973 -   1.5s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.852822 -   1.4s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.931991 -   1.4s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.700980 -   1.5s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.800618 -   1.5s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.853967 -   1.3s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.601824 -   1.5s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.856758 -   1.3s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.864761 -   1.4s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.727697 -   1.5s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.764357 -   1.4s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.803796 -   1.3s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.850992 -   1.6s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.888803 -   1.5s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.820419 -   1.6s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.818821 -   1.6s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.840175 -   1.0s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.795123 -   1.8s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.824268 -   1.7s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.907805 -   1.5s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.812996 -   1.7s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.913784 -   1.4s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.908387 -   1.6s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.932576 -   1.6s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.907533 -   1.7s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.903311 -   1.6s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.888182 -   1.6s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.712169 -   1.4s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.905638 -   1.4s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.955910 -   1.7s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.857043 -   1.3s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.819378 -   1.6s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.792413 -   1.5s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.888787 -   1.5s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.900039 -   2.0s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.896776 -   1.5s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.890384 -   1.6s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.923193 -   1.5s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.889602 -   1.3s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.869996 -   1.5s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.795729 -   1.5s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.770164 -   1.6s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.888803 -   1.4s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.854811 -   1.5s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.854202 -   1.5s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.889602 -   1.3s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.770164 -   1.6s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.814418 -   1.5s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.927267 -   1.4s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.795123 -   1.6s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.917037 -   1.4s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.885973 -   1.3s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.907533 -   1.5s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.813378 -   1.6s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.909826 -   1.9s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.820419 -   1.4s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.928742 -   1.5s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.889602 -   1.4s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.817720 -   1.7s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.889602 -   1.7s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.832339 -   1.4s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.801309 -   1.3s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.727697 -   1.6s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.931991 -   1.6s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.858557 -   1.7s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.818750 -   1.5s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.752715 -   1.5s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.892921 -   1.5s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.853767 -   1.4s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.655056 -   1.4s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.931991 -   1.2s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.685173 -   1.4s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.818750 -   1.6s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.913784 -   1.8s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.809731 -   1.8s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.800618 -   1.5s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.783364 -   1.6s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.869958 -   1.4s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.848812 -   1.5s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.931991 -   1.7s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.631304 -   1.6s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.812996 -   1.6s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.858211 -   1.5s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.931991 -   1.4s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.593248 -   1.4s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.872516 -   1.1s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.752715 -   1.5s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.869996 -   1.5s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.808180 -   1.5s
+[CV] c1=0.07838162718183349, c2=0.05887606797757319 ..................
+[CV]  c1=0.07838162718183349, c2=0.05887606797757319, score=0.923193 -   1.7s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.727697 -   1.3s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.859362 -   1.6s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.809731 -   1.5s
+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
+[CV]  c1=0.4268730139997736, c2=0.05952759417093106, score=0.913784 -   1.7s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.832339 -   1.5s
+[CV] c1=0.6973561873127724, c2=0.031245044543363222 ..................
+[CV]  c1=0.6973561873127724, c2=0.031245044543363222, score=0.900039 -   1.6s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.818821 -   1.5s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.931991 -   1.5s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.800397 -   1.6s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.896776 -   1.6s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.818254 -   1.4s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.764357 -   1.5s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.937977 -   1.6s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.829913 -   1.6s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.806478 -   1.5s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.869958 -   1.4s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.885973 -   1.3s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.827578 -   1.6s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.923193 -   1.5s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.907533 -   1.5s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.923193 -   1.2s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.885973 -   1.4s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.890595 -   1.5s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.707282 -   1.6s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.818750 -   1.7s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.969518 -   1.4s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.798145 -   1.4s
+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
+[CV]  c1=0.05358633536650553, c2=0.026273042598892418, score=0.969518 -   1.6s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.903426 -   1.6s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.612088 -   1.9s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.888803 -   1.2s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.798145 -   1.4s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.908335 -   1.5s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.955910 -   1.6s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.908387 -   1.6s
+[CV] c1=0.07671489689709554, c2=0.01219208548228793 ..................
+[CV]  c1=0.07671489689709554, c2=0.01219208548228793, score=0.842929 -   1.3s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.890384 -   1.6s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.815631 -   1.6s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.808180 -   1.5s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.802498 -   1.4s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.848812 -   1.1s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.803867 -   1.4s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.806478 -   1.3s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.893526 -   1.4s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.908106 -   1.5s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.818343 -   1.4s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.931991 -   1.1s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.808404 -   1.7s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.927980 -   1.6s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.850431 -   1.7s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.880703 -   1.4s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.830861 -   1.2s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.891597 -   1.5s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.942868 -   1.6s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.795123 -   1.5s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.729366 -   1.5s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.939034 -   1.1s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.902496 -   1.7s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.717781 -   1.6s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.866353 -   1.5s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.754354 -   1.5s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.717781 -   1.4s
+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
+[CV]  c1=1.2139996411914353, c2=0.031522439704619994, score=0.855055 -   1.6s
+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
+[CV]  c1=0.2523286024761347, c2=0.0139653511518441, score=0.851448 -   1.5s
+[CV] c1=0.07499151432771352, c2=0.07791789139191967 ..................
+[CV]  c1=0.07499151432771352, c2=0.07791789139191967, score=0.858557 -   1.7s
+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
+[CV]  c1=0.9736319201376714, c2=0.005278958003940855, score=0.792413 -   1.6s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.804491 -   1.3s
+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
+[CV]  c1=1.4441295867817865, c2=0.04617298610100537, score=0.749684 -   1.1s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.612088 -   1.5s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
+[CV]  c1=0.3260719095302179, c2=0.006813084571107944, score=0.866353 -   1.5s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.932576 -   1.7s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.798145 -   1.3s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.884921 -   1.1s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.801309 -   1.4s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.931991 -   1.5s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.712169 -   1.6s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.774478 -   1.7s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.913784 -   1.2s
+Training done in: 10.202275s
+     Saving training model...
+        Saving training model done in: 0.014887s
+*********************************
+Prediction done in: 0.043297s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: True True
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003623s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+             0         1
+0        lemma         2
+1       postag        CD
+2     -1:lemma  fructose
+3    -1:postag        NN
+4       hUpper     False
+5       hLower     False
+6       hGreek     False
+7         symb     False
+8    lemma[:1]         2
+9   postag[:1]         C
+10  postag[:2]        CD
+11        word         2
+12     isUpper     False
+13     isLower     False
+14     isGreek     False
+15    isNumber      True
+16     -1:word  fructose
+17    -2:lemma       Cra
+18   -2:postag       NNP
+--------------------------- FeaturesTest -----------------------------
+             0           1
+0        lemma  delta-arca
+1       postag          NN
+2     -1:lemma           _
+3    -1:postag          NN
+4     +1:lemma           _
+5    +1:postag          CD
+6       hUpper        True
+7       hLower        True
+8       hGreek       False
+9         symb        True
+10   lemma[:1]           d
+11  postag[:1]           N
+12   lemma[:2]          de
+13  postag[:2]          NN
+14        word  delta-arcA
+15     isUpper       False
+16     isLower       False
+17     isGreek       False
+18    isNumber       False
+19     -1:word           _
+20     +1:word           _
+21    -2:lemma     affyexp
+22   -2:postag          JJ
+23    +2:lemma     glucose
+24   +2:postag          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.886214 -   1.6s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.877424 -   1.7s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.917614 -   1.9s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.901459 -   1.8s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.917472 -   1.7s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.886214 -   1.7s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.927028 -   2.0s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.897464 -   1.8s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.807866 -   2.0s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.872077 -   1.9s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.864462 -   1.7s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.927296 -   1.7s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.617405 -   1.9s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.777170 -   1.3s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.819428 -   1.9s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.826964 -   1.7s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.857436 -   1.7s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.759234 -   1.7s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.789940 -   1.6s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.827435 -   1.8s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.947560 -   1.9s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.799499 -   1.7s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.798512 -   1.8s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.897464 -   1.9s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.923585 -   1.8s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.813534 -   1.9s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.818750 -   2.0s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.877672 -   1.9s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.917821 -   1.8s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.836208 -   1.5s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.927296 -   1.6s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.815328 -   1.8s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.744355 -   1.9s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.818450 -   2.0s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.727471 -   2.1s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.871337 -   1.6s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.879397 -   2.3s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.814374 -   1.9s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.876526 -   1.9s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.920469 -   2.0s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.710634 -   1.9s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.867297 -   1.8s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.859655 -   2.0s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.792588 -   2.0s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.694284 -   1.9s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.696553 -   1.8s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.815781 -   2.0s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.609476 -   2.2s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.727632 -   2.2s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.927296 -   1.9s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.869321 -   1.8s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.836437 -   1.9s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.741826 -   2.1s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.767841 -   1.9s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.888272 -   1.8s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.927296 -   1.7s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.855584 -   1.8s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.767841 -   1.8s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.927296 -   1.6s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.863961 -   2.1s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.832514 -   1.6s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.702779 -   2.0s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.777170 -   1.8s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.852142 -   2.2s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.950725 -   2.0s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.876720 -   1.7s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.950725 -   2.0s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.925424 -   1.9s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.827435 -   2.1s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.857576 -   1.9s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.847957 -   2.0s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.854858 -   1.8s
+[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
+[CV]  c1=0.7425928083768661, c2=0.07211893896234671, score=0.932900 -   2.1s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.916688 -   1.9s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.834436 -   1.9s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.920469 -   1.9s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.792588 -   2.0s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.945654 -   2.4s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.950946 -   1.9s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.854858 -   1.8s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.932775 -   2.0s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.803472 -   2.0s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.917614 -   2.2s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.848596 -   1.8s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.874253 -   1.8s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.854858 -   2.0s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.846250 -   1.7s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.929519 -   1.9s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.939823 -   1.7s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.873425 -   1.8s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.849027 -   1.8s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.917821 -   1.8s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.841763 -   1.8s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.864462 -   1.8s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.937535 -   2.0s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.933952 -   2.0s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.916688 -   1.7s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.892703 -   2.1s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.893806 -   1.9s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.917821 -   1.7s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.945871 -   2.0s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.694284 -   2.0s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.818750 -   2.0s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.917821 -   1.7s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.844415 -   1.9s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.886214 -   1.7s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.833470 -   1.8s
+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.609476 -   2.1s
+[CV] c1=0.068283530973784, c2=0.035968750782347465 ...................
+[CV]  c1=0.068283530973784, c2=0.035968750782347465, score=0.832180 -   1.8s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.923585 -   1.8s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.801130 -   2.0s
+[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
+[CV]  c1=0.7425928083768661, c2=0.07211893896234671, score=0.786527 -   1.7s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.950725 -   1.8s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.798342 -   1.7s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.869357 -   1.9s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.932739 -   1.9s
+[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
+[CV]  c1=0.7425928083768661, c2=0.07211893896234671, score=0.809571 -   2.0s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.777170 -   1.8s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.824101 -   1.6s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.931991 -   1.8s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.876720 -   1.7s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.888955 -   1.8s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.871106 -   1.9s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.950725 -   1.8s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.871039 -   1.9s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.834436 -   1.9s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.912553 -   2.2s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.798097 -   2.2s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.892309 -   1.7s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.908709 -   2.0s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.694284 -   1.7s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.824101 -   1.8s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.877726 -   1.7s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.702779 -   1.8s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.816898 -   1.8s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.855584 -   1.9s
+[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
+[CV]  c1=0.7425928083768661, c2=0.07211893896234671, score=0.818750 -   2.0s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.897464 -   1.8s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.875354 -   1.5s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.818750 -   1.9s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.908266 -   1.9s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.798342 -   2.1s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.824101 -   2.0s
+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
+[CV]  c1=0.46546093853678977, c2=0.10881019404335167, score=0.933350 -   1.7s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.946646 -   1.8s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.932900 -   2.1s
+[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
+[CV]  c1=0.7425928083768661, c2=0.07211893896234671, score=0.632413 -   1.9s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.609476 -   2.0s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.927296 -   1.4s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.708949 -   2.0s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.844415 -   2.0s
+[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
+[CV]  c1=0.7425928083768661, c2=0.07211893896234671, score=0.862659 -   2.0s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.912553 -   2.1s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.864462 -   1.3s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.916643 -   1.8s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.950946 -   1.9s
+[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
+[CV]  c1=0.7425928083768661, c2=0.07211893896234671, score=0.936486 -   2.0s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.759234 -   1.8s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.909996 -   1.4s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
+[CV]  c1=0.6426016214333032, c2=0.013291072696330009, score=0.843153 -   1.6s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
+[CV]  c1=0.037354859851607435, c2=0.07305354899253944, score=0.694284 -   1.8s
+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
+[CV]  c1=1.6782438716438826, c2=0.005852028918477585, score=0.750445 -   1.6s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.701018 -   1.9s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.813790 -   1.8s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.939823 -   1.3s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.921722 -   1.9s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.945871 -   1.8s
+[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
+[CV]  c1=0.7425928083768661, c2=0.07211893896234671, score=0.815896 -   1.9s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.798512 -   1.8s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.888272 -   1.5s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.945871 -   1.8s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.744355 -   2.1s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.950725 -   2.0s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.745317 -   2.1s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.832180 -   1.5s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.872077 -   1.9s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.927296 -   1.6s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.923585 -   1.9s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.923585 -   2.0s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.870571 -   1.7s
+Training done in: 12.658946s
+     Saving training model...
+        Saving training model done in: 0.013450s
+*********************************
+Prediction done in: 0.050529s

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.025778789677348212, 'c2': 0.0018714562014074947}
-best CV score:0.8085092726655764
-model size: 0.08M
-
-Flat F1: 0.8137583902797803
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.880     1.000     0.936        22
-        Med      0.852     0.912     0.881        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.920     0.742     0.821        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.905     0.811     0.856       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.883     0.669     0.762       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.904     0.760     0.814       480
-
-
-Top likely transitions:
-OD     -> OD      6.458139
-Agit   -> Agit    6.258931
-Anti   -> Anti    6.237003
-Temp   -> Temp    6.159227
-Med    -> Med     5.670034
-O      -> O       5.195209
-Air    -> Air     5.178796
-Gversion -> Gversion 5.056321
-Gtype  -> Gtype   4.897516
-Phase  -> Phase   4.866866
-Technique -> Technique 4.086604
-Supp   -> Supp    3.969422
-pH     -> pH      2.272089
-Substrain -> Gtype   1.512606
-O      -> Supp    1.281866
-Gtype  -> Supp    1.254695
-Technique -> Air     1.119472
-O      -> Technique 1.098084
-O      -> Anti    0.739732
-O      -> Gtype   0.595581
-O      -> Gversion 0.361965
-O      -> Temp    0.359101
-Gtype  -> pH      0.252154
-O      -> Strain  0.203795
-Air    -> O       0.106227
-Gtype  -> Air     0.052216
-O      -> pH      0.007039
-Gversion -> Supp    -0.000001
-pH     -> Supp    -0.000232
-Strain -> O       -0.001882
-Phase  -> Supp    -0.055890
-Phase  -> Air     -0.056319
-OD     -> Phase   -0.082524
-O      -> Phase   -0.121225
-O      -> OD      -0.123240
-Gtype  -> Phase   -0.163289
-Temp   -> O       -0.187600
-Med    -> O       -0.241653
-Gtype  -> Gversion -0.242298
-pH     -> O       -0.266321
-OD     -> Supp    -0.290317
-Air    -> Gtype   -0.354319
-Phase  -> Temp    -0.371875
-Anti   -> O       -0.373128
-Phase  -> pH      -0.374040
-Phase  -> Gtype   -0.388060
-Technique -> Gtype   -0.398116
-Gversion -> O       -0.453455
-Air    -> Phase   -0.500367
-Supp   -> Phase   -0.539395
-
-
-Top unlikely transitions:
-Med    -> O       -0.241653
-Gtype  -> Gversion -0.242298
-pH     -> O       -0.266321
-OD     -> Supp    -0.290317
-Air    -> Gtype   -0.354319
-Phase  -> Temp    -0.371875
-Anti   -> O       -0.373128
-Phase  -> pH      -0.374040
-Phase  -> Gtype   -0.388060
-Technique -> Gtype   -0.398116
-Gversion -> O       -0.453455
-Air    -> Phase   -0.500367
-Supp   -> Phase   -0.539395
-O      -> Med     -0.558012
-Technique -> O       -0.563680
-Technique -> pH      -0.572119
-OD     -> Air     -0.575190
-Phase  -> O       -0.591227
-Med    -> Anti    -0.624886
-Anti   -> OD      -0.642709
-O      -> Air     -0.644641
-Phase  -> Technique -0.707027
-Supp   -> pH      -0.714103
-Gtype  -> O       -0.767223
-Supp   -> Gversion -0.770430
-Supp   -> Anti    -0.833703
-Supp   -> Technique -0.866289
-Gtype  -> Med     -0.879350
-Supp   -> OD      -0.892817
-Agit   -> O       -0.961537
-Phase  -> Med     -0.969283
-Temp   -> Med     -1.069687
-Air    -> Temp    -1.156985
-Air    -> Supp    -1.269357
-OD     -> O       -1.314886
-Supp   -> Air     -1.325800
-Technique -> OD      -1.524590
-OD     -> Med     -1.583386
-Supp   -> Gtype   -1.630169
-Gtype  -> OD      -1.657535
-Supp   -> O       -1.680041
-Supp   -> Temp    -1.709825
-Air    -> Med     -1.823169
-OD     -> Gtype   -1.852919
-Gtype  -> Anti    -1.909177
-Substrain -> O       -1.923623
-Air    -> OD      -2.860427
-Med    -> Supp    -2.964145
-Supp   -> Med     -3.290588
-Phase  -> OD      -4.227426
-
-
-Top positive:
-11.662855 Supp     b'lemma:Iron'
-10.511953 O        b'lemma:_'
-10.230310 Phase    b'lemma:stationary'
-9.183606 Air      b'lemma:anaerobic'
-9.126291 O        b'lemma:1'
-8.974301 Med      b'lemma:MOPS'
-8.702900 O        b'lemma:rpob'
-8.676761 Phase    b'lemma:mid-log'
-8.568886 Air      b'lemma:aerobic'
-8.230748 Technique b'lemma:chipseq'
-8.195390 Technique b'lemma:ChIP-exo'
-8.058605 O        b'-1:lemma:tag'
-7.748813 Supp     b'lemma:nitrate'
-7.383352 Med      b'lemma:LB'
-7.258212 O        b'lemma:2'
-7.185114 Gversion b'lemma:asm584v2'
-7.171158 O        b'lemma:3'
-7.148092 Strain   b'lemma:k-12'
-7.115910 Supp     b'lemma:pq'
-7.026371 O        b'lemma:for'
-7.014323 Gtype    b'lemma:arca8myc'
-7.008078 Supp     b'+1:lemma:\xc2\xb5m'
-6.977598 Gtype    b'lemma:\xce\xb4cra'
-6.880186 Gtype    b'lemma:flag-tag'
-6.880186 Gtype    b'-1:lemma:c-terminal'
-6.658138 Gtype    b'lemma:delta-arca'
-6.634178 O        b'lemma:rep3'
-6.604885 O        b'lemma:rep1'
-6.417248 O        b'lemma:rep2'
-6.415638 O        b'lemma:Custom'
-6.361925 Gtype    b'lemma:fnr8myc'
-6.326103 Supp     b'lemma:acetate'
-6.318547 O        b'-1:lemma:ChIP-exo'
-6.305986 OD       b'+1:lemma:stationary'
-6.292137 Air      b'lemma:Aerobic'
-6.239583 Supp     b'-1:lemma:Cra'
-6.162599 Air      b'-1:lemma:ChIP-Seq'
-6.138632 O        b'-1:lemma:0.3-0.35'
-6.069303 O        b'lemma:b'
-6.025530 Substrain b'lemma:mg1655'
-6.018017 OD       b'lemma:od450'
-5.968029 Anti     b'lemma:none'
-5.951239 Technique b'lemma:rna-seq'
-5.870411 Gtype    b'lemma:delta-fnr'
-5.859331 Supp     b'lemma:rifampicin'
-5.853962 O        b'lemma:with'
-5.787035 Supp     b'lemma:Fe'
-5.696867 O        b'lemma:Cra'
-5.666336 Gtype    b'lemma:wt'
-5.634727 O        b'lemma:\xcf\x8332'
-5.556439 Anti     b'lemma:seqa'
-5.495699 Technique b'lemma:rnaseq'
-5.475249 O        b'lemma:-'
-5.461891 O        b'postag::'
-5.444655 Gtype    b'-1:lemma:\xe2\x88\x86'
-5.439532 Supp     b'lemma:nh4cl'
-5.347691 Med      b'+1:lemma:0.4'
-5.306864 Gtype    b'+1:lemma:type'
-5.249286 Supp     b'lemma:arginine'
-5.228272 Anti     b'lemma:anti-myc'
-5.189623 Gtype    b'lemma:\xce\xb4fur'
-5.112523 Med      b'lemma:lb'
-5.068530 O        b'lemma:chip'
-5.060776 O        b'lemma:CEL'
-5.009251 O        b'lemma:a'
-4.960032 Temp     b'-1:lemma:\xcf\x8332'
-4.958666 O        b'-1:lemma:Aerobic'
-4.897653 Supp     b'-1:lemma:+'
-4.868444 O        b'lemma:.'
-4.868444 O        b'postag:.'
-4.830243 Supp     b'lemma:glucose'
-4.820752 Supp     b'lemma:no3'
-4.796496 Supp     b'lemma:dpd'
-4.791818 O        b'+1:postag:RB'
-4.789121 O        b'-1:lemma:anaerobic'
-4.777256 Temp     b'-1:lemma:37'
-4.758659 Technique b'-1:lemma:IP'
-4.751186 Gtype    b'lemma:wild-type'
-4.743291 Supp     b'+1:lemma:1'
-4.741868 Vess     b'lemma:flask'
-4.741868 Vess     b'-1:lemma:warm'
-4.683816 O        b'-1:lemma:glucose'
-4.643413 Anti     b'lemma:anti-rpos'
-4.633816 Technique b'lemma:chip-seq'
-4.629451 O        b'lemma:oxyr'
-4.567353 Gtype    b'lemma:\xe2\x88\x86'
-4.557296 Supp     b'lemma:fructose'
-4.556286 O        b'lemma:affyexp'
-4.553249 OD       b'lemma:od600'
-4.531615 Gtype    b'lemma:type'
-4.489891 O        b'-1:lemma:0.3'
-4.480766 O        b'lemma:2-3'
-4.479384 Gversion b'lemma:nc'
-4.467099 Technique b'+1:lemma:chip-exo'
-4.434426 Gtype    b'lemma:\xce\xb4soxs'
-4.430899 O        b'-1:lemma:dpd'
-4.412502 Strain   b'+1:lemma:substr'
-4.408579 O        b'lemma:or'
-4.394512 O        b'+1:lemma:o.d.'
-4.374031 O        b'+1:lemma:sparging'
-4.312161 Phase    b'+1:lemma:for'
-4.261060 O        b'lemma:chip-arca'
-4.215222 Air      b'lemma:anerobically'
-4.197581 Technique b'+1:lemma:rna-seq'
-4.178924 Supp     b'+1:lemma:_'
-4.178128 Gversion b'lemma:chip-seq'
-4.162694 Technique b'lemma:ChIP-Seq'
-4.136869 Supp     b'+1:lemma:hour'
-4.135692 O        b'+1:lemma:od600'
-4.120055 O        b'postag:IN'
-4.088450 Gtype    b'lemma:nsrr'
-4.087944 Med      b'-1:lemma:ml'
-4.053773 Gtype    b'+1:lemma:with'
-4.022074 Gtype    b'lemma:\xce\xb4ompr'
-4.019457 Gtype    b'lemma:WT'
-3.994335 Gversion b'-1:lemma:nc'
-3.986008 pH       b'lemma:ph5'
-3.986008 pH       b'+1:lemma:.5'
-3.963426 O        b'lemma:ompr'
-3.957893 Med      b'+1:lemma:2.0'
-3.957602 O        b'-1:lemma:lb'
-3.947299 Med      b'+1:lemma:contain'
-3.938942 Gtype    b'lemma:pk4854'
-3.936645 Supp     b'lemma:Leu'
-3.914299 Supp     b'+1:lemma:2'
-3.906482 O        b'lemma:Fur'
-3.904505 Gversion b'lemma:u00096'
-3.904505 Gversion b'+1:lemma:.2'
-3.885731 Technique b'-1:lemma:input'
-3.877441 O        b'-1:lemma:\xc2\xb0c'
-3.864432 Gversion b'lemma:.2'
-3.864432 Gversion b'-1:lemma:u00096'
-3.854046 Substrain b'+1:lemma:phtpg'
-3.853262 O        b'lemma:s'
-3.836382 O        b'-1:lemma:type'
-3.827763 O        b'lemma:soxs'
-3.827763 O        b'lemma:soxr'
-3.789271 Technique b'-1:lemma:chip-exo'
-3.787785 Gtype    b'lemma:deltaseqa'
-3.787785 Gtype    b'-1:lemma:old'
-3.767682 O        b'+1:lemma:43'
-3.736088 Air      b'lemma:Anaerobic'
-3.723469 O        b'lemma:argr'
-3.707152 Med      b'lemma:L'
-3.707152 Med      b'+1:lemma:broth'
-3.693116 O        b'lemma:purr'
-3.692833 Gtype    b'lemma:\xce\xb4oxyr'
-3.687510 Gtype    b'-1:lemma:ptac'
-3.668468 Gtype    b'lemma:\xce\xb4soxr'
-3.661904 Supp     b'lemma:Adenine'
-3.646336 O        b'+1:lemma:chip-seq'
-3.633392 O        b'lemma:Lrp'
-3.623734 Supp     b'lemma:nacl'
-3.589169 O        b'lemma:chip-fnr'
-3.581632 Med      b'lemma:glucose'
-3.560733 Supp     b'lemma:iptg'
-3.552695 O        b'lemma:delta'
-3.509922 O        b'postag:VBN'
-3.445521 Med      b'lemma:m63'
-3.434419 Temp     b'lemma:37'
-3.388210 Temp     b'-1:lemma:43'
-3.386139 Gtype    b'+1:lemma:knock-out'
-3.379573 Temp     b'-1:lemma:sample'
-3.363114 Anti     b'+1:lemma:antibody'
-3.344587 Gtype    b'+1:lemma:flagtag'
-3.343995 Gtype    b'lemma:dfnr'
-3.336085 Med      b'+1:lemma:minimal'
-3.329171 Gtype    b'-1:lemma:rpob'
-3.326850 Supp     b'+1:lemma:Deficient'
-3.310593 Phase    b'-1:lemma:until'
-3.304072 O        b'lemma:supplement'
-3.302560 O        b'+1:lemma:37'
-3.285761 Gtype    b'lemma:ptac'
-3.282886 OD       b'lemma:0.3'
-3.280884 Gversion b'lemma:000913'
-3.277170 Temp     b'lemma:\xc2\xb0c'
-3.267178 pH       b'lemma:.5'
-3.267178 pH       b'-1:lemma:ph5'
-3.266678 Air      b'lemma:anaerobically'
-3.258256 Med      b'-1:lemma:LB'
-3.245906 O        b'lemma:at'
-3.227428 Temp     b'lemma:43'
-3.174057 O        b'postag:DT'
-3.124069 O        b'-1:lemma:000913'
-3.122174 O        b'-1:lemma:min'
-3.116791 Air      b'postag:RB'
-3.107732 O        b'lemma:pt7'
-3.040595 Gtype    b'lemma:\xce\xb4gadw'
-3.006824 O        b'-1:lemma:stpa'
-2.984377 OD       b'-1:lemma:~'
-2.941221 Supp     b'-1:lemma:\xc2\xb5m'
-2.928646 Gversion b'lemma:_'
-2.927017 Gtype    b'lemma:soxs-8myc'
-2.927017 Gtype    b'lemma:soxr-8myc'
-2.916978 O        b'+1:lemma:mid-log'
-2.899360 OD       b'lemma:0.35'
-2.886577 Supp     b'+1:lemma:iptg'
-2.876433 Supp     b'lemma:leucine'
-2.857437 Gtype    b'lemma:purr-8myc'
-2.854621 O        b'postag:SYM'
-
-
-Top negative:
--0.011735 OD       b'+1:lemma:0.4'
--0.012143 O        b'+1:lemma:0.4'
--0.012737 OD       b'+1:postag:DT'
--0.013567 Gtype    b'+1:postag:IN'
--0.014658 Supp     b'-1:postag:NN'
--0.015388 O        b'+1:lemma:co2'
--0.019498 O        b'+1:lemma:25'
--0.024384 O        b'-1:lemma:mm'
--0.026473 OD       b'+1:lemma:~'
--0.029376 Supp     b'-1:lemma:and'
--0.030278 O        b'lemma:\xc2\xb0c'
--0.033870 Gtype    b'-1:lemma:mg1655'
--0.035964 O        b'+1:lemma:rep1'
--0.036870 Anti     b'-1:postag:NN'
--0.037674 Med      b'-1:lemma:m63'
--0.041457 O        b'-1:lemma:for'
--0.042315 O        b'-1:lemma:in'
--0.043253 O        b'+1:lemma:5'
--0.054536 O        b'+1:lemma:antibody'
--0.056675 OD       b'+1:postag:CD'
--0.057484 O        b'-1:postag:VBN'
--0.057779 O        b'postag:RB'
--0.061765 O        b'-1:lemma:at'
--0.063699 O        b'-1:lemma:of'
--0.073053 Phase    b'+1:postag:NN'
--0.081144 O        b'-1:lemma:o2'
--0.083185 O        b'+1:lemma:-lcb-'
--0.085303 O        b'lemma:o2'
--0.090545 Gversion b'-1:postag:NN'
--0.090810 Gtype    b'lemma:fnr'
--0.094072 O        b'-1:postag:IN'
--0.095560 O        b'+1:lemma:300'
--0.095835 O        b'+1:lemma:culture'
--0.099835 Gtype    b'-1:postag:NN'
--0.104011 Gtype    b'-1:postag:DT'
--0.104295 O        b'-1:lemma:-lrb-'
--0.104392 O        b'+1:postag:CD'
--0.106605 O        b'lemma:e.'
--0.114926 O        b'lemma:aerobically'
--0.123054 Supp     b'-1:lemma:-'
--0.124613 O        b'-1:postag:-LRB-'
--0.130629 O        b'lemma:lb'
--0.135809 O        b'-1:lemma:delta'
--0.137484 O        b'+1:lemma:delta'
--0.145435 O        b'-1:lemma:30'
--0.147772 Phase    b'lemma:pahse'
--0.151829 O        b'-1:lemma:e.'
--0.152470 Phase    b'+1:lemma:pahse'
--0.153511 O        b'+1:lemma:arginine'
--0.156235 Temp     b'-1:postag:IN'
--0.165736 O        b'lemma:n2'
--0.167320 O        b'lemma:m63'
--0.171593 O        b'lemma:mg1655'
--0.171854 O        b'lemma:mg/ml'
--0.171854 O        b'-1:lemma:150'
--0.172097 O        b'+1:lemma:grow'
--0.174184 O        b'+1:lemma:-rrb-'
--0.176692 O        b'lemma:medium'
--0.190407 O        b'-1:lemma:n2'
--0.193709 Technique b'-1:lemma::'
--0.197195 Supp     b'+1:lemma:rifampicin'
--0.199110 Supp     b'+1:lemma:acetate'
--0.211904 Supp     b'lemma:and'
--0.212434 O        b'-1:lemma:fresh'
--0.215208 Med      b'+1:postag:CC'
--0.223718 Supp     b'+1:postag:VBN'
--0.225529 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.227506 O        b'-1:lemma:iptg'
--0.228252 O        b'lemma:grow'
--0.244665 O        b'+1:postag:-RRB-'
--0.248414 Phase    b'-1:lemma:at'
--0.252297 O        b'lemma:co2'
--0.262234 O        b'+1:lemma:until'
--0.264339 Med      b'+1:postag:NNS'
--0.271018 Supp     b'lemma:2'
--0.271420 O        b'+1:lemma:mm'
--0.274442 Air      b'-1:lemma:or'
--0.275533 Air      b'+1:postag:NNP'
--0.282985 O        b'lemma:k-12'
--0.283867 pH       b'postag:NN'
--0.289565 O        b'+1:postag:IN'
--0.292519 Gtype    b'postag:CD'
--0.299546 Supp     b'-1:postag:VBG'
--0.302599 Supp     b'-1:postag:NNP'
--0.304446 OD       b'+1:postag:NN'
--0.304579 O        b'-1:lemma:0.1'
--0.308132 O        b'lemma:30'
--0.315401 O        b'+1:postag:VBG'
--0.328419 O        b'lemma:\xe2\x88\x86'
--0.334410 O        b'+1:lemma:phase'
--0.339050 Med      b'postag:CD'
--0.339573 O        b'lemma:cell'
--0.349122 Gversion b'+1:postag:NN'
--0.350590 O        b'+1:lemma:cell'
--0.353274 O        b'-1:lemma:from'
--0.356173 O        b'-1:lemma:minimal'
--0.365952 Technique b'-1:postag::'
--0.377481 O        b'lemma:m9'
--0.387016 O        b'-1:lemma:um'
--0.387016 O        b'+1:lemma:paraquat'
--0.396762 O        b'lemma:minimal'
--0.399415 Med      b'+1:postag:IN'
--0.400174 O        b'-1:lemma:.'
--0.400174 O        b'-1:postag:.'
--0.405899 Gtype    b'+1:lemma:fnr'
--0.420549 Supp     b'+1:postag:IN'
--0.426457 Temp     b'postag:NN'
--0.443672 Med      b'+1:postag:NN'
--0.454874 O        b'-1:lemma:with'
--0.455975 O        b'-1:lemma:od600'
--0.460725 O        b'lemma:od600'
--0.476927 O        b'lemma:purify'
--0.513975 O        b'lemma:glucose'
--0.514369 O        b'+1:lemma:shake'
--0.516980 O        b'lemma:anaerobic'
--0.543673 O        b'+1:lemma:dissolve'
--0.575481 OD       b'+1:postag:CC'
--0.575983 O        b'+1:lemma:%'
--0.578458 O        b'+1:lemma:\xc2\xb0c'
--0.579234 O        b'+1:lemma:.'
--0.579234 O        b'+1:postag:.'
--0.590831 O        b'-1:lemma:until'
--0.593646 O        b'+1:lemma:minimal'
--0.598050 O        b'-1:lemma:rifampicin'
--0.599013 Anti     b'+1:postag:JJ'
--0.600816 O        b'-1:lemma:grow'
--0.609501 O        b'+1:postag:NNS'
--0.616694 O        b'lemma:mid-log'
--0.622505 OD       b'lemma:-lrb-'
--0.681173 Temp     b'postag:JJ'
--0.682190 O        b'lemma:\xce\xb4fur'
--0.683721 Phase    b'-1:postag:NN'
--0.699842 O        b'-1:lemma:cra'
--0.699863 O        b'+1:lemma:or'
--0.706770 OD       b'postag:-LRB-'
--0.726480 Anti     b'+1:lemma:anti-fur'
--0.739377 O        b'+1:lemma:0.3'
--0.759701 O        b'lemma:0.2'
--0.767286 O        b'-1:lemma:mid-log'
--0.769781 O        b'lemma:dissolve'
--0.773573 O        b'+1:lemma:_'
--0.796461 OD       b'postag:JJ'
--0.804019 O        b'+1:lemma:fecl2'
--0.817322 O        b'+1:lemma:c'
--0.823112 O        b'-1:lemma:0.2'
--0.856156 O        b'lemma:37'
--0.874673 O        b'-1:lemma:ml'
--0.897793 O        b'lemma:dpd'
--0.928954 O        b'lemma:0.3'
--0.935642 O        b'lemma:media'
--0.953224 Supp     b'postag:CC'
--0.962174 O        b'lemma:150'
--0.962174 O        b'+1:lemma:mg/ml'
--0.991546 Temp     b'+1:lemma:to'
--0.991546 Temp     b'+1:postag:TO'
--0.996229 O        b'-1:lemma:co2'
--1.000642 O        b'lemma:of'
--1.005860 O        b'-1:postag::'
--1.099013 O        b'lemma:20'
--1.117230 O        b'-1:lemma:~'
--1.139604 Air      b'postag:NN'
--1.144681 OD       b'+1:lemma:and'
--1.201437 O        b'-1:lemma:dissolve'
--1.201437 O        b'+1:lemma:methanol'
--1.236667 O        b'-1:lemma:sample'
--1.244866 O        b'lemma:wt'
--1.252945 O        b'+1:lemma:g/l'
--1.255778 O        b'-1:lemma:37'
--1.264177 Med      b'-1:postag:IN'
--1.288204 Supp     b'-1:lemma:%'
--1.302552 O        b'lemma:0.1'
--1.371688 O        b'lemma:anaerobically'
--1.410598 O        b'lemma:phase'
--1.489551 O        b'+1:lemma:+'
--1.506032 O        b'+1:lemma:supplement'
--1.532398 O        b'lemma:2h'
--1.532398 O        b'-1:lemma:additional'
--1.534894 Air      b'+1:postag:JJ'
--1.548281 O        b'+1:lemma:in'
--1.565843 Anti     b'postag:NNP'
--1.638452 O        b'postag:VBP'
--1.657980 O        b'lemma:rifampicin'
--1.822232 O        b'+1:lemma:at'
--1.836234 O        b'-1:postag:VBG'
--1.854980 O        b'-1:lemma:IP'
--1.925222 O        b'-1:lemma:2'
--1.936575 O        b'lemma:fecl2'
--1.945977 Air      b'-1:postag:JJ'
--2.044512 O        b'-1:lemma:nsrr'
--2.267485 Phase    b'-1:postag:JJ'
--2.297463 O        b'-1:lemma:rpob'
--2.299343 O        b'+1:lemma:hour'
--2.321612 O        b'lemma:methanol'
--2.467134 O        b'-1:lemma:ompr'
--2.690673 Supp     b'postag:JJ'
--3.133082 O        b'+1:lemma:2'
--3.547425 Phase    b'postag:JJ'
--3.603436 O        b'+1:lemma:1'
--4.365017 O        b'-1:lemma:_'
--5.016691 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.20934163148847484, 'c2': 5.972574594521125e-05}
+best CV score:0.8647885676297223
+model size: 0.05M
+
+Flat F1: 0.7568876974674016
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      0.955     0.913     0.933        23
+        Med      1.000     0.925     0.961        53
+       Temp      1.000     0.690     0.816        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.543     0.362     0.435        69
+       Anti      0.786     1.000     0.880        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.863     0.812     0.836        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.607     0.784     0.684       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.774     0.758     0.757       451
+
+
+Top likely transitions:
+Temp   -> Temp    6.372271
+Agit   -> Agit    6.336087
+Med    -> Med     5.775362
+Supp   -> Supp    5.599916
+OD     -> OD      5.514939
+Anti   -> Anti    5.400862
+Phase  -> Phase   5.214849
+Air    -> Air     4.870530
+Gtype  -> Gtype   4.826805
+O      -> O       4.601602
+Gversion -> Gversion 4.343416
+Technique -> Technique 4.055366
+pH     -> pH      3.102886
+Substrain -> Gtype   1.934887
+Air    -> O       1.597978
+O      -> Supp    1.582569
+Gtype  -> Supp    1.508336
+O      -> Technique 1.406325
+O      -> Gtype   1.205559
+O      -> Temp    0.833133
+Supp   -> O       0.751090
+O      -> Phase   0.676762
+Temp   -> O       0.670412
+Gtype  -> Air     0.616010
+Med    -> O       0.606543
+O      -> Anti    0.311020
+Technique -> Air     0.225375
+OD     -> O       0.192356
+O      -> Med     0.168459
+Phase  -> O       0.168068
+O      -> Gversion 0.143784
+O      -> pH      0.078839
+O      -> OD      0.075883
+Strain -> O       0.069008
+Gtype  -> Med     -0.229150
+Gtype  -> O       -0.660221
+O      -> Air     -0.746238
+Substrain -> O       -0.760215
+Phase  -> OD      -0.885028
+Technique -> Gtype   -1.154393
+Med    -> Supp    -1.787447
+
+
+Top unlikely transitions:
+Temp   -> Temp    6.372271
+Agit   -> Agit    6.336087
+Med    -> Med     5.775362
+Supp   -> Supp    5.599916
+OD     -> OD      5.514939
+Anti   -> Anti    5.400862
+Phase  -> Phase   5.214849
+Air    -> Air     4.870530
+Gtype  -> Gtype   4.826805
+O      -> O       4.601602
+Gversion -> Gversion 4.343416
+Technique -> Technique 4.055366
+pH     -> pH      3.102886
+Substrain -> Gtype   1.934887
+Air    -> O       1.597978
+O      -> Supp    1.582569
+Gtype  -> Supp    1.508336
+O      -> Technique 1.406325
+O      -> Gtype   1.205559
+O      -> Temp    0.833133
+Supp   -> O       0.751090
+O      -> Phase   0.676762
+Temp   -> O       0.670412
+Gtype  -> Air     0.616010
+Med    -> O       0.606543
+O      -> Anti    0.311020
+Technique -> Air     0.225375
+OD     -> O       0.192356
+O      -> Med     0.168459
+Phase  -> O       0.168068
+O      -> Gversion 0.143784
+O      -> pH      0.078839
+O      -> OD      0.075883
+Strain -> O       0.069008
+Gtype  -> Med     -0.229150
+Gtype  -> O       -0.660221
+O      -> Air     -0.746238
+Substrain -> O       -0.760215
+Phase  -> OD      -0.885028
+Technique -> Gtype   -1.154393
+Med    -> Supp    -1.787447
+
+
+Top positive:
+10.190054 Supp     b'lemma:Iron'
+9.112733 O        b'lemma:_'
+7.880021 Air      b'lemma:anaerobic'
+7.549281 Technique b'lemma:ChIP-exo'
+7.465093 Strain   b'+1:lemma:substr'
+7.422565 Med      b'lemma:MOPS'
+7.415432 Phase    b'lemma:exponential'
+7.415432 Phase    b'lemma:stationary'
+7.398082 Air      b'-1:lemma:ChIP-Seq'
+7.166683 O        b'lemma:2'
+7.146221 O        b'lemma:-'
+7.132564 Supp     b'lemma:pq'
+6.977885 Air      b'lemma:aerobic'
+6.744626 Gtype    b'lemma:wt'
+6.631092 Phase    b'lemma:mid-log'
+6.560555 O        b'lemma:1'
+6.447344 Technique b'lemma:chipseq'
+6.389162 Gtype    b'lemma:\xce\xb4cra'
+6.371591 Gversion b'lemma:asm584v2'
+6.280253 Supp     b'+1:lemma:\xc2\xb5m'
+6.224426 O        b'lemma:3'
+6.224046 O        b'-1:lemma:tag'
+6.202217 Air      b'lemma:Aerobic'
+6.046396 O        b'lemma:rpob'
+5.857469 Gversion b'lemma:nc'
+5.848042 O        b'lemma:Custom'
+5.738285 Gtype    b'lemma:wild-type'
+5.702974 O        b'lemma:Cra'
+5.644004 O        b'lemma:b'
+5.533358 Gtype    b'lemma:flag-tag'
+5.533358 Gtype    b'-1:lemma:c-terminal'
+5.521522 O        b'lemma:a'
+5.328505 Gtype    b'lemma:type'
+5.276884 Supp     b'lemma:nacl'
+5.252181 O        b'-1:lemma:ChIP-exo'
+5.206802 Gtype    b'+1:lemma:ph5'
+5.150774 Technique b'lemma:ChIP-Seq'
+5.068213 O        b'postag:IN'
+5.035817 O        b'lemma:rep1'
+4.983308 Vess     b'lemma:flask'
+4.983308 Vess     b'-1:lemma:warm'
+4.943797 O        b'lemma:rep3'
+4.854929 Supp     b'-1:lemma:Cra'
+4.845807 Gtype    b'lemma:\xe2\x88\x86'
+4.794055 Gtype    b'+1:lemma:type'
+4.645526 Gtype    b'lemma:arca8myc'
+4.620794 Gtype    b'lemma:\xce\xb4fur'
+4.559495 O        b'lemma:\xcf\x8332'
+4.549068 O        b'-1:lemma:type'
+4.420072 Supp     b'lemma:rifampicin'
+4.386336 Technique b'lemma:rna-seq'
+4.375116 Supp     b'lemma:acetate'
+4.337376 O        b'lemma:ompr'
+4.249331 O        b'postag:CC'
+4.232009 Supp     b'lemma:nitrate'
+4.189729 Supp     b'lemma:glucose'
+4.169856 Substrain b'lemma:mg1655'
+4.152149 Gtype    b'lemma:dfnr'
+4.143746 Supp     b'lemma:nh4cl'
+4.056334 O        b'+1:lemma:pq'
+4.052385 Gtype    b'lemma:pk4854'
+4.037199 Gtype    b'lemma:fnr8myc'
+3.985929 Anti     b'lemma:none'
+3.957986 Gtype    b'lemma:delta-fnr'
+3.954172 Med      b'lemma:lb'
+3.939606 Supp     b'-1:lemma:+'
+3.935266 Technique b'lemma:chip-seq'
+3.929436 O        b'postag:VBN'
+3.908650 Med      b'-1:lemma:ml'
+3.884593 Gversion b'-1:lemma:nc'
+3.878464 Anti     b'lemma:\xcf\x8332'
+3.863072 O        b'lemma:.'
+3.863072 O        b'postag:.'
+3.860626 O        b'lemma:chip'
+3.854556 Technique b'lemma:rnaseq'
+3.854116 O        b'postag::'
+3.783932 Agit     b'+1:lemma:rpm'
+3.781020 Gtype    b'lemma:\xce\xb4ompr'
+3.721025 Air      b'-1:lemma:-'
+3.718911 Agit     b'lemma:rpm'
+3.658315 O        b'-1:lemma:glucose'
+3.650822 Gtype    b'-1:lemma:\xe2\x88\x86'
+3.626592 Gtype    b'lemma:nsrr'
+3.625435 Supp     b'-1:lemma:with'
+3.621959 Med      b'+1:lemma:0.4'
+3.534472 Gtype    b'lemma:\xce\xb4soxr'
+3.534031 Supp     b'lemma:no3'
+3.532340 O        b'-1:lemma:0.3'
+3.529130 Temp     b'-1:lemma:sample'
+3.523066 O        b'lemma:with'
+3.479777 OD       b'lemma:od450'
+3.451557 Gtype    b'lemma:delta-arca'
+3.421135 Anti     b'lemma:seqa'
+3.408004 O        b'lemma:rep2'
+3.394045 O        b'-1:lemma:Aerobic'
+3.391719 Gversion b'lemma:chip-seq'
+3.391021 Supp     b'lemma:dpd'
+3.352795 O        b'-1:lemma:lb'
+3.334642 Technique b'-1:lemma:IP'
+3.303675 O        b'-1:lemma:0.3-0.35'
+3.272998 Air      b'lemma:anaerobically'
+3.245394 Supp     b'lemma:Leu'
+3.235692 Supp     b'lemma:Fe'
+3.223774 Technique b'-1:lemma:chip-exo'
+3.209091 Air      b'lemma:aerobically'
+3.198219 O        b'postag:VBG'
+3.170084 O        b'lemma:harbor'
+3.168019 Temp     b'-1:lemma:43'
+3.163951 Supp     b'lemma:arginine'
+3.160003 Gtype    b'+1:lemma:pq'
+3.153015 Anti     b'+1:lemma:antibody'
+3.115121 Strain   b'lemma:k-12'
+3.074034 Technique b'+1:lemma:chip-exo'
+3.071794 Air      b'postag:RB'
+3.069425 Substrain b'lemma:mg1655star'
+3.062133 Supp     b'lemma:Adenine'
+3.060892 Air      b'lemma:anaeroibc'
+3.056193 Temp     b'-1:lemma:\xcf\x8332'
+3.042361 Supp     b'+1:lemma:mm'
+3.019482 Gtype    b'-1:lemma:ptac'
+2.998564 O        b'-1:lemma:into'
+2.994519 pH       b'lemma:5.5'
+2.973677 Gversion b'lemma:.2'
+2.973677 Gversion b'-1:lemma:u00096'
+2.973445 O        b'-1:lemma:\xc2\xb0c'
+2.958977 Med      b'lemma:media'
+2.930356 O        b'+1:lemma:chip-seq'
+2.896285 Gtype    b'+1:lemma:with'
+2.895621 Gtype    b'-1:lemma:rpob'
+2.894434 Gtype    b'+1:lemma:flagtag'
+2.893824 O        b'lemma:CEL'
+2.871221 O        b'+1:lemma:arca-8myc'
+2.854072 Temp     b'+1:lemma:in'
+2.819779 Gtype    b'-1:lemma:delta'
+2.816913 O        b'+1:lemma:250'
+2.810671 O        b'+1:lemma:od600'
+2.799953 O        b'+1:lemma:mid-log'
+2.791088 Supp     b'-1:lemma:vol'
+2.782754 Gversion b'lemma:u00096'
+2.782754 Gversion b'+1:lemma:.2'
+2.762169 O        b'lemma:ml'
+2.714953 O        b'+1:postag:NNP'
+2.698964 Gtype    b'lemma:\xce\xb4oxyr'
+2.673462 Gtype    b'-1:postag:VBG'
+2.672861 Med      b'lemma:L'
+2.672861 Med      b'+1:lemma:broth'
+2.665253 O        b'+1:lemma:acetate'
+2.647014 Phase    b'-1:lemma:mid-log'
+2.641349 Med      b'lemma:m63'
+2.626973 Substrain b'+1:lemma:phtpg'
+2.622910 Gversion b'lemma:000913'
+2.605384 O        b'lemma::'
+2.594999 pH       b'+1:postag:CD'
+2.538219 O        b'lemma:s'
+2.537207 Med      b'lemma:broth'
+2.537207 Med      b'-1:lemma:L'
+2.527821 pH       b'lemma:ph5'
+2.527821 pH       b'+1:lemma:.5'
+2.515586 O        b'+1:lemma:coli'
+2.509864 Supp     b'+1:lemma:1'
+2.508452 Med      b'-1:lemma:fresh'
+2.494059 Supp     b'lemma:fructose'
+2.475120 Temp     b'lemma:43'
+2.463892 O        b'-1:lemma:rpm'
+2.434009 Anti     b'lemma:anti-myc'
+2.426928 O        b'+1:postag:RB'
+2.422956 Gtype    b'+1:lemma:_'
+2.396151 Med      b'+1:lemma:2.0'
+2.362312 O        b'lemma:condition'
+2.343697 O        b'+1:lemma:or'
+2.310123 Med      b'-1:lemma:glucose'
+2.304110 Temp     b'lemma:\xc2\xb0c'
+2.250756 Gtype    b'+1:postag::'
+2.243158 Med      b'lemma:minimal'
+2.236131 Temp     b'-1:lemma:37'
+2.232349 Temp     b'+1:lemma:\xc2\xb0c'
+2.215545 Gtype    b'lemma:deltaseqa'
+2.215545 Gtype    b'-1:lemma:old'
+2.168823 O        b'postag:NNS'
+2.142782 pH       b'+1:lemma:5.5'
+2.133425 O        b'lemma:at'
+2.127108 Gtype    b'-1:lemma:factor'
+2.118652 O        b'lemma:agitation'
+2.100263 Med      b'+1:lemma:minimal'
+2.099378 Supp     b'+1:lemma:min'
+2.099095 Phase    b'lemma:phase'
+2.087589 Supp     b'+1:lemma:and'
+2.072277 O        b'+1:lemma:sparging'
+2.066002 Supp     b'+1:lemma:Deficient'
+2.054354 O        b'+1:lemma:anti-fur'
+2.053062 O        b'lemma:genotype/variation'
+2.041875 O        b'-1:lemma:l1'
+2.039194 Gtype    b'-1:lemma::'
+2.031026 Supp     b'-1:lemma:\xc2\xb5m'
+2.010199 O        b'postag:DT'
+2.007491 O        b'lemma:culture'
+2.000485 O        b'postag:VBD'
+1.989764 OD       b'lemma:0.3-0.35'
+1.982940 Supp     b'-1:lemma:sodium'
+1.980905 Gversion b'postag:CD'
+
+
+Top negative:
+0.039807 OD       b'+1:postag:,'
+0.039185 O        b'lemma:um'
+0.035254 O        b'+1:postag:JJ'
+0.030051 O        b'+1:postag:SYM'
+0.027873 Supp     b'-1:lemma:m'
+0.025396 O        b"lemma:'s"
+0.025396 O        b'postag:POS'
+0.025396 O        b'-1:lemma:manufacturer'
+0.025396 O        b'+1:lemma:instruction'
+0.024333 Supp     b'-1:lemma:rifampicin'
+0.023672 O        b'+1:lemma:more'
+0.023672 O        b'+1:postag:JJR'
+0.017097 O        b'lemma:final'
+0.014163 O        b'+1:lemma:_'
+0.013275 O        b'lemma:mm'
+0.012005 Anti     b'lemma:subunit'
+0.012005 Anti     b'+1:lemma:\xce\xb2'
+0.003898 Gtype    b'lemma:Fur'
+0.002851 Gtype    b'+1:postag:NNP'
+0.002190 O        b'lemma:%'
+0.001946 Gtype    b'lemma:transcription'
+0.001946 Gtype    b'+1:lemma:factor'
+0.001569 O        b'postag:VBZ'
+0.001233 O        b'lemma:short'
+0.001233 O        b'+1:lemma:rnase'
+0.000698 Air      b'-1:lemma:anaerobically'
+0.000218 Med      b'+1:postag:VBG'
+0.000187 Temp     b'-1:lemma:control'
+0.000185 Gversion b'-1:lemma::'
+0.000177 Phase    b'-1:postag::'
+0.000113 Supp     b'+1:postag:RB'
+0.000102 O        b'+1:lemma:37'
+0.000083 Supp     b'lemma:ph'
+0.000058 Phase    b'+1:lemma:.'
+0.000058 Phase    b'+1:postag:.'
+0.000058 Supp     b'-1:lemma:ph'
+0.000040 O        b'-1:lemma:m63'
+0.000031 Gtype    b'+1:lemma:,'
+0.000031 Gtype    b'+1:postag:,'
+0.000023 O        b'lemma:IP'
+0.000019 Supp     b'lemma:300'
+0.000019 Supp     b'+1:lemma:\xc2\xb5l'
+0.000009 Temp     b'lemma:sample'
+0.000007 Temp     b'-1:lemma:see'
+0.000007 Supp     b'lemma:feso4'
+0.000004 O        b'lemma:acetate'
+0.000002 O        b'lemma:1:500'
+0.000002 O        b'-1:lemma:back'
+0.000001 Temp     b'lemma:control'
+-0.000014 O        b'+1:lemma:7.6'
+-0.000065 O        b'lemma:aerobic'
+-0.000130 O        b'-1:lemma:rpob'
+-0.000160 Temp     b'postag:JJ'
+-0.000216 O        b'+1:lemma:contain'
+-0.000303 O        b'-1:lemma:minimal'
+-0.000303 O        b'+1:lemma:of'
+-0.000650 O        b'+1:lemma:95'
+-0.002197 O        b'-1:lemma:m'
+-0.002284 O        b'-1:postag:JJ'
+-0.002326 O        b'+1:lemma:,'
+-0.002326 O        b'+1:postag:,'
+-0.003392 Gtype    b'+1:postag:NN'
+-0.004717 O        b'+1:lemma:fnr'
+-0.005411 Gversion b'+1:postag:NN'
+-0.005829 Air      b'-1:postag:VBN'
+-0.010227 Supp     b'+1:lemma:of'
+-0.011686 O        b'+1:lemma:~'
+-0.011760 Gtype    b'+1:postag:CD'
+-0.011855 O        b'-1:lemma:5'
+-0.012174 O        b'-1:lemma:.'
+-0.012174 O        b'-1:postag:.'
+-0.014528 O        b'lemma:20'
+-0.016459 Agit     b'postag:NN'
+-0.020390 Technique b'-1:lemma::'
+-0.022295 O        b'+1:lemma:-lrb-'
+-0.023051 O        b'lemma:od600'
+-0.027871 Gtype    b'postag:VBG'
+-0.033411 O        b'-1:postag:-RRB-'
+-0.035506 O        b'lemma:m63'
+-0.038491 Supp     b'-1:lemma:10'
+-0.043161 O        b'+1:lemma:%'
+-0.051673 Gtype    b'-1:postag:NN'
+-0.053797 Supp     b'lemma:mm'
+-0.055546 Air      b'+1:postag:CD'
+-0.061075 O        b'lemma:1m'
+-0.068387 O        b'+1:lemma:for'
+-0.069911 O        b'+1:lemma:-rrb-'
+-0.075578 O        b'-1:lemma:37'
+-0.091100 O        b'-1:lemma:of'
+-0.094169 O        b'-1:lemma:until'
+-0.099146 Supp     b'postag:CD'
+-0.114939 O        b'+1:lemma:ph'
+-0.122454 O        b'lemma:wt'
+-0.126051 O        b'-1:postag:DT'
+-0.132413 Anti     b'+1:postag:JJ'
+-0.132521 O        b'-1:lemma:iptg'
+-0.138791 O        b'-1:lemma:from'
+-0.142787 Supp     b'+1:postag:-RRB-'
+-0.148089 Gtype    b'postag:CD'
+-0.160312 O        b'-1:lemma:-lrb-'
+-0.163006 O        b'+1:postag:-LRB-'
+-0.163639 O        b'lemma:medium'
+-0.171523 Supp     b'+1:lemma:fructose'
+-0.175650 Air      b'postag:CD'
+-0.176789 Gtype    b'-1:lemma:mg1655'
+-0.209413 Supp     b'lemma:10'
+-0.229904 Agit     b'-1:postag:NN'
+-0.233855 Supp     b'postag:NN'
+-0.254205 Supp     b'-1:lemma:dpd'
+-0.270474 O        b'-1:lemma:\xe2\x88\x86'
+-0.322402 O        b'-1:lemma:1m'
+-0.327143 Supp     b'postag:CC'
+-0.327477 O        b'lemma:aerobically'
+-0.334210 Med      b'-1:postag:CD'
+-0.337947 O        b'lemma:mid-log'
+-0.351998 O        b'lemma:minimal'
+-0.358452 Phase    b'-1:lemma:at'
+-0.378720 O        b'-1:lemma:final'
+-0.390763 Supp     b'+1:lemma:dpd'
+-0.395432 Med      b'postag:CD'
+-0.398943 O        b'lemma:37'
+-0.413061 O        b'+1:lemma:+'
+-0.428486 Gtype    b'+1:lemma:-lrb-'
+-0.435167 O        b'lemma:\xce\xb4fur'
+-0.445119 O        b'-1:lemma:delta'
+-0.454315 O        b'+1:lemma:.'
+-0.454315 O        b'+1:postag:.'
+-0.455581 Supp     b'-1:lemma:-lrb-'
+-0.463177 Phase    b'+1:postag:NN'
+-0.463568 Med      b'+1:postag:NN'
+-0.470619 Supp     b'+1:postag:VBN'
+-0.474915 O        b'-1:lemma:sample'
+-0.477379 Med      b'-1:postag:NN'
+-0.481602 O        b'lemma:nitrogen'
+-0.484766 O        b'lemma:ph'
+-0.504002 O        b'-1:postag:-LRB-'
+-0.509161 Supp     b'-1:postag:-LRB-'
+-0.510610 Air      b'-1:lemma:or'
+-0.519487 O        b'+1:lemma:supplement'
+-0.524200 O        b'-1:lemma:n2'
+-0.543542 O        b'+1:postag:IN'
+-0.594418 pH       b'postag:NN'
+-0.615404 O        b'-1:postag:IN'
+-0.619607 O        b'-1:lemma:cra'
+-0.656333 O        b'-1:lemma:mm'
+-0.688334 O        b'+1:postag:-RRB-'
+-0.710435 O        b'-1:lemma:ml'
+-0.716844 O        b'lemma:anaerobically'
+-0.730927 O        b'+1:lemma:until'
+-0.747298 O        b'lemma:media'
+-0.754688 O        b'+1:lemma:mm'
+-0.768772 Med      b'-1:postag:IN'
+-0.775892 Supp     b'+1:lemma:acetate'
+-0.788215 Technique b'-1:postag::'
+-0.802700 O        b'-1:lemma:co2'
+-0.820146 O        b'lemma:methanol'
+-0.863797 Supp     b'-1:postag:NNP'
+-0.897516 O        b'+1:lemma:at'
+-0.907339 O        b'+1:lemma:2.0'
+-0.918505 O        b'-1:postag::'
+-0.945238 O        b'-1:lemma:dissolve'
+-0.945238 O        b'+1:lemma:methanol'
+-0.959379 Supp     b'+1:lemma:rifampicin'
+-0.986744 O        b'-1:lemma:nsrr'
+-0.993158 O        b'+1:lemma:g/l'
+-1.104395 O        b'lemma:2h'
+-1.104395 O        b'-1:lemma:additional'
+-1.107657 O        b'+1:lemma:1m'
+-1.131265 O        b'+1:postag:VBG'
+-1.178961 O        b'lemma:of'
+-1.201973 O        b'-1:lemma:fresh'
+-1.209225 O        b'postag:VBP'
+-1.212055 O        b'-1:lemma:ph'
+-1.241153 Phase    b'-1:postag:JJ'
+-1.329472 O        b'lemma:30'
+-1.335303 Temp     b'postag:NN'
+-1.335403 Supp     b'+1:lemma:-lrb-'
+-1.347076 O        b'-1:lemma:IP'
+-1.360555 Air      b'+1:postag:JJ'
+-1.373057 Supp     b'+1:postag:-LRB-'
+-1.494837 O        b'-1:lemma:30'
+-1.531593 Anti     b'postag:NNP'
+-1.575468 Phase    b'postag:JJ'
+-1.599957 Temp     b'+1:postag:IN'
+-1.732683 Air      b'postag:NN'
+-1.747609 OD       b'+1:postag:NN'
+-1.793039 O        b'lemma:rifampicin'
+-1.853309 Supp     b'postag:JJ'
+-1.930986 O        b'+1:lemma:1'
+-1.993172 Supp     b'+1:lemma:,'
+-1.993172 Supp     b'+1:postag:,'
+-2.085464 O        b'-1:lemma:2'
+-2.086023 O        b'+1:lemma:in'
+-2.172547 O        b'lemma:0.3'
+-2.181747 O        b'-1:postag:VBG'
+-2.236719 O        b'-1:lemma:1'
+-2.380060 O        b'-1:lemma:vol'
+-2.454507 O        b'+1:lemma:2'
+-4.266439 O        b'-1:lemma:_'
+-4.856613 O        b'-1:lemma::'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.20645497959678813, 'c2': 0.017572644849766363}
-best CV score:0.7977309817293199
-model size: 0.06M
-
-Flat F1: 0.784234402165812
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.807     0.742     0.773        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.866     0.792     0.828       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.818     0.662     0.732       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.859     0.740     0.784       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.425591
-OD     -> OD      5.826527
-Temp   -> Temp    5.548786
-Med    -> Med     5.385181
-Anti   -> Anti    5.274493
-Air    -> Air     5.273813
-Phase  -> Phase   4.728944
-Gtype  -> Gtype   4.437920
-Gversion -> Gversion 4.349816
-O      -> O       4.268725
-Supp   -> Supp    3.971396
-Technique -> Technique 3.834387
-pH     -> pH      2.157022
-O      -> Supp    1.775419
-Gtype  -> Supp    1.744617
-Substrain -> Gtype   1.701513
-Air    -> O       1.650192
-O      -> Gtype   1.270693
-O      -> Technique 1.253973
-Technique -> Air     0.977999
-O      -> Anti    0.884095
-O      -> Temp    0.762865
-Med    -> O       0.608226
-OD     -> Phase   0.415201
-Temp   -> O       0.355964
-Gtype  -> Air     0.349440
-O      -> Gversion 0.343072
-Gtype  -> pH      0.331974
-O      -> Med     0.236453
-Phase  -> O       0.133978
-Supp   -> O       0.132584
-O      -> Strain  0.015869
-O      -> Phase   0.000848
-O      -> OD      -0.004725
-Technique -> OD      -0.009324
-Technique -> O       -0.010626
-Technique -> pH      -0.028457
-Supp   -> Air     -0.068848
-OD     -> Air     -0.084459
-Supp   -> OD      -0.119773
-OD     -> Med     -0.182306
-Gtype  -> Med     -0.204270
-Technique -> Gtype   -0.212005
-Gtype  -> O       -0.327673
-Gtype  -> Anti    -0.356226
-O      -> Air     -0.606839
-OD     -> O       -0.668006
-Agit   -> O       -0.720674
-Substrain -> O       -0.778994
-Supp   -> Med     -0.779854
-
-
-Top unlikely transitions:
-Med    -> Med     5.385181
-Anti   -> Anti    5.274493
-Air    -> Air     5.273813
-Phase  -> Phase   4.728944
-Gtype  -> Gtype   4.437920
-Gversion -> Gversion 4.349816
-O      -> O       4.268725
-Supp   -> Supp    3.971396
-Technique -> Technique 3.834387
-pH     -> pH      2.157022
-O      -> Supp    1.775419
-Gtype  -> Supp    1.744617
-Substrain -> Gtype   1.701513
-Air    -> O       1.650192
-O      -> Gtype   1.270693
-O      -> Technique 1.253973
-Technique -> Air     0.977999
-O      -> Anti    0.884095
-O      -> Temp    0.762865
-Med    -> O       0.608226
-OD     -> Phase   0.415201
-Temp   -> O       0.355964
-Gtype  -> Air     0.349440
-O      -> Gversion 0.343072
-Gtype  -> pH      0.331974
-O      -> Med     0.236453
-Phase  -> O       0.133978
-Supp   -> O       0.132584
-O      -> Strain  0.015869
-O      -> Phase   0.000848
-O      -> OD      -0.004725
-Technique -> OD      -0.009324
-Technique -> O       -0.010626
-Technique -> pH      -0.028457
-Supp   -> Air     -0.068848
-OD     -> Air     -0.084459
-Supp   -> OD      -0.119773
-OD     -> Med     -0.182306
-Gtype  -> Med     -0.204270
-Technique -> Gtype   -0.212005
-Gtype  -> O       -0.327673
-Gtype  -> Anti    -0.356226
-O      -> Air     -0.606839
-OD     -> O       -0.668006
-Agit   -> O       -0.720674
-Substrain -> O       -0.778994
-Supp   -> Med     -0.779854
-Gtype  -> OD      -1.018491
-Med    -> Supp    -1.466475
-Phase  -> OD      -1.648011
-
-
-Top positive:
-7.908476 O        b'lemma:_'
-7.519798 Supp     b'lemma:Iron'
-6.893122 Air      b'lemma:anaerobic'
-6.757207 O        b'lemma:1'
-6.526738 Air      b'lemma:aerobic'
-6.246963 Phase    b'lemma:stationary'
-6.216490 Strain   b'lemma:k-12'
-6.159501 Technique b'lemma:ChIP-exo'
-5.949001 Supp     b'lemma:nitrate'
-5.557355 O        b'lemma:rpob'
-5.556016 Phase    b'lemma:mid-log'
-5.526361 O        b'lemma:2'
-5.249738 Technique b'lemma:chipseq'
-5.235064 Air      b'-1:lemma:ChIP-Seq'
-5.174037 O        b'lemma:3'
-5.050373 O        b'postag:IN'
-4.985897 Supp     b'lemma:pq'
-4.921604 Substrain b'lemma:mg1655'
-4.872348 Gtype    b'lemma:\xce\xb4cra'
-4.847236 Gversion b'lemma:asm584v2'
-4.762705 O        b'-1:lemma:tag'
-4.726906 OD       b'lemma:od600'
-4.660975 Gtype    b'lemma:type'
-4.628321 O        b'lemma:Custom'
-4.553702 O        b'lemma:rep1'
-4.515219 Med      b'lemma:MOPS'
-4.507185 Gversion b'lemma:nc'
-4.464398 Air      b'lemma:Aerobic'
-4.453084 Med      b'lemma:LB'
-4.447532 Supp     b'+1:lemma:\xc2\xb5m'
-4.437438 O        b'-1:lemma:ChIP-exo'
-4.404385 O        b'lemma:rep2'
-4.373164 Supp     b'lemma:nh4cl'
-4.365179 Gtype    b'lemma:flag-tag'
-4.365179 Gtype    b'-1:lemma:c-terminal'
-4.354053 O        b'postag::'
-4.297412 O        b'lemma:\xcf\x8332'
-4.284115 Gtype    b'+1:lemma:type'
-4.278996 O        b'lemma:b'
-4.258389 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.241615 Gtype    b'lemma:wt'
-4.228158 Med      b'lemma:lb'
-4.218565 Gtype    b'lemma:arca8myc'
-4.218302 Technique b'lemma:ChIP-Seq'
-4.180599 Supp     b'lemma:glucose'
-4.160405 O        b'lemma:rep3'
-4.081991 O        b'lemma:Cra'
-3.932540 O        b'lemma:a'
-3.844330 Technique b'lemma:rna-seq'
-3.814781 Gtype    b'lemma:delta-arca'
-3.626994 Gtype    b'lemma:fnr8myc'
-3.606800 Supp     b'lemma:acetate'
-3.573033 Supp     b'lemma:Fe'
-3.567339 Technique b'lemma:chip-seq'
-3.563430 Supp     b'lemma:rifampicin'
-3.511453 OD       b'lemma:od450'
-3.511078 O        b'lemma:.'
-3.511078 O        b'postag:.'
-3.438725 Temp     b'-1:lemma:sample'
-3.393434 Supp     b'lemma:dpd'
-3.386786 Supp     b'lemma:no3'
-3.357689 Anti     b'lemma:none'
-3.339507 Med      b'+1:lemma:0.4'
-3.299536 Gtype    b'lemma:\xe2\x88\x86'
-3.288791 O        b'+1:lemma:od600'
-3.273758 Technique b'lemma:rnaseq'
-3.258770 Gtype    b'lemma:delta-fnr'
-3.254592 O        b'postag:VBN'
-3.228840 Supp     b'lemma:fructose'
-3.219194 Gtype    b'lemma:\xce\xb4fur'
-3.208266 O        b'lemma:CEL'
-3.206942 Gtype    b'lemma:nsrr'
-3.177189 O        b'-1:lemma:Aerobic'
-3.129133 Technique b'-1:lemma:IP'
-3.128048 O        b'-1:lemma:0.3-0.35'
-3.112441 O        b'-1:lemma:type'
-3.098709 Gversion b'-1:lemma:nc'
-3.051729 Vess     b'lemma:flask'
-3.051729 Vess     b'-1:lemma:warm'
-3.008997 Supp     b'+1:lemma:1'
-2.987213 pH       b'lemma:ph5'
-2.987213 pH       b'+1:lemma:.5'
-2.977412 Anti     b'lemma:seqa'
-2.955347 Gtype    b'lemma:wild-type'
-2.951444 O        b'lemma:-'
-2.937212 O        b'+1:postag:RB'
-2.916028 Supp     b'lemma:arginine'
-2.840642 O        b'-1:lemma:glucose'
-2.820501 Gtype    b'+1:lemma:ph5'
-2.791333 Anti     b'+1:lemma:antibody'
-2.774879 Gversion b'lemma:chip-seq'
-2.771457 Anti     b'lemma:anti-myc'
-2.765907 O        b'lemma:chip'
-2.735612 Gtype    b'+1:lemma:flagtag'
-2.722421 Med      b'lemma:m63'
-2.721104 O        b'lemma:or'
-2.699589 Temp     b'lemma:\xc2\xb0c'
-2.681423 O        b'lemma:with'
-2.669444 Med      b'+1:lemma:minimal'
-2.666834 Gversion b'lemma:u00096'
-2.666834 Gversion b'+1:lemma:.2'
-2.660974 Gtype    b'+1:lemma:pq'
-2.654887 OD       b'+1:lemma:stationary'
-2.644825 Gtype    b'+1:lemma:with'
-2.637258 Supp     b'+1:lemma:2'
-2.578615 Gtype    b'lemma:\xce\xb4ompr'
-2.569922 O        b'-1:lemma:anaerobic'
-2.559477 Temp     b'+1:lemma:\xc2\xb0c'
-2.558177 Supp     b'-1:lemma:Cra'
-2.555473 Gversion b'lemma:.2'
-2.555473 Gversion b'-1:lemma:u00096'
-2.519787 O        b'postag:CC'
-2.515611 Gtype    b'-1:lemma:ptac'
-2.474668 Technique b'-1:lemma:chip-exo'
-2.465084 Gversion b'lemma:000913'
-2.459269 O        b'+1:lemma:pq'
-2.454369 Strain   b'+1:lemma:substr'
-2.453079 O        b'postag:DT'
-2.447446 Temp     b'-1:lemma:\xcf\x8332'
-2.434523 Technique b'+1:lemma:chip-exo'
-2.415981 Supp     b'lemma:nacl'
-2.400381 O        b'+1:postag:NNP'
-2.395375 O        b'lemma:s'
-2.378114 pH       b'lemma:.5'
-2.378114 pH       b'-1:lemma:ph5'
-2.360956 Med      b'+1:lemma:2.0'
-2.360197 Temp     b'-1:lemma:43'
-2.354343 O        b'-1:lemma:lb'
-2.333302 Gtype    b'-1:lemma:rpob'
-2.331044 Supp     b'+1:lemma:_'
-2.265756 O        b'-1:lemma:l1'
-2.256561 Supp     b'-1:lemma:\xc2\xb5m'
-2.253390 Air      b'-1:lemma:-'
-2.244110 O        b'lemma:oxyr'
-2.231965 Air      b'lemma:anaerobically'
-2.211436 Anti     b'lemma:anti-rpos'
-2.204750 O        b'-1:lemma:stpa'
-2.194353 OD       b'-1:lemma:~'
-2.189113 Gtype    b'lemma:\xce\xb4soxs'
-2.183419 Air      b'postag:RB'
-2.170778 Supp     b'-1:lemma:+'
-2.151725 Temp     b'lemma:43'
-2.127054 Temp     b'lemma:37'
-2.124907 Supp     b'lemma:20'
-2.115142 O        b'+1:lemma:o.d.'
-2.111143 Supp     b'lemma:Leu'
-2.107663 O        b'lemma:Lrp'
-2.107472 Temp     b'-1:lemma:37'
-2.094728 Gtype    b'lemma:ptac'
-2.073944 O        b'+1:lemma:chip-seq'
-2.062388 Supp     b'lemma:iptg'
-2.042062 O        b'lemma:affyexp'
-2.040790 Med      b'lemma:media'
-2.031837 O        b'lemma:culture'
-2.024586 O        b'postag:VBG'
-2.010374 Vess     b'-1:postag:VBN'
-2.009201 Gtype    b'lemma:pk4854'
-2.002974 Med      b'lemma:glucose'
-1.998019 Gtype    b'+1:lemma:_'
-1.980119 Supp     b'+1:lemma:hour'
-1.975173 O        b'lemma:chip-arca'
-1.959423 Supp     b'-1:lemma:with'
-1.922869 Technique b'-1:lemma:input'
-1.921526 O        b'lemma:ompr'
-1.910950 Med      b'lemma:broth'
-1.910950 Med      b'-1:lemma:L'
-1.910014 Gtype    b'lemma:deltaseqa'
-1.910014 Gtype    b'-1:lemma:old'
-1.905010 O        b'-1:lemma:0.3'
-1.901042 OD       b'lemma:0.3'
-1.900964 Med      b'lemma:L'
-1.900964 Med      b'+1:lemma:broth'
-1.899018 Supp     b'+1:lemma:Deficient'
-1.893912 Air      b'lemma:Anaerobic'
-1.893451 Med      b'-1:lemma:ml'
-1.870173 O        b'lemma:Fur'
-1.848155 pH       b'+1:postag:CD'
-1.823256 O        b'+1:lemma:coli'
-1.818674 Gtype    b'-1:lemma:nsrr'
-1.808290 Substrain b'+1:lemma:phtpg'
-1.805456 Phase    b'-1:lemma:mid-log'
-1.797810 Med      b'-1:lemma:glucose'
-1.796653 Supp     b'lemma:methanol'
-1.792416 O        b'-1:lemma:\xc2\xb0c'
-1.781537 Supp     b'lemma:Adenine'
-1.779649 Air      b'-1:lemma:grow'
-1.777565 Technique b'+1:lemma:rna-seq'
-1.776039 OD       b'lemma:phase'
-1.775438 O        b'lemma:condition'
-1.763711 Air      b'-1:lemma:phase'
-1.762988 Gversion b'lemma:_'
-1.759448 O        b'-1:lemma:dpd'
-1.736984 O        b'lemma:genotype/variation'
-1.716841 O        b'lemma:argr'
-1.709815 O        b'postag:VBD'
-1.687639 Air      b'-1:lemma:co2'
-1.686138 Gversion b'postag:CD'
-1.676377 Phase    b'-1:lemma:until'
-1.672693 Gtype    b'lemma:WT'
-1.671406 Phase    b'+1:lemma:for'
-
-
-Top negative:
-0.015104 Vess     b'+1:postag:IN'
-0.014949 OD       b'-1:lemma:to'
-0.014949 OD       b'-1:postag:TO'
-0.013481 O        b'+1:lemma:nitrate'
-0.012911 O        b'-1:lemma:mm'
-0.012853 O        b'-1:lemma:m63'
-0.012845 Phase    b'+1:lemma:aerobically'
-0.012531 Phase    b'+1:postag:RB'
-0.010531 OD       b'+1:lemma:coli'
-0.010197 Air      b'postag:-LRB-'
-0.007967 O        b'+1:lemma:mm'
-0.007668 Air      b'-1:postag:-LRB-'
-0.007530 O        b'+1:lemma:wt'
-0.007412 O        b'+1:lemma:for'
-0.006443 Med      b'-1:lemma:g/l'
-0.005977 Temp     b'-1:postag:NN'
-0.005028 OD       b'-1:lemma:growth'
-0.004138 Technique b'-1:postag:NN'
-0.003008 O        b'lemma:fresh'
-0.002709 O        b'+1:postag:SYM'
-0.002549 Supp     b'+1:lemma:deficient'
-0.002275 Technique b'+1:postag:-RRB-'
-0.002219 O        b'+1:lemma:_'
-0.001749 O        b'lemma:dpd'
-0.001500 Temp     b'postag:VB'
-0.001375 Gtype    b'lemma:cra-8myc-tagged'
-0.001375 Gtype    b'lemma:fur-8myc'
-0.000712 O        b'-1:postag:VBZ'
-0.000676 O        b'+1:lemma:minute'
-0.000589 Temp     b'+1:postag:NNS'
-0.000468 Supp     b'lemma:um'
-0.000451 Gtype    b'lemma:Combined'
-0.000451 Gtype    b'+1:lemma:input'
-0.000346 O        b'postag:VBZ'
-0.000331 Supp     b'-1:lemma:250'
-0.000251 O        b'lemma:-80'
-0.000219 Temp     b'-1:postag:NNS'
-0.000204 O        b'+1:lemma:total'
-0.000185 Air      b'+1:postag::'
-0.000154 O        b'-1:lemma:to'
-0.000154 O        b'-1:postag:TO'
-0.000148 Gversion b'-1:postag::'
-0.000078 O        b'+1:lemma:dpd'
-0.000049 Gtype    b'lemma:inducible'
-0.000049 Gtype    b'-1:lemma:carrying'
-0.000049 Gtype    b'+1:lemma:ptrc'
-0.000030 OD       b'+1:lemma:0.35'
-0.000027 Anti     b'+1:lemma:tag'
-0.000010 OD       b'lemma:mg1655'
-0.000009 OD       b'-1:lemma:k-12'
--0.000003 Gtype    b'+1:postag:NNS'
--0.000145 O        b'lemma:m63'
--0.000217 O        b'-1:lemma:um'
--0.000217 O        b'+1:lemma:paraquat'
--0.000321 Temp     b'-1:lemma:\xc2\xb0c'
--0.000324 Agit     b'postag:NN'
--0.000658 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.000729 Air      b'-1:lemma:,'
--0.000729 Air      b'-1:postag:,'
--0.001373 Gtype    b'postag:CD'
--0.001602 Supp     b'+1:lemma:-rrb-'
--0.001692 Supp     b'+1:postag:-RRB-'
--0.002077 O        b'lemma:lb'
--0.002511 O        b'-1:lemma:,'
--0.002511 O        b'-1:postag:,'
--0.003565 OD       b'+1:postag:-LRB-'
--0.004827 O        b'-1:lemma:g/l'
--0.007036 Air      b'+1:lemma:25'
--0.007105 O        b'+1:lemma:rep1'
--0.007327 Supp     b'lemma:mm'
--0.008864 O        b'+1:lemma:c'
--0.009788 Air      b'-1:lemma:aerobically'
--0.011509 O        b'-1:postag:VBN'
--0.011813 O        b'+1:lemma:shake'
--0.014323 Air      b'lemma:25'
--0.017276 Air      b'+1:lemma:-lrb-'
--0.017627 O        b'+1:lemma:aerobically'
--0.018161 O        b'lemma:e.'
--0.020084 Med      b'-1:postag:CD'
--0.021369 O        b'lemma:glucose'
--0.023787 Gtype    b'-1:postag:NN'
--0.034266 OD       b'postag:JJ'
--0.035836 Med      b'postag:CD'
--0.043749 O        b'-1:lemma:o2'
--0.049597 Gtype    b'-1:postag:DT'
--0.050879 O        b'+1:lemma:300'
--0.051292 Phase    b'-1:postag:JJ'
--0.052811 Phase    b'-1:postag:NN'
--0.057812 O        b'-1:lemma:rifampicin'
--0.064533 O        b'-1:lemma:e.'
--0.067797 O        b'+1:lemma:until'
--0.076803 O        b'lemma:150'
--0.076803 O        b'+1:lemma:mg/ml'
--0.080714 O        b'+1:lemma:5'
--0.090840 Gversion b'+1:postag:NN'
--0.099773 OD       b'+1:postag:CD'
--0.103778 O        b'-1:lemma:-lrb-'
--0.104888 Anti     b'+1:postag:JJ'
--0.112142 Technique b'-1:lemma::'
--0.119753 Air      b'postag:CC'
--0.127293 O        b'-1:lemma:0.1'
--0.127394 O        b'+1:lemma:.'
--0.127394 O        b'+1:postag:.'
--0.129048 Air      b'-1:lemma:or'
--0.129819 O        b'-1:lemma:from'
--0.138472 O        b'-1:postag:IN'
--0.146711 Air      b'-1:postag:CC'
--0.147481 O        b'+1:lemma:-rrb-'
--0.155126 O        b'+1:lemma:antibody'
--0.155172 O        b'lemma:co2'
--0.168963 Gtype    b'-1:postag:CD'
--0.169956 O        b'+1:postag:NNS'
--0.174119 Supp     b'postag:CC'
--0.179294 O        b'-1:lemma:1'
--0.191426 O        b'+1:lemma:arginine'
--0.196031 O        b'-1:lemma:cra'
--0.199976 O        b'lemma:anaerobic'
--0.204578 O        b'lemma:30'
--0.224096 Med      b'-1:postag:NN'
--0.230003 Phase    b'+1:postag:NN'
--0.236956 O        b'+1:lemma:%'
--0.241481 O        b'-1:lemma:30'
--0.264234 Air      b'postag:CD'
--0.270046 O        b'lemma:\xce\xb4fur'
--0.280726 O        b'-1:lemma:ml'
--0.288044 O        b'-1:lemma:of'
--0.297076 Med      b'+1:postag:NN'
--0.299805 Med      b'+1:postag:IN'
--0.302610 Supp     b'+1:lemma:rifampicin'
--0.306596 O        b'-1:lemma:~'
--0.307778 O        b'-1:postag:-LRB-'
--0.310654 O        b'lemma:phase'
--0.311969 pH       b'postag:NN'
--0.315543 O        b'+1:lemma:0.3'
--0.318646 O        b'postag:VBP'
--0.335513 OD       b'+1:postag:NN'
--0.365484 Temp     b'postag:JJ'
--0.402954 O        b'lemma:dissolve'
--0.424513 O        b'lemma:20'
--0.429534 O        b'+1:postag:IN'
--0.437134 O        b'-1:lemma:grow'
--0.457631 Phase    b'-1:lemma:at'
--0.461721 Temp     b'+1:lemma:to'
--0.461721 Temp     b'+1:postag:TO'
--0.486817 Supp     b'-1:lemma:%'
--0.495015 O        b'lemma:0.3'
--0.505567 Temp     b'postag:NN'
--0.513730 O        b'lemma:od600'
--0.526067 O        b'+1:postag:-RRB-'
--0.537886 O        b'+1:postag:VBG'
--0.541924 O        b'-1:lemma:od600'
--0.549617 O        b'-1:lemma:rpob'
--0.561323 O        b'-1:lemma:0.2'
--0.568252 OD       b'lemma:-lrb-'
--0.568961 Technique b'-1:postag::'
--0.587228 O        b'-1:lemma:sample'
--0.604535 O        b'+1:lemma:fecl2'
--0.605395 O        b'-1:lemma:37'
--0.633419 O        b'lemma:anaerobically'
--0.640315 Air      b'-1:postag:JJ'
--0.646518 O        b'lemma:\xe2\x88\x86'
--0.700705 O        b'lemma:fecl2'
--0.713765 O        b'-1:postag::'
--0.750660 O        b'lemma:media'
--0.798765 O        b'+1:lemma:supplement'
--0.840866 O        b'-1:postag:VBG'
--0.867716 O        b'lemma:0.2'
--0.905677 O        b'+1:lemma:cell'
--0.915154 O        b'lemma:2h'
--0.915154 O        b'-1:lemma:additional'
--0.930586 Supp     b'+1:lemma:acetate'
--0.930611 O        b'lemma:37'
--0.940854 O        b'+1:lemma:g/l'
--0.942447 O        b'-1:lemma:co2'
--0.944499 O        b'lemma:of'
--0.951108 O        b'-1:lemma:dissolve'
--0.951108 O        b'+1:lemma:methanol'
--0.962496 O        b'+1:lemma:hour'
--0.976720 Phase    b'postag:JJ'
--0.983487 O        b'lemma:0.1'
--1.035888 O        b'-1:lemma:ompr'
--1.064088 O        b'+1:lemma:at'
--1.115638 OD       b'postag:-LRB-'
--1.121251 O        b'lemma:wt'
--1.195033 O        b'lemma:mid-log'
--1.218852 O        b'+1:lemma:+'
--1.237063 O        b'-1:lemma:IP'
--1.311143 O        b'-1:lemma:nsrr'
--1.325930 Anti     b'postag:NNP'
--1.428005 O        b'lemma:rifampicin'
--1.465722 Air      b'+1:postag:JJ'
--1.474845 Supp     b'postag:JJ'
--1.503128 O        b'lemma:methanol'
--1.517666 O        b'+1:lemma:in'
--1.685015 Air      b'postag:NN'
--2.153686 O        b'+1:lemma:2'
--2.261742 O        b'-1:lemma:2'
--2.412156 O        b'+1:lemma:1'
--4.073767 O        b'-1:lemma::'
--4.265465 O        b'-1:lemma:_'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.09054223875215395, 'c2': 0.0023518182968725273}
+best CV score:0.8689308276485085
+model size: 0.08M
+
+Flat F1: 0.7754340877116509
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.943     0.971        53
+       Temp      1.000     0.690     0.816        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.543     0.362     0.435        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.868     0.776     0.820        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.700     0.784     0.739       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.810     0.754     0.775       451
+
+
+Top likely transitions:
+Agit   -> Agit    7.626632
+Temp   -> Temp    7.045132
+Supp   -> Supp    6.489590
+Med    -> Med     6.142134
+Anti   -> Anti    5.984670
+Phase  -> Phase   5.518817
+OD     -> OD      5.345555
+Gtype  -> Gtype   5.176791
+Gversion -> Gversion 5.166638
+Air    -> Air     4.592159
+O      -> O       4.393244
+pH     -> pH      3.826126
+Technique -> Technique 3.732727
+O      -> Supp    1.143221
+O      -> Technique 0.922279
+Air    -> O       0.769652
+Substrain -> Gtype   0.641263
+O      -> Gtype   0.629642
+Gtype  -> Supp    0.604798
+O      -> Temp    0.290538
+O      -> Phase   0.232866
+Temp   -> O       0.222973
+Supp   -> O       0.152297
+Gtype  -> Air     0.133118
+Phase  -> O       0.090499
+O      -> Anti    0.049867
+Strain -> O       0.017575
+Phase  -> Air     0.001750
+O      -> pH      0.000507
+Med    -> O       0.000355
+pH     -> O       0.000352
+Air    -> Agit    -0.001348
+Phase  -> OD      -0.008421
+Air    -> Supp    -0.050545
+Agit   -> Air     -0.052125
+Anti   -> O       -0.059732
+OD     -> O       -0.120587
+Technique -> pH      -0.229765
+O      -> Med     -0.258685
+Technique -> OD      -0.288848
+Air    -> Phase   -0.339706
+O      -> OD      -0.391929
+Gtype  -> Med     -0.529268
+Air    -> Temp    -0.898446
+Supp   -> Med     -0.919358
+Technique -> O       -1.026211
+OD     -> Air     -1.149284
+O      -> Air     -1.334781
+Gtype  -> O       -1.407268
+Med    -> Supp    -1.495850
+
+
+Top unlikely transitions:
+Temp   -> Temp    7.045132
+Supp   -> Supp    6.489590
+Med    -> Med     6.142134
+Anti   -> Anti    5.984670
+Phase  -> Phase   5.518817
+OD     -> OD      5.345555
+Gtype  -> Gtype   5.176791
+Gversion -> Gversion 5.166638
+Air    -> Air     4.592159
+O      -> O       4.393244
+pH     -> pH      3.826126
+Technique -> Technique 3.732727
+O      -> Supp    1.143221
+O      -> Technique 0.922279
+Air    -> O       0.769652
+Substrain -> Gtype   0.641263
+O      -> Gtype   0.629642
+Gtype  -> Supp    0.604798
+O      -> Temp    0.290538
+O      -> Phase   0.232866
+Temp   -> O       0.222973
+Supp   -> O       0.152297
+Gtype  -> Air     0.133118
+Phase  -> O       0.090499
+O      -> Anti    0.049867
+Strain -> O       0.017575
+Phase  -> Air     0.001750
+O      -> pH      0.000507
+Med    -> O       0.000355
+pH     -> O       0.000352
+Air    -> Agit    -0.001348
+Phase  -> OD      -0.008421
+Air    -> Supp    -0.050545
+Agit   -> Air     -0.052125
+Anti   -> O       -0.059732
+OD     -> O       -0.120587
+Technique -> pH      -0.229765
+O      -> Med     -0.258685
+Technique -> OD      -0.288848
+Air    -> Phase   -0.339706
+O      -> OD      -0.391929
+Gtype  -> Med     -0.529268
+Air    -> Temp    -0.898446
+Supp   -> Med     -0.919358
+Technique -> O       -1.026211
+OD     -> Air     -1.149284
+O      -> Air     -1.334781
+Gtype  -> O       -1.407268
+Med    -> Supp    -1.495850
+Substrain -> O       -2.598977
+
+
+Top positive:
+10.185301 Technique b'lemma[:2]:Ch'
+8.021086 O        b'-1:lemma:tag'
+6.996653 Gtype    b'lemma[:1]:\xce\xb4'
+6.769097 O        b'lemma:2'
+6.193177 O        b'lemma:1'
+6.092689 Air      b'lemma:anaerobic'
+5.980202 Phase    b'lemma:stationary'
+5.955259 Supp     b'+1:lemma:\xc2\xb5m'
+5.876491 O        b'lemma:3'
+5.874142 O        b'lemma:with'
+5.804642 O        b'lemma:-'
+5.578233 Supp     b'lemma:Iron'
+5.578233 Supp     b'lemma[:2]:Ir'
+5.487985 O        b'lemma[:2]:re'
+5.341246 Temp     b'+1:lemma:in'
+5.328334 Supp     b'-1:lemma:Cra'
+5.243720 Strain   b'+1:lemma:substr'
+5.241759 Phase    b'lemma:mid-log'
+5.207769 Substrain b'lemma[:2]:mg'
+5.202431 O        b'lemma:b'
+5.093704 Supp     b'-1:lemma:+'
+4.978877 Supp     b'-1:lemma:vol'
+4.960498 O        b'lemma:_'
+4.960498 O        b'lemma[:1]:_'
+4.785889 Gtype    b'-1:lemma:\xe2\x88\x86'
+4.773191 Technique b'lemma:chipseq'
+4.718733 O        b'-1:lemma:lb'
+4.679807 O        b'lemma:a'
+4.628908 Gversion b'-1:lemma:nc'
+4.467825 O        b'+1:lemma:pq'
+4.445709 Air      b'-1:lemma:ChIP-Seq'
+4.378030 O        b'-1:lemma:glucose'
+4.329558 Air      b'lemma[:2]:ae'
+4.328211 O        b'lemma:rpob'
+4.198740 O        b'lemma:delta'
+4.173979 Med      b'-1:lemma:ml'
+4.095801 Supp     b'lemma:acetate'
+4.022526 O        b'lemma:Custom'
+4.022526 O        b'lemma[:2]:Cu'
+4.014705 O        b'-1:lemma:0.3'
+4.002057 Supp     b'-1:lemma:with'
+3.969838 Med      b'+1:lemma:0.4'
+3.874806 Supp     b'lemma:pq'
+3.874806 Supp     b'lemma[:2]:pq'
+3.827929 Gtype    b'lemma:type'
+3.827929 Gtype    b'lemma[:2]:ty'
+3.798612 O        b'lemma:chip'
+3.738737 Supp     b'lemma:arginine'
+3.738664 O        b'lemma:ompr'
+3.673537 Med      b'+1:lemma:2.0'
+3.658221 Agit     b'+1:lemma:rpm'
+3.493765 O        b'-1:lemma:into'
+3.452810 Air      b'lemma:Aerobic'
+3.452810 Air      b'lemma[:2]:Ae'
+3.452043 Temp     b'-1:lemma:\xcf\x8332'
+3.425411 Temp     b'-1:lemma:sample'
+3.422615 Gversion b'lemma:chip-seq'
+3.364562 Gtype    b'lemma:fnr8myc'
+3.351216 O        b'-1:lemma:type'
+3.349721 Gtype    b'lemma:arca8myc'
+3.319200 O        b'+1:lemma:od600'
+3.296763 Gtype    b'lemma[:2]:pk'
+3.278704 O        b'-1:lemma:Aerobic'
+3.266869 O        b'+1:lemma:mid-log'
+3.263095 Gtype    b'lemma[:2]:cr'
+3.249020 Supp     b'lemma:rifampicin'
+3.239748 O        b'+1:lemma:sparging'
+3.237458 Supp     b'lemma[:2]:ri'
+3.210269 O        b'-1:lemma:0.3-0.35'
+3.205436 Technique b'lemma[:2]:rn'
+3.180683 O        b'lemma[:1]:h'
+3.156042 Phase    b'lemma[:2]:ex'
+3.140201 Air      b'lemma:aerobic'
+3.137123 O        b'+1:lemma:250'
+3.129608 Anti     b'lemma[:2]:an'
+3.121981 Supp     b'-1:lemma:final'
+3.117574 O        b'lemma[:2]:ge'
+3.100954 Air      b'-1:lemma:-'
+3.095232 Technique b'-1:lemma:input'
+3.095018 Med      b'-1:lemma:fresh'
+3.052910 O        b'lemma:.'
+3.052910 O        b'postag:.'
+3.052910 O        b'postag[:1]:.'
+3.041093 Technique b'lemma[:2]:ch'
+3.027376 Supp     b'+1:lemma:1'
+3.017384 Phase    b'lemma:exponential'
+3.011507 Gtype    b'lemma[:1]:W'
+3.000727 Supp     b'lemma[:2]:gl'
+3.000345 Med      b'lemma:MOPS'
+3.000345 Med      b'lemma[:1]:M'
+3.000345 Med      b'lemma[:2]:MO'
+2.946850 Anti     b'lemma:none'
+2.913481 Supp     b'lemma:fructose'
+2.906897 Gtype    b'lemma:flag-tag'
+2.906897 Gtype    b'-1:lemma:c-terminal'
+2.891578 Phase    b'-1:lemma:until'
+2.885138 O        b'lemma:n'
+2.870143 O        b'+1:lemma:43'
+2.866970 O        b'+1:postag:RB'
+2.866043 Gtype    b'+1:lemma::'
+2.843685 O        b'postag::'
+2.843685 O        b'postag[:1]::'
+2.823299 Air      b'lemma[:2]:an'
+2.803059 Gtype    b'lemma[:1]:w'
+2.801040 Gtype    b'lemma[:2]:de'
+2.793153 Gtype    b'+1:lemma:flagtag'
+2.782454 Gversion b'lemma:asm584v2'
+2.771209 Gversion b'lemma[:2]:as'
+2.728848 O        b'+1:postag:NNP'
+2.710278 O        b'-1:lemma:ChIP-exo'
+2.685529 O        b'+1:lemma:or'
+2.672360 Med      b'lemma:broth'
+2.672360 Med      b'-1:lemma:L'
+2.672360 Med      b'lemma[:2]:br'
+2.653066 Gtype    b'lemma:nsrr'
+2.653066 Gtype    b'lemma[:2]:ns'
+2.644949 Gtype    b'lemma:wt'
+2.644949 Gtype    b'lemma[:2]:wt'
+2.643481 O        b'+1:lemma:acetate'
+2.640438 Gtype    b'lemma[:2]:ar'
+2.625663 Gversion b'lemma:nc'
+2.625663 Gversion b'lemma[:2]:nc'
+2.605563 Anti     b'+1:lemma:antibody'
+2.591652 Technique b'-1:lemma:chip-exo'
+2.575198 O        b'lemma[:2]:fo'
+2.565649 Gtype    b'-1:lemma:vector'
+2.556891 Gtype    b'-1:postag:VBG'
+2.531858 Substrain b'+1:lemma:phtpg'
+2.530034 O        b'lemma:0.4'
+2.515928 OD       b'lemma:od450'
+2.506637 O        b'lemma[:1]:C'
+2.500720 Supp     b'lemma:sodium'
+2.401085 O        b'+1:lemma:coli'
+2.393881 Supp     b'+1:lemma:phosphate'
+2.376464 O        b'-1:postag:NNS'
+2.374397 Temp     b'-1:lemma:43'
+2.366322 Supp     b'+1:lemma:_'
+2.344507 Supp     b'lemma[:2]:ni'
+2.318294 O        b'lemma[:2]:Cr'
+2.313838 O        b'lemma[:2]:om'
+2.312761 O        b'-1:lemma:anaerobic'
+2.297530 Gtype    b'-1:lemma:rpob'
+2.286218 O        b'-1:lemma:phase'
+2.285928 Gversion b'lemma[:2]:00'
+2.270036 Supp     b'lemma:iptg'
+2.264276 Supp     b'lemma[:1]:I'
+2.248929 O        b'+1:lemma:30'
+2.245626 O        b'lemma:oxyr'
+2.240334 O        b'lemma:Cra'
+2.237370 Gtype    b'-1:lemma:_'
+2.220905 Med      b'lemma:L'
+2.220905 Med      b'+1:lemma:broth'
+2.217317 Supp     b'lemma:nacl'
+2.217317 Supp     b'lemma[:2]:na'
+2.191402 Temp     b'lemma:43'
+2.191402 Temp     b'lemma[:2]:43'
+2.169633 Supp     b'lemma:Fe'
+2.169633 Supp     b'lemma[:2]:Fe'
+2.169099 pH       b'lemma[:2]:ph'
+2.167053 O        b'lemma:ml'
+2.167053 O        b'lemma[:2]:ml'
+2.163570 Gtype    b'lemma:dfnr'
+2.163570 Gtype    b'lemma[:2]:df'
+2.115282 OD       b'lemma[:1]:o'
+2.113233 OD       b'lemma:0.3-0.35'
+2.096796 Supp     b'lemma:no3'
+2.092494 O        b'-1:lemma:aerobically'
+2.080983 Phase    b'lemma[:1]:e'
+2.077238 Anti     b'-1:lemma::'
+2.069956 O        b'lemma[:2]:ha'
+2.068054 Supp     b'lemma:dpd'
+2.068054 Supp     b'lemma[:2]:dp'
+2.065958 Supp     b'lemma[:2]:ac'
+2.065024 Gtype    b'+1:lemma:type'
+2.034166 O        b'+1:lemma:nitrate'
+2.033879 Gtype    b'lemma[:1]:f'
+2.029691 Gtype    b'-1:lemma:knock-out'
+2.028831 pH       b'+1:postag:CD'
+2.022928 Gtype    b'+1:lemma:_'
+1.993507 Supp     b'lemma:Leu'
+1.993507 Supp     b'lemma[:2]:Le'
+1.979381 O        b'-1:lemma:stpa'
+1.969036 Technique b'lemma[:1]:C'
+1.953152 Technique b'+1:lemma:chip-exo'
+1.940011 Air      b'+1:postag:IN'
+1.924352 Supp     b'lemma[:2]:30'
+1.903191 O        b'lemma:purr'
+1.902904 Air      b'lemma[:1]:a'
+1.895935 O        b'lemma:A'
+1.889757 Gtype    b'+1:lemma:with'
+1.884874 O        b'+1:lemma:dfnr'
+1.875072 Supp     b'-1:lemma:30'
+1.870747 Supp     b'-1:lemma::'
+1.864656 Technique b'-1:lemma:rna-seq'
+1.858198 Gtype    b'lemma[:1]:t'
+1.836001 O        b'lemma[:2]:in'
+1.821777 pH       b'lemma:ph5'
+1.821777 pH       b'+1:lemma:.5'
+1.813827 Supp     b'lemma:Adenine'
+1.813827 Supp     b'lemma[:2]:Ad'
+
+
+Top negative:
+-0.122503 O        b'+1:lemma:vol'
+-0.122503 O        b'lemma[:2]:1/'
+-0.125682 Supp     b'+1:postag:NNS'
+-0.128364 O        b'lemma[:1]:5'
+-0.128783 Med      b'postag[:1]:C'
+-0.131277 Supp     b'postag:CD'
+-0.131277 Supp     b'postag[:2]:CD'
+-0.131348 Supp     b'-1:postag::'
+-0.133721 Gtype    b'lemma:-lrb-'
+-0.135824 Phase    b'lemma[:2]:pa'
+-0.136598 O        b'lemma:grow'
+-0.140727 Air      b'+1:lemma:-lrb-'
+-0.148264 O        b'lemma:ph'
+-0.150736 O        b'+1:lemma:ph'
+-0.159027 O        b'+1:postag:CD'
+-0.160597 OD       b'+1:lemma:0.4'
+-0.165913 O        b'+1:lemma:phosphate'
+-0.169625 Air      b'-1:postag:CC'
+-0.171481 OD       b'postag[:1]:N'
+-0.171481 OD       b'postag[:2]:NN'
+-0.171501 O        b'lemma:1m'
+-0.171501 O        b'lemma[:2]:1m'
+-0.176117 Supp     b'-1:lemma:.'
+-0.176117 Supp     b'-1:postag:.'
+-0.177236 Temp     b'postag[:1]:N'
+-0.177236 Temp     b'postag[:2]:NN'
+-0.184780 Supp     b'+1:postag:-RRB-'
+-0.189482 Gversion b'+1:postag:NN'
+-0.191580 O        b'+1:lemma:1/100'
+-0.194798 Med      b'lemma[:1]:c'
+-0.201698 Gtype    b'+1:postag:CD'
+-0.208826 O        b'lemma:150'
+-0.208826 O        b'+1:lemma:mg/ml'
+-0.208826 O        b'lemma[:2]:15'
+-0.209680 O        b'+1:lemma:supplement'
+-0.211723 O        b'lemma[:1]:p'
+-0.211762 O        b'-1:lemma:g/l'
+-0.218211 O        b'lemma:30'
+-0.218501 Temp     b'-1:lemma:\xc2\xb0c'
+-0.223383 O        b'lemma:7.6'
+-0.223383 O        b'+1:lemma:;'
+-0.223383 O        b'lemma[:2]:7.'
+-0.230315 O        b'-1:postag:-LRB-'
+-0.234210 Air      b'-1:postag:VBN'
+-0.234317 Air      b'+1:postag:-LRB-'
+-0.238132 O        b'lemma:\xe2\x88\x86'
+-0.238132 O        b'lemma[:1]:\xe2\x88\x86'
+-0.239813 O        b'lemma[:2]:20'
+-0.243759 Supp     b'lemma[:2]:ph'
+-0.268591 O        b'-1:lemma:-lrb-'
+-0.273129 O        b'+1:lemma:.'
+-0.273129 O        b'+1:postag:.'
+-0.274515 Gtype    b'-1:postag:NN'
+-0.276640 O        b'lemma:aerobic'
+-0.280353 pH       b'postag[:1]:N'
+-0.280353 pH       b'postag[:2]:NN'
+-0.281176 O        b'+1:lemma:co2'
+-0.284309 OD       b'hUpper'
+-0.284309 OD       b'hLower'
+-0.299607 O        b'+1:lemma:rep2'
+-0.305286 Supp     b'+1:postag::'
+-0.305442 O        b'-1:lemma:1m'
+-0.307656 O        b'lemma[:2]:an'
+-0.311346 Supp     b'lemma[:1]:s'
+-0.313198 O        b'-1:lemma:IP'
+-0.327309 O        b'+1:lemma:1m'
+-0.328461 Med      b'+1:postag:NN'
+-0.331739 Supp     b'-1:lemma:dpd'
+-0.332765 O        b'-1:lemma:n2'
+-0.333171 Supp     b'postag[:1]:C'
+-0.334484 O        b'+1:lemma:-rrb-'
+-0.335881 Technique b'postag:NN'
+-0.336835 Supp     b'-1:lemma:%'
+-0.343844 O        b'lemma:37'
+-0.343844 O        b'lemma[:2]:37'
+-0.352890 O        b'lemma:co2'
+-0.366891 O        b'-1:lemma:rpob'
+-0.372918 O        b'-1:lemma:of'
+-0.379129 O        b'lemma[:1]:k'
+-0.385300 Supp     b'lemma:10'
+-0.411833 O        b'lemma[:2]:od'
+-0.414482 O        b'lemma:20'
+-0.419047 Supp     b'-1:lemma:-lrb-'
+-0.423807 Air      b'postag:NN'
+-0.429435 O        b'lemma:anaerobically'
+-0.430690 Med      b'-1:postag:NN'
+-0.435460 Gtype    b'postag[:1]:V'
+-0.435460 Gtype    b'postag[:2]:VB'
+-0.436108 O        b'-1:lemma:with'
+-0.436725 Supp     b'postag:JJ'
+-0.448963 O        b'-1:lemma:from'
+-0.449583 Supp     b'postag[:1]:J'
+-0.449583 Supp     b'postag[:2]:JJ'
+-0.452505 O        b'lemma:wt'
+-0.452505 O        b'lemma[:2]:wt'
+-0.456297 Med      b'+1:postag:IN'
+-0.460912 O        b'lemma:of'
+-0.460912 O        b'lemma[:2]:of'
+-0.464084 O        b'lemma[:2]:ph'
+-0.476123 Phase    b'+1:postag:NN'
+-0.478646 O        b'-1:lemma:37'
+-0.479822 O        b'lemma[:2]:mg'
+-0.490640 O        b'lemma:glucose'
+-0.494749 O        b'-1:lemma:mm'
+-0.513617 O        b'+1:postag:IN'
+-0.520527 O        b'+1:lemma:2.0'
+-0.524819 Phase    b'+1:lemma:pahse'
+-0.528372 O        b'lemma:media'
+-0.534673 Temp     b'postag:NN'
+-0.544692 Air      b'-1:lemma:or'
+-0.551287 Air      b'-1:postag:JJ'
+-0.559988 O        b'-1:lemma:\xe2\x88\x86'
+-0.572775 Air      b'+1:postag:JJ'
+-0.575164 O        b'+1:postag:VBG'
+-0.579204 Air      b'postag[:1]:N'
+-0.579204 Air      b'postag[:2]:NN'
+-0.579634 Supp     b'+1:lemma:fructose'
+-0.613266 O        b'lemma[:2]:ae'
+-0.626767 Anti     b'symb'
+-0.633791 Med      b'+1:postag:NNS'
+-0.643773 O        b'+1:lemma:+'
+-0.653623 O        b'lemma[:2]:me'
+-0.686630 O        b'-1:lemma:delta'
+-0.691758 Phase    b'postag[:1]:J'
+-0.691758 Phase    b'postag[:2]:JJ'
+-0.695582 Gtype    b'lemma[:1]:c'
+-0.707615 Agit     b'symb'
+-0.710847 O        b'lemma[:1]:n'
+-0.719133 O        b'lemma:mid-log'
+-0.720783 O        b'lemma[:2]:0.'
+-0.727230 O        b'lemma:0.3'
+-0.730648 Supp     b'-1:postag:-LRB-'
+-0.737779 Gtype    b'lemma[:1]:r'
+-0.743565 Med      b'-1:postag:CD'
+-0.750347 O        b'+1:lemma:for'
+-0.760505 Air      b'symb'
+-0.775646 O        b'lemma[:2]:30'
+-0.777433 O        b'lemma:2h'
+-0.777433 O        b'-1:lemma:additional'
+-0.777433 O        b'lemma[:2]:2h'
+-0.811526 O        b'-1:lemma:final'
+-0.812240 O        b'lemma[:1]:0'
+-0.816482 Gtype    b'-1:lemma:-lrb-'
+-0.821802 O        b'-1:lemma:30'
+-0.824390 O        b'lemma[:2]:gl'
+-0.845131 Supp     b'lemma[:1]:a'
+-0.845884 O        b'lemma:methanol'
+-0.854110 Technique b'-1:postag::'
+-0.866570 O        b'+1:lemma:until'
+-0.885272 Supp     b'+1:lemma:rifampicin'
+-0.885699 O        b'-1:lemma:nsrr'
+-0.888698 O        b'-1:lemma:cra'
+-0.904476 O        b'+1:lemma:at'
+-0.932299 Med      b'symb'
+-0.942332 O        b'-1:lemma:co2'
+-0.962304 O        b'+1:lemma:g/l'
+-0.962951 O        b'+1:lemma:mm'
+-0.972177 O        b'lemma:soxs-8myc'
+-0.976305 O        b'-1:lemma:dissolve'
+-0.976305 O        b'+1:lemma:methanol'
+-1.026438 O        b'lemma[:2]:ar'
+-1.071623 Gtype    b'lemma[:1]:a'
+-1.074211 Gtype    b'+1:lemma:-rrb-'
+-1.085129 Phase    b'postag:JJ'
+-1.096666 O        b'-1:lemma:ph'
+-1.111621 Supp     b'-1:postag:NNP'
+-1.112692 Phase    b'hUpper'
+-1.112692 Phase    b'hLower'
+-1.151925 Anti     b'postag:NNP'
+-1.166449 Supp     b'symb'
+-1.186999 Phase    b'-1:postag:JJ'
+-1.188170 O        b'-1:lemma:until'
+-1.246650 Agit     b'hUpper'
+-1.246650 Agit     b'hLower'
+-1.262971 O        b'+1:lemma:in'
+-1.269087 O        b'-1:lemma:ml'
+-1.380405 OD       b'+1:postag:NN'
+-1.438101 Supp     b'+1:postag:VBN'
+-1.535115 Supp     b'hGreek'
+-1.573856 Supp     b'+1:lemma:-lrb-'
+-1.599754 Supp     b'+1:postag:-LRB-'
+-1.625658 O        b'-1:postag:VBG'
+-1.641325 O        b'-1:postag::'
+-1.657440 O        b'lemma[:2]:ri'
+-1.696650 O        b'-1:lemma:1'
+-1.882679 O        b'+1:lemma:1'
+-1.947502 O        b'lemma:rifampicin'
+-2.109295 O        b'-1:lemma:sample'
+-2.179742 O        b'-1:lemma:fresh'
+-2.704413 Supp     b'+1:lemma:,'
+-2.704413 Supp     b'+1:postag:,'
+-2.995590 Supp     b'lemma[:1]:c'
+-3.044999 O        b'+1:lemma:2'
+-3.183494 O        b'lemma[:2]:fl'
+-3.486906 O        b'-1:lemma:vol'
+-3.568659 O        b'-1:lemma:2'
+-3.575405 Temp     b'+1:postag:IN'
+-4.334558 O        b'postag:VBP'
+-5.276604 O        b'-1:lemma:_'
+-5.933765 O        b'-1:lemma::'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.09081091923387723, 'c2': 0.00038627878700387623}
-best CV score:0.7938633983009262
-model size: 0.07M
-
-Flat F1: 0.786870840829875
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.776     0.912     0.839        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.754     0.742     0.748        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.860     0.811     0.835       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.819     0.699     0.754       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.824     0.765     0.787       480
-
-
-Top likely transitions:
-Agit   -> Agit    7.136396
-OD     -> OD      6.491625
-Temp   -> Temp    6.283086
-Anti   -> Anti    6.213232
-Med    -> Med     5.995903
-Phase  -> Phase   5.618998
-Gtype  -> Gtype   5.237438
-Air    -> Air     5.151876
-Gversion -> Gversion 4.933604
-O      -> O       4.847296
-Technique -> Technique 4.762002
-Supp   -> Supp    4.623411
-Gtype  -> Supp    1.707940
-pH     -> pH      1.691677
-O      -> Technique 1.635878
-O      -> Supp    1.559728
-O      -> Gtype   1.022656
-Substrain -> Gtype   0.995104
-O      -> Anti    0.583807
-O      -> Temp    0.467612
-O      -> Gversion 0.453034
-Technique -> Air     0.359052
-Air    -> O       0.273813
-O      -> Med     0.235768
-Temp   -> O       0.115990
-Gtype  -> Air     0.085028
-Med    -> O       0.063901
-Phase  -> Air     -0.013623
-Strain -> O       -0.015319
-Air    -> Phase   -0.018991
-O      -> OD      -0.096097
-Supp   -> Air     -0.152980
-Supp   -> Gtype   -0.172882
-O      -> Phase   -0.230569
-Gtype  -> Anti    -0.419137
-Technique -> O       -0.465846
-Air    -> Supp    -0.504152
-OD     -> Air     -0.526665
-Gtype  -> O       -0.592689
-Supp   -> O       -0.617787
-Technique -> OD      -0.675268
-Phase  -> O       -0.805307
-OD     -> Med     -0.848210
-O      -> Air     -0.948079
-Supp   -> Med     -0.972720
-Agit   -> O       -1.032994
-OD     -> O       -1.111875
-Gtype  -> OD      -1.121470
-Air    -> OD      -1.294245
-Substrain -> O       -1.829982
-
-
-Top unlikely transitions:
-Temp   -> Temp    6.283086
-Anti   -> Anti    6.213232
-Med    -> Med     5.995903
-Phase  -> Phase   5.618998
-Gtype  -> Gtype   5.237438
-Air    -> Air     5.151876
-Gversion -> Gversion 4.933604
-O      -> O       4.847296
-Technique -> Technique 4.762002
-Supp   -> Supp    4.623411
-Gtype  -> Supp    1.707940
-pH     -> pH      1.691677
-O      -> Technique 1.635878
-O      -> Supp    1.559728
-O      -> Gtype   1.022656
-Substrain -> Gtype   0.995104
-O      -> Anti    0.583807
-O      -> Temp    0.467612
-O      -> Gversion 0.453034
-Technique -> Air     0.359052
-Air    -> O       0.273813
-O      -> Med     0.235768
-Temp   -> O       0.115990
-Gtype  -> Air     0.085028
-Med    -> O       0.063901
-Phase  -> Air     -0.013623
-Strain -> O       -0.015319
-Air    -> Phase   -0.018991
-O      -> OD      -0.096097
-Supp   -> Air     -0.152980
-Supp   -> Gtype   -0.172882
-O      -> Phase   -0.230569
-Gtype  -> Anti    -0.419137
-Technique -> O       -0.465846
-Air    -> Supp    -0.504152
-OD     -> Air     -0.526665
-Gtype  -> O       -0.592689
-Supp   -> O       -0.617787
-Technique -> OD      -0.675268
-Phase  -> O       -0.805307
-OD     -> Med     -0.848210
-O      -> Air     -0.948079
-Supp   -> Med     -0.972720
-Agit   -> O       -1.032994
-OD     -> O       -1.111875
-Gtype  -> OD      -1.121470
-Air    -> OD      -1.294245
-Substrain -> O       -1.829982
-Phase  -> OD      -2.186140
-Med    -> Supp    -2.693786
-
-
-Top positive:
-12.023128 Supp     b'lemma:Iron'
-11.905802 Phase    b'lemma:stationary'
-10.567265 O        b'lemma:_'
-10.151152 Air      b'-1:lemma:ChIP-Seq'
-10.090491 Air      b'lemma:anaerobic'
-9.857898 Supp     b'lemma:nitrate'
-9.629833 Air      b'lemma:aerobic'
-9.577578 Technique b'lemma:ChIP-exo'
-9.036653 Phase    b'lemma:mid-log'
-8.721963 Technique b'lemma:chipseq'
-8.698132 Med      b'lemma:MOPS'
-8.668936 O        b'lemma:1'
-8.103505 O        b'-1:lemma:ChIP-exo'
-7.864122 O        b'lemma:rpob'
-7.451473 Strain   b'lemma:k-12'
-7.338543 O        b'lemma:\xcf\x8332'
-7.198959 Air      b'lemma:Aerobic'
-7.109572 Gtype    b'lemma:flag-tag'
-7.109572 Gtype    b'-1:lemma:c-terminal'
-7.044978 Supp     b'lemma:pq'
-6.899921 O        b'lemma:2'
-6.897717 Gtype    b'lemma:\xce\xb4cra'
-6.862453 O        b'lemma:Custom'
-6.848216 O        b'-1:lemma:tag'
-6.753546 Gversion b'lemma:asm584v2'
-6.751054 O        b'lemma:b'
-6.726115 Technique b'lemma:ChIP-Seq'
-6.340232 O        b'lemma:a'
-6.324324 Med      b'lemma:LB'
-6.242158 O        b'lemma:3'
-6.225748 O        b'lemma:rep1'
-6.183760 Gversion b'-1:lemma:nc'
-6.139494 O        b'lemma:for'
-6.136397 O        b'lemma:rep2'
-6.112373 O        b'-1:lemma:Aerobic'
-6.052426 Gtype    b'lemma:delta-arca'
-6.021691 Supp     b'+1:lemma:\xc2\xb5m'
-6.014827 O        b'lemma:rep3'
-5.998278 Gtype    b'lemma:arca8myc'
-5.864622 Gtype    b'lemma:fnr8myc'
-5.838163 Supp     b'lemma:Fe'
-5.756687 Substrain b'lemma:mg1655'
-5.628610 O        b'lemma:Cra'
-5.609519 Gtype    b'+1:lemma:type'
-5.519720 Gtype    b'lemma:type'
-5.487434 OD       b'+1:lemma:stationary'
-5.465596 Gversion b'lemma:nc'
-5.326426 Gtype    b'lemma:delta-fnr'
-5.265842 Anti     b'lemma:none'
-5.236408 Supp     b'lemma:nh4cl'
-5.195640 O        b'postag::'
-5.136998 Med      b'lemma:lb'
-5.129499 OD       b'lemma:od450'
-5.106518 Technique b'lemma:rna-seq'
-5.084990 O        b'-1:lemma:anaerobic'
-4.986922 Gtype    b'lemma:wt'
-4.943309 Supp     b'lemma:acetate'
-4.879656 Gtype    b'lemma:\xce\xb4fur'
-4.846650 Technique b'lemma:chip-seq'
-4.825495 O        b'-1:lemma:0.3-0.35'
-4.812352 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.769607 Supp     b'lemma:glucose'
-4.759235 O        b'-1:lemma:glucose'
-4.740317 Supp     b'lemma:arginine'
-4.738816 Supp     b'lemma:rifampicin'
-4.701038 Gversion b'lemma:chip-seq'
-4.693852 Gtype    b'lemma:nsrr'
-4.666819 O        b'lemma:chip'
-4.666777 Air      b'lemma:anerobically'
-4.665470 O        b'lemma:or'
-4.635435 Temp     b'-1:lemma:sample'
-4.605663 O        b'lemma:.'
-4.605663 O        b'postag:.'
-4.574656 OD       b'lemma:od600'
-4.562061 O        b'postag:IN'
-4.550601 Anti     b'lemma:anti-myc'
-4.537492 Gtype    b'+1:lemma:ph5'
-4.523129 O        b'-1:lemma:type'
-4.511181 Strain   b'+1:lemma:substr'
-4.493105 O        b'+1:lemma:od600'
-4.453065 Vess     b'lemma:flask'
-4.453065 Vess     b'-1:lemma:warm'
-4.444663 Supp     b'lemma:no3'
-4.439485 Technique b'+1:lemma:chip-exo'
-4.416181 Gtype    b'+1:lemma:flagtag'
-4.415325 Supp     b'-1:lemma:Cra'
-4.396509 Supp     b'-1:lemma:+'
-4.383866 Gtype    b'-1:lemma:ptac'
-4.365928 O        b'+1:lemma:sparging'
-4.354534 O        b'+1:postag:RB'
-4.348783 Med      b'+1:lemma:0.4'
-4.341814 O        b'-1:lemma:0.3'
-4.336456 O        b'+1:lemma:chip-seq'
-4.269719 O        b'lemma:with'
-4.219193 Anti     b'lemma:seqa'
-4.194527 Supp     b'+1:lemma:hour'
-4.154345 Gtype    b'lemma:\xe2\x88\x86'
-4.105460 O        b'lemma:-'
-4.045385 Temp     b'-1:lemma:\xcf\x8332'
-4.041775 Supp     b'lemma:dpd'
-4.018422 O        b'lemma:oxyr'
-4.006587 Med      b'+1:lemma:minimal'
-3.994386 Gtype    b'-1:lemma:rpob'
-3.943397 pH       b'lemma:ph5'
-3.943397 pH       b'+1:lemma:.5'
-3.925919 Supp     b'lemma:fructose'
-3.913579 Supp     b'+1:lemma:1'
-3.908385 O        b'+1:postag:NNP'
-3.803339 O        b'+1:lemma:o.d.'
-3.758844 Technique b'lemma:rnaseq'
-3.730482 Technique b'+1:lemma:rna-seq'
-3.692271 Technique b'-1:lemma:IP'
-3.684645 O        b'lemma:ompr'
-3.679500 O        b'-1:lemma:lb'
-3.642465 Anti     b'+1:lemma:antibody'
-3.624491 O        b'lemma:s'
-3.612874 O        b'lemma:2-3'
-3.606456 Gtype    b'+1:lemma:pq'
-3.584554 O        b'lemma:soxs'
-3.584554 O        b'lemma:soxr'
-3.545385 O        b'lemma:CEL'
-3.527179 Gversion b'lemma:u00096'
-3.527179 Gversion b'+1:lemma:.2'
-3.525538 Technique b'-1:lemma:chip-exo'
-3.525111 Anti     b'lemma:anti-rpos'
-3.517186 O        b'postag:VBN'
-3.489661 Supp     b'lemma:Leu'
-3.480284 Supp     b'lemma:iptg'
-3.469423 Temp     b'-1:lemma:43'
-3.467975 Gtype    b'lemma:pk4854'
-3.443002 OD       b'-1:lemma:about'
-3.435842 Gtype    b'lemma:\xce\xb4ompr'
-3.435548 Med      b'+1:lemma:contain'
-3.393209 Med      b'lemma:m63'
-3.390757 Gversion b'lemma:.2'
-3.390757 Gversion b'-1:lemma:u00096'
-3.365623 Gtype    b'lemma:wild-type'
-3.365137 Supp     b'+1:lemma:_'
-3.285213 O        b'-1:lemma:\xc2\xb0c'
-3.270674 Air      b'lemma:anaerobically'
-3.263042 Gversion b'lemma:000913'
-3.243898 Gtype    b'lemma:\xce\xb4soxs'
-3.241988 O        b'lemma:at'
-3.241694 Supp     b'lemma:Adenine'
-3.235960 Supp     b'+1:lemma:2'
-3.220154 Substrain b'+1:lemma:phtpg'
-3.168232 O        b'lemma:chip-arca'
-3.124706 Med      b'-1:lemma:ml'
-3.119275 Gtype    b'lemma:deltaseqa'
-3.119275 Gtype    b'-1:lemma:old'
-3.105855 Phase    b'-1:lemma:until'
-3.104880 Supp     b'lemma:nacl'
-3.063586 Phase    b'+1:lemma:for'
-3.062511 O        b'lemma:argr'
-3.057692 Temp     b'-1:lemma:37'
-3.030255 O        b'lemma:purr'
-3.006731 O        b'-1:lemma:media'
-2.937639 O        b'+1:lemma:pq'
-2.930516 Supp     b'lemma:methanol'
-2.918452 Temp     b'+1:lemma:\xc2\xb0c'
-2.915173 Gtype    b'lemma:WT'
-2.909714 OD       b'-1:lemma:~'
-2.900692 Med      b'lemma:L'
-2.900692 Med      b'+1:lemma:broth'
-2.899989 Gtype    b'lemma:ptac'
-2.898928 O        b'+1:lemma:rifampicin'
-2.878667 pH       b'lemma:.5'
-2.878667 pH       b'-1:lemma:ph5'
-2.877293 O        b'postag:DT'
-2.875342 O        b'+1:lemma:mid-log'
-2.845729 Gtype    b'+1:lemma:with'
-2.833330 Temp     b'lemma:\xc2\xb0c'
-2.821959 Supp     b'-1:lemma:\xc2\xb5m'
-2.778935 O        b'-1:lemma:dpd'
-2.716093 Supp     b'+1:lemma:iptg'
-2.714614 Supp     b'+1:lemma:Deficient'
-2.696864 Gtype    b'-1:lemma:phtpg'
-2.687105 Air      b'+1:lemma:at'
-2.676418 O        b'lemma:affyexp'
-2.676025 Gtype    b'lemma:\xce\xb4soxr'
-2.663692 Gtype    b'lemma:\xce\xb4oxyr'
-2.658854 Med      b'+1:lemma:2.0'
-2.651224 Gtype    b'lemma:dfnr'
-2.649576 O        b'-1:lemma:l1'
-2.620669 Air      b'postag:RB'
-2.577561 O        b'lemma:Lrp'
-2.570022 Med      b'+1:lemma:g/l'
-2.524794 Technique b'-1:lemma:input'
-2.523784 O        b'-1:lemma:min'
-2.517414 O        b'+1:postag:VBP'
-2.471571 O        b'+1:lemma:acetate'
-2.464652 O        b'postag:VBG'
-2.464091 Air      b'-1:lemma:phase'
-2.457715 OD       b'lemma:0.3'
-2.425241 Gtype    b'lemma:soxs-8myc'
-2.425241 Gtype    b'lemma:soxr-8myc'
-2.406446 O        b'+1:lemma:0.2'
-2.380330 Temp     b'lemma:37'
-2.356535 Temp     b'lemma:43'
-2.340361 Supp     b'lemma:leucine'
-
-
-Top negative:
-0.000037 OD       b'+1:lemma:\xce\xb4soxr'
-0.000031 Technique b'+1:lemma:Anaerobic'
-0.000028 OD       b'-1:lemma:phase'
-0.000026 Agit     b'-1:postag:VBG'
-0.000015 Agit     b'+1:postag:IN'
-0.000015 O        b'lemma:input'
-0.000014 OD       b'+1:postag:RB'
-0.000012 O        b'-1:lemma:Fur'
-0.000010 Supp     b'+1:lemma:feso4'
-0.000010 O        b'+1:lemma:ChIP-Seq'
-0.000005 O        b'-1:lemma:250'
-0.000004 OD       b'lemma::'
-0.000004 Agit     b'postag:VBG'
-0.000003 OD       b'postag::'
-0.000001 Temp     b'-1:postag:NNS'
--0.000008 O        b'lemma:mg1655'
--0.000009 O        b'-1:lemma:sample'
--0.000026 O        b'-1:lemma:e.'
--0.000069 O        b'-1:lemma:1'
--0.000210 Gtype    b'-1:postag:NNP'
--0.000267 O        b'+1:lemma:co2'
--0.000316 Gtype    b'+1:lemma:2'
--0.000469 O        b'+1:lemma:rep1'
--0.001404 O        b'-1:lemma:at'
--0.002564 Med      b'+1:postag:CC'
--0.002647 OD       b'lemma:~'
--0.002825 O        b'lemma:grow'
--0.003590 O        b'lemma:anaerobic'
--0.004607 O        b'+1:lemma:dissolve'
--0.005282 Supp     b'+1:lemma:of'
--0.008060 OD       b'+1:postag:-LRB-'
--0.008731 OD       b'+1:postag:-RRB-'
--0.009571 O        b'-1:lemma:30'
--0.010095 O        b'lemma:m63'
--0.010149 Phase    b'lemma:pahse'
--0.010429 Gtype    b'+1:lemma:-'
--0.012754 Supp     b'lemma:mm'
--0.013827 OD       b'+1:lemma:~'
--0.014292 O        b'+1:lemma:grow'
--0.015852 OD       b'+1:postag:CD'
--0.016820 O        b'lemma:25'
--0.017788 OD       b'+1:lemma:-rrb-'
--0.019574 O        b'+1:lemma:~'
--0.025256 O        b'+1:lemma:300'
--0.026121 O        b'+1:lemma:0.4'
--0.028318 O        b'lemma:o2'
--0.029040 Anti     b'+1:lemma:anti-fur'
--0.030350 OD       b'+1:lemma:0.4'
--0.030931 Med      b'+1:postag:NNS'
--0.033897 O        b'-1:lemma:mm'
--0.035604 O        b'+1:lemma:o2'
--0.035916 O        b'-1:lemma:the'
--0.035990 O        b'+1:lemma:arginine'
--0.036415 Air      b'-1:lemma:anaerobically'
--0.040153 Air      b'-1:postag:CC'
--0.041154 O        b'+1:lemma:antibody'
--0.041832 Anti     b'-1:postag:NN'
--0.045053 OD       b'postag:IN'
--0.047572 Gtype    b'+1:postag:IN'
--0.053112 Supp     b'+1:lemma:dpd'
--0.053329 O        b'-1:lemma:minimal'
--0.060576 O        b'-1:postag:IN'
--0.065925 O        b'lemma:medium'
--0.066353 O        b'+1:lemma:25'
--0.076464 Med      b'-1:postag:NN'
--0.078443 Supp     b'-1:postag:NN'
--0.078865 Strain   b'+1:postag:NN'
--0.091232 Air      b'postag:CD'
--0.091763 O        b'lemma:30'
--0.095656 O        b'lemma:lb'
--0.098575 O        b'+1:lemma:shake'
--0.100589 Anti     b'+1:postag:JJ'
--0.109250 Supp     b'+1:postag:IN'
--0.113108 Agit     b'postag:NN'
--0.113815 O        b'-1:lemma:o2'
--0.117553 O        b'+1:lemma:5'
--0.121789 Supp     b'lemma:and'
--0.122865 Gtype    b'-1:postag:NN'
--0.129126 O        b'lemma:glucose'
--0.130690 O        b'-1:lemma:of'
--0.132633 O        b'+1:lemma:phase'
--0.134059 OD       b'+1:postag:CC'
--0.141756 Air      b'-1:lemma:95'
--0.143614 O        b'-1:lemma:-lrb-'
--0.149012 O        b'+1:lemma:\xc2\xb0c'
--0.155150 O        b'+1:postag:NNS'
--0.160903 O        b'+1:lemma:-rrb-'
--0.161363 O        b'lemma:n2'
--0.162536 O        b'postag:VBP'
--0.168298 O        b'-1:lemma:n2'
--0.171249 O        b'-1:postag:VBN'
--0.176512 O        b'lemma:aerobically'
--0.186672 O        b'lemma:co2'
--0.186766 O        b'+1:lemma:_'
--0.196943 Strain   b'postag:NN'
--0.201827 O        b'+1:lemma:mm'
--0.206537 O        b'-1:postag:-LRB-'
--0.214121 Supp     b'postag:CC'
--0.215072 O        b'lemma:e.'
--0.235225 O        b'-1:lemma:0.1'
--0.261548 O        b'lemma:\xce\xb4fur'
--0.264532 O        b'-1:lemma:rifampicin'
--0.272491 O        b'-1:lemma:0.2'
--0.284244 O        b'-1:lemma:from'
--0.285360 O        b'-1:lemma:until'
--0.286318 Med      b'postag:CD'
--0.287177 Air      b'-1:lemma:or'
--0.304066 O        b'lemma:150'
--0.304066 O        b'+1:lemma:mg/ml'
--0.304896 O        b'+1:lemma:or'
--0.309102 O        b'+1:postag:-RRB-'
--0.331291 Supp     b'-1:postag:NNP'
--0.339237 Med      b'+1:postag:IN'
--0.352184 O        b'postag:RB'
--0.361577 Gtype    b'postag:CD'
--0.367320 O        b'-1:lemma:ml'
--0.377900 O        b'lemma:dissolve'
--0.378236 O        b'+1:lemma:.'
--0.378236 O        b'+1:postag:.'
--0.378886 O        b'+1:lemma:until'
--0.380197 O        b'lemma:od600'
--0.380556 O        b'-1:lemma:od600'
--0.388687 O        b'lemma:phase'
--0.393310 O        b'+1:lemma:0.3'
--0.399102 O        b'+1:postag:IN'
--0.399168 Temp     b'postag:JJ'
--0.401235 O        b'-1:lemma:~'
--0.410916 O        b'-1:lemma:rpob'
--0.431448 OD       b'lemma:-lrb-'
--0.434432 Technique b'-1:lemma::'
--0.444259 Supp     b'+1:postag:VBN'
--0.459196 Technique b'-1:postag::'
--0.459291 OD       b'+1:lemma:and'
--0.470209 O        b'lemma:\xe2\x88\x86'
--0.486291 O        b'+1:lemma:%'
--0.518507 O        b'-1:lemma:IP'
--0.519707 Phase    b'-1:lemma:at'
--0.526678 O        b'lemma:dpd'
--0.534234 Air      b'-1:postag:JJ'
--0.540044 pH       b'postag:NN'
--0.542011 O        b'+1:lemma:c'
--0.553114 O        b'-1:lemma:grow'
--0.571198 O        b'lemma:0.3'
--0.573213 Med      b'+1:postag:NN'
--0.592187 Temp     b'postag:NN'
--0.596509 O        b'-1:lemma:mid-log'
--0.616998 O        b'lemma:media'
--0.625245 O        b'+1:lemma:cell'
--0.625847 O        b'-1:lemma:cra'
--0.668364 Gversion b'+1:postag:NN'
--0.670411 O        b'+1:lemma:+'
--0.670829 O        b'lemma:anaerobically'
--0.693082 Supp     b'+1:lemma:rifampicin'
--0.727079 O        b'-1:lemma:dissolve'
--0.727079 O        b'+1:lemma:methanol'
--0.738408 O        b'+1:lemma:fecl2'
--0.792874 O        b'lemma:20'
--0.848889 OD       b'+1:postag:NN'
--0.848997 Supp     b'+1:lemma:acetate'
--0.861900 Med      b'-1:postag:IN'
--0.865385 O        b'lemma:0.2'
--0.892622 Temp     b'+1:lemma:to'
--0.892622 Temp     b'+1:postag:TO'
--0.937071 O        b'+1:lemma:supplement'
--0.938360 O        b'-1:lemma:co2'
--0.960239 O        b'lemma:2h'
--0.960239 O        b'-1:lemma:additional'
--0.973815 O        b'lemma:of'
--1.034828 O        b'+1:postag:VBG'
--1.035428 O        b'+1:lemma:g/l'
--1.050289 O        b'lemma:mid-log'
--1.059894 O        b'-1:postag:VBG'
--1.066538 O        b'lemma:0.1'
--1.076597 O        b'-1:postag::'
--1.106329 Phase    b'+1:postag:NN'
--1.148398 Phase    b'-1:postag:NN'
--1.172180 Air      b'+1:postag:JJ'
--1.201626 O        b'lemma:37'
--1.206293 OD       b'postag:-LRB-'
--1.252513 O        b'-1:lemma:37'
--1.399946 O        b'+1:lemma:at'
--1.439837 O        b'lemma:wt'
--1.474885 O        b'-1:lemma:nsrr'
--1.521797 O        b'lemma:fecl2'
--1.544569 Anti     b'postag:NNP'
--1.548585 O        b'+1:lemma:hour'
--1.566877 Supp     b'-1:lemma:%'
--1.597712 O        b'+1:lemma:in'
--1.629113 O        b'-1:lemma:ompr'
--1.773656 Air      b'postag:NN'
--1.898147 Phase    b'-1:postag:JJ'
--2.222432 O        b'lemma:rifampicin'
--2.229376 O        b'-1:lemma:2'
--2.493849 O        b'+1:lemma:1'
--2.529260 O        b'lemma:methanol'
--2.707675 O        b'+1:lemma:2'
--2.830767 Supp     b'postag:JJ'
--2.988306 Phase    b'postag:JJ'
--4.548731 O        b'-1:lemma::'
--4.577007 O        b'-1:lemma:_'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.11486416926458794, 'c2': 0.02680674100354409}
+best CV score:0.8644252350498997
+model size: 0.12M
+
+Flat F1: 0.7889552451646998
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      0.955     0.913     0.933        23
+        Med      1.000     0.943     0.971        53
+       Temp      1.000     0.690     0.816        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.875     0.933     0.903        15
+        Air      0.556     0.362     0.439        69
+       Anti      0.579     1.000     0.733        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.877     0.753     0.810        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.848     0.791     0.819       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.845     0.749     0.789       451
+
+
+Top likely transitions:
+Temp   -> Temp    5.434090
+Agit   -> Agit    5.083855
+Anti   -> Anti    5.066839
+OD     -> OD      4.944534
+Supp   -> Supp    4.921053
+Med    -> Med     4.814443
+Gtype  -> Gtype   4.724645
+Gversion -> Gversion 4.371417
+O      -> O       4.134917
+Phase  -> Phase   4.076535
+Air    -> Air     4.013049
+Technique -> Technique 3.791769
+pH     -> pH      2.691203
+Substrain -> Gtype   1.373548
+Gtype  -> Supp    1.262860
+O      -> Gtype   1.231509
+O      -> Technique 1.057715
+O      -> Supp    0.927276
+Air    -> O       0.926745
+Gtype  -> pH      0.675182
+Gtype  -> Air     0.618804
+Technique -> Air     0.558242
+Supp   -> O       0.412087
+Temp   -> O       0.355896
+O      -> Temp    0.211297
+Med    -> O       0.203763
+O      -> Anti    0.188101
+Strain -> O       0.110948
+O      -> Phase   0.067802
+O      -> OD      0.026887
+Phase  -> O       -0.000033
+OD     -> O       -0.000624
+O      -> Agit    -0.005237
+Anti   -> O       -0.013260
+Technique -> OD      -0.015560
+Supp   -> Air     -0.017152
+Air    -> Supp    -0.041258
+Technique -> O       -0.086710
+Agit   -> O       -0.090919
+Air    -> Med     -0.201293
+O      -> Med     -0.213366
+Air    -> Phase   -0.347298
+Air    -> Temp    -0.357907
+Phase  -> Supp    -0.382883
+OD     -> Air     -0.397558
+Phase  -> OD      -0.415065
+Gtype  -> Anti    -0.434583
+Gtype  -> Med     -0.515634
+Technique -> pH      -0.532638
+Gtype  -> O       -0.589161
+
+
+Top unlikely transitions:
+Med    -> Med     4.814443
+Gtype  -> Gtype   4.724645
+Gversion -> Gversion 4.371417
+O      -> O       4.134917
+Phase  -> Phase   4.076535
+Air    -> Air     4.013049
+Technique -> Technique 3.791769
+pH     -> pH      2.691203
+Substrain -> Gtype   1.373548
+Gtype  -> Supp    1.262860
+O      -> Gtype   1.231509
+O      -> Technique 1.057715
+O      -> Supp    0.927276
+Air    -> O       0.926745
+Gtype  -> pH      0.675182
+Gtype  -> Air     0.618804
+Technique -> Air     0.558242
+Supp   -> O       0.412087
+Temp   -> O       0.355896
+O      -> Temp    0.211297
+Med    -> O       0.203763
+O      -> Anti    0.188101
+Strain -> O       0.110948
+O      -> Phase   0.067802
+O      -> OD      0.026887
+Phase  -> O       -0.000033
+OD     -> O       -0.000624
+O      -> Agit    -0.005237
+Anti   -> O       -0.013260
+Technique -> OD      -0.015560
+Supp   -> Air     -0.017152
+Air    -> Supp    -0.041258
+Technique -> O       -0.086710
+Agit   -> O       -0.090919
+Air    -> Med     -0.201293
+O      -> Med     -0.213366
+Air    -> Phase   -0.347298
+Air    -> Temp    -0.357907
+Phase  -> Supp    -0.382883
+OD     -> Air     -0.397558
+Phase  -> OD      -0.415065
+Gtype  -> Anti    -0.434583
+Gtype  -> Med     -0.515634
+Technique -> pH      -0.532638
+Gtype  -> O       -0.589161
+O      -> Air     -0.833200
+Supp   -> Med     -0.863491
+Technique -> Gtype   -0.999961
+Substrain -> O       -1.154679
+Med    -> Supp    -1.746454
+
+
+Top positive:
+5.242070 Air      b'word:Aerobic'
+4.810824 O        b'lemma:_'
+4.810824 O        b'word:_'
+4.702604 Air      b'lemma:anaerobic'
+4.379183 O        b'word:Cra'
+3.811896 Technique b'word:ChIP-Seq'
+3.692913 Gtype    b'lemma:wild-type'
+3.658772 Air      b'postag:RB'
+3.551778 O        b'postag:IN'
+3.496331 O        b'-1:lemma:ChIP-exo'
+3.382322 Gtype    b'lemma:wt'
+3.353140 O        b'postag::'
+3.300897 Air      b'word:Anaerobic'
+3.260825 Technique b'lemma:ChIP-exo'
+3.157424 Technique b'word:ChIP-exo'
+3.138715 Supp     b'lemma:Iron'
+3.138715 Supp     b'word:Iron'
+3.138715 Supp     b'+1:word:Deficient'
+3.135138 Gtype    b'word:WT'
+3.125987 Technique b'word:ChIPSeq'
+3.117161 Supp     b'lemma:nh4cl'
+3.113447 Supp     b'lemma:pq'
+3.113447 Supp     b'word:PQ'
+3.089898 O        b'lemma:2'
+3.089898 O        b'word:2'
+2.955558 Technique b'lemma:rna-seq'
+2.907748 Supp     b'-1:word:Cra'
+2.858859 O        b'lemma:-'
+2.858859 O        b'word:-'
+2.779905 O        b'lemma:1'
+2.779905 O        b'word:1'
+2.749191 O        b'postag:CC'
+2.719373 O        b'lemma:rpob'
+2.719373 O        b'word:RpoB'
+2.681464 O        b'lemma:3'
+2.681464 O        b'word:3'
+2.680679 Gversion b'lemma:asm584v2'
+2.680679 Gversion b'word:ASM584v2'
+2.675651 Phase    b'lemma:mid-log'
+2.675651 Phase    b'word:mid-log'
+2.644118 O        b'lemma:chip'
+2.643576 Strain   b'+1:lemma:substr'
+2.643576 Strain   b'+1:word:substr'
+2.573762 Gtype    b'lemma:\xce\xb4cra'
+2.570718 Gtype    b'word:\xce\x94cra'
+2.569025 Med      b'lemma:MOPS'
+2.569025 Med      b'word:MOPS'
+2.564545 Supp     b'+1:lemma:\xc2\xb5m'
+2.564545 Supp     b'+1:word:\xc2\xb5M'
+2.540412 O        b'lemma:.'
+2.540412 O        b'postag:.'
+2.540412 O        b'word:.'
+2.523030 O        b'-1:word:tag'
+2.521842 Gtype    b'lemma:type'
+2.521842 Gtype    b'word:type'
+2.501449 Technique b'lemma:chipseq'
+2.486934 O        b'lemma:Custom'
+2.486934 O        b'word:Custom'
+2.456959 Gtype    b'+1:lemma:type'
+2.456959 Gtype    b'+1:word:type'
+2.442001 O        b'lemma:a'
+2.306156 Phase    b'lemma:exponential'
+2.306156 Phase    b'word:exponential'
+2.306156 Phase    b'lemma:stationary'
+2.306156 Phase    b'word:stationary'
+2.278404 O        b'-1:lemma:tag'
+2.248178 O        b'lemma:b'
+2.248178 O        b'word:B'
+2.236935 Air      b'word:anaerobic'
+2.220325 Supp     b'lemma:arginine'
+2.200862 pH       b'+1:postag:CD'
+2.198724 Supp     b'lemma:glucose'
+2.198724 Supp     b'word:glucose'
+2.169027 O        b'+1:postag:RB'
+2.146306 Supp     b'lemma:nacl'
+2.146306 Supp     b'word:NaCl'
+2.141305 O        b'lemma:ompr'
+2.141305 O        b'word:OmpR'
+2.134893 Gtype    b'lemma:flag-tag'
+2.134893 Gtype    b'-1:lemma:c-terminal'
+2.134893 Gtype    b'word:Flag-tag'
+2.134893 Gtype    b'-1:word:C-terminal'
+2.115770 Gversion b'lemma:nc'
+2.115770 Gversion b'word:NC'
+2.102355 Substrain b'lemma:mg1655'
+2.102355 Substrain b'word:MG1655'
+2.096735 O        b'+1:lemma:pq'
+2.096735 O        b'+1:word:PQ'
+2.076016 Gtype    b'postag:-LRB-'
+2.067392 O        b'-1:word:Aerobic'
+2.067015 Gtype    b'lemma:delta-fnr'
+2.067015 Gtype    b'word:delta-fnr'
+2.020747 O        b'word:A'
+2.011558 Supp     b'lemma:rifampicin'
+2.011558 Supp     b'word:rifampicin'
+2.009828 Technique b'lemma:rnaseq'
+2.009828 Technique b'word:RNASeq'
+1.995883 O        b'+1:postag:NNP'
+1.979049 Gtype    b'-1:postag:VBG'
+1.964073 O        b'+1:word:were'
+1.938262 O        b'lemma:rep1'
+1.938262 O        b'word:rep1'
+1.933374 Supp     b'lemma:acetate'
+1.933374 Supp     b'word:acetate'
+1.929172 O        b'postag:VBN'
+1.923161 Strain   b'lemma:k-12'
+1.923161 Strain   b'word:K-12'
+1.913934 Technique b'-1:lemma:chip-exo'
+1.905918 O        b'lemma:rep3'
+1.905918 O        b'word:rep3'
+1.902460 Gtype    b'-1:lemma:\xe2\x88\x86'
+1.902460 Gtype    b'-1:word:\xe2\x88\x86'
+1.888089 Supp     b'lemma:nitrate'
+1.888089 Supp     b'word:nitrate'
+1.880361 Supp     b'-1:lemma:with'
+1.880361 Supp     b'-1:word:with'
+1.879119 O        b'+1:word:ChIP-Seq'
+1.873439 Gtype    b'lemma:\xe2\x88\x86'
+1.873439 Gtype    b'word:\xe2\x88\x86'
+1.869636 O        b'-1:lemma:lb'
+1.869636 O        b'-1:word:LB'
+1.865650 Gversion b'-1:lemma:nc'
+1.865650 Gversion b'-1:word:NC'
+1.865606 Gtype    b'lemma:arca8myc'
+1.865606 Gtype    b'word:ArcA8myc'
+1.864036 Agit     b'+1:lemma:rpm'
+1.864036 Agit     b'+1:word:rpm'
+1.856334 Agit     b'lemma:rpm'
+1.856334 Agit     b'word:rpm'
+1.839596 Anti     b'lemma:seqa'
+1.839596 Anti     b'word:SeqA'
+1.836163 Supp     b'-1:postag:CC'
+1.835200 O        b'lemma:with'
+1.835200 O        b'word:with'
+1.814125 O        b'lemma:culture'
+1.811651 Supp     b'-1:lemma:Cra'
+1.792538 Air      b'-1:lemma:ChIP-Seq'
+1.792538 Air      b'-1:word:ChIP-Seq'
+1.768358 Air      b'lemma:aerobic'
+1.762953 O        b'isLower'
+1.736496 Gtype    b'word:cra'
+1.714381 Gversion b'word:ChIP-Seq'
+1.710946 Air      b'-1:postag::'
+1.709986 Gtype    b'postag:NN'
+1.698044 O        b'lemma:at'
+1.695726 Gtype    b'lemma:\xce\xb4soxr'
+1.695726 Gtype    b'word:\xce\x94soxR'
+1.678182 Vess     b'lemma:flask'
+1.678182 Vess     b'-1:lemma:warm'
+1.678182 Vess     b'word:flask'
+1.678182 Vess     b'-1:word:warmed'
+1.674493 Gtype    b'lemma:pk4854'
+1.674493 Gtype    b'word:PK4854'
+1.651636 Anti     b'lemma:none'
+1.651636 Anti     b'word:none'
+1.644746 O        b'-1:lemma:0.3'
+1.644746 O        b'-1:word:0.3'
+1.636558 Supp     b'lemma:no3'
+1.636558 Supp     b'word:NO3'
+1.624682 Gtype    b'+1:postag::'
+1.623664 Phase    b'-1:lemma:mid-log'
+1.623664 Phase    b'-1:word:mid-log'
+1.618042 Supp     b'lemma:dpd'
+1.618042 Supp     b'word:DPD'
+1.614435 Gtype    b'lemma:\xce\xb4fur'
+1.614435 Gtype    b'word:\xce\x94fur'
+1.613699 Gtype    b'+1:lemma:ph5'
+1.613699 Gtype    b'+1:word:pH5'
+1.607121 Gversion b'lemma:chip-seq'
+1.597322 Anti     b'lemma:\xcf\x8332'
+1.597322 Anti     b'word:\xcf\x8332'
+1.592709 O        b'lemma:Cra'
+1.582551 Med      b'lemma:lb'
+1.582551 Med      b'word:LB'
+1.568363 Supp     b'-1:lemma:vol'
+1.568363 Supp     b'-1:word:vol'
+1.559468 Air      b'lemma:Aerobic'
+1.556342 Technique b'word:RNA-Seq'
+1.553167 Med      b'-1:lemma:ml'
+1.553167 Med      b'-1:word:ml'
+1.553041 Med      b'+1:lemma:0.4'
+1.553041 Med      b'+1:word:0.4'
+1.551077 Supp     b'lemma:Leu'
+1.551077 Supp     b'word:Leu'
+1.543969 Air      b'lemma:anaerobically'
+1.543969 Air      b'word:anaerobically'
+1.543172 O        b'lemma::'
+1.543172 O        b'word::'
+1.540510 Anti     b'+1:lemma:antibody'
+1.540510 Anti     b'+1:word:antibody'
+1.537669 Air      b'lemma:anaeroibc'
+1.537669 Air      b'word:Anaeroibc'
+1.525613 OD       b'-1:postag:IN'
+1.524837 Supp     b'lemma:Fe'
+1.524837 Supp     b'word:Fe'
+1.524330 Gtype    b'postag:-RRB-'
+1.516209 O        b'-1:lemma:glucose'
+1.516209 O        b'-1:word:glucose'
+1.504553 Gtype    b'+1:lemma:with'
+1.504553 Gtype    b'+1:word:with'
+
+
+Top negative:
+-0.149499 Anti     b'+1:word:anti-Fur'
+-0.152520 O        b'+1:lemma:95'
+-0.152520 O        b'+1:word:95'
+-0.156326 Supp     b'+1:lemma:dpd'
+-0.156326 Supp     b'+1:word:DPD'
+-0.162658 Supp     b'lemma:10'
+-0.162658 Supp     b'word:10'
+-0.163808 O        b'+1:lemma:for'
+-0.165890 Phase    b'+1:postag:NN'
+-0.166827 O        b'-1:lemma:dfnr'
+-0.166827 O        b'-1:word:dFNR'
+-0.171844 O        b'+1:word:was'
+-0.175747 O        b'-1:lemma:of'
+-0.175747 O        b'-1:word:of'
+-0.193766 O        b'-1:word:from'
+-0.208529 O        b'-1:lemma:1m'
+-0.208529 O        b'-1:word:1M'
+-0.210506 Air      b'isLower'
+-0.210844 Technique b'-1:postag::'
+-0.216830 O        b'+1:lemma:.'
+-0.216830 O        b'+1:postag:.'
+-0.216830 O        b'+1:word:.'
+-0.223522 O        b'-1:lemma:final'
+-0.223522 O        b'-1:word:final'
+-0.223753 Med      b'-1:postag:CD'
+-0.233131 O        b'-1:postag:JJ'
+-0.239249 OD       b'isNumber'
+-0.243733 O        b'lemma:20'
+-0.243733 O        b'word:20'
+-0.246275 Air      b'-1:postag:CC'
+-0.247467 O        b'lemma:k-12'
+-0.247467 O        b'word:K-12'
+-0.265976 O        b'lemma:glucose'
+-0.265976 O        b'word:glucose'
+-0.271369 O        b'+1:word:C'
+-0.274901 O        b'-1:lemma:the'
+-0.284581 O        b'-1:word:the'
+-0.284785 O        b'+1:lemma:supplement'
+-0.284785 O        b'+1:word:supplemented'
+-0.285764 pH       b'postag:NN'
+-0.293864 pH       b'isUpper'
+-0.308118 Air      b'-1:lemma:or'
+-0.308118 Air      b'-1:word:or'
+-0.310139 Gtype    b'-1:postag:CD'
+-0.322263 Supp     b'postag:CC'
+-0.324104 O        b'-1:lemma:cra'
+-0.328286 O        b'lemma:37'
+-0.328286 O        b'word:37'
+-0.330168 O        b'word:ChIP-exo'
+-0.334656 O        b'-1:lemma:37'
+-0.334656 O        b'-1:word:37'
+-0.340095 Anti     b'isUpper'
+-0.342430 O        b'-1:lemma:n2'
+-0.342430 O        b'-1:word:N2'
+-0.348188 O        b'-1:lemma:mm'
+-0.348188 O        b'-1:word:mM'
+-0.350821 Supp     b'+1:lemma:fructose'
+-0.350821 Supp     b'+1:word:fructose'
+-0.352833 O        b'+1:postag:IN'
+-0.355440 O        b'-1:postag:-LRB-'
+-0.358948 O        b'+1:postag:-LRB-'
+-0.368508 O        b'lemma:fructose'
+-0.368508 O        b'word:fructose'
+-0.369578 Gtype    b'+1:postag:CD'
+-0.370939 O        b'lemma:aerobically'
+-0.370939 O        b'word:aerobically'
+-0.372723 O        b'lemma:\xce\xb4fur'
+-0.372723 O        b'word:\xce\x94fur'
+-0.374885 Supp     b'+1:lemma:acetate'
+-0.374885 Supp     b'+1:word:acetate'
+-0.383718 O        b'-1:lemma:ph'
+-0.383718 O        b'-1:word:pH'
+-0.388799 O        b'-1:lemma:rpob'
+-0.388799 O        b'-1:word:RpoB'
+-0.388879 O        b'word:cells'
+-0.392268 Supp     b'-1:lemma:-lrb-'
+-0.392268 Supp     b'-1:word:-LRB-'
+-0.394884 O        b'+1:postag:-RRB-'
+-0.401778 O        b'lemma:minimal'
+-0.401778 O        b'word:minimal'
+-0.405443 O        b'+1:lemma:2.0'
+-0.405443 O        b'+1:word:2.0'
+-0.409365 O        b'lemma:medium'
+-0.409365 O        b'word:medium'
+-0.416217 O        b'-1:lemma:until'
+-0.416217 O        b'-1:word:until'
+-0.422801 O        b'+1:lemma:until'
+-0.422801 O        b'+1:word:until'
+-0.422973 O        b'lemma:nitrate'
+-0.422973 O        b'word:nitrate'
+-0.424570 O        b'-1:lemma:co2'
+-0.424570 O        b'-1:word:CO2'
+-0.426175 Supp     b'-1:postag:-LRB-'
+-0.430390 O        b'-1:lemma:dissolve'
+-0.430390 O        b'+1:lemma:methanol'
+-0.430390 O        b'-1:word:dissolved'
+-0.430390 O        b'+1:word:methanol'
+-0.431326 O        b'-1:lemma:chip-exo'
+-0.434536 Med      b'-1:postag:NN'
+-0.437879 Supp     b'+1:lemma:nacl'
+-0.437879 Supp     b'+1:word:NaCl'
+-0.438271 Gtype    b'+1:lemma:-lrb-'
+-0.438271 Gtype    b'+1:word:-LRB-'
+-0.517777 O        b'lemma:0.3'
+-0.517777 O        b'word:0.3'
+-0.554787 O        b'+1:lemma:+'
+-0.554787 O        b'+1:word:+'
+-0.556538 Med      b'+1:postag:IN'
+-0.560443 Med      b'-1:postag:IN'
+-0.564073 Phase    b'isUpper'
+-0.567749 O        b'lemma:mid-log'
+-0.567749 O        b'word:mid-log'
+-0.569865 O        b'+1:lemma:mm'
+-0.569865 O        b'+1:word:mM'
+-0.574929 O        b'+1:lemma:at'
+-0.574929 O        b'+1:word:at'
+-0.576720 O        b'lemma:methanol'
+-0.576720 O        b'word:methanol'
+-0.582128 O        b'-1:lemma:\xe2\x88\x86'
+-0.582128 O        b'-1:word:\xe2\x88\x86'
+-0.586115 O        b'lemma:anaerobically'
+-0.586115 O        b'word:anaerobically'
+-0.586317 pH       b'isLower'
+-0.602158 O        b'lemma:30'
+-0.602158 O        b'word:30'
+-0.604997 O        b'+1:lemma:g/l'
+-0.604997 O        b'+1:word:g/L'
+-0.607721 O        b'+1:lemma:1m'
+-0.607721 O        b'+1:word:1M'
+-0.633619 O        b'-1:postag:IN'
+-0.635683 O        b'-1:lemma:30'
+-0.635683 O        b'-1:word:30'
+-0.637769 O        b'-1:lemma:ml'
+-0.637769 O        b'-1:word:ml'
+-0.669793 Air      b'postag:NN'
+-0.682250 O        b'+1:word:ChIP-exo'
+-0.688742 O        b'lemma:of'
+-0.688742 O        b'word:of'
+-0.712089 Air      b'+1:postag:JJ'
+-0.712952 O        b'-1:lemma:1'
+-0.712952 O        b'-1:word:1'
+-0.726205 O        b'lemma:2h'
+-0.726205 O        b'-1:lemma:additional'
+-0.726205 O        b'word:2h'
+-0.726205 O        b'-1:word:additional'
+-0.727554 O        b'-1:postag::'
+-0.740726 O        b'-1:lemma:nsrr'
+-0.740726 O        b'-1:word:NsrR'
+-0.747068 Temp     b'postag:NN'
+-0.802318 O        b'lemma:nitrogen'
+-0.802318 O        b'word:nitrogen'
+-0.820825 Supp     b'+1:postag:VBN'
+-0.826345 O        b'lemma:media'
+-0.826345 O        b'word:media'
+-0.827286 O        b'-1:lemma:2'
+-0.827286 O        b'-1:word:2'
+-0.831918 O        b'-1:lemma:IP'
+-0.831918 O        b'-1:word:IP'
+-0.838607 O        b'-1:lemma:fresh'
+-0.838607 O        b'-1:word:fresh'
+-0.854504 O        b'lemma:wt'
+-0.854588 Supp     b'-1:postag:NNP'
+-0.874101 O        b'postag:RB'
+-0.937975 Agit     b'isUpper'
+-0.956352 O        b'+1:lemma:in'
+-0.956352 O        b'+1:word:in'
+-0.979766 O        b'+1:lemma:1'
+-0.979766 O        b'+1:word:1'
+-0.982287 Gtype    b'isLower'
+-0.999251 Technique b'isNumber'
+-1.074766 O        b'postag:VBP'
+-1.110753 Gtype    b'isUpper'
+-1.116498 O        b'+1:postag:VBG'
+-1.181571 Supp     b'+1:postag:-LRB-'
+-1.192346 O        b'-1:lemma:sample'
+-1.216569 Supp     b'+1:lemma:-lrb-'
+-1.216569 Supp     b'+1:word:-LRB-'
+-1.249356 Technique b'isLower'
+-1.267812 O        b'+1:lemma:2'
+-1.267812 O        b'+1:word:2'
+-1.275807 O        b'lemma:rifampicin'
+-1.275807 O        b'word:rifampicin'
+-1.320279 Gtype    b'isNumber'
+-1.328236 Gversion b'isLower'
+-1.369132 O        b'-1:lemma:vol'
+-1.369132 O        b'-1:word:vol'
+-1.376089 Supp     b'+1:lemma:,'
+-1.376089 Supp     b'+1:postag:,'
+-1.376089 Supp     b'+1:word:,'
+-1.376957 Phase    b'postag:JJ'
+-1.401753 OD       b'+1:postag:NN'
+-1.485274 Anti     b'postag:NNP'
+-1.787019 Supp     b'postag:JJ'
+-1.891720 Temp     b'+1:postag:IN'
+-2.179250 O        b'-1:lemma:_'
+-2.179250 O        b'-1:word:_'
+-2.181717 Phase    b'-1:postag:JJ'
+-2.190768 O        b'-1:postag:VBG'
+-2.226803 O        b'-1:lemma::'
+-2.226803 O        b'-1:word::'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.24365115413317517, 'c2': 0.017603116029939036}
-best CV score:0.797058241278945
-model size: 0.06M
-
-Flat F1: 0.7778441635784862
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.780     0.742     0.760        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.863     0.774     0.816       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.818     0.662     0.732       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.847     0.735     0.778       480
-
-
-Top likely transitions:
-OD     -> OD      6.460512
-Agit   -> Agit    6.341871
-Temp   -> Temp    5.624129
-Med    -> Med     5.402282
-Anti   -> Anti    5.214940
-Air    -> Air     4.858980
-Phase  -> Phase   4.544403
-Gtype  -> Gtype   4.483666
-Supp   -> Supp    4.372876
-Gversion -> Gversion 4.358204
-O      -> O       4.356881
-Technique -> Technique 3.828561
-O      -> Supp    2.070080
-Gtype  -> Supp    1.938994
-pH     -> pH      1.828748
-Air    -> O       1.699192
-O      -> Technique 1.307357
-Substrain -> Gtype   1.254891
-O      -> Gtype   1.237193
-O      -> Temp    0.952632
-Med    -> O       0.819857
-OD     -> Phase   0.738941
-Technique -> Air     0.735321
-O      -> Anti    0.520896
-Supp   -> O       0.493996
-Temp   -> O       0.435644
-O      -> Gversion 0.368943
-Phase  -> O       0.362864
-Gtype  -> pH      0.340162
-O      -> Med     0.294591
-Gtype  -> Air     0.108303
-O      -> Strain  0.008465
-Gtype  -> O       -0.094763
-Gtype  -> Anti    -0.194733
-OD     -> O       -0.218649
-Technique -> pH      -0.317427
-Agit   -> O       -0.543505
-Supp   -> Med     -0.600692
-Gtype  -> OD      -0.628749
-O      -> Air     -0.839621
-Substrain -> O       -0.911959
-Med    -> Supp    -1.122521
-Phase  -> OD      -1.131519
-
-
-Top unlikely transitions:
-OD     -> OD      6.460512
-Agit   -> Agit    6.341871
-Temp   -> Temp    5.624129
-Med    -> Med     5.402282
-Anti   -> Anti    5.214940
-Air    -> Air     4.858980
-Phase  -> Phase   4.544403
-Gtype  -> Gtype   4.483666
-Supp   -> Supp    4.372876
-Gversion -> Gversion 4.358204
-O      -> O       4.356881
-Technique -> Technique 3.828561
-O      -> Supp    2.070080
-Gtype  -> Supp    1.938994
-pH     -> pH      1.828748
-Air    -> O       1.699192
-O      -> Technique 1.307357
-Substrain -> Gtype   1.254891
-O      -> Gtype   1.237193
-O      -> Temp    0.952632
-Med    -> O       0.819857
-OD     -> Phase   0.738941
-Technique -> Air     0.735321
-O      -> Anti    0.520896
-Supp   -> O       0.493996
-Temp   -> O       0.435644
-O      -> Gversion 0.368943
-Phase  -> O       0.362864
-Gtype  -> pH      0.340162
-O      -> Med     0.294591
-Gtype  -> Air     0.108303
-O      -> Strain  0.008465
-Gtype  -> O       -0.094763
-Gtype  -> Anti    -0.194733
-OD     -> O       -0.218649
-Technique -> pH      -0.317427
-Agit   -> O       -0.543505
-Supp   -> Med     -0.600692
-Gtype  -> OD      -0.628749
-O      -> Air     -0.839621
-Substrain -> O       -0.911959
-Med    -> Supp    -1.122521
-Phase  -> OD      -1.131519
-
-
-Top positive:
-7.945473 O        b'lemma:_'
-7.412165 Supp     b'lemma:Iron'
-6.926609 Air      b'lemma:anaerobic'
-6.922674 O        b'lemma:1'
-6.590205 Air      b'lemma:aerobic'
-6.223986 Strain   b'lemma:k-12'
-6.187011 Technique b'lemma:ChIP-exo'
-6.130654 Phase    b'lemma:stationary'
-5.864907 Supp     b'lemma:nitrate'
-5.653173 O        b'lemma:2'
-5.610923 O        b'lemma:rpob'
-5.610415 Air      b'-1:lemma:ChIP-Seq'
-5.397732 Phase    b'lemma:mid-log'
-5.255269 O        b'lemma:3'
-5.206599 Technique b'lemma:chipseq'
-4.960561 Substrain b'lemma:mg1655'
-4.914901 O        b'postag:IN'
-4.746312 Supp     b'lemma:pq'
-4.579937 Gtype    b'lemma:\xce\xb4cra'
-4.520187 Gtype    b'lemma:type'
-4.511014 OD       b'lemma:od600'
-4.469574 Gtype    b'lemma:flag-tag'
-4.469574 Gtype    b'-1:lemma:c-terminal'
-4.462810 O        b'lemma:rep1'
-4.392739 O        b'postag::'
-4.375670 Gversion b'lemma:asm584v2'
-4.369737 O        b'lemma:Custom'
-4.356443 O        b'lemma:b'
-4.303923 Technique b'lemma:ChIP-Seq'
-4.302917 Med      b'lemma:MOPS'
-4.296205 Supp     b'lemma:nh4cl'
-4.281883 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.279879 Gtype    b'+1:lemma:type'
-4.270631 O        b'lemma:rep2'
-4.239368 Air      b'lemma:Aerobic'
-4.132080 Gversion b'lemma:nc'
-4.117043 Med      b'lemma:lb'
-4.108014 Supp     b'+1:lemma:\xc2\xb5m'
-4.076646 O        b'lemma:rep3'
-4.043095 Gtype    b'lemma:arca8myc'
-4.041495 Supp     b'lemma:glucose'
-4.033775 O        b'lemma:a'
-4.027421 O        b'-1:lemma:tag'
-4.027011 Med      b'lemma:LB'
-4.007935 O        b'lemma:Cra'
-3.910498 Gtype    b'lemma:wt'
-3.905564 O        b'-1:lemma:ChIP-exo'
-3.870678 O        b'lemma:\xcf\x8332'
-3.727782 Supp     b'lemma:acetate'
-3.697104 Gtype    b'lemma:delta-arca'
-3.647724 Technique b'lemma:rna-seq'
-3.633897 Supp     b'lemma:Fe'
-3.575150 Gtype    b'lemma:fnr8myc'
-3.536159 OD       b'lemma:od450'
-3.488627 Supp     b'lemma:rifampicin'
-3.426221 O        b'lemma:.'
-3.426221 O        b'postag:.'
-3.421248 Technique b'lemma:chip-seq'
-3.389912 Air      b'postag:RB'
-3.367471 Med      b'+1:lemma:0.4'
-3.358386 Gtype    b'lemma:\xe2\x88\x86'
-3.341657 Supp     b'lemma:dpd'
-3.311375 Supp     b'lemma:no3'
-3.301666 Gtype    b'lemma:nsrr'
-3.263607 OD       b'+1:lemma:stationary'
-3.256783 O        b'-1:lemma:Aerobic'
-3.217842 Anti     b'lemma:none'
-3.181572 Gversion b'-1:lemma:nc'
-3.100116 Technique b'lemma:rnaseq'
-3.072172 Gtype    b'lemma:\xce\xb4fur'
-3.058843 O        b'postag:VBN'
-3.028102 Anti     b'+1:lemma:antibody'
-3.018055 Supp     b'lemma:arginine'
-3.012119 Supp     b'+1:lemma:1'
-3.009503 Gtype    b'lemma:delta-fnr'
-2.984566 O        b'lemma:CEL'
-2.976222 O        b'+1:lemma:od600'
-2.972362 Supp     b'lemma:fructose'
-2.971825 Vess     b'lemma:flask'
-2.971825 Vess     b'-1:lemma:warm'
-2.946262 Technique b'-1:lemma:IP'
-2.917769 Temp     b'-1:lemma:sample'
-2.914128 Med      b'+1:lemma:minimal'
-2.847635 Temp     b'lemma:\xc2\xb0c'
-2.845956 O        b'-1:lemma:type'
-2.837114 pH       b'lemma:ph5'
-2.837114 pH       b'+1:lemma:.5'
-2.822859 Supp     b'+1:lemma:2'
-2.819530 O        b'postag:CC'
-2.802486 Gtype    b'+1:lemma:with'
-2.796286 Anti     b'lemma:seqa'
-2.757551 Gtype    b'+1:lemma:pq'
-2.752041 O        b'lemma:chip'
-2.720379 O        b'lemma:-'
-2.697742 Gversion b'lemma:u00096'
-2.697742 Gversion b'+1:lemma:.2'
-2.686468 Technique b'+1:lemma:chip-exo'
-2.652892 O        b'-1:lemma:0.3-0.35'
-2.634884 O        b'-1:lemma:glucose'
-2.605565 Gversion b'lemma:chip-seq'
-2.589331 Strain   b'+1:lemma:substr'
-2.586612 O        b'+1:postag:RB'
-2.568676 O        b'postag:DT'
-2.560900 Temp     b'-1:lemma:\xcf\x8332'
-2.543878 O        b'lemma:with'
-2.514778 Med      b'lemma:m63'
-2.497949 Anti     b'lemma:anti-myc'
-2.469343 pH       b'lemma:.5'
-2.469343 pH       b'-1:lemma:ph5'
-2.464961 Gversion b'lemma:000913'
-2.461605 Gtype    b'-1:lemma:rpob'
-2.454623 O        b'lemma:s'
-2.438821 O        b'+1:postag:NNP'
-2.438655 Gversion b'lemma:.2'
-2.438655 Gversion b'-1:lemma:u00096'
-2.427395 Technique b'-1:lemma:chip-exo'
-2.415443 Anti     b'lemma:anti-rpos'
-2.411875 Temp     b'-1:lemma:43'
-2.410922 Gtype    b'-1:lemma:ptac'
-2.405223 Gtype    b'lemma:\xce\xb4ompr'
-2.401826 O        b'-1:lemma:anaerobic'
-2.390761 O        b'lemma:or'
-2.388354 O        b'-1:lemma:lb'
-2.381109 Gtype    b'+1:lemma:flagtag'
-2.347230 Med      b'+1:lemma:2.0'
-2.324166 Med      b'lemma:media'
-2.310748 O        b'-1:lemma:0.3'
-2.278494 Supp     b'-1:lemma:Cra'
-2.263509 O        b'+1:lemma:pq'
-2.238545 Supp     b'+1:lemma:_'
-2.229756 O        b'-1:lemma:l1'
-2.226389 Air      b'-1:lemma:co2'
-2.200525 Gtype    b'+1:lemma:aerobic'
-2.173774 Supp     b'lemma:nacl'
-2.171575 Substrain b'+1:lemma:phtpg'
-2.149631 Supp     b'lemma:20'
-2.120754 Gtype    b'lemma:wild-type'
-2.119820 Supp     b'-1:lemma:\xc2\xb5m'
-2.113883 O        b'-1:lemma:\xc2\xb0c'
-2.105763 Supp     b'-1:lemma:+'
-2.101125 O        b'lemma:oxyr'
-2.092553 Gtype    b'lemma:\xce\xb4soxs'
-2.090291 Air      b'-1:lemma:-'
-2.081430 Supp     b'lemma:Leu'
-2.062775 O        b'postag:VBG'
-2.055064 O        b'-1:lemma:stpa'
-2.046935 O        b'lemma:condition'
-2.038964 Temp     b'lemma:43'
-2.033948 Supp     b'lemma:iptg'
-2.023886 pH       b'+1:postag:CD'
-2.022782 Gtype    b'+1:lemma:ph5'
-2.013337 Temp     b'-1:lemma:37'
-1.955826 Med      b'lemma:L'
-1.955826 Med      b'+1:lemma:broth'
-1.954859 Temp     b'lemma:37'
-1.927649 O        b'+1:lemma:chip-seq'
-1.919892 Supp     b'-1:lemma:with'
-1.915338 O        b'lemma:affyexp'
-1.911245 Gtype    b'lemma:pk4854'
-1.909261 Phase    b'-1:lemma:mid-log'
-1.895692 Temp     b'+1:lemma:\xc2\xb0c'
-1.886863 O        b'lemma:genotype/variation'
-1.872821 OD       b'-1:lemma:~'
-1.872507 OD       b'lemma:0.3'
-1.858566 Med      b'+1:lemma:supplement'
-1.848644 Gtype    b'lemma:ptac'
-1.844359 O        b'lemma:Lrp'
-1.841048 Med      b'+1:lemma:+'
-1.831366 O        b'lemma:culture'
-1.830571 Gtype    b'-1:postag:VBG'
-1.825208 O        b'lemma:-rrb-'
-1.822383 Gtype    b'lemma:deltaseqa'
-1.822383 Gtype    b'-1:lemma:old'
-1.820507 Gtype    b'-1:lemma:nsrr'
-1.819979 Gtype    b'+1:lemma:_'
-1.784801 Med      b'+1:lemma:g/l'
-1.781733 Technique b'+1:lemma:rna-seq'
-1.778548 Supp     b'+1:lemma:Deficient'
-1.771039 Gversion b'postag:CD'
-1.755561 O        b'lemma:chip-arca'
-1.740739 Supp     b'lemma:methanol'
-1.728483 O        b'lemma:ompr'
-1.717002 Med      b'-1:lemma:ml'
-1.696842 OD       b'lemma:phase'
-1.693821 Supp     b'lemma:Adenine'
-1.677174 Air      b'-1:postag::'
-1.675361 Phase    b'-1:lemma:until'
-1.672716 Air      b'-1:postag:CD'
-1.672711 Med      b'lemma:broth'
-1.672711 Med      b'-1:lemma:L'
-1.672565 Technique b'-1:lemma:input'
-1.666211 Technique b'-1:lemma:_'
-1.663572 Air      b'lemma:Anaerobic'
-1.657183 Gtype    b'-1:lemma:_'
-1.650921 O        b'lemma:Fur'
-1.650554 Gtype    b'-1:postag:VBP'
-1.647569 Med      b'-1:lemma:glucose'
-1.646454 Gtype    b'lemma:WT'
-1.642228 Air      b'lemma:anaerobically'
-1.638505 Supp     b'+1:lemma:hour'
-
-
-Top negative:
-0.003606 Phase    b'-1:postag:TO'
-0.003173 O        b'+1:lemma:minute'
-0.002853 OD       b'postag:CC'
-0.002630 Technique b'+1:lemma:-rrb-'
-0.002520 Technique b'+1:postag:-RRB-'
-0.002467 Med      b'lemma:m9'
-0.002337 Air      b'+1:postag:-LRB-'
-0.002264 Technique b'+1:lemma:Anaerobic'
-0.002098 Phase    b'postag:RB'
-0.002086 Gtype    b'+1:lemma:rna'
-0.002053 O        b'lemma:~'
-0.001666 OD       b'-1:postag:JJ'
-0.001084 Gtype    b'+1:lemma:chip'
-0.001034 Air      b'+1:lemma:-lrb-'
-0.000728 OD       b'-1:lemma:to'
-0.000728 OD       b'-1:postag:TO'
-0.000711 O        b'-1:lemma:at'
-0.000709 O        b'+1:lemma:_'
-0.000560 Temp     b'+1:postag:VB'
-0.000555 Gtype    b'lemma:lack'
-0.000388 OD       b'postag:VBD'
-0.000335 Air      b'-1:postag:RB'
-0.000334 OD       b'-1:postag:VBN'
-0.000307 Air      b'-1:lemma:95'
-0.000306 Anti     b'-1:lemma:Custom'
-0.000275 O        b'-1:postag:VBZ'
-0.000204 Air      b'-1:lemma:-lrb-'
-0.000203 Air      b'-1:postag:-LRB-'
-0.000156 Temp     b'postag:VB'
-0.000139 Supp     b'+1:lemma:dissolve'
-0.000138 Gtype    b'lemma:ptrc'
-0.000138 Gtype    b'-1:lemma:inducible'
-0.000085 Med      b'-1:lemma:complete'
-0.000051 OD       b'+1:lemma:0.35'
-0.000048 Temp     b'+1:lemma:-rrb-'
-0.000043 Air      b'-1:lemma:anaerobically'
-0.000039 OD       b'+1:postag:VBN'
-0.000034 Temp     b'+1:postag:-RRB-'
-0.000030 Supp     b'-1:postag:VBN'
-0.000028 OD       b'lemma:mg1655'
-0.000023 OD       b'+1:lemma:mg1655'
-0.000022 OD       b'lemma:k-12'
-0.000019 Temp     b'lemma:-lrb-'
-0.000017 Temp     b'postag:-LRB-'
-0.000016 Air      b'lemma:-rrb-'
-0.000015 Air      b'postag:-RRB-'
-0.000007 Gtype    b'lemma:inducible'
-0.000007 Gtype    b'-1:lemma:carrying'
-0.000007 Gtype    b'+1:lemma:ptrc'
-0.000003 O        b'lemma:4'
-0.000001 O        b'postag:VBZ'
-0.000000 Med      b'+1:lemma:,'
-0.000000 Med      b'+1:postag:,'
--0.000019 O        b'-1:lemma:g/l'
--0.000078 O        b'-1:lemma:iptg'
--0.000082 O        b'+1:lemma:until'
--0.000090 Supp     b'+1:postag:CD'
--0.000137 O        b'+1:lemma:phase'
--0.000630 O        b'+1:lemma:grow'
--0.000719 Air      b'lemma:,'
--0.000719 Air      b'postag:,'
--0.000881 Supp     b'-1:postag:NNP'
--0.001151 O        b'+1:lemma:95'
--0.001284 O        b'lemma:glucose'
--0.001441 O        b'lemma:anaerobic'
--0.002285 Supp     b'-1:postag:NN'
--0.003211 Air      b'-1:lemma:,'
--0.003211 Air      b'-1:postag:,'
--0.003285 O        b'+1:lemma:rep1'
--0.003344 O        b'-1:lemma:n2'
--0.004884 Supp     b'+1:postag:IN'
--0.005691 O        b'lemma:grow'
--0.008542 O        b'lemma:\xce\xb4fur'
--0.008810 O        b'lemma:30'
--0.008856 O        b'lemma:\xe2\x88\x86'
--0.016851 Gversion b'+1:postag:NN'
--0.017577 Agit     b'postag:NN'
--0.019899 OD       b'postag:JJ'
--0.021053 Supp     b'lemma:and'
--0.035082 Med      b'-1:postag:IN'
--0.037650 O        b'+1:lemma:shake'
--0.040816 Technique b'-1:lemma::'
--0.042661 Air      b'-1:postag:VBN'
--0.047406 O        b'lemma:e.'
--0.050232 O        b'+1:lemma:300'
--0.057684 Supp     b'postag:CD'
--0.060532 Med      b'+1:postag:IN'
--0.071550 O        b'+1:lemma:5'
--0.074571 Supp     b'+1:lemma:-rrb-'
--0.077631 O        b'-1:postag:VBN'
--0.083084 OD       b'+1:postag:CD'
--0.083227 Air      b'postag:CD'
--0.086748 Supp     b'+1:postag:-RRB-'
--0.087729 O        b'-1:lemma:e.'
--0.089412 O        b'-1:lemma:um'
--0.089412 O        b'+1:lemma:paraquat'
--0.095031 O        b'-1:lemma:,'
--0.095031 O        b'-1:postag:,'
--0.097514 Anti     b'+1:postag:JJ'
--0.097686 O        b'-1:lemma:the'
--0.115298 OD       b'+1:postag:-LRB-'
--0.115560 Phase    b'-1:postag:NN'
--0.117367 Phase    b'-1:postag:JJ'
--0.118533 Supp     b'postag:CC'
--0.118866 Med      b'-1:postag:NN'
--0.119788 O        b'+1:postag:NNS'
--0.128143 O        b'lemma:150'
--0.128143 O        b'+1:lemma:mg/ml'
--0.128440 Gtype    b'postag:CD'
--0.128454 O        b'-1:lemma:rifampicin'
--0.130932 Phase    b'-1:lemma:at'
--0.144251 Air      b'-1:postag:CC'
--0.152959 O        b'+1:lemma:c'
--0.153793 O        b'+1:lemma:arginine'
--0.155635 O        b'+1:lemma:-rrb-'
--0.155871 Phase    b'+1:postag:NN'
--0.169334 O        b'-1:lemma:1'
--0.178678 O        b'-1:lemma:-lrb-'
--0.185252 O        b'-1:lemma:cra'
--0.188794 Supp     b'+1:postag:VBN'
--0.189587 Supp     b'-1:lemma:%'
--0.197975 O        b'+1:lemma:.'
--0.197975 O        b'+1:postag:.'
--0.206342 O        b'-1:postag:IN'
--0.218582 O        b'-1:lemma:of'
--0.228664 O        b'-1:lemma:0.2'
--0.243004 O        b'lemma:phase'
--0.245652 Temp     b'postag:JJ'
--0.248718 O        b'-1:lemma:30'
--0.258083 Supp     b'+1:lemma:rifampicin'
--0.265675 O        b'-1:lemma:from'
--0.270538 Anti     b'+1:lemma:anti-fur'
--0.275341 Med      b'+1:postag:NN'
--0.286886 O        b'lemma:20'
--0.287653 Med      b'postag:CD'
--0.299457 pH       b'postag:NN'
--0.299809 O        b'+1:postag:IN'
--0.304068 O        b'-1:postag:-LRB-'
--0.308718 O        b'+1:lemma:%'
--0.337061 O        b'lemma:media'
--0.343972 O        b'+1:postag:-RRB-'
--0.375037 O        b'-1:lemma:~'
--0.378855 O        b'+1:postag:VBG'
--0.390573 O        b'+1:lemma:0.3'
--0.442424 Temp     b'+1:lemma:to'
--0.442424 Temp     b'+1:postag:TO'
--0.442791 O        b'lemma:dissolve'
--0.457125 Air      b'-1:postag:JJ'
--0.473796 O        b'-1:lemma:ml'
--0.487814 O        b'-1:lemma:grow'
--0.504521 O        b'-1:lemma:od600'
--0.510322 O        b'lemma:anaerobically'
--0.574504 O        b'lemma:0.3'
--0.603912 O        b'+1:lemma:hour'
--0.607283 O        b'lemma:od600'
--0.671305 O        b'+1:lemma:+'
--0.673609 O        b'lemma:fecl2'
--0.687238 O        b'-1:lemma:sample'
--0.693028 OD       b'+1:postag:NN'
--0.699278 Technique b'-1:postag::'
--0.701848 O        b'+1:lemma:fecl2'
--0.704105 Phase    b'postag:JJ'
--0.721360 O        b'-1:lemma:37'
--0.751804 O        b'lemma:2h'
--0.751804 O        b'-1:lemma:additional'
--0.765268 O        b'+1:lemma:cell'
--0.797811 O        b'-1:postag:VBG'
--0.812938 OD       b'lemma:-lrb-'
--0.817055 O        b'lemma:37'
--0.849161 O        b'lemma:0.1'
--0.857948 Temp     b'postag:NN'
--0.858109 Supp     b'+1:lemma:acetate'
--0.893857 O        b'-1:lemma:rpob'
--0.908853 O        b'lemma:0.2'
--0.910535 O        b'lemma:of'
--0.917031 O        b'+1:lemma:g/l'
--0.927240 O        b'-1:lemma:dissolve'
--0.927240 O        b'+1:lemma:methanol'
--0.952327 O        b'-1:postag::'
--1.012901 O        b'lemma:mid-log'
--1.041464 O        b'-1:lemma:ompr'
--1.052741 O        b'lemma:wt'
--1.080730 Anti     b'postag:NNP'
--1.207147 O        b'+1:lemma:supplement'
--1.210841 O        b'lemma:methanol'
--1.241992 Air      b'+1:postag:JJ'
--1.248085 O        b'lemma:rifampicin'
--1.259918 O        b'+1:lemma:at'
--1.297301 O        b'-1:lemma:IP'
--1.445280 O        b'-1:lemma:nsrr'
--1.572311 O        b'+1:lemma:in'
--1.575804 O        b'-1:lemma:co2'
--1.596289 OD       b'postag:-LRB-'
--1.598275 Supp     b'postag:JJ'
--1.805996 Air      b'postag:NN'
--1.906139 O        b'+1:lemma:2'
--2.059834 O        b'+1:lemma:1'
--2.164534 O        b'-1:lemma:2'
--3.758611 O        b'-1:lemma::'
--3.808109 O        b'-1:lemma:_'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.04937325798482469, 'c2': 0.021347060592283952}
+best CV score:0.8727912197138052
+model size: 0.16M
+
+Flat F1: 0.7834470810208732
+             precision    recall  f1-score   support
+
+         OD      0.857     0.818     0.837        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.943     0.971        53
+       Temp      1.000     0.621     0.766        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.556     0.362     0.439        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.885     0.812     0.847        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.735     0.806     0.769       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.818     0.763     0.783       451
+
+
+Top likely transitions:
+Temp   -> Temp    5.697885
+Med    -> Med     5.203676
+Supp   -> Supp    5.023623
+Anti   -> Anti    4.919423
+Agit   -> Agit    4.878209
+OD     -> OD      4.490452
+Gtype  -> Gtype   4.342655
+Phase  -> Phase   4.265502
+Gversion -> Gversion 4.228866
+O      -> O       3.927755
+Air    -> Air     3.904248
+Technique -> Technique 3.337823
+pH     -> pH      3.047130
+Substrain -> Gtype   0.928380
+O      -> Technique 0.767492
+O      -> Supp    0.345238
+O      -> Gtype   0.335711
+Technique -> Air     0.302367
+Air    -> O       0.238748
+Gtype  -> Supp    0.106918
+Temp   -> O       0.099174
+O      -> Anti    0.028918
+O      -> Temp    0.024359
+Gtype  -> Air     0.000872
+O      -> Strain  -0.006968
+OD     -> Med     -0.016869
+Vess   -> O       -0.025460
+Air    -> Agit    -0.030216
+Technique -> Supp    -0.054732
+Gtype  -> Temp    -0.066953
+Air    -> Technique -0.074730
+Phase  -> Gtype   -0.080334
+O      -> Phase   -0.082037
+Anti   -> Supp    -0.094817
+O      -> Agit    -0.122548
+Anti   -> Gtype   -0.136175
+Agit   -> Air     -0.139559
+Phase  -> Technique -0.151160
+Gtype  -> Gversion -0.170913
+Supp   -> Phase   -0.196758
+Supp   -> O       -0.208933
+Agit   -> O       -0.223185
+Supp   -> Technique -0.223482
+Phase  -> OD      -0.285779
+Supp   -> Gversion -0.304736
+Technique -> OD      -0.319741
+Supp   -> Anti    -0.336780
+Med    -> O       -0.359992
+Temp   -> Med     -0.365995
+Supp   -> Air     -0.395049
+
+
+Top unlikely transitions:
+Vess   -> O       -0.025460
+Air    -> Agit    -0.030216
+Technique -> Supp    -0.054732
+Gtype  -> Temp    -0.066953
+Air    -> Technique -0.074730
+Phase  -> Gtype   -0.080334
+O      -> Phase   -0.082037
+Anti   -> Supp    -0.094817
+O      -> Agit    -0.122548
+Anti   -> Gtype   -0.136175
+Agit   -> Air     -0.139559
+Phase  -> Technique -0.151160
+Gtype  -> Gversion -0.170913
+Supp   -> Phase   -0.196758
+Supp   -> O       -0.208933
+Agit   -> O       -0.223185
+Supp   -> Technique -0.223482
+Phase  -> OD      -0.285779
+Supp   -> Gversion -0.304736
+Technique -> OD      -0.319741
+Supp   -> Anti    -0.336780
+Med    -> O       -0.359992
+Temp   -> Med     -0.365995
+Supp   -> Air     -0.395049
+Anti   -> Temp    -0.433807
+Air    -> Med     -0.443745
+Technique -> Gtype   -0.461980
+Anti   -> O       -0.477920
+Phase  -> Med     -0.496773
+Phase  -> Supp    -0.504111
+Supp   -> Gtype   -0.542703
+Air    -> Supp    -0.549017
+OD     -> Air     -0.590463
+Gtype  -> Technique -0.617626
+OD     -> O       -0.633869
+Gversion -> O       -0.665626
+Technique -> pH      -0.667545
+Phase  -> O       -0.674680
+Air    -> Phase   -0.701860
+Air    -> Temp    -0.825208
+Gtype  -> Anti    -0.861670
+O      -> Med     -0.887587
+O      -> OD      -1.001120
+Technique -> O       -1.008992
+Gtype  -> Med     -1.115268
+Supp   -> Med     -1.155087
+Gtype  -> O       -1.446717
+O      -> Air     -1.553604
+Substrain -> O       -1.560176
+Med    -> Supp    -1.895924
+
+
+Top positive:
+4.079246 Gtype    b'lemma[:1]:\xce\xb4'
+3.875929 Technique b'lemma[:2]:Ch'
+3.769086 O        b'lemma[:2]:re'
+3.421852 Air      b'word:Aerobic'
+3.297057 O        b'word:Cra'
+3.280691 Air      b'lemma:anaerobic'
+3.279696 O        b'lemma:_'
+3.279696 O        b'lemma[:1]:_'
+3.279696 O        b'word:_'
+3.054016 O        b'-1:word:tag'
+2.950170 O        b'-1:lemma:tag'
+2.923311 Supp     b'-1:word:Cra'
+2.917103 O        b'lemma:-'
+2.917103 O        b'word:-'
+2.673438 O        b'lemma:2'
+2.673438 O        b'word:2'
+2.601916 Anti     b'lemma[:2]:an'
+2.548804 Air      b'word:Anaerobic'
+2.540901 O        b'lemma:with'
+2.540901 O        b'word:with'
+2.527977 Supp     b'+1:lemma:\xc2\xb5m'
+2.527977 Supp     b'+1:word:\xc2\xb5M'
+2.513465 Gtype    b'lemma[:2]:pk'
+2.467865 Air      b'lemma[:2]:ae'
+2.465142 Supp     b'-1:lemma:vol'
+2.465142 Supp     b'-1:word:vol'
+2.430821 O        b'word:A'
+2.414676 O        b'+1:lemma:pq'
+2.414676 O        b'+1:word:PQ'
+2.381594 Supp     b'lemma:arginine'
+2.365113 Strain   b'+1:lemma:substr'
+2.365113 Strain   b'+1:word:substr'
+2.358430 O        b'lemma:3'
+2.358430 O        b'word:3'
+2.281060 O        b'+1:postag:RB'
+2.274077 Gtype    b'lemma:wt'
+2.274077 Gtype    b'lemma[:2]:wt'
+2.271330 Gtype    b'lemma[:1]:w'
+2.262507 Gtype    b'lemma[:2]:de'
+2.230752 O        b'-1:word:Aerobic'
+2.223212 Gtype    b'lemma[:2]:ar'
+2.204027 Gtype    b'word:WT'
+2.203708 Supp     b'lemma:pq'
+2.203708 Supp     b'lemma[:2]:pq'
+2.203708 Supp     b'word:PQ'
+2.195032 Technique b'lemma[:2]:rn'
+2.177901 Air      b'lemma[:2]:an'
+2.152688 O        b'lemma[:2]:ge'
+2.152187 O        b'lemma:1'
+2.152187 O        b'word:1'
+2.147937 Phase    b'lemma:stationary'
+2.147937 Phase    b'word:stationary'
+2.139876 Phase    b'lemma:mid-log'
+2.139876 Phase    b'word:mid-log'
+2.082317 O        b'lemma:Custom'
+2.082317 O        b'lemma[:2]:Cu'
+2.082317 O        b'word:Custom'
+2.081417 Technique b'lemma[:1]:C'
+2.059825 O        b'lemma:b'
+2.059825 O        b'word:B'
+2.051640 Technique b'word:ChIPSeq'
+2.044050 Supp     b'lemma:Iron'
+2.044050 Supp     b'lemma[:2]:Ir'
+2.044050 Supp     b'word:Iron'
+2.044050 Supp     b'+1:word:Deficient'
+2.034480 O        b'-1:lemma:ChIP-exo'
+2.021616 Technique b'lemma[:2]:ch'
+2.004928 Substrain b'lemma[:2]:mg'
+1.992585 Gtype    b'lemma[:1]:f'
+1.988583 Gtype    b'lemma[:2]:cr'
+1.983400 O        b'+1:postag:NNP'
+1.976657 O        b'lemma[:1]:h'
+1.975191 O        b'-1:lemma:lb'
+1.975191 O        b'-1:word:LB'
+1.973175 Supp     b'lemma[:1]:I'
+1.969412 O        b'lemma:.'
+1.969412 O        b'postag:.'
+1.969412 O        b'postag[:1]:.'
+1.969412 O        b'word:.'
+1.954569 Phase    b'lemma[:2]:ex'
+1.946311 O        b'lemma:delta'
+1.946311 O        b'word:delta'
+1.942336 Supp     b'postag:VBP'
+1.917047 Technique b'word:ChIP-Seq'
+1.916217 Supp     b'-1:lemma:Cra'
+1.899702 Supp     b'lemma:rifampicin'
+1.899702 Supp     b'word:rifampicin'
+1.898554 Supp     b'-1:lemma:with'
+1.898554 Supp     b'-1:word:with'
+1.892222 Air      b'lemma[:1]:a'
+1.892185 Supp     b'lemma[:2]:ri'
+1.887353 Technique b'lemma:chipseq'
+1.852638 O        b'-1:lemma:0.3'
+1.852638 O        b'-1:word:0.3'
+1.839355 pH       b'lemma[:2]:ph'
+1.838181 Gtype    b'hGreek'
+1.837034 O        b'-1:lemma:glucose'
+1.837034 O        b'-1:word:glucose'
+1.821428 Gtype    b'lemma:arca8myc'
+1.821428 Gtype    b'word:ArcA8myc'
+1.821045 Med      b'lemma:MOPS'
+1.821045 Med      b'lemma[:1]:M'
+1.821045 Med      b'lemma[:2]:MO'
+1.821045 Med      b'word:MOPS'
+1.813601 Technique b'-1:lemma:chip-exo'
+1.811851 Gversion b'word:ChIP-Seq'
+1.810109 O        b'lemma:ompr'
+1.810109 O        b'word:OmpR'
+1.807989 Supp     b'-1:lemma:+'
+1.807989 Supp     b'-1:word:+'
+1.805457 OD       b'lemma[:1]:o'
+1.789186 Gtype    b'lemma[:1]:t'
+1.787157 Supp     b'lemma[:2]:gl'
+1.784556 Gtype    b'symb'
+1.769736 Gversion b'lemma:chip-seq'
+1.769144 O        b'lemma[:2]:om'
+1.756478 Temp     b'+1:lemma:in'
+1.756478 Temp     b'+1:word:in'
+1.750825 O        b'lemma:rpob'
+1.750825 O        b'word:RpoB'
+1.744454 Gversion b'-1:lemma:nc'
+1.744454 Gversion b'-1:word:NC'
+1.743983 Technique b'lemma:ChIP-exo'
+1.738988 Gtype    b'-1:lemma:\xe2\x88\x86'
+1.738988 Gtype    b'-1:word:\xe2\x88\x86'
+1.737321 Supp     b'lemma[:2]:30'
+1.719994 Gversion b'lemma[:2]:00'
+1.691622 Med      b'+1:lemma:0.4'
+1.691622 Med      b'+1:word:0.4'
+1.690183 Supp     b'lemma:acetate'
+1.690183 Supp     b'word:acetate'
+1.680098 Gtype    b'lemma[:1]:W'
+1.669697 Phase    b'lemma[:1]:e'
+1.654569 O        b'-1:lemma:into'
+1.654569 O        b'-1:word:into'
+1.646155 Agit     b'+1:lemma:rpm'
+1.646155 Agit     b'+1:word:rpm'
+1.639372 Supp     b'lemma[:2]:ni'
+1.637838 Supp     b'-1:postag:CC'
+1.633069 Med      b'-1:lemma:ml'
+1.633069 Med      b'-1:word:ml'
+1.626970 Gtype    b'-1:postag:VBG'
+1.625020 O        b'+1:word:ChIP-Seq'
+1.592935 Air      b'lemma[:1]:A'
+1.581837 Supp     b'lemma[:2]:ac'
+1.581166 Gversion b'lemma:asm584v2'
+1.581166 Gversion b'word:ASM584v2'
+1.576758 Gversion b'lemma[:2]:as'
+1.566133 Air      b'lemma:Aerobic'
+1.566133 Air      b'lemma[:2]:Ae'
+1.556942 Air      b'+1:postag:IN'
+1.540738 Air      b'postag:RB'
+1.540738 Air      b'postag[:1]:R'
+1.540738 Air      b'postag[:2]:RB'
+1.537191 O        b'-1:lemma:phase'
+1.537191 O        b'-1:word:phase'
+1.528090 Air      b'-1:lemma:-'
+1.528090 Air      b'-1:word:-'
+1.527198 Gtype    b'lemma:type'
+1.527198 Gtype    b'lemma[:2]:ty'
+1.527198 Gtype    b'word:type'
+1.520984 O        b'lemma[:1]:C'
+1.511967 Air      b'-1:postag::'
+1.501971 O        b'postag::'
+1.501971 O        b'postag[:1]::'
+1.500818 Gtype    b'lemma[:2]:wi'
+1.494237 O        b'+1:word:were'
+1.488912 O        b'postag:CC'
+1.488912 O        b'postag[:2]:CC'
+1.488215 Agit     b'lemma:rpm'
+1.488215 Agit     b'word:rpm'
+1.486647 Supp     b'+1:lemma:1'
+1.486647 Supp     b'+1:word:1'
+1.483688 Temp     b'-1:lemma:\xcf\x8332'
+1.483688 Temp     b'-1:word:\xcf\x8332'
+1.483025 Air      b'word:anaerobic'
+1.481168 O        b'lemma:a'
+1.480233 Gversion b'lemma:nc'
+1.480233 Gversion b'lemma[:2]:nc'
+1.480233 Gversion b'word:NC'
+1.465788 O        b'-1:lemma:anaerobic'
+1.464120 O        b'+1:lemma:od600'
+1.464120 O        b'+1:word:OD600'
+1.459126 O        b'+1:postag:VBN'
+1.449825 Phase    b'lemma:exponential'
+1.449825 Phase    b'word:exponential'
+1.443892 O        b'-1:lemma:0.3-0.35'
+1.443892 O        b'-1:word:0.3-0.35'
+1.429105 Technique b'symb'
+1.428375 O        b'lemma[:2]:ga'
+1.423820 Technique b'word:ChIP-exo'
+1.422037 O        b'lemma:chip'
+1.420614 O        b'isNumber'
+1.417035 pH       b'+1:postag:CD'
+1.414508 Phase    b'lemma[:2]:st'
+1.410028 O        b'isLower'
+1.399604 Med      b'+1:postag:CD'
+1.398736 Med      b'+1:lemma:2.0'
+1.398736 Med      b'+1:word:2.0'
+1.374106 O        b'-1:lemma:wt'
+
+
+Top negative:
+-0.314411 Supp     b'postag[:1]:N'
+-0.314411 Supp     b'postag[:2]:NN'
+-0.316666 OD       b'+1:lemma:0.4'
+-0.316666 OD       b'+1:word:0.4'
+-0.319400 O        b'+1:word:for'
+-0.319616 Substrain b'isLower'
+-0.329221 O        b'+1:lemma:supplement'
+-0.329221 O        b'+1:word:supplemented'
+-0.334710 Gtype    b'+1:lemma:-rrb-'
+-0.334710 Gtype    b'+1:word:-RRB-'
+-0.335324 Supp     b'+1:lemma:nacl'
+-0.335324 Supp     b'+1:word:NaCl'
+-0.338195 Phase    b'lemma[:2]:pa'
+-0.343360 Med      b'+1:postag:NNS'
+-0.343534 O        b'+1:postag:IN'
+-0.344316 Temp     b'postag:NN'
+-0.345297 O        b'lemma:wt'
+-0.345297 O        b'lemma[:2]:wt'
+-0.355887 Air      b'isLower'
+-0.356867 O        b'-1:lemma:from'
+-0.358831 O        b'lemma:c'
+-0.359856 O        b'lemma:37'
+-0.359856 O        b'lemma[:2]:37'
+-0.359856 O        b'word:37'
+-0.360624 O        b'-1:lemma:final'
+-0.360624 O        b'-1:word:final'
+-0.361530 Med      b'-1:postag:NN'
+-0.362367 Technique b'-1:postag::'
+-0.362612 O        b'lemma:of'
+-0.362612 O        b'lemma[:2]:of'
+-0.362612 O        b'word:of'
+-0.368278 O        b'-1:word:from'
+-0.374267 O        b'-1:lemma:30'
+-0.374267 O        b'-1:word:30'
+-0.376045 O        b'lemma:glucose'
+-0.376045 O        b'word:glucose'
+-0.379443 Gtype    b'lemma[:2]:rp'
+-0.382310 Gtype    b'lemma[:1]:s'
+-0.383855 Supp     b'-1:lemma:-lrb-'
+-0.383855 Supp     b'-1:word:-LRB-'
+-0.385029 O        b'-1:lemma:delta'
+-0.385029 O        b'-1:word:delta'
+-0.390702 O        b'-1:lemma:dissolve'
+-0.390702 O        b'+1:lemma:methanol'
+-0.390702 O        b'-1:word:dissolved'
+-0.390702 O        b'+1:word:methanol'
+-0.395103 O        b'-1:lemma:nsrr'
+-0.395103 O        b'-1:word:NsrR'
+-0.399202 Supp     b'lemma[:1]:a'
+-0.403898 O        b'-1:lemma:1'
+-0.403898 O        b'-1:word:1'
+-0.404014 Temp     b'hGreek'
+-0.406161 O        b'-1:lemma:\xe2\x88\x86'
+-0.406161 O        b'-1:word:\xe2\x88\x86'
+-0.417535 O        b'-1:postag:IN'
+-0.418404 Supp     b'-1:postag:-LRB-'
+-0.428053 O        b'-1:lemma:ph'
+-0.428053 O        b'-1:word:pH'
+-0.432185 Supp     b'postag:JJ'
+-0.432252 O        b'lemma[:1]:L'
+-0.435862 Air      b'-1:lemma:or'
+-0.435862 Air      b'-1:word:or'
+-0.437167 Supp     b'postag[:1]:J'
+-0.437167 Supp     b'postag[:2]:JJ'
+-0.439673 Vess     b'hUpper'
+-0.439673 Vess     b'hLower'
+-0.443285 O        b'lemma[:2]:gl'
+-0.444141 Temp     b'isLower'
+-0.449813 Supp     b'lemma[:2]:an'
+-0.455745 O        b'-1:lemma:37'
+-0.455745 O        b'-1:word:37'
+-0.465238 O        b'lemma[:2]:ni'
+-0.469627 Supp     b'lemma[:1]:s'
+-0.472157 Air      b'+1:postag:JJ'
+-0.477980 O        b'lemma:2h'
+-0.477980 O        b'-1:lemma:additional'
+-0.477980 O        b'lemma[:2]:2h'
+-0.477980 O        b'word:2h'
+-0.477980 O        b'-1:word:additional'
+-0.493105 Agit     b'symb'
+-0.493489 O        b'lemma:methanol'
+-0.493489 O        b'word:methanol'
+-0.495166 O        b'lemma:mid-log'
+-0.495166 O        b'word:mid-log'
+-0.497445 Air      b'-1:postag:JJ'
+-0.499724 O        b'+1:lemma:g/l'
+-0.499724 O        b'+1:word:g/L'
+-0.501348 O        b'+1:lemma:mm'
+-0.501348 O        b'+1:word:mM'
+-0.507557 O        b'lemma[:2]:me'
+-0.508454 Gtype    b'postag[:1]:V'
+-0.508454 Gtype    b'postag[:2]:VB'
+-0.508460 Gtype    b'postag::'
+-0.508460 Gtype    b'postag[:1]::'
+-0.529784 O        b'+1:lemma:at'
+-0.529784 O        b'+1:word:at'
+-0.537465 O        b'lemma[:1]:0'
+-0.542594 Supp     b'-1:lemma:.'
+-0.542594 Supp     b'-1:postag:.'
+-0.542594 Supp     b'-1:word:.'
+-0.546062 O        b'lemma[:1]:4'
+-0.548259 O        b'-1:lemma:rpob'
+-0.548259 O        b'-1:word:RpoB'
+-0.552281 O        b'-1:lemma:IP'
+-0.552281 O        b'-1:word:IP'
+-0.553960 Phase    b'postag:JJ'
+-0.562367 O        b'lemma:0.3'
+-0.562367 O        b'word:0.3'
+-0.573524 Med      b'-1:postag:CD'
+-0.574613 Technique b'postag:NN'
+-0.578197 O        b'-1:lemma:chip-exo'
+-0.579399 O        b'+1:lemma:1m'
+-0.579399 O        b'+1:word:1M'
+-0.584655 O        b'word:ChIP-exo'
+-0.585801 O        b'lemma:soxs-8myc'
+-0.585801 O        b'word:soxS-8myc'
+-0.599558 O        b'lemma[:2]:ar'
+-0.600604 O        b'word:cells'
+-0.606899 O        b'+1:lemma:until'
+-0.606899 O        b'+1:word:until'
+-0.607019 Air      b'symb'
+-0.640639 pH       b'isNumber'
+-0.656724 O        b'+1:word:ChIP-exo'
+-0.664247 O        b'+1:lemma:2.0'
+-0.664247 O        b'+1:word:2.0'
+-0.664520 Med      b'+1:postag:IN'
+-0.664576 O        b'-1:lemma:co2'
+-0.664576 O        b'-1:word:CO2'
+-0.665370 O        b'+1:lemma:rep2'
+-0.665370 O        b'+1:word:rep2'
+-0.671212 O        b'lemma[:2]:mg'
+-0.724471 Agit     b'hUpper'
+-0.724471 Agit     b'hLower'
+-0.739501 O        b'lemma[:1]:I'
+-0.755281 O        b'lemma[:2]:30'
+-0.762653 pH       b'isLower'
+-0.780673 Air      b'postag:NN'
+-0.793295 Supp     b'symb'
+-0.826875 O        b'-1:postag::'
+-0.853583 O        b'lemma[:2]:ri'
+-0.880894 O        b'-1:lemma:until'
+-0.880894 O        b'-1:word:until'
+-0.884934 Supp     b'+1:postag:VBN'
+-0.893108 O        b'lemma[:1]:k'
+-0.902922 O        b'lemma[:2]:ae'
+-0.926126 O        b'lemma:rifampicin'
+-0.926126 O        b'word:rifampicin'
+-0.929148 Med      b'-1:postag:IN'
+-0.936796 Anti     b'postag:NNP'
+-0.952559 Supp     b'-1:postag:NNP'
+-0.962974 Med      b'symb'
+-0.981592 Technique b'isNumber'
+-1.019994 O        b'-1:lemma:2'
+-1.019994 O        b'-1:word:2'
+-1.023240 O        b'+1:lemma:1'
+-1.023240 O        b'+1:word:1'
+-1.023642 O        b'-1:lemma:ml'
+-1.023642 O        b'-1:word:ml'
+-1.035572 Phase    b'hUpper'
+-1.035572 Phase    b'hLower'
+-1.036376 O        b'lemma[:1]:n'
+-1.044060 Gtype    b'lemma[:1]:c'
+-1.051632 Phase    b'postag[:1]:J'
+-1.051632 Phase    b'postag[:2]:JJ'
+-1.074102 Gtype    b'lemma[:1]:a'
+-1.077239 O        b'+1:lemma:+'
+-1.077239 O        b'+1:word:+'
+-1.084820 O        b'+1:lemma:in'
+-1.084820 O        b'+1:word:in'
+-1.107631 Gtype    b'isNumber'
+-1.117617 Supp     b'+1:postag:-LRB-'
+-1.129026 Technique b'isLower'
+-1.149735 Supp     b'hGreek'
+-1.156144 Supp     b'+1:lemma:-lrb-'
+-1.156144 Supp     b'+1:word:-LRB-'
+-1.229045 Gtype    b'lemma[:1]:r'
+-1.231933 O        b'+1:postag:VBG'
+-1.262559 Gversion b'isLower'
+-1.277633 O        b'-1:lemma:fresh'
+-1.277633 O        b'-1:word:fresh'
+-1.381763 OD       b'+1:postag:NN'
+-1.472372 O        b'+1:lemma:2'
+-1.472372 O        b'+1:word:2'
+-1.571807 Gtype    b'isUpper'
+-1.677845 Supp     b'lemma[:1]:c'
+-1.687951 O        b'-1:lemma:vol'
+-1.687951 O        b'-1:word:vol'
+-1.695736 Supp     b'+1:lemma:,'
+-1.695736 Supp     b'+1:postag:,'
+-1.695736 Supp     b'+1:word:,'
+-1.723752 O        b'-1:lemma:sample'
+-1.785262 Phase    b'-1:postag:JJ'
+-1.895238 O        b'postag:VBP'
+-1.908071 O        b'-1:postag:VBG'
+-2.171310 O        b'-1:lemma:_'
+-2.171310 O        b'-1:word:_'
+-2.491839 O        b'lemma[:2]:fl'
+-2.929187 O        b'-1:lemma::'
+-2.929187 O        b'-1:word::'
+-2.957042 Temp     b'+1:postag:IN'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.04724343003249949, 'c2': 0.01243677446159028}
-best CV score:0.7976445146405444
-model size: 0.08M
-
-Flat F1: 0.7934791324630633
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.891     0.860     0.875        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.742     0.742     0.742        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.862     0.764     0.810       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.869     0.684     0.765       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.875     0.744     0.793       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.389375
-Anti   -> Anti    5.797544
-OD     -> OD      5.755859
-Temp   -> Temp    5.474910
-Med    -> Med     5.305285
-Gversion -> Gversion 4.804763
-O      -> O       4.666202
-Air    -> Air     4.625279
-Gtype  -> Gtype   4.391065
-Phase  -> Phase   4.207878
-Supp   -> Supp    3.772231
-Technique -> Technique 3.487681
-pH     -> pH      2.578623
-O      -> Supp    1.341155
-Gtype  -> Supp    1.313090
-Substrain -> Gtype   1.142286
-O      -> Technique 1.070411
-O      -> Gtype   1.049693
-O      -> Anti    0.871683
-Technique -> Air     0.727345
-Gtype  -> pH      0.559755
-O      -> Temp    0.443406
-Air    -> O       0.413184
-Gtype  -> Air     0.316166
-O      -> Gversion 0.270633
-O      -> Strain  0.150083
-Med    -> O       0.029148
-O      -> pH      0.001669
-OD     -> Temp    -0.004690
-pH     -> O       -0.027664
-Anti   -> O       -0.053386
-Air    -> Gtype   -0.064282
-Gversion -> O       -0.068988
-OD     -> Technique -0.076420
-Phase  -> Air     -0.090168
-O      -> Med     -0.097953
-Phase  -> O       -0.101900
-O      -> Phase   -0.121729
-Anti   -> Gtype   -0.149802
-Air    -> Phase   -0.152600
-Anti   -> Supp    -0.166950
-O      -> OD      -0.195576
-Gversion -> Air     -0.198819
-Med    -> Air     -0.247104
-Technique -> Supp    -0.254151
-Supp   -> pH      -0.311839
-Supp   -> Anti    -0.312452
-Anti   -> OD      -0.340468
-Supp   -> Phase   -0.344456
-Gtype  -> Technique -0.348541
-
-
-Top unlikely transitions:
-Phase  -> Air     -0.090168
-O      -> Med     -0.097953
-Phase  -> O       -0.101900
-O      -> Phase   -0.121729
-Anti   -> Gtype   -0.149802
-Air    -> Phase   -0.152600
-Anti   -> Supp    -0.166950
-O      -> OD      -0.195576
-Gversion -> Air     -0.198819
-Med    -> Air     -0.247104
-Technique -> Supp    -0.254151
-Supp   -> pH      -0.311839
-Supp   -> Anti    -0.312452
-Anti   -> OD      -0.340468
-Supp   -> Phase   -0.344456
-Gtype  -> Technique -0.348541
-Phase  -> Technique -0.371932
-Gtype  -> Gversion -0.440310
-Air    -> Temp    -0.442388
-Gtype  -> Phase   -0.446343
-Supp   -> Temp    -0.482112
-OD     -> Supp    -0.494819
-Supp   -> O       -0.518055
-Technique -> O       -0.541070
-Gtype  -> O       -0.554034
-Supp   -> Technique -0.694840
-Supp   -> OD      -0.711794
-Supp   -> Gversion -0.733427
-OD     -> Air     -0.787405
-OD     -> Gtype   -0.827938
-Supp   -> Gtype   -0.848914
-Gtype  -> Anti    -0.850239
-Temp   -> Med     -0.927802
-Gtype  -> Med     -0.940529
-OD     -> Med     -0.954731
-Air    -> Med     -1.010714
-OD     -> O       -1.020865
-O      -> Air     -1.023312
-Supp   -> Air     -1.036972
-Air    -> Supp    -1.040140
-Technique -> pH      -1.071992
-Agit   -> O       -1.092416
-Technique -> OD      -1.136546
-Technique -> Gtype   -1.152303
-Air    -> OD      -1.203336
-Gtype  -> OD      -1.470509
-Substrain -> O       -1.705609
-Supp   -> Med     -1.924115
-Med    -> Supp    -2.263703
-Phase  -> OD      -2.559981
-
-
-Top positive:
-8.778667 O        b'lemma:_'
-7.894046 Phase    b'lemma:stationary'
-7.688886 Supp     b'lemma:Iron'
-7.227846 O        b'lemma:1'
-6.518255 Air      b'lemma:anaerobic'
-6.510310 Air      b'lemma:aerobic'
-6.504238 Phase    b'lemma:mid-log'
-6.494190 Technique b'lemma:ChIP-exo'
-6.481618 O        b'lemma:rpob'
-6.445611 Strain   b'lemma:k-12'
-6.104157 O        b'lemma:2'
-6.023116 Technique b'lemma:chipseq'
-5.944249 Air      b'-1:lemma:ChIP-Seq'
-5.823850 Supp     b'lemma:pq'
-5.723339 O        b'lemma:3'
-5.687179 O        b'-1:lemma:tag'
-5.451451 Gversion b'lemma:asm584v2'
-5.250448 Substrain b'lemma:mg1655'
-5.231044 O        b'lemma:rep1'
-5.209409 Gtype    b'lemma:\xce\xb4cra'
-5.200206 Supp     b'lemma:nitrate'
-5.178620 O        b'lemma:rep2'
-5.178433 O        b'lemma:Cra'
-5.173563 Med      b'lemma:MOPS'
-5.068820 Gtype    b'lemma:flag-tag'
-5.068820 Gtype    b'-1:lemma:c-terminal'
-5.040185 Supp     b'+1:lemma:\xc2\xb5m'
-5.017969 O        b'lemma:rep3'
-4.971785 Air      b'lemma:Aerobic'
-4.954714 Supp     b'lemma:glucose'
-4.889061 Gtype    b'lemma:arca8myc'
-4.884882 O        b'postag:IN'
-4.832496 Supp     b'lemma:nh4cl'
-4.697100 O        b'-1:lemma:ChIP-exo'
-4.685588 Gtype    b'lemma:delta-arca'
-4.678766 Med      b'lemma:LB'
-4.646146 O        b'lemma:b'
-4.589396 Gtype    b'lemma:wt'
-4.555367 O        b'lemma:\xcf\x8332'
-4.535944 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.520189 Gtype    b'lemma:fnr8myc'
-4.461759 Med      b'lemma:lb'
-4.436556 Technique b'lemma:rna-seq'
-4.355492 O        b'postag::'
-4.344693 O        b'lemma:a'
-4.294247 O        b'-1:lemma:Aerobic'
-4.275618 Supp     b'lemma:Fe'
-4.228638 Anti     b'lemma:none'
-4.228158 O        b'-1:lemma:0.3-0.35'
-4.206556 Supp     b'lemma:acetate'
-4.187817 Supp     b'lemma:no3'
-4.123083 Technique b'lemma:chip-seq'
-4.115374 Technique b'lemma:rnaseq'
-4.092073 O        b'lemma:Custom'
-4.090797 Gtype    b'lemma:delta-fnr'
-4.086877 Anti     b'lemma:seqa'
-4.043157 Supp     b'-1:lemma:Cra'
-4.011760 O        b'lemma:CEL'
-4.000976 Supp     b'lemma:rifampicin'
-3.995000 OD       b'lemma:od450'
-3.983638 Gversion b'lemma:nc'
-3.942031 O        b'+1:postag:RB'
-3.937436 O        b'lemma:.'
-3.937436 O        b'postag:.'
-3.911694 O        b'+1:lemma:od600'
-3.747230 Gversion b'lemma:chip-seq'
-3.735836 Gtype    b'lemma:type'
-3.708583 O        b'-1:lemma:anaerobic'
-3.691098 Gtype    b'+1:lemma:type'
-3.680809 Supp     b'lemma:dpd'
-3.646664 Med      b'+1:lemma:0.4'
-3.593949 O        b'-1:lemma:glucose'
-3.588513 Gtype    b'lemma:\xe2\x88\x86'
-3.552980 Technique b'lemma:ChIP-Seq'
-3.547388 OD       b'lemma:od600'
-3.533518 Gtype    b'+1:lemma:with'
-3.504439 O        b'+1:lemma:o.d.'
-3.492405 O        b'lemma:-'
-3.484369 Gtype    b'lemma:\xce\xb4fur'
-3.480535 Supp     b'+1:lemma:1'
-3.463027 Supp     b'lemma:arginine'
-3.457950 O        b'-1:lemma:lb'
-3.432558 Gtype    b'lemma:nsrr'
-3.411785 Vess     b'lemma:flask'
-3.411785 Vess     b'-1:lemma:warm'
-3.392532 O        b'lemma:with'
-3.384479 pH       b'lemma:ph5'
-3.384479 pH       b'+1:lemma:.5'
-3.360996 Air      b'postag:RB'
-3.348572 O        b'lemma:for'
-3.346364 Gtype    b'lemma:wild-type'
-3.342085 Strain   b'+1:lemma:substr'
-3.336804 O        b'lemma:oxyr'
-3.311067 Supp     b'lemma:fructose'
-3.305851 Anti     b'lemma:anti-myc'
-3.281892 Supp     b'+1:lemma:Deficient'
-3.280890 Med      b'lemma:m63'
-3.275989 Gtype    b'lemma:\xce\xb4soxs'
-3.263146 O        b'lemma:or'
-3.240421 O        b'postag:VBN'
-3.225118 O        b'lemma:s'
-3.218060 Supp     b'+1:lemma:2'
-3.170999 O        b'lemma:ompr'
-3.157791 O        b'-1:lemma:type'
-3.150274 Gversion b'-1:lemma:nc'
-3.144459 O        b'lemma:affyexp'
-3.098092 Temp     b'-1:lemma:37'
-3.074698 Anti     b'+1:lemma:antibody'
-3.074328 OD       b'+1:lemma:stationary'
-3.057680 Gtype    b'lemma:WT'
-3.055594 Technique b'-1:lemma:IP'
-3.047772 Supp     b'-1:lemma:+'
-3.030792 Supp     b'lemma:nacl'
-3.021146 Gversion b'lemma:u00096'
-3.021146 Gversion b'+1:lemma:.2'
-3.016112 Air      b'lemma:Anaerobic'
-3.015642 O        b'lemma:chip-arca'
-2.992114 Gtype    b'lemma:\xce\xb4ompr'
-2.991588 Substrain b'+1:lemma:phtpg'
-2.962136 Gversion b'lemma:.2'
-2.962136 Gversion b'-1:lemma:u00096'
-2.943798 Supp     b'+1:lemma:_'
-2.929777 O        b'+1:lemma:anti-fur'
-2.906800 Temp     b'-1:lemma:43'
-2.894662 Gversion b'lemma:000913'
-2.885668 Gtype    b'-1:lemma:ptac'
-2.873518 O        b'lemma:2-3'
-2.848786 Air      b'lemma:anaerobically'
-2.846499 Med      b'+1:lemma:2.0'
-2.846396 Supp     b'lemma:Leu'
-2.832090 O        b'lemma:argr'
-2.824032 Gtype    b'+1:lemma:flagtag'
-2.803595 Air      b'lemma:anerobically'
-2.790970 Temp     b'lemma:43'
-2.789734 O        b'lemma:soxs'
-2.789734 O        b'lemma:soxr'
-2.761406 Anti     b'lemma:anti-rpos'
-2.759003 Gtype    b'lemma:deltaseqa'
-2.759003 Gtype    b'-1:lemma:old'
-2.758592 O        b'+1:lemma:chip-seq'
-2.753991 O        b'lemma:purr'
-2.739456 O        b'lemma:Lrp'
-2.739128 Gtype    b'lemma:pk4854'
-2.724879 Temp     b'-1:lemma:sample'
-2.710711 O        b'-1:lemma:stpa'
-2.707614 O        b'-1:lemma:dpd'
-2.693567 O        b'lemma:chip'
-2.680179 Temp     b'lemma:\xc2\xb0c'
-2.675708 O        b'lemma:at'
-2.674777 Supp     b'lemma:Adenine'
-2.654457 Med      b'-1:lemma:ml'
-2.621739 Supp     b'+1:lemma:hour'
-2.617235 Technique b'-1:lemma:chip-exo'
-2.613832 Med      b'+1:lemma:minimal'
-2.609168 O        b'lemma:Fur'
-2.603191 Gtype    b'lemma:ptac'
-2.602754 Temp     b'-1:lemma:\xcf\x8332'
-2.600527 Technique b'-1:lemma:input'
-2.586051 Gtype    b'-1:lemma:rpob'
-2.582507 Supp     b'lemma:iptg'
-2.575439 pH       b'lemma:.5'
-2.575439 pH       b'-1:lemma:ph5'
-2.567178 Phase    b'+1:lemma:for'
-2.561161 Temp     b'lemma:37'
-2.554310 Phase    b'-1:lemma:mid-log'
-2.520491 Gtype    b'lemma:\xce\xb4oxyr'
-2.510164 O        b'postag:SYM'
-2.501887 Gtype    b'lemma:\xce\xb4soxr'
-2.469798 O        b'-1:lemma:l1'
-2.453386 Phase    b'-1:lemma:until'
-2.441656 O        b'+1:lemma:43'
-2.410885 O        b'+1:lemma:mid-log'
-2.403011 Gtype    b'+1:lemma:ph5'
-2.401711 Med      b'lemma:glucose'
-2.400503 Med      b'lemma:L'
-2.400503 Med      b'+1:lemma:broth'
-2.386245 O        b'+1:lemma:pq'
-2.371627 O        b'postag:VBG'
-2.358742 O        b'lemma:chip-fnr'
-2.353099 Gtype    b'lemma:dfnr'
-2.338808 Supp     b'+1:lemma:respiratory'
-2.338302 O        b'+1:lemma:sparging'
-2.329852 Gtype    b'+1:lemma:aerobic'
-2.319775 O        b'postag:DT'
-2.307514 Supp     b'lemma:0.2'
-2.298843 Med      b'+1:lemma:+'
-2.298674 Supp     b'lemma:methanol'
-2.262217 Gversion b'lemma:_'
-2.247831 Gtype    b'+1:lemma:pq'
-2.246181 O        b'lemma:genotype/variation'
-2.244933 Air      b'-1:lemma:-'
-2.243583 Gtype    b'-1:lemma:nsrr'
-2.241509 Technique b'+1:lemma:chip-exo'
-2.238931 Supp     b'+1:lemma:and'
-2.229747 OD       b'lemma:0.3'
-2.227356 O        b'lemma:pt7'
-2.218343 O        b'-1:lemma:min'
-2.209534 OD       b'-1:lemma:~'
-2.191059 O        b'postag:CC'
-2.183306 O        b'-1:lemma:media'
-
-
-Top negative:
--0.007960 O        b'+1:lemma:25'
--0.011560 Gtype    b'-1:lemma:,'
--0.011560 Gtype    b'-1:postag:,'
--0.012403 Air      b'-1:lemma:anaerobically'
--0.013219 O        b'lemma:pahse'
--0.013507 Gversion b'-1:postag:NN'
--0.013699 O        b'+1:lemma:medium'
--0.014516 Med      b'-1:postag:CD'
--0.014698 Gtype    b'-1:lemma:mg1655'
--0.016645 OD       b'+1:lemma:~'
--0.017116 Supp     b'+1:lemma:glucose'
--0.018290 OD       b'+1:lemma:0.4'
--0.019265 O        b'lemma:25'
--0.020700 Med      b'+1:postag:NNS'
--0.020972 O        b'+1:lemma:0.4'
--0.022100 OD       b'+1:postag:-LRB-'
--0.022143 O        b'+1:lemma:strain'
--0.024088 Supp     b'-1:postag:VBG'
--0.038792 O        b'+1:postag:CD'
--0.039859 O        b'-1:postag:IN'
--0.040290 O        b'+1:lemma:k-12'
--0.041101 O        b'lemma:nacl'
--0.042472 Gtype    b'+1:lemma:cra'
--0.052362 O        b'+1:lemma:grow'
--0.054063 Anti     b'-1:postag:NN'
--0.057006 O        b'-1:lemma:20'
--0.057134 O        b'-1:lemma:mm'
--0.062775 Phase    b'-1:postag:NN'
--0.064327 O        b'-1:postag:VBN'
--0.064682 O        b'postag:RB'
--0.066584 Supp     b'-1:postag:NN'
--0.069958 Gtype    b'postag:CD'
--0.071415 O        b'+1:lemma:95'
--0.073208 Phase    b'lemma:pahse'
--0.078903 Gtype    b'-1:postag:NN'
--0.080786 O        b'+1:lemma:5'
--0.083451 Temp     b'-1:lemma:\xc2\xb0c'
--0.084429 O        b'+1:lemma:antibody'
--0.093835 O        b'-1:lemma:fresh'
--0.095847 Supp     b'+1:postag:IN'
--0.103631 OD       b'postag:JJ'
--0.105270 O        b'+1:lemma:o2'
--0.106875 O        b'+1:lemma:mm'
--0.117705 O        b'+1:lemma:dissolve'
--0.119607 Med      b'+1:postag:NN'
--0.123002 OD       b'+1:postag:CD'
--0.127620 O        b'-1:lemma:g/l'
--0.133716 Gtype    b'-1:postag:CD'
--0.140619 O        b'-1:lemma:-lrb-'
--0.143859 O        b'lemma:o2'
--0.144789 O        b'-1:lemma:o2'
--0.146704 O        b'-1:lemma:30'
--0.147636 Temp     b'postag:JJ'
--0.152183 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.153487 Med      b'+1:postag:CC'
--0.156696 O        b'lemma:mg1655'
--0.156753 O        b'lemma:e.'
--0.159541 Technique b'-1:lemma::'
--0.162599 O        b'-1:lemma:minimal'
--0.167611 O        b'-1:lemma:with'
--0.176978 O        b'-1:postag:-LRB-'
--0.179005 O        b'lemma:m63'
--0.180170 O        b'lemma:medium'
--0.183738 O        b'+1:lemma:Aerobic'
--0.190885 O        b'lemma:n2'
--0.191225 Supp     b'-1:postag:NNP'
--0.198786 O        b'-1:lemma:n2'
--0.199226 Supp     b'-1:lemma:and'
--0.199384 O        b'lemma:\xc2\xb0c'
--0.202752 O        b'-1:lemma:of'
--0.208526 O        b'+1:lemma:-rrb-'
--0.210040 O        b'-1:lemma:e.'
--0.219231 O        b'+1:lemma:shake'
--0.219460 Gtype    b'-1:postag:DT'
--0.237900 O        b'-1:lemma:0.1'
--0.241643 O        b'lemma:lb'
--0.242224 Supp     b'lemma:and'
--0.245820 O        b'lemma:co2'
--0.252281 Temp     b'-1:postag:IN'
--0.261850 OD       b'+1:postag:NN'
--0.266916 Supp     b'+1:postag:VBN'
--0.267689 O        b'+1:lemma:until'
--0.271480 O        b'-1:lemma:\xe2\x88\x86'
--0.277039 O        b'+1:lemma:minimal'
--0.277788 O        b'lemma:grow'
--0.285871 O        b'+1:postag:IN'
--0.296129 Med      b'postag:-LRB-'
--0.302011 O        b'-1:lemma:um'
--0.302011 O        b'+1:lemma:paraquat'
--0.304578 O        b'+1:postag:-RRB-'
--0.307866 Med      b'lemma:-lrb-'
--0.309056 O        b'+1:lemma:.'
--0.309056 O        b'+1:postag:.'
--0.312126 Air      b'-1:lemma:or'
--0.317647 O        b'lemma:minimal'
--0.319138 Gtype    b'-1:postag:SYM'
--0.326202 O        b'-1:lemma:1'
--0.328780 Phase    b'-1:lemma:at'
--0.346851 O        b'+1:lemma:300'
--0.351977 Med      b'-1:postag:NN'
--0.355707 O        b'lemma:30'
--0.365992 Gversion b'+1:postag:NN'
--0.367337 O        b'-1:lemma:grow'
--0.387748 O        b'lemma:k-12'
--0.389573 O        b'+1:lemma:cell'
--0.397777 O        b'-1:lemma:from'
--0.400558 O        b'-1:lemma:mid-log'
--0.403379 O        b'+1:lemma:phase'
--0.433545 Supp     b'+1:lemma:rifampicin'
--0.436853 O        b'+1:lemma:or'
--0.441744 Med      b'postag:CD'
--0.446245 Med      b'+1:postag:IN'
--0.451884 Gtype    b'lemma:delta'
--0.460983 Anti     b'+1:postag:JJ'
--0.469979 O        b'+1:lemma:_'
--0.472319 O        b'-1:lemma:rifampicin'
--0.497593 O        b'-1:lemma:cra'
--0.503197 O        b'-1:lemma:od600'
--0.504727 Supp     b'postag:CC'
--0.508290 pH       b'postag:NN'
--0.516046 O        b'+1:lemma:%'
--0.518365 Technique b'-1:postag::'
--0.523304 OD       b'+1:lemma:and'
--0.525519 OD       b'+1:postag:CC'
--0.558490 O        b'+1:postag:NNS'
--0.586906 O        b'-1:lemma:co2'
--0.603821 O        b'lemma:150'
--0.603821 O        b'+1:lemma:mg/ml'
--0.605931 O        b'+1:lemma:arginine'
--0.606479 O        b'lemma:phase'
--0.611575 O        b'lemma:od600'
--0.651162 O        b'+1:lemma:rep1'
--0.653345 O        b'lemma:dissolve'
--0.665212 Med      b'-1:postag:IN'
--0.669800 OD       b'lemma:-lrb-'
--0.672263 O        b'-1:lemma:0.2'
--0.687604 O        b'lemma:\xe2\x88\x86'
--0.707413 Temp     b'+1:lemma:to'
--0.707413 Temp     b'+1:postag:TO'
--0.709054 Temp     b'postag:NN'
--0.717292 O        b'lemma:mid-log'
--0.727885 O        b'-1:lemma:until'
--0.733043 O        b'lemma:media'
--0.733111 O        b'+1:lemma:c'
--0.747011 OD       b'postag:-LRB-'
--0.750366 O        b'+1:lemma:0.3'
--0.761257 Anti     b'+1:lemma:anti-fur'
--0.768890 Phase    b'-1:postag:JJ'
--0.791918 O        b'+1:lemma:\xc2\xb0c'
--0.792189 O        b'lemma:anaerobically'
--0.829072 O        b'lemma:0.2'
--0.870965 O        b'lemma:0.3'
--0.872689 O        b'lemma:purify'
--0.898705 O        b'-1:postag:VBG'
--0.916416 O        b'+1:lemma:fecl2'
--0.929519 O        b'-1:lemma:~'
--0.964077 Air      b'postag:NN'
--0.999189 O        b'lemma:20'
--1.006423 O        b'lemma:fecl2'
--1.015503 O        b'lemma:dpd'
--1.039211 O        b'lemma:anaerobic'
--1.067901 O        b'-1:lemma:dissolve'
--1.067901 O        b'+1:lemma:methanol'
--1.079142 Supp     b'+1:lemma:acetate'
--1.086390 O        b'lemma:37'
--1.090519 O        b'lemma:\xce\xb4fur'
--1.110265 O        b'-1:postag::'
--1.136252 O        b'-1:lemma:ml'
--1.138020 O        b'lemma:2h'
--1.138020 O        b'-1:lemma:additional'
--1.184350 O        b'lemma:of'
--1.210896 Supp     b'-1:lemma:%'
--1.216753 O        b'-1:lemma:37'
--1.220049 O        b'+1:lemma:g/l'
--1.245093 O        b'-1:lemma:sample'
--1.280180 Air      b'-1:postag:JJ'
--1.282705 O        b'lemma:0.1'
--1.293206 O        b'+1:lemma:supplement'
--1.340548 Air      b'+1:postag:JJ'
--1.397536 O        b'+1:lemma:at'
--1.470536 O        b'+1:lemma:in'
--1.532979 O        b'+1:postag:VBG'
--1.548239 O        b'-1:lemma:rpob'
--1.647386 O        b'-1:lemma:ompr'
--1.665792 O        b'postag:VBP'
--1.714606 O        b'lemma:wt'
--1.723995 O        b'-1:lemma:nsrr'
--1.770674 Supp     b'postag:JJ'
--1.852907 O        b'lemma:rifampicin'
--1.859721 Anti     b'postag:NNP'
--1.869393 O        b'+1:lemma:+'
--1.873494 O        b'-1:lemma:IP'
--2.065639 O        b'lemma:methanol'
--2.192016 O        b'-1:lemma:2'
--2.353663 O        b'+1:lemma:2'
--2.354781 Phase    b'postag:JJ'
--2.458047 O        b'+1:lemma:hour'
--3.007939 O        b'+1:lemma:1'
--3.831961 O        b'-1:lemma:_'
--4.149098 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.14521637026904505, 'c2': 0.02160263268998293}
+best CV score:0.8705560896194018
+model size: 0.08M
+
+Flat F1: 0.7637642434421422
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      0.952     0.870     0.909        23
+        Med      1.000     0.925     0.961        53
+       Temp      0.923     0.828     0.873        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.875     0.933     0.903        15
+        Air      0.545     0.348     0.425        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.857     0.847     0.852        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.609     0.791     0.688       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.774     0.769     0.764       451
+
+
+Top likely transitions:
+Temp   -> Temp    5.770024
+Agit   -> Agit    5.591940
+Med    -> Med     5.238745
+OD     -> OD      5.208128
+Supp   -> Supp    5.009566
+Anti   -> Anti    4.435661
+Phase  -> Phase   4.266553
+Air    -> Air     4.183832
+Gversion -> Gversion 4.181832
+Gtype  -> Gtype   4.159817
+O      -> O       4.029919
+Technique -> Technique 3.397241
+pH     -> pH      2.835139
+Substrain -> Gtype   1.746378
+Gtype  -> Supp    1.354961
+Air    -> O       1.123193
+O      -> Technique 0.956245
+O      -> Supp    0.860304
+Technique -> Air     0.720188
+Gtype  -> Air     0.705752
+Supp   -> O       0.675087
+Med    -> O       0.607714
+O      -> Gtype   0.602507
+Temp   -> O       0.586988
+Gtype  -> pH      0.132889
+O      -> Phase   0.103874
+O      -> Anti    0.059111
+O      -> Med     0.043976
+O      -> Temp    0.037475
+Phase  -> O       0.007325
+OD     -> O       0.001147
+Temp   -> Med     -0.004820
+O      -> OD      -0.007911
+Air    -> Agit    -0.018394
+Technique -> O       -0.037749
+Air    -> Supp    -0.052877
+Supp   -> Gtype   -0.118891
+Gtype  -> Technique -0.146943
+Air    -> Gtype   -0.162470
+OD     -> Air     -0.407752
+Supp   -> Med     -0.519051
+Gtype  -> Med     -0.520149
+Gtype  -> O       -0.569447
+O      -> Air     -0.679735
+Phase  -> OD      -0.846881
+Substrain -> O       -1.190575
+Technique -> Gtype   -1.334054
+Med    -> Supp    -1.751616
+
+
+Top unlikely transitions:
+Temp   -> Temp    5.770024
+Agit   -> Agit    5.591940
+Med    -> Med     5.238745
+OD     -> OD      5.208128
+Supp   -> Supp    5.009566
+Anti   -> Anti    4.435661
+Phase  -> Phase   4.266553
+Air    -> Air     4.183832
+Gversion -> Gversion 4.181832
+Gtype  -> Gtype   4.159817
+O      -> O       4.029919
+Technique -> Technique 3.397241
+pH     -> pH      2.835139
+Substrain -> Gtype   1.746378
+Gtype  -> Supp    1.354961
+Air    -> O       1.123193
+O      -> Technique 0.956245
+O      -> Supp    0.860304
+Technique -> Air     0.720188
+Gtype  -> Air     0.705752
+Supp   -> O       0.675087
+Med    -> O       0.607714
+O      -> Gtype   0.602507
+Temp   -> O       0.586988
+Gtype  -> pH      0.132889
+O      -> Phase   0.103874
+O      -> Anti    0.059111
+O      -> Med     0.043976
+O      -> Temp    0.037475
+Phase  -> O       0.007325
+OD     -> O       0.001147
+Temp   -> Med     -0.004820
+O      -> OD      -0.007911
+Air    -> Agit    -0.018394
+Technique -> O       -0.037749
+Air    -> Supp    -0.052877
+Supp   -> Gtype   -0.118891
+Gtype  -> Technique -0.146943
+Air    -> Gtype   -0.162470
+OD     -> Air     -0.407752
+Supp   -> Med     -0.519051
+Gtype  -> Med     -0.520149
+Gtype  -> O       -0.569447
+O      -> Air     -0.679735
+Phase  -> OD      -0.846881
+Substrain -> O       -1.190575
+Technique -> Gtype   -1.334054
+Med    -> Supp    -1.751616
+
+
+Top positive:
+6.295982 O        b'lemma:2'
+6.088107 O        b'lemma:1'
+5.499374 Phase    b'lemma:mid-log'
+5.468207 Anti     b'-2:lemma:antibody'
+5.389740 O        b'-2:lemma:_'
+5.310900 O        b'lemma:_'
+5.124562 Air      b'lemma:anaerobic'
+5.038711 Gtype    b'lemma:wt'
+4.975908 Supp     b'lemma:pq'
+4.858798 O        b'lemma:3'
+4.706721 Technique b'lemma:chipseq'
+4.694852 Air      b'lemma:Aerobic'
+4.682998 Gtype    b'lemma:type'
+4.617298 O        b'postag:IN'
+4.544190 O        b'-2:lemma:flagtag'
+4.540916 Technique b'lemma:ChIP-exo'
+4.378201 Gtype    b'lemma:\xce\xb4cra'
+4.141678 Air      b'lemma:aerobic'
+4.102798 Gtype    b'lemma:\xe2\x88\x86'
+4.083658 Gtype    b'+1:lemma:type'
+4.039276 Med      b'lemma:MOPS'
+3.938693 Technique b'lemma:rna-seq'
+3.794686 O        b'lemma:rpob'
+3.792227 O        b'-1:lemma:ChIP-exo'
+3.784855 O        b'lemma:-'
+3.774100 O        b'lemma:b'
+3.764975 Supp     b'lemma:acetate'
+3.691796 Gtype    b'-2:lemma:genotype/variation'
+3.672526 Supp     b'lemma:Iron'
+3.672526 Supp     b'-2:lemma:Anaerobic'
+3.617838 Technique b'lemma:chip-seq'
+3.604759 Supp     b'lemma:no3'
+3.568114 Supp     b'lemma:nacl'
+3.558608 Phase    b'-2:lemma:phase'
+3.526017 O        b'lemma:.'
+3.526017 O        b'postag:.'
+3.449878 Gtype    b'-1:lemma:\xe2\x88\x86'
+3.446438 Supp     b'lemma:glucose'
+3.403359 Med      b'lemma:lb'
+3.365642 Gtype    b'lemma:wild-type'
+3.350130 Air      b'postag:RB'
+3.342253 O        b'+2:lemma:\xc2\xb0c'
+3.335770 Supp     b'lemma:nh4cl'
+3.326472 O        b'lemma:Cra'
+3.318880 Gtype    b'lemma:\xce\xb4fur'
+3.295001 O        b'postag:CC'
+3.262632 O        b'postag:VBN'
+3.206029 O        b'lemma:a'
+3.195357 Gtype    b'-2:lemma:genotype'
+3.193335 Technique b'+2:lemma:ph5'
+3.187683 O        b'postag::'
+3.127353 Gtype    b'lemma:flag-tag'
+3.127353 Gtype    b'-1:lemma:c-terminal'
+3.121057 Supp     b'lemma:nitrate'
+3.112065 Gtype    b'lemma:\xce\xb4soxr'
+3.087827 Substrain b'lemma:mg1655'
+3.047270 Supp     b'+2:lemma:iptg'
+3.025373 Supp     b'-1:lemma:Cra'
+2.966835 Air      b'-1:lemma:ChIP-Seq'
+2.963423 Supp     b'-1:lemma:with'
+2.920292 Gtype    b'lemma:dfnr'
+2.878192 O        b'lemma:with'
+2.811966 O        b'+1:lemma:arca-8myc'
+2.806521 O        b'-2:lemma:medium'
+2.792197 Gtype    b'-2:lemma:affyexp'
+2.777524 Gversion b'lemma:chip-seq'
+2.764298 Technique b'lemma:rnaseq'
+2.751592 O        b'-1:lemma:tag'
+2.744091 Air      b'-2:lemma:IP'
+2.741300 Supp     b'+1:lemma:1'
+2.735516 O        b'lemma:CEL'
+2.729762 O        b'lemma:rep2'
+2.702452 Med      b'lemma:m63'
+2.699796 O        b'lemma:harbor'
+2.669950 Supp     b'lemma:arginine'
+2.661545 O        b'-1:lemma:0.3'
+2.602799 Gtype    b'+1:lemma:with'
+2.599935 O        b'-1:lemma:\xc2\xb0c'
+2.587031 Technique b'lemma:ChIP-Seq'
+2.568848 Gtype    b'-2:lemma:delta'
+2.543114 Gtype    b'lemma:nsrr'
+2.539452 Substrain b'-2:lemma:substr'
+2.534370 O        b'postag:DT'
+2.513411 Gtype    b'lemma:pk4854'
+2.512728 O        b'lemma:chip'
+2.505650 O        b'+1:postag:RB'
+2.493029 Temp     b'-2:lemma:\xcf\x8332'
+2.454541 Anti     b'+1:lemma:antibody'
+2.447213 Anti     b'+2:lemma:antibody'
+2.436325 Gtype    b'-1:lemma:rpob'
+2.430821 pH       b'lemma:ph5'
+2.430821 pH       b'+1:lemma:.5'
+2.411045 O        b'postag:VBG'
+2.347885 Supp     b'-2:lemma:media'
+2.345716 pH       b'+1:postag:CD'
+2.342949 Technique b'-2:lemma:Fur'
+2.340323 O        b'-1:lemma:glucose'
+2.326562 O        b'-1:lemma:lb'
+2.318033 Gtype    b'+1:lemma:ph5'
+2.318033 Gtype    b'+2:lemma:.5'
+2.312502 Temp     b'lemma:43'
+2.307908 Supp     b'lemma:Leu'
+2.307908 Supp     b'-2:lemma:Lrp'
+2.283291 O        b'-1:lemma:media'
+2.278223 Gtype    b'lemma:\xce\xb4oxyr'
+2.277778 Air      b'-1:lemma:-'
+2.269087 Substrain b'+1:lemma:phtpg'
+2.262780 Supp     b'-2:lemma:agent'
+2.259842 Temp     b'-1:lemma:43'
+2.259677 O        b'lemma:ompr'
+2.241905 Supp     b'lemma:Adenine'
+2.238893 Gtype    b'lemma:\xce\xb4ompr'
+2.238698 Supp     b'+1:lemma:\xc2\xb5m'
+2.212658 Med      b'+2:lemma:b2'
+2.198189 O        b'-2:lemma:myc'
+2.163443 Phase    b'lemma:exponential'
+2.163443 Phase    b'lemma:stationary'
+2.159726 O        b'+1:postag:NNP'
+2.156490 Phase    b'-1:lemma:mid-log'
+2.151371 Gversion b'lemma:.2'
+2.151371 Gversion b'-1:lemma:u00096'
+2.140308 O        b'-1:lemma:type'
+2.138372 O        b'lemma:ml'
+2.128755 Med      b'+2:postag:CC'
+2.123732 Technique b'-1:lemma:chip-exo'
+2.118518 Technique b'-1:lemma:IP'
+2.117337 Strain   b'+1:lemma:substr'
+2.117337 Strain   b'-2:lemma:str'
+2.099392 Agit     b'lemma:rpm'
+2.096807 Supp     b'+1:lemma:2'
+2.096794 Strain   b'lemma:k-12'
+2.091407 O        b'+2:lemma:cra'
+2.063564 O        b'lemma:\xcf\x8332'
+2.050789 Supp     b'lemma:rifampicin'
+2.049024 Gversion b'lemma:nc'
+2.033164 O        b'+1:lemma:pq'
+2.013358 Temp     b'-1:lemma:\xcf\x8332'
+1.966874 Temp     b'+1:lemma:\xc2\xb0c'
+1.966521 O        b'-1:lemma:anaerobic'
+1.957027 O        b'lemma:culture'
+1.952247 O        b'-2:lemma:min'
+1.929194 O        b'+1:lemma:condition'
+1.923035 Supp     b'-1:postag:CC'
+1.911344 Temp     b'lemma:\xc2\xb0c'
+1.902035 Gversion b'+2:lemma:000913'
+1.892926 Technique b'-1:lemma:input'
+1.877608 Supp     b'lemma:fructose'
+1.876135 O        b'+1:lemma:250'
+1.868225 O        b'lemma:Custom'
+1.867543 Air      b'lemma:anaeroibc'
+1.865515 O        b'+2:postag:JJ'
+1.861583 Supp     b'-1:lemma:+'
+1.856696 O        b'lemma:s'
+1.856578 Supp     b'+1:lemma:_'
+1.851722 Gversion b'lemma:u00096'
+1.851722 Gversion b'+1:lemma:.2'
+1.838273 Phase    b'lemma:phase'
+1.825249 Med      b'lemma:broth'
+1.825249 Med      b'-1:lemma:L'
+1.817848 O        b'+1:lemma:coli'
+1.805545 Med      b'+1:lemma:0.4'
+1.803317 O        b'-1:lemma:into'
+1.801603 Agit     b'+1:lemma:rpm'
+1.799565 Gtype    b'-1:postag:VBG'
+1.796090 Supp     b'+2:lemma:rifampicin'
+1.784603 O        b'+1:lemma:chip-seq'
+1.777806 Med      b'lemma:media'
+1.769076 O        b'lemma:trpr'
+1.768678 Gtype    b'lemma:ptac'
+1.760760 Gtype    b'+1:lemma:flagtag'
+1.757550 Gversion b'-2:lemma:nc'
+1.745784 O        b'lemma:soxs'
+1.745784 O        b'lemma:soxr'
+1.739107 O        b'-2:lemma:~'
+1.736949 Med      b'+2:lemma:b1'
+1.736832 OD       b'+1:lemma:of'
+1.735882 O        b'postag:NNS'
+1.709175 O        b'+2:lemma:70'
+1.708616 O        b'postag:VBD'
+1.705680 O        b'-1:lemma:aerobically'
+1.700488 O        b'lemma:argr'
+1.696537 Temp     b'-1:lemma:sample'
+1.694740 O        b'+1:lemma:acetate'
+1.690209 O        b'lemma:affyexp'
+1.689269 Med      b'lemma:minimal'
+1.687607 Agit     b'+2:lemma:at'
+1.683096 O        b'lemma:purr'
+1.680453 Gversion b'-2:lemma:build'
+1.674723 O        b'+2:lemma:fructose'
+1.673798 Vess     b'lemma:flask'
+1.673798 Vess     b'-1:lemma:warm'
+1.673798 Vess     b'-2:lemma:pre'
+1.673798 Vess     b'+2:lemma:43'
+1.671743 O        b'-1:lemma:Aerobic'
+1.670303 O        b'+2:lemma:polyclonal'
+1.644434 O        b'+1:lemma:wt'
+1.641217 Gtype    b'+2:lemma:glucose'
+1.620167 O        b'lemma:genotype/variation'
+1.613899 Air      b'lemma:aerobically'
+1.603327 Temp     b'-1:lemma:37'
+
+
+Top negative:
+-0.098715 O        b'-1:lemma:g/l'
+-0.098977 O        b'+2:lemma:0.2'
+-0.099326 O        b'lemma:m63'
+-0.099882 O        b'-1:lemma:rifampicin'
+-0.106371 O        b'-1:lemma:37'
+-0.107922 Med      b'-1:postag:CD'
+-0.110064 O        b'-2:lemma:-lrb-'
+-0.117142 O        b'+1:lemma:of'
+-0.123918 Supp     b'+2:lemma:.'
+-0.123918 Supp     b'+2:postag:.'
+-0.131710 O        b'+1:lemma:culture'
+-0.132661 O        b'+1:postag:-LRB-'
+-0.136103 O        b'+1:lemma:95'
+-0.137008 Technique b'-1:postag::'
+-0.138812 O        b'-1:lemma:final'
+-0.138847 O        b'lemma:7.6'
+-0.138847 O        b'+1:lemma:;'
+-0.139546 Supp     b'+1:lemma:-rrb-'
+-0.140317 Supp     b'+2:lemma:dpd'
+-0.142690 O        b'postag:RB'
+-0.143532 O        b'lemma:;'
+-0.143532 O        b'-1:lemma:7.6'
+-0.144217 O        b'+2:lemma:reference'
+-0.145656 Temp     b'-2:postag:NN'
+-0.146454 O        b'lemma:anaerobic'
+-0.147525 Air      b'-1:postag:JJ'
+-0.149095 O        b'-1:lemma:0.2'
+-0.151176 O        b'-1:lemma:contain'
+-0.151476 Air      b'+2:postag:IN'
+-0.152942 O        b'+1:lemma:fecl2'
+-0.154443 Med      b'postag:CD'
+-0.158960 Supp     b'-1:lemma:-lrb-'
+-0.169851 Med      b'-1:postag:NN'
+-0.176135 OD       b'postag:NN'
+-0.178701 Supp     b'-1:postag:-LRB-'
+-0.180805 O        b'lemma:methanol'
+-0.180805 O        b'-2:lemma:dissolve'
+-0.182601 Supp     b'+2:lemma:glucose'
+-0.185072 Supp     b'postag:CC'
+-0.189120 O        b'+2:lemma:-rrb-'
+-0.192885 O        b'+1:lemma:dissolve'
+-0.199989 O        b'-1:lemma:1m'
+-0.199989 O        b'+2:lemma:7.6'
+-0.201669 O        b'-2:lemma:nh4cl'
+-0.201904 O        b'-2:lemma:the'
+-0.202079 O        b'-1:lemma:of'
+-0.202589 Supp     b'+1:lemma:acetate'
+-0.204371 Supp     b'+1:lemma:rifampicin'
+-0.207950 Gtype    b'-2:postag:CD'
+-0.215109 O        b'-1:lemma:iptg'
+-0.217533 O        b'lemma:nitrogen'
+-0.221912 O        b'lemma:37'
+-0.229060 O        b'-1:lemma:n2'
+-0.236563 Air      b'-2:postag:CC'
+-0.241693 O        b'-2:lemma:IP'
+-0.248054 O        b'-2:lemma:aerobically'
+-0.248583 Med      b'+1:postag:NN'
+-0.249693 Phase    b'+1:postag:NN'
+-0.251280 O        b'+2:lemma:tag'
+-0.260336 O        b'+1:lemma:10'
+-0.266374 O        b'-1:lemma:until'
+-0.269589 O        b'lemma:ph'
+-0.275513 O        b'-1:lemma:dfnr'
+-0.277525 Supp     b'+1:postag:VBN'
+-0.277770 O        b'-1:lemma:fresh'
+-0.287656 O        b'+2:lemma:250'
+-0.295216 O        b'lemma:nh4cl'
+-0.296463 O        b'-2:lemma:mm'
+-0.296923 O        b'lemma:\xe2\x88\x86'
+-0.301390 O        b'-1:postag:IN'
+-0.303644 O        b'+1:postag:IN'
+-0.305259 O        b'lemma:fecl2'
+-0.310628 Gtype    b'-1:postag:NN'
+-0.311296 O        b'lemma:k-12'
+-0.316958 O        b'+1:lemma:%'
+-0.317571 O        b'+2:lemma:.'
+-0.317571 O        b'+2:postag:.'
+-0.317988 Phase    b'-2:postag:NN'
+-0.321822 O        b'lemma:minimal'
+-0.322289 O        b'-1:lemma:minimal'
+-0.322560 O        b'-2:lemma:genome'
+-0.332944 O        b'-2:postag::'
+-0.333295 O        b'lemma:dissolve'
+-0.333295 O        b'+2:lemma:methanol'
+-0.338620 O        b'-2:lemma:anaerobically'
+-0.345174 O        b'-1:postag::'
+-0.363808 Gtype    b'-2:lemma:\xe2\x88\x86'
+-0.382684 O        b'-2:lemma:rpob'
+-0.387944 Supp     b'+1:postag:-RRB-'
+-0.394192 O        b'-2:lemma:fresh'
+-0.395680 O        b'+1:lemma:minimal'
+-0.396198 O        b'-2:lemma:phase'
+-0.398092 O        b'-2:lemma:dpd'
+-0.402236 Supp     b'+2:lemma:-rrb-'
+-0.410787 O        b'+1:lemma:1m'
+-0.410787 O        b'-2:lemma:vol'
+-0.419351 O        b'-1:lemma:cra'
+-0.439916 Med      b'+1:postag:IN'
+-0.447763 Supp     b'+2:postag:-RRB-'
+-0.451257 O        b'-2:lemma:until'
+-0.454676 Supp     b'-2:lemma:treat'
+-0.461514 Supp     b'+1:postag:NNS'
+-0.473439 O        b'+2:lemma:at'
+-0.489525 Supp     b'-2:postag:NNS'
+-0.490480 O        b'-2:lemma:a'
+-0.491484 Supp     b'+1:lemma:,'
+-0.491484 Supp     b'+1:postag:,'
+-0.497187 O        b'lemma:aerobically'
+-0.503626 Supp     b'-1:postag:NNP'
+-0.509023 Supp     b'lemma:10'
+-0.516721 O        b'+1:lemma:+'
+-0.521588 O        b'lemma:nitrate'
+-0.522828 O        b'-2:lemma::'
+-0.525160 O        b'+1:lemma:g/l'
+-0.528490 O        b'+1:lemma:supplement'
+-0.536875 Anti     b'+2:postag:JJ'
+-0.541770 O        b'-1:lemma:ml'
+-0.549347 O        b'+1:lemma:mm'
+-0.554922 O        b'-1:lemma:rpob'
+-0.555832 O        b'-1:lemma:dissolve'
+-0.555832 O        b'+1:lemma:methanol'
+-0.556682 O        b'+1:postag:VBG'
+-0.560238 O        b'-1:lemma:co2'
+-0.588187 O        b'+2:lemma:a'
+-0.589107 Anti     b'+1:lemma:anti-fur'
+-0.592147 Med      b'-2:postag:VBN'
+-0.594320 O        b'-2:lemma:2'
+-0.596090 O        b'+2:lemma:add'
+-0.599346 O        b'-2:lemma:supplement'
+-0.602638 pH       b'postag:NN'
+-0.603217 O        b'-2:lemma:glucose'
+-0.605916 O        b'lemma:mid-log'
+-0.609002 O        b'+2:lemma:10'
+-0.610140 O        b'-1:lemma:mm'
+-0.614692 Supp     b'+1:lemma:-lrb-'
+-0.622267 Med      b'+2:postag:VBN'
+-0.631151 O        b'-1:lemma:vol'
+-0.631151 O        b'-2:lemma:1/100'
+-0.631151 O        b'+2:lemma:1m'
+-0.635308 O        b'-2:lemma:media'
+-0.643298 Supp     b'+1:postag:-LRB-'
+-0.667302 O        b'-1:lemma:grow'
+-0.675604 O        b'lemma:anaerobically'
+-0.678285 O        b'postag:VBP'
+-0.712921 O        b'-2:postag:DT'
+-0.743302 O        b'-2:postag:RB'
+-0.797815 O        b'-1:lemma:2'
+-0.803294 Supp     b'-2:postag:JJ'
+-0.804094 O        b'lemma:wt'
+-0.827192 O        b'+2:lemma:+'
+-0.827898 O        b'+1:lemma:until'
+-0.831996 O        b'+2:lemma:mid-log'
+-0.837044 O        b'lemma:2h'
+-0.837044 O        b'-1:lemma:additional'
+-0.853094 O        b'lemma:of'
+-0.881861 O        b'lemma:aerobic'
+-0.919135 O        b'-1:lemma:30'
+-0.952995 Air      b'postag:NN'
+-0.973697 O        b'+2:postag:-RRB-'
+-0.983024 Air      b'+1:postag:JJ'
+-1.013906 O        b'+2:lemma:fnr'
+-1.021974 O        b'-2:postag:SYM'
+-1.037571 O        b'+2:lemma:then'
+-1.048639 Med      b'-2:lemma:grow'
+-1.054249 O        b'lemma:media'
+-1.064365 Temp     b'postag:NN'
+-1.088097 O        b'-1:lemma:nsrr'
+-1.141026 Phase    b'-1:postag:JJ'
+-1.155260 O        b'+2:lemma:b'
+-1.165858 O        b'-2:lemma:0.3'
+-1.175657 O        b'-1:lemma:ph'
+-1.186408 O        b'lemma:\xce\xb4fur'
+-1.229030 O        b'+1:lemma:in'
+-1.249314 O        b'+1:lemma:at'
+-1.257039 O        b'lemma:rifampicin'
+-1.261781 Gtype    b'+2:lemma:cra'
+-1.267291 O        b'+1:lemma:2.0'
+-1.293131 O        b'-2:lemma:rifampicin'
+-1.297426 O        b'-1:lemma:sample'
+-1.317920 Phase    b'postag:JJ'
+-1.321832 O        b'-1:lemma:1'
+-1.346398 OD       b'+2:lemma:aerobically'
+-1.353123 Supp     b'+2:lemma:2'
+-1.353839 OD       b'+1:postag:NN'
+-1.379126 Anti     b'+2:lemma:polyclonal'
+-1.433804 O        b'+2:lemma:rifampicin'
+-1.437034 Supp     b'+2:postag:CD'
+-1.439161 Supp     b'+2:lemma:1'
+-1.489609 Supp     b'+2:lemma:fructose'
+-1.512780 O        b'lemma:30'
+-1.553364 Supp     b'postag:JJ'
+-1.601724 O        b'-1:postag:VBG'
+-1.789724 O        b'-1:lemma:IP'
+-1.863826 Gtype    b'postag:VBG'
+-2.000634 Anti     b'postag:NNP'
+-2.029905 O        b'lemma:0.3'
+-2.144948 O        b'+1:lemma:1'
+-2.735063 O        b'+1:lemma:2'
+-3.945319 O        b'-1:lemma::'
+-4.420879 O        b'-1:lemma:_'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.01750591736573677, 'c2': 0.02307723566043045}
-best CV score:0.7965019925648547
-model size: 0.10M
-
-Flat F1: 0.7968324300802168
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.667     0.800         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.862     0.764     0.810       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.865     0.662     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.876     0.748     0.797       480
-
-
-Top likely transitions:
-OD     -> OD      5.786764
-Agit   -> Agit    5.337876
-Anti   -> Anti    5.174874
-Temp   -> Temp    5.088685
-Med    -> Med     5.002944
-Air    -> Air     4.877267
-O      -> O       4.715817
-Gversion -> Gversion 4.473906
-Phase  -> Phase   4.357763
-Gtype  -> Gtype   4.242273
-Supp   -> Supp    4.009897
-Technique -> Technique 3.021233
-pH     -> pH      2.548336
-Substrain -> Gtype   1.971828
-O      -> Supp    1.641966
-Gtype  -> Supp    1.637091
-Air    -> O       1.145928
-O      -> Gtype   1.141727
-Technique -> Air     1.068808
-Gtype  -> pH      0.990954
-O      -> Technique 0.980217
-O      -> Temp    0.771371
-O      -> Anti    0.605031
-Gtype  -> Air     0.434959
-Med    -> O       0.223888
-O      -> Strain  0.200811
-O      -> pH      0.175383
-O      -> Gversion 0.140227
-OD     -> Phase   0.052262
-O      -> Vess    0.045108
-Temp   -> O       0.034423
-Phase  -> O       0.018387
-Strain -> O       -0.000112
-Anti   -> pH      -0.000851
-Strain -> OD      -0.002202
-O      -> Substrain -0.003970
-Technique -> Phase   -0.027678
-Med    -> pH      -0.028490
-Anti   -> Phase   -0.030227
-Gtype  -> Strain  -0.031833
-pH     -> OD      -0.041636
-Air    -> Anti    -0.042531
-OD     -> pH      -0.045135
-pH     -> Air     -0.051415
-Anti   -> O       -0.054882
-Med    -> OD      -0.055592
-O      -> Med     -0.064478
-Med    -> Temp    -0.070415
-Phase  -> Air     -0.071257
-Supp   -> Agit    -0.072692
-
-
-Top unlikely transitions:
-O      -> Agit    -0.317813
-Gversion -> Gtype   -0.346160
-Anti   -> Gtype   -0.379001
-Gversion -> Supp    -0.395995
-Technique -> O       -0.407315
-Technique -> Gversion -0.411287
-Air    -> Gtype   -0.414228
-Gversion -> Technique -0.423101
-Supp   -> pH      -0.449062
-Air    -> Temp    -0.454318
-OD     -> Temp    -0.462022
-OD     -> Technique -0.528407
-Gtype  -> Phase   -0.537062
-OD     -> Anti    -0.541206
-Gversion -> Air     -0.555674
-Supp   -> Temp    -0.581411
-Supp   -> Phase   -0.581776
-Technique -> Supp    -0.590399
-Gtype  -> Technique -0.620634
-OD     -> Supp    -0.644073
-Med    -> Air     -0.679744
-Temp   -> Med     -0.687449
-OD     -> Med     -0.717084
-Anti   -> OD      -0.770834
-Supp   -> Anti    -0.804922
-Air    -> Supp    -0.806945
-Gtype  -> Gversion -0.811241
-Supp   -> OD      -0.862585
-Supp   -> Gversion -0.867304
-Phase  -> Technique -0.873833
-Agit   -> O       -0.910378
-Air    -> Med     -0.936107
-Gtype  -> Med     -0.971156
-Supp   -> Technique -0.979631
-Supp   -> Gtype   -0.998503
-OD     -> Gtype   -1.001151
-Supp   -> Air     -1.002273
-Gtype  -> Anti    -1.098941
-OD     -> Air     -1.189877
-O      -> Air     -1.194520
-OD     -> O       -1.238899
-Air    -> OD      -1.240827
-Gtype  -> OD      -1.288759
-Substrain -> O       -1.351729
-Technique -> pH      -1.436208
-Technique -> Gtype   -1.565301
-Supp   -> Med     -1.571460
-Technique -> OD      -1.655463
-Med    -> Supp    -1.791934
-Phase  -> OD      -2.395487
-
-
-Top positive:
-7.777505 O        b'lemma:_'
-6.605877 O        b'lemma:1'
-5.933184 Phase    b'lemma:stationary'
-5.921751 Air      b'lemma:anaerobic'
-5.663542 Supp     b'lemma:Iron'
-5.628841 O        b'lemma:2'
-5.570604 Strain   b'lemma:k-12'
-5.357728 Air      b'lemma:aerobic'
-5.308359 Technique b'lemma:chipseq'
-5.243195 Technique b'lemma:ChIP-exo'
-5.146328 O        b'lemma:3'
-5.113544 O        b'lemma:rpob'
-4.972436 Supp     b'lemma:pq'
-4.736752 O        b'-1:lemma:tag'
-4.683084 Gtype    b'lemma:\xce\xb4cra'
-4.682011 Phase    b'lemma:mid-log'
-4.676054 Gversion b'lemma:asm584v2'
-4.661754 Supp     b'lemma:nh4cl'
-4.645082 Gtype    b'lemma:flag-tag'
-4.645082 Gtype    b'-1:lemma:c-terminal'
-4.640572 O        b'lemma:rep1'
-4.613649 O        b'lemma:Cra'
-4.546591 Gtype    b'lemma:arca8myc'
-4.537870 O        b'postag:IN'
-4.531129 Supp     b'lemma:glucose'
-4.528260 Air      b'-1:lemma:ChIP-Seq'
-4.460701 O        b'lemma:rep2'
-4.331423 Med      b'lemma:MOPS'
-4.320826 Gtype    b'lemma:wt'
-4.314650 Supp     b'lemma:nitrate'
-4.296372 O        b'lemma:rep3'
-4.285293 Substrain b'lemma:mg1655'
-4.240354 Supp     b'lemma:acetate'
-4.111263 Med      b'lemma:lb'
-4.087796 Gtype    b'lemma:delta-arca'
-4.036491 O        b'+1:postag:RB'
-4.022073 Supp     b'+1:lemma:\xc2\xb5m'
-4.010145 O        b'lemma:b'
-4.010092 Supp     b'lemma:no3'
-3.996538 Med      b'lemma:LB'
-3.996393 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.982442 Technique b'lemma:rna-seq'
-3.957894 Air      b'lemma:Aerobic'
-3.935017 O        b'lemma:a'
-3.803123 OD       b'lemma:od600'
-3.801977 Anti     b'lemma:none'
-3.786775 Gtype    b'lemma:fnr8myc'
-3.769938 O        b'lemma:.'
-3.769938 O        b'postag:.'
-3.769927 Supp     b'lemma:Fe'
-3.764066 Technique b'lemma:chip-seq'
-3.735366 O        b'postag::'
-3.685306 O        b'lemma:CEL'
-3.645917 O        b'lemma:\xcf\x8332'
-3.642265 O        b'-1:lemma:Aerobic'
-3.634484 Anti     b'lemma:seqa'
-3.544891 Technique b'lemma:rnaseq'
-3.525311 Supp     b'+1:lemma:Deficient'
-3.521610 OD       b'lemma:od450'
-3.519361 O        b'-1:lemma:ChIP-exo'
-3.516252 O        b'lemma:Custom'
-3.464219 O        b'postag:VBN'
-3.463491 Supp     b'+1:lemma:1'
-3.450572 Supp     b'lemma:rifampicin'
-3.427503 Med      b'+1:lemma:0.4'
-3.379916 Gtype    b'lemma:delta-fnr'
-3.378105 Supp     b'-1:lemma:Cra'
-3.351155 Gtype    b'lemma:\xe2\x88\x86'
-3.343450 Gversion b'lemma:chip-seq'
-3.314924 Supp     b'lemma:fructose'
-3.282214 Supp     b'lemma:dpd'
-3.262950 Gtype    b'+1:lemma:with'
-3.253726 O        b'lemma:-'
-3.214173 O        b'+1:lemma:od600'
-3.187644 O        b'-1:lemma:0.3-0.35'
-3.182055 Gtype    b'lemma:type'
-3.172972 Supp     b'lemma:arginine'
-3.120594 Gtype    b'lemma:\xce\xb4fur'
-3.117794 Gversion b'lemma:nc'
-3.109528 O        b'-1:lemma:glucose'
-3.081979 O        b'+1:lemma:anti-fur'
-3.077641 Gtype    b'+1:lemma:type'
-3.064731 Supp     b'+1:lemma:2'
-3.053268 Vess     b'lemma:flask'
-3.053268 Vess     b'-1:lemma:warm'
-3.046425 O        b'-1:lemma:anaerobic'
-3.038756 pH       b'lemma:ph5'
-3.038756 pH       b'+1:lemma:.5'
-3.027884 Med      b'lemma:m63'
-3.018439 Gtype    b'lemma:wild-type'
-3.002251 O        b'lemma:chip-arca'
-3.002149 Anti     b'lemma:anti-myc'
-3.001018 Gtype    b'lemma:nsrr'
-3.000941 O        b'lemma:affyexp'
-3.000850 Air      b'postag:RB'
-2.987234 O        b'-1:lemma:lb'
-2.981372 Strain   b'+1:lemma:substr'
-2.977968 O        b'lemma:with'
-2.970913 O        b'lemma:s'
-2.954955 O        b'lemma:oxyr'
-2.919696 Technique b'lemma:ChIP-Seq'
-2.911598 Gtype    b'lemma:WT'
-2.907151 Temp     b'lemma:\xc2\xb0c'
-2.882096 Gtype    b'lemma:\xce\xb4soxs'
-2.828303 O        b'-1:lemma:stpa'
-2.815555 O        b'lemma:argr'
-2.805344 Med      b'+1:lemma:minimal'
-2.776817 Gversion b'lemma:.2'
-2.776817 Gversion b'-1:lemma:u00096'
-2.765075 O        b'lemma:at'
-2.753642 Supp     b'-1:lemma:+'
-2.743827 Med      b'+1:lemma:2.0'
-2.731390 O        b'lemma:ompr'
-2.715846 O        b'+1:lemma:pq'
-2.713993 Gversion b'lemma:u00096'
-2.713993 Gversion b'+1:lemma:.2'
-2.703704 Air      b'lemma:Anaerobic'
-2.702255 Gtype    b'lemma:\xce\xb4ompr'
-2.686740 Supp     b'+1:lemma:_'
-2.677806 Gtype    b'-1:lemma:ptac'
-2.662879 Phase    b'+1:lemma:for'
-2.660845 O        b'lemma:purr'
-2.633400 Gversion b'-1:lemma:nc'
-2.610705 Med      b'-1:lemma:ml'
-2.610364 Supp     b'lemma:nacl'
-2.598932 Technique b'-1:lemma:IP'
-2.587524 O        b'lemma:or'
-2.572768 Supp     b'lemma:Leu'
-2.557048 Gversion b'lemma:000913'
-2.535138 Gtype    b'+1:lemma:flagtag'
-2.529124 O        b'postag:CC'
-2.528151 Gtype    b'+1:lemma:pq'
-2.519454 OD       b'+1:lemma:stationary'
-2.517078 Gtype    b'+1:lemma:aerobic'
-2.508910 O        b'lemma:Lrp'
-2.508428 Gtype    b'-1:lemma:rpob'
-2.502749 Temp     b'lemma:43'
-2.501837 Air      b'lemma:anaerobically'
-2.500161 Gtype    b'lemma:ptac'
-2.489806 O        b'+1:lemma:o.d.'
-2.489002 O        b'-1:lemma:type'
-2.486890 Gtype    b'lemma:pk4854'
-2.485914 O        b'lemma:for'
-2.480050 O        b'postag:SYM'
-2.476780 Supp     b'+1:lemma:hour'
-2.458558 Air      b'-1:lemma:-'
-2.455765 Anti     b'lemma:anti-rpos'
-2.449385 Supp     b'lemma:Adenine'
-2.445239 O        b'lemma:Fur'
-2.444393 O        b'lemma:soxs'
-2.444393 O        b'lemma:soxr'
-2.434249 Temp     b'-1:lemma:37'
-2.428845 Gtype    b'lemma:deltaseqa'
-2.428845 Gtype    b'-1:lemma:old'
-2.414384 Anti     b'+1:lemma:antibody'
-2.405965 O        b'lemma:2-3'
-2.403476 Temp     b'-1:lemma:43'
-2.394168 Air      b'lemma:anerobically'
-2.391084 Substrain b'+1:lemma:phtpg'
-2.390362 O        b'+1:lemma:chip-seq'
-2.364093 O        b'lemma:chip'
-2.344688 pH       b'+1:postag:CD'
-2.333775 Med      b'postag:NNP'
-2.308157 Supp     b'lemma:iptg'
-2.301961 O        b'+1:lemma:43'
-2.296886 Gtype    b'lemma:\xce\xb4oxyr'
-2.293633 O        b'lemma:chip-fnr'
-2.288275 Med      b'+1:lemma:+'
-2.287838 Technique b'-1:lemma:input'
-2.284745 Gtype    b'+1:lemma:ph5'
-2.282924 O        b'+1:lemma:sparging'
-2.273731 Technique b'+1:lemma:chip-exo'
-2.256890 Gtype    b'lemma:\xce\xb4soxr'
-2.248969 O        b'lemma:pt7'
-2.247412 Gtype    b'lemma:dfnr'
-2.234348 Technique b'-1:lemma:chip-exo'
-2.225915 O        b'+1:lemma:mid-log'
-2.218353 Supp     b'+1:lemma:deficient'
-2.214682 Phase    b'lemma:phase'
-2.209324 Phase    b'-1:lemma:until'
-2.209232 Supp     b'lemma:methanol'
-2.187036 Technique b'postag:NNP'
-2.159413 Temp     b'-1:lemma:sample'
-2.151326 Gtype    b'-1:lemma:nsrr'
-2.149028 Supp     b'lemma:20'
-2.143459 pH       b'lemma:.5'
-2.143459 pH       b'-1:lemma:ph5'
-2.130382 Supp     b'-1:lemma:with'
-2.124595 Phase    b'-1:lemma:mid-log'
-2.122806 Gversion b'+1:lemma:000913'
-2.119158 Temp     b'+1:lemma:\xc2\xb0c'
-2.116827 O        b'lemma:genotype/variation'
-2.111971 Gtype    b'-1:lemma:from'
-2.099395 Gversion b'lemma:_'
-2.093842 O        b'postag:VBG'
-2.087024 Gtype    b'-1:lemma::'
-2.084864 Med      b'+1:lemma:-lrb-'
-2.083399 Med      b'lemma:broth'
-2.083399 Med      b'-1:lemma:L'
-2.080517 Med      b'lemma:L'
-
-
-Top negative:
--0.116698 Gtype    b'-1:postag:NNP'
--0.117399 Med      b'-1:postag:NN'
--0.121920 Phase    b'-1:postag:NN'
--0.126158 O        b'-1:lemma:delta'
--0.126979 O        b'lemma:medium'
--0.136307 O        b'lemma:10'
--0.138994 O        b'+1:lemma:2.0'
--0.140939 O        b'-1:postag:IN'
--0.146352 OD       b'+1:lemma:in'
--0.147540 O        b'-1:lemma:iptg'
--0.148360 Gtype    b'lemma:ompr'
--0.148713 Supp     b'+1:lemma:glucose'
--0.150545 Gtype    b'-1:lemma:,'
--0.150545 Gtype    b'-1:postag:,'
--0.152555 O        b'+1:lemma:mm'
--0.154518 O        b'+1:lemma:5'
--0.161052 Air      b'postag:CD'
--0.161490 O        b'-1:lemma:purify'
--0.162601 O        b'+1:lemma:strain'
--0.164231 O        b'-1:lemma:with'
--0.165378 O        b'-1:lemma:minimal'
--0.167055 Air      b'-1:lemma:or'
--0.177695 O        b'+1:lemma:0.4'
--0.179481 Med      b'+1:postag:CC'
--0.192792 Gtype    b'+1:postag:NNS'
--0.194783 O        b'-1:lemma:-lrb-'
--0.199810 Gtype    b'-1:lemma:mg1655'
--0.202202 O        b'+1:lemma:antibody'
--0.204305 O        b'+1:lemma:mg1655'
--0.205357 O        b'+1:lemma:minimal'
--0.215743 O        b'+1:lemma:.'
--0.215743 O        b'+1:postag:.'
--0.224035 Supp     b'+1:postag:IN'
--0.226319 Technique b'-1:lemma::'
--0.228443 Supp     b'lemma:and'
--0.228851 O        b'lemma:e.'
--0.233559 Gtype    b'+1:lemma:cra'
--0.233930 O        b'lemma:8'
--0.236052 Gtype    b'+1:lemma:a'
--0.236429 O        b'lemma:n2'
--0.240273 O        b'-1:postag:-LRB-'
--0.243379 O        b'-1:lemma:e.'
--0.246913 O        b'-1:lemma:20'
--0.249761 O        b'-1:postag:VBP'
--0.250445 O        b'+1:lemma:from'
--0.253990 O        b'lemma:co2'
--0.257147 O        b'lemma:lb'
--0.262866 O        b'-1:lemma:grow'
--0.263101 O        b'-1:lemma:n2'
--0.266675 Med      b'postag:CD'
--0.267433 Med      b'+1:postag:NNS'
--0.271690 Med      b'lemma:-lrb-'
--0.272421 Med      b'postag:-LRB-'
--0.274354 Anti     b'+1:postag:JJ'
--0.275817 O        b'-1:lemma:fresh'
--0.276458 Gversion b'+1:postag:NN'
--0.284818 Gtype    b'+1:lemma:b'
--0.291947 O        b'+1:lemma:until'
--0.292980 O        b'lemma:minimal'
--0.294264 O        b'lemma:30'
--0.295523 O        b'-1:lemma:od600'
--0.299205 O        b'+1:lemma:b'
--0.302254 O        b'lemma:aerobically'
--0.310314 O        b'lemma:grow'
--0.331454 O        b'-1:lemma:0.1'
--0.331977 O        b'-1:postag:VBN'
--0.340682 O        b'+1:lemma:delta'
--0.346089 O        b'+1:lemma:-lcb-'
--0.347377 O        b'-1:lemma:um'
--0.347377 O        b'+1:lemma:paraquat'
--0.348080 O        b'+1:postag:-RRB-'
--0.348644 Gtype    b'postag:CD'
--0.350220 O        b'-1:lemma:chip-exo'
--0.353135 O        b'lemma:mg/ml'
--0.353135 O        b'-1:lemma:150'
--0.368298 O        b'-1:lemma:mm'
--0.368952 O        b'+1:lemma:phase'
--0.383392 Phase    b'-1:lemma:at'
--0.383608 Gtype    b'lemma:_'
--0.386439 O        b'+1:postag:IN'
--0.389536 O        b'lemma:glucose'
--0.397045 Supp     b'+1:postag:VBN'
--0.406129 O        b'postag:RB'
--0.417245 O        b'lemma:m63'
--0.417398 OD       b'+1:postag:CC'
--0.419368 Temp     b'postag:JJ'
--0.422874 O        b'+1:lemma:or'
--0.427973 O        b'+1:lemma:%'
--0.435206 O        b'+1:lemma:shake'
--0.441406 OD       b'+1:lemma:mid-log'
--0.442803 Med      b'+1:postag:NN'
--0.449476 O        b'lemma:nacl'
--0.461678 O        b'+1:lemma:_'
--0.466634 O        b'lemma:od600'
--0.469668 Technique b'-1:postag::'
--0.470685 O        b'-1:lemma:from'
--0.478610 Supp     b'postag:CC'
--0.495782 O        b'+1:lemma:dissolve'
--0.501976 Supp     b'-1:postag:VBG'
--0.521671 O        b'-1:lemma:rifampicin'
--0.527652 O        b'lemma:\xc2\xb0c'
--0.532074 O        b'-1:lemma:g/l'
--0.535235 O        b'-1:lemma:cra'
--0.535605 pH       b'postag:NN'
--0.540053 O        b'+1:lemma:cell'
--0.542400 O        b'-1:lemma:mid-log'
--0.554731 O        b'+1:lemma:Aerobic'
--0.557223 OD       b'+1:postag:NN'
--0.577398 Temp     b'-1:lemma:\xc2\xb0c'
--0.586593 O        b'+1:lemma:rep1'
--0.589048 O        b'-1:lemma:30'
--0.595835 Med      b'-1:postag:IN'
--0.598295 O        b'lemma:phase'
--0.599331 Supp     b'-1:lemma:%'
--0.612222 O        b'+1:lemma:\xc2\xb0c'
--0.624875 O        b'-1:lemma:affinity'
--0.636676 OD       b'lemma:-lrb-'
--0.643469 O        b'+1:postag:NNS'
--0.649099 Temp     b'postag:NN'
--0.649456 O        b'lemma:of'
--0.658905 Gtype    b'-1:postag:SYM'
--0.660226 OD       b'+1:lemma:and'
--0.660293 O        b'+1:lemma:c'
--0.672111 O        b'lemma:mg1655'
--0.675080 Gtype    b'lemma:delta'
--0.677816 O        b'lemma:dissolve'
--0.678428 Supp     b'+1:lemma:rifampicin'
--0.684724 O        b'-1:lemma:co2'
--0.686280 Gtype    b'-1:postag:DT'
--0.694863 O        b'-1:lemma:o2'
--0.722306 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.732614 O        b'lemma:150'
--0.732614 O        b'+1:lemma:mg/ml'
--0.761599 OD       b'postag:-LRB-'
--0.772588 Temp     b'+1:lemma:to'
--0.772588 Temp     b'+1:postag:TO'
--0.781297 O        b'lemma:anaerobically'
--0.807083 O        b'+1:lemma:arginine'
--0.819715 O        b'-1:lemma:\xe2\x88\x86'
--0.823821 O        b'+1:lemma:0.3'
--0.836002 O        b'lemma:dpd'
--0.858798 O        b'+1:lemma:fecl2'
--0.878330 Med      b'+1:postag:IN'
--0.883801 O        b'-1:lemma:until'
--0.890383 O        b'lemma:purify'
--0.893680 Anti     b'+1:lemma:anti-fur'
--0.905649 O        b'lemma:anaerobic'
--0.919723 O        b'-1:lemma:0.2'
--0.932910 O        b'+1:lemma:300'
--0.948417 O        b'-1:lemma:ml'
--0.951682 O        b'-1:lemma:1'
--0.955382 Air      b'-1:postag:JJ'
--0.960497 O        b'lemma:\xe2\x88\x86'
--0.979778 O        b'-1:lemma:dissolve'
--0.979778 O        b'+1:lemma:methanol'
--0.985663 O        b'lemma:fecl2'
--0.995333 O        b'lemma:media'
--1.037234 Phase    b'-1:postag:JJ'
--1.042219 O        b'lemma:20'
--1.048118 O        b'lemma:k-12'
--1.067143 Supp     b'+1:lemma:acetate'
--1.079445 O        b'lemma:2h'
--1.079445 O        b'-1:lemma:additional'
--1.084169 O        b'+1:lemma:supplement'
--1.104220 O        b'lemma:0.1'
--1.125319 O        b'lemma:mid-log'
--1.136189 O        b'lemma:0.2'
--1.136814 O        b'-1:lemma:~'
--1.142555 O        b'lemma:0.3'
--1.163967 O        b'+1:lemma:at'
--1.165833 O        b'+1:lemma:in'
--1.233659 O        b'+1:postag:VBG'
--1.234566 OD       b'postag:JJ'
--1.251923 O        b'-1:postag:VBG'
--1.261321 Phase    b'postag:JJ'
--1.282079 O        b'+1:lemma:g/l'
--1.318236 O        b'lemma:\xce\xb4fur'
--1.394008 O        b'-1:lemma:ompr'
--1.417347 O        b'-1:lemma:sample'
--1.574030 O        b'lemma:37'
--1.604365 Supp     b'postag:JJ'
--1.624714 O        b'postag:VBP'
--1.649157 O        b'-1:postag::'
--1.654774 Air      b'postag:NN'
--1.662186 O        b'-1:lemma:rpob'
--1.692863 Air      b'+1:postag:JJ'
--1.720211 Anti     b'postag:NNP'
--1.810759 O        b'lemma:wt'
--1.845010 O        b'-1:lemma:37'
--1.856437 O        b'+1:lemma:+'
--1.877902 O        b'-1:lemma:IP'
--1.987331 O        b'-1:lemma:2'
--2.039453 O        b'lemma:methanol'
--2.059494 O        b'-1:lemma:nsrr'
--2.091546 O        b'+1:lemma:2'
--2.107679 O        b'lemma:rifampicin'
--2.361875 O        b'+1:lemma:hour'
--2.588783 O        b'+1:lemma:1'
--3.600862 O        b'-1:lemma:_'
--3.688282 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.16617627893415826, 'c2': 0.016246283722594547}
+best CV score:0.8677299702871124
+model size: 0.09M
+
+Flat F1: 0.8100263815531699
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.943     0.971        53
+       Temp      0.923     0.828     0.873        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.565     0.377     0.452        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.889     0.847     0.867        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.811     0.799     0.805       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.845     0.783     0.810       451
+
+
+Top likely transitions:
+Agit   -> Agit    6.716949
+Temp   -> Temp    6.219197
+OD     -> OD      5.656758
+Med    -> Med     5.510885
+Supp   -> Supp    5.091598
+Anti   -> Anti    4.770668
+Gversion -> Gversion 4.530576
+Phase  -> Phase   4.343162
+Air    -> Air     4.176421
+Gtype  -> Gtype   3.872949
+O      -> O       3.576273
+Technique -> Technique 3.464421
+pH     -> pH      3.115258
+O      -> Technique 0.821082
+Substrain -> Gtype   0.704368
+O      -> Supp    0.589038
+Air    -> O       0.511427
+Gtype  -> Supp    0.510592
+Gtype  -> Air     0.474170
+Temp   -> O       0.189513
+O      -> Gtype   0.176860
+Supp   -> O       0.145242
+Technique -> Air     0.118103
+Med    -> O       0.093609
+O      -> Anti    0.090099
+Phase  -> O       0.002296
+O      -> Temp    0.002073
+O      -> Phase   0.000043
+O      -> Med     -0.015745
+Gtype  -> Med     -0.042610
+Supp   -> Med     -0.045443
+O      -> OD      -0.113818
+Air    -> Supp    -0.115743
+Technique -> pH      -0.124518
+OD     -> Air     -0.194892
+Gversion -> O       -0.196158
+Gtype  -> Technique -0.579025
+Technique -> O       -0.829124
+O      -> Air     -0.902346
+Gtype  -> O       -0.925779
+Med    -> Supp    -1.463243
+Substrain -> O       -1.475265
+
+
+Top unlikely transitions:
+Agit   -> Agit    6.716949
+Temp   -> Temp    6.219197
+OD     -> OD      5.656758
+Med    -> Med     5.510885
+Supp   -> Supp    5.091598
+Anti   -> Anti    4.770668
+Gversion -> Gversion 4.530576
+Phase  -> Phase   4.343162
+Air    -> Air     4.176421
+Gtype  -> Gtype   3.872949
+O      -> O       3.576273
+Technique -> Technique 3.464421
+pH     -> pH      3.115258
+O      -> Technique 0.821082
+Substrain -> Gtype   0.704368
+O      -> Supp    0.589038
+Air    -> O       0.511427
+Gtype  -> Supp    0.510592
+Gtype  -> Air     0.474170
+Temp   -> O       0.189513
+O      -> Gtype   0.176860
+Supp   -> O       0.145242
+Technique -> Air     0.118103
+Med    -> O       0.093609
+O      -> Anti    0.090099
+Phase  -> O       0.002296
+O      -> Temp    0.002073
+O      -> Phase   0.000043
+O      -> Med     -0.015745
+Gtype  -> Med     -0.042610
+Supp   -> Med     -0.045443
+O      -> OD      -0.113818
+Air    -> Supp    -0.115743
+Technique -> pH      -0.124518
+OD     -> Air     -0.194892
+Gversion -> O       -0.196158
+Gtype  -> Technique -0.579025
+Technique -> O       -0.829124
+O      -> Air     -0.902346
+Gtype  -> O       -0.925779
+Med    -> Supp    -1.463243
+Substrain -> O       -1.475265
+
+
+Top positive:
+6.433973 Technique b'lemma[:2]:Ch'
+6.360815 O        b'lemma:2'
+5.662452 Anti     b'-2:lemma:antibody'
+5.635583 O        b'lemma:1'
+5.375548 O        b'-2:lemma:_'
+5.334062 O        b'lemma:3'
+4.328011 Gtype    b'lemma[:1]:\xce\xb4'
+4.274267 O        b'lemma[:2]:re'
+4.227305 Phase    b'lemma:mid-log'
+4.196090 Air      b'lemma[:2]:ae'
+3.698810 Gtype    b'-1:lemma:\xe2\x88\x86'
+3.689545 Substrain b'lemma[:2]:mg'
+3.405547 Air      b'lemma:anaerobic'
+3.375450 Technique b'lemma:chipseq'
+3.355381 O        b'-2:lemma:medium'
+3.263554 O        b'lemma:with'
+3.228684 O        b'lemma:b'
+3.212301 Technique b'lemma[:2]:rn'
+3.141015 Supp     b'lemma:acetate'
+3.091356 Phase    b'-2:lemma:phase'
+3.034572 Gtype    b'lemma:type'
+3.034572 Gtype    b'lemma[:2]:ty'
+3.019205 O        b'-1:lemma:tag'
+2.976419 Air      b'lemma[:2]:an'
+2.958977 O        b'+2:lemma:\xc2\xb0c'
+2.937672 O        b'lemma[:2]:ge'
+2.921253 O        b'lemma[:1]:h'
+2.903272 Gtype    b'-2:lemma:genotype/variation'
+2.893999 Supp     b'lemma:arginine'
+2.891850 O        b'lemma:-'
+2.870735 Supp     b'-1:lemma:with'
+2.863673 Gtype    b'+1:lemma:type'
+2.803093 Supp     b'lemma:pq'
+2.803093 Supp     b'lemma[:2]:pq'
+2.800209 O        b'lemma:a'
+2.752078 Med      b'+2:postag:CC'
+2.708393 Gtype    b'lemma[:2]:pk'
+2.703014 Supp     b'-1:lemma:Cra'
+2.629891 O        b'lemma:_'
+2.629891 O        b'lemma[:1]:_'
+2.596183 Supp     b'lemma:Iron'
+2.596183 Supp     b'lemma[:2]:Ir'
+2.596183 Supp     b'-2:lemma:Anaerobic'
+2.569027 O        b'+2:lemma:70'
+2.544018 Supp     b'+2:lemma:iptg'
+2.496912 OD       b'lemma[:1]:o'
+2.467329 Supp     b'+1:lemma:\xc2\xb5m'
+2.456900 O        b'lemma:.'
+2.456900 O        b'postag:.'
+2.456900 O        b'postag[:1]:.'
+2.453094 O        b'+1:lemma:pq'
+2.442390 O        b'-1:lemma:ChIP-exo'
+2.433484 Technique b'lemma[:2]:ch'
+2.399879 Anti     b'+2:lemma:antibody'
+2.363621 Air      b'lemma:Aerobic'
+2.363621 Air      b'lemma[:2]:Ae'
+2.358981 Gtype    b'-2:lemma:delta'
+2.342573 O        b'-2:lemma:myc'
+2.331321 Supp     b'lemma:no3'
+2.313202 Supp     b'lemma:rifampicin'
+2.312753 Anti     b'+1:lemma:antibody'
+2.297741 Supp     b'lemma[:2]:ri'
+2.281621 Air      b'-2:lemma:IP'
+2.278366 Med      b'lemma:MOPS'
+2.278366 Med      b'lemma[:1]:M'
+2.278366 Med      b'lemma[:2]:MO'
+2.270655 OD       b'lemma[:2]:od'
+2.263438 Gversion b'lemma:chip-seq'
+2.231180 O        b'-1:lemma:glucose'
+2.206950 Gtype    b'lemma:wt'
+2.206950 Gtype    b'lemma[:2]:wt'
+2.187730 Supp     b'lemma[:2]:gl'
+2.186178 pH       b'+1:postag:CD'
+2.183027 Technique b'-1:lemma:input'
+2.179683 O        b'lemma[:1]:-'
+2.172484 Air      b'-1:lemma:ChIP-Seq'
+2.160518 Phase    b'lemma:stationary'
+2.150044 Phase    b'lemma[:2]:ex'
+2.145423 O        b'postag:IN'
+2.145423 O        b'postag[:1]:I'
+2.145423 O        b'postag[:2]:IN'
+2.135783 O        b'-1:lemma:lb'
+2.115167 O        b'-1:lemma:anaerobic'
+2.106797 O        b'lemma:rpob'
+2.094643 O        b'+2:lemma:cra'
+2.046836 Gtype    b'-2:postag:DT'
+2.035645 Gtype    b'lemma:nsrr'
+2.035645 Gtype    b'lemma[:2]:ns'
+2.034890 Technique b'lemma[:1]:C'
+2.033641 O        b'+1:postag:RB'
+2.013660 Supp     b'+1:lemma:1'
+2.011345 Supp     b'lemma:fructose'
+2.002182 Supp     b'-2:lemma:media'
+1.998148 Gtype    b'hGreek'
+1.992371 Temp     b'-1:lemma:\xcf\x8332'
+1.980657 O        b'postag::'
+1.980657 O        b'postag[:1]::'
+1.979866 Supp     b'-1:lemma:final'
+1.974647 Med      b'+2:lemma:b2'
+1.964961 Temp     b'-1:lemma:sample'
+1.959365 Strain   b'+1:lemma:substr'
+1.959365 Strain   b'-2:lemma:str'
+1.931532 Temp     b'-2:lemma:\xcf\x8332'
+1.926204 pH       b'lemma[:2]:ph'
+1.924918 Supp     b'-2:lemma:agent'
+1.911949 Supp     b'lemma[:1]:n'
+1.895649 Supp     b'+2:lemma:rifampicin'
+1.895108 Temp     b'+2:postag:DT'
+1.894074 Air      b'-1:lemma:-'
+1.892359 Gtype    b'lemma:\xe2\x88\x86'
+1.892359 Gtype    b'lemma[:1]:\xe2\x88\x86'
+1.886561 O        b'-1:lemma:media'
+1.878120 Gtype    b'lemma[:1]:w'
+1.849654 Air      b'-1:lemma:co2'
+1.819415 Supp     b'-1:lemma:+'
+1.819234 Med      b'lemma:L'
+1.819234 Med      b'+1:lemma:broth'
+1.811008 Anti     b'lemma[:2]:an'
+1.807476 O        b'-1:lemma:0.3'
+1.795731 O        b'-1:postag:NNS'
+1.794762 O        b'postag:CC'
+1.794762 O        b'postag[:2]:CC'
+1.793009 Gtype    b'-1:postag:VBG'
+1.774172 O        b'lemma[:1]:C'
+1.769427 Temp     b'lemma[:1]:3'
+1.750065 Med      b'lemma:broth'
+1.750065 Med      b'-1:lemma:L'
+1.750065 Med      b'lemma[:2]:br'
+1.731860 Air      b'lemma[:1]:A'
+1.729863 Supp     b'-1:postag:CC'
+1.711219 Gtype    b'+1:lemma:with'
+1.710940 O        b'+1:postag:NNP'
+1.706914 O        b'+1:lemma:coli'
+1.705143 Phase    b'lemma[:1]:e'
+1.701557 O        b'lemma:chip'
+1.688302 Gtype    b'lemma[:2]:ar'
+1.687398 Gtype    b'-1:lemma:_'
+1.679707 Supp     b'-2:lemma:induce'
+1.674594 O        b'+1:lemma:250'
+1.667872 O        b'-2:lemma:ChIP-Seq'
+1.653279 Gtype    b'+1:lemma::'
+1.627724 O        b'lemma:A'
+1.622722 Supp     b'lemma[:2]:ac'
+1.617166 O        b'postag:VBN'
+1.614130 Substrain b'lemma[:1]:m'
+1.610355 Gtype    b'-2:lemma:genotype'
+1.606189 O        b'+2:postag:JJ'
+1.605995 O        b'lemma:0.4'
+1.600992 Substrain b'+1:lemma:phtpg'
+1.591094 O        b'-1:lemma:Aerobic'
+1.589843 Supp     b'-1:lemma:_'
+1.579672 Air      b'+1:postag:IN'
+1.566124 Temp     b'lemma:43'
+1.566124 Temp     b'lemma[:2]:43'
+1.563526 O        b'-1:lemma:type'
+1.558846 Supp     b'lemma[:2]:30'
+1.552158 O        b'-1:lemma:aerobically'
+1.551882 Gversion b'lemma:nc'
+1.551882 Gversion b'lemma[:2]:nc'
+1.536623 Supp     b'+1:lemma:_'
+1.536256 O        b'-1:lemma:\xc2\xb0c'
+1.524621 Air      b'lemma[:1]:a'
+1.511586 Temp     b'-1:lemma:43'
+1.506306 O        b'lemma[:1]:b'
+1.506103 Gtype    b'lemma[:2]:wi'
+1.498210 Supp     b'+1:lemma:2'
+1.491309 Gtype    b'+1:lemma:flagtag'
+1.490390 Med      b'+1:lemma:0.4'
+1.485550 O        b'+2:lemma:fructose'
+1.479904 Supp     b'lemma:Leu'
+1.479904 Supp     b'lemma[:2]:Le'
+1.479904 Supp     b'-2:lemma:Lrp'
+1.475818 Supp     b'lemma:glucose'
+1.472393 Gtype    b'lemma[:2]:fl'
+1.471237 Gtype    b'-1:lemma:rpob'
+1.464668 Med      b'lemma:lb'
+1.464668 Med      b'lemma[:2]:lb'
+1.462458 O        b'+1:lemma:mid-log'
+1.460719 Med      b'+2:lemma:b1'
+1.459376 O        b'lemma[:2]:ha'
+1.450388 Supp     b'lemma[:1]:I'
+1.442333 Gtype    b'-1:lemma:vector'
+1.442007 Med      b'+1:lemma:g/l'
+1.435558 Supp     b'lemma[:2]:ni'
+1.434864 O        b'lemma:ml'
+1.434864 O        b'lemma[:2]:ml'
+1.431207 Technique b'symb'
+1.424801 O        b'lemma[:1]:r'
+1.421918 Supp     b'+2:lemma:mid-log'
+1.413708 O        b'lemma[:1]:s'
+1.383477 O        b'-2:postag:FW'
+1.383257 O        b'-1:lemma:into'
+1.382919 O        b'lemma[:2]:ga'
+1.354991 O        b'lemma[:1]:c'
+1.346926 Med      b'+1:lemma:minimal'
+1.336028 Gtype    b'lemma[:1]:f'
+1.335008 O        b'+1:postag:VBN'
+1.329569 pH       b'lemma:ph5'
+1.329569 pH       b'+1:lemma:.5'
+1.326705 Gtype    b'-2:lemma:affyexp'
+
+
+Top negative:
+-0.155596 Supp     b'-1:lemma:10'
+-0.157470 O        b'+2:lemma:ph'
+-0.158631 Supp     b'lemma[:1]:s'
+-0.159053 O        b'-1:lemma:from'
+-0.160270 Supp     b'-1:lemma:-lrb-'
+-0.160524 Gtype    b'+2:postag:CD'
+-0.161112 Air      b'postag[:1]:N'
+-0.161112 Air      b'postag[:2]:NN'
+-0.161768 pH       b'postag:NN'
+-0.161818 OD       b'symb'
+-0.167771 Supp     b'-2:lemma:treat'
+-0.176292 O        b'lemma:co2'
+-0.177197 O        b'-1:lemma:g/l'
+-0.181198 O        b'-1:lemma:1m'
+-0.181198 O        b'+2:lemma:7.6'
+-0.186508 O        b'-2:lemma:genome'
+-0.193058 Supp     b'+2:lemma:-rrb-'
+-0.194306 Gtype    b'lemma[:1]:h'
+-0.194450 Supp     b'-1:postag:-LRB-'
+-0.195692 Anti     b'symb'
+-0.197135 O        b'-2:lemma:of'
+-0.201423 O        b'-2:lemma:-lrb-'
+-0.201718 O        b'-1:lemma:0.2'
+-0.207096 Temp     b'postag[:1]:N'
+-0.207096 Temp     b'postag[:2]:NN'
+-0.208637 Temp     b'-2:postag:NN'
+-0.210816 Technique b'-2:postag:NN'
+-0.212139 O        b'lemma:in'
+-0.215720 Supp     b'+2:postag:-RRB-'
+-0.227268 O        b'+2:lemma:-rrb-'
+-0.229192 O        b'lemma:anaerobic'
+-0.229556 O        b'+1:lemma:.'
+-0.229556 O        b'+1:postag:.'
+-0.229949 Vess     b'hUpper'
+-0.229949 Vess     b'hLower'
+-0.232026 O        b'lemma[:1]:n'
+-0.239837 O        b'lemma:30'
+-0.244559 O        b'lemma:anaerobically'
+-0.245601 Phase    b'+1:postag:NN'
+-0.249673 O        b'-2:lemma:aerobically'
+-0.251037 O        b'-2:lemma:a'
+-0.251989 O        b'lemma[:1]:d'
+-0.252202 Supp     b'lemma[:1]:a'
+-0.253068 O        b'-2:postag:-LRB-'
+-0.258564 O        b'+1:lemma:mm'
+-0.260363 O        b'-1:lemma:fresh'
+-0.261060 O        b'-2:lemma:anaerobically'
+-0.262340 Air      b'-1:lemma:or'
+-0.263528 pH       b'postag[:1]:N'
+-0.263528 pH       b'postag[:2]:NN'
+-0.265074 O        b'-2:postag::'
+-0.265217 O        b'-2:lemma:IP'
+-0.269304 Med      b'+1:postag:NN'
+-0.285401 O        b'-2:lemma:rpob'
+-0.295781 Supp     b'lemma[:2]:an'
+-0.296045 O        b'lemma[:2]:ar'
+-0.296575 O        b'-2:lemma:fresh'
+-0.301913 O        b'lemma:media'
+-0.307515 O        b'lemma[:2]:gl'
+-0.308163 O        b'-1:postag:IN'
+-0.311903 O        b'-1:lemma:mm'
+-0.312159 O        b'-2:lemma:nh4cl'
+-0.322974 Anti     b'+2:postag:JJ'
+-0.325164 Supp     b'-2:postag:JJ'
+-0.328654 Supp     b'-1:postag:NNP'
+-0.332535 O        b'-1:lemma:of'
+-0.341258 O        b'lemma:methanol'
+-0.341258 O        b'-2:lemma:dissolve'
+-0.346421 Supp     b'+2:lemma:glucose'
+-0.353210 Technique b'-1:postag::'
+-0.357081 O        b'+1:lemma:supplement'
+-0.362827 O        b'lemma:2h'
+-0.362827 O        b'-1:lemma:additional'
+-0.362827 O        b'lemma[:2]:2h'
+-0.373258 O        b'-1:lemma:final'
+-0.373355 O        b'+2:lemma:at'
+-0.376466 Supp     b'+1:postag:NNS'
+-0.379434 O        b'-1:lemma:IP'
+-0.379949 O        b'lemma[:1]:0'
+-0.380927 O        b'-2:lemma:phase'
+-0.384075 O        b'lemma:glucose'
+-0.384929 Med      b'-1:postag:NN'
+-0.387171 O        b'lemma[:1]:k'
+-0.388425 O        b'lemma:\xe2\x88\x86'
+-0.388425 O        b'lemma[:1]:\xe2\x88\x86'
+-0.390156 Temp     b'postag:NN'
+-0.390965 O        b'+1:lemma:g/l'
+-0.410576 Med      b'-1:postag:CD'
+-0.411791 O        b'+1:lemma:1m'
+-0.411791 O        b'-2:lemma:vol'
+-0.418447 Gtype    b'+1:lemma:-rrb-'
+-0.418498 O        b'-1:lemma:rpob'
+-0.422355 O        b'-2:lemma:until'
+-0.434852 Technique b'postag:NN'
+-0.435566 Supp     b'postag:JJ'
+-0.439076 Supp     b'postag[:1]:J'
+-0.439076 Supp     b'postag[:2]:JJ'
+-0.442452 O        b'-1:lemma:30'
+-0.455337 Med      b'+2:postag:VBN'
+-0.455366 Air      b'postag:NN'
+-0.461874 O        b'+2:lemma:fnr'
+-0.467110 O        b'-2:lemma:supplement'
+-0.468087 O        b'-1:lemma:dissolve'
+-0.468087 O        b'+1:lemma:methanol'
+-0.486893 Gtype    b'-2:lemma:\xe2\x88\x86'
+-0.493653 O        b'lemma[:1]:L'
+-0.497715 O        b'+2:lemma:10'
+-0.498822 O        b'lemma:of'
+-0.498822 O        b'lemma[:2]:of'
+-0.507436 O        b'lemma[:2]:0.'
+-0.510139 Med      b'+1:postag:IN'
+-0.513295 O        b'+2:lemma:tag'
+-0.514818 O        b'+1:lemma:+'
+-0.532828 O        b'-1:lemma:\xe2\x88\x86'
+-0.536622 O        b'+2:lemma:mid-log'
+-0.538561 Supp     b'+1:lemma:-lrb-'
+-0.543996 O        b'+2:lemma:.'
+-0.543996 O        b'+2:postag:.'
+-0.557797 Supp     b'+1:postag:-LRB-'
+-0.568152 O        b'+2:lemma:a'
+-0.585265 O        b'-2:lemma:pahse'
+-0.590510 O        b'-2:lemma:glucose'
+-0.590875 O        b'+1:lemma:until'
+-0.605869 O        b'-1:lemma:nsrr'
+-0.609882 O        b'-2:lemma:dpd'
+-0.616188 Phase    b'-1:postag:JJ'
+-0.618132 Air      b'-1:postag:JJ'
+-0.624517 O        b'-2:postag:SYM'
+-0.626955 Gtype    b'lemma[:1]:c'
+-0.627961 Anti     b'+2:lemma:polyclonal'
+-0.635434 Med      b'symb'
+-0.635949 Phase    b'postag[:1]:J'
+-0.635949 Phase    b'postag[:2]:JJ'
+-0.636258 OD       b'hUpper'
+-0.636258 OD       b'hLower'
+-0.636750 O        b'lemma[:2]:ri'
+-0.647062 O        b'+1:postag:IN'
+-0.654730 O        b'-2:lemma:2'
+-0.655657 Phase    b'postag:JJ'
+-0.655964 Supp     b'symb'
+-0.660356 O        b'+2:lemma:+'
+-0.661231 O        b'+1:lemma:2.0'
+-0.662145 O        b'-2:lemma:media'
+-0.666872 O        b'+2:lemma:b'
+-0.675694 Anti     b'+1:lemma:anti-fur'
+-0.688911 O        b'-1:lemma:co2'
+-0.690102 Gtype    b'postag[:1]:V'
+-0.690102 Gtype    b'postag[:2]:VB'
+-0.694375 Gtype    b'lemma[:1]:r'
+-0.706144 O        b'lemma[:2]:me'
+-0.718038 O        b'lemma:mid-log'
+-0.724228 O        b'lemma:rifampicin'
+-0.735529 O        b'-2:lemma::'
+-0.743194 Med      b'-2:postag:VBN'
+-0.786989 Supp     b'+1:lemma:,'
+-0.786989 Supp     b'+1:postag:,'
+-0.789461 O        b'-2:postag:RB'
+-0.815790 Agit     b'hUpper'
+-0.815790 Agit     b'hLower'
+-0.824637 O        b'+2:postag:-RRB-'
+-0.828411 O        b'-1:lemma:cra'
+-0.834312 O        b'+1:lemma:at'
+-0.864833 O        b'-1:lemma:vol'
+-0.864833 O        b'-2:lemma:1/100'
+-0.864833 O        b'+2:lemma:1m'
+-0.896137 O        b'-2:postag:DT'
+-0.903408 Phase    b'hUpper'
+-0.903408 Phase    b'hLower'
+-0.954592 Gtype    b'lemma[:1]:a'
+-0.958219 Gtype    b'+2:lemma:cra'
+-0.959188 O        b'-1:lemma:ph'
+-1.006021 O        b'-2:lemma:0.3'
+-1.010964 O        b'lemma[:2]:ae'
+-1.026041 Med      b'-2:lemma:grow'
+-1.037767 O        b'-1:postag::'
+-1.062839 O        b'-1:lemma:sample'
+-1.105188 Supp     b'lemma[:1]:c'
+-1.107601 OD       b'+1:postag:NN'
+-1.109127 Agit     b'symb'
+-1.130040 Supp     b'+2:postag:CD'
+-1.149221 O        b'lemma:0.3'
+-1.151210 O        b'-1:lemma:1'
+-1.172944 O        b'lemma[:2]:30'
+-1.211332 O        b'+2:lemma:then'
+-1.263528 Supp     b'+2:lemma:fructose'
+-1.346921 O        b'+2:lemma:rifampicin'
+-1.394447 O        b'postag:VBP'
+-1.459260 Supp     b'+2:lemma:1'
+-1.504864 Anti     b'postag:NNP'
+-1.616873 O        b'-1:lemma:2'
+-1.627873 Supp     b'+2:lemma:2'
+-1.790611 O        b'-1:postag:VBG'
+-1.925758 O        b'-2:lemma:rifampicin'
+-2.014829 O        b'+1:lemma:in'
+-2.028945 OD       b'+2:lemma:aerobically'
+-2.287808 O        b'+1:lemma:1'
+-2.798978 O        b'+1:lemma:2'
+-2.902688 O        b'lemma[:2]:fl'
+-3.487913 O        b'-1:lemma::'
+-4.880856 O        b'-1:lemma:_'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.06622541546379261, 'c2': 0.005803516535443396}
-best CV score:0.806003784483002
-model size: 0.08M
-
-Flat F1: 0.8138835387377452
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.939     0.742     0.829        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.876     0.802     0.837       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.886     0.684     0.772       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.901     0.758     0.814       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.855330
-OD     -> OD      6.403256
-Temp   -> Temp    5.890045
-Anti   -> Anti    5.766779
-Med    -> Med     5.604768
-Air    -> Air     4.967782
-O      -> O       4.848357
-Gversion -> Gversion 4.809684
-Gtype  -> Gtype   4.697823
-Phase  -> Phase   4.308635
-Supp   -> Supp    4.041417
-Technique -> Technique 3.913590
-pH     -> pH      2.570273
-O      -> Supp    1.615671
-Substrain -> Gtype   1.499561
-Gtype  -> Supp    1.421628
-O      -> Technique 1.327277
-O      -> Gtype   1.086040
-Air    -> O       0.813429
-Technique -> Air     0.731728
-O      -> Temp    0.588704
-O      -> Anti    0.562550
-Gtype  -> pH      0.228949
-Med    -> O       0.224698
-O      -> Gversion 0.210688
-Temp   -> O       0.172212
-O      -> Med     0.102170
-Gtype  -> Air     0.095373
-OD     -> Phase   0.013336
-Anti   -> OD      -0.004256
-O      -> OD      -0.004531
-Gtype  -> Gversion -0.009932
-Phase  -> O       -0.017336
-O      -> Phase   -0.028487
-Phase  -> Technique -0.066036
-Med    -> Air     -0.087994
-Gtype  -> Phase   -0.099971
-Supp   -> Gversion -0.157806
-Anti   -> O       -0.169383
-Supp   -> Temp    -0.179380
-Phase  -> Air     -0.231554
-Supp   -> OD      -0.255465
-Supp   -> Anti    -0.267111
-Technique -> O       -0.296565
-OD     -> Med     -0.297702
-Gtype  -> Med     -0.322957
-Technique -> pH      -0.337491
-Supp   -> O       -0.351378
-OD     -> Gtype   -0.357504
-Gtype  -> O       -0.378451
-
-
-Top unlikely transitions:
-O      -> Gtype   1.086040
-Air    -> O       0.813429
-Technique -> Air     0.731728
-O      -> Temp    0.588704
-O      -> Anti    0.562550
-Gtype  -> pH      0.228949
-Med    -> O       0.224698
-O      -> Gversion 0.210688
-Temp   -> O       0.172212
-O      -> Med     0.102170
-Gtype  -> Air     0.095373
-OD     -> Phase   0.013336
-Anti   -> OD      -0.004256
-O      -> OD      -0.004531
-Gtype  -> Gversion -0.009932
-Phase  -> O       -0.017336
-O      -> Phase   -0.028487
-Phase  -> Technique -0.066036
-Med    -> Air     -0.087994
-Gtype  -> Phase   -0.099971
-Supp   -> Gversion -0.157806
-Anti   -> O       -0.169383
-Supp   -> Temp    -0.179380
-Phase  -> Air     -0.231554
-Supp   -> OD      -0.255465
-Supp   -> Anti    -0.267111
-Technique -> O       -0.296565
-OD     -> Med     -0.297702
-Gtype  -> Med     -0.322957
-Technique -> pH      -0.337491
-Supp   -> O       -0.351378
-OD     -> Gtype   -0.357504
-Gtype  -> O       -0.378451
-Supp   -> Gtype   -0.415119
-Supp   -> Technique -0.546983
-Air    -> Supp    -0.580378
-Air    -> OD      -0.591958
-Technique -> Gtype   -0.721938
-OD     -> Air     -0.869884
-Agit   -> O       -0.874071
-Technique -> OD      -0.901946
-Gtype  -> OD      -0.968255
-Supp   -> Air     -0.992187
-OD     -> O       -1.076988
-Gtype  -> Anti    -1.093167
-O      -> Air     -1.094876
-Supp   -> Med     -1.350916
-Substrain -> O       -1.483392
-Phase  -> OD      -2.458856
-Med    -> Supp    -2.624787
-
-
-Top positive:
-9.234903 Supp     b'lemma:Iron'
-8.941229 Phase    b'lemma:stationary'
-8.612848 O        b'lemma:_'
-8.414915 Air      b'lemma:anaerobic'
-8.110054 Air      b'lemma:aerobic'
-7.668526 O        b'lemma:1'
-7.617369 Supp     b'lemma:nitrate'
-7.396629 Technique b'lemma:ChIP-exo'
-7.004694 O        b'lemma:rpob'
-6.951208 Strain   b'lemma:k-12'
-6.929222 Air      b'-1:lemma:ChIP-Seq'
-6.919087 Supp     b'lemma:pq'
-6.729357 Med      b'lemma:MOPS'
-6.630951 Technique b'lemma:chipseq'
-6.338936 Gversion b'lemma:asm584v2'
-6.275492 O        b'-1:lemma:tag'
-6.112382 Gtype    b'lemma:\xce\xb4cra'
-6.001427 O        b'lemma:3'
-5.997947 O        b'lemma:2'
-5.921853 O        b'lemma:\xcf\x8332'
-5.917190 Gtype    b'lemma:flag-tag'
-5.917190 Gtype    b'-1:lemma:c-terminal'
-5.881286 Substrain b'lemma:mg1655'
-5.839915 Phase    b'lemma:mid-log'
-5.810496 Air      b'lemma:Aerobic'
-5.761122 O        b'lemma:Custom'
-5.570827 O        b'lemma:rep1'
-5.482824 Med      b'lemma:LB'
-5.430575 Supp     b'+1:lemma:\xc2\xb5m'
-5.428880 O        b'lemma:rep2'
-5.402169 O        b'-1:lemma:ChIP-exo'
-5.366372 O        b'lemma:Cra'
-5.339186 Supp     b'lemma:nh4cl'
-5.259341 Gtype    b'lemma:arca8myc'
-5.256666 Gtype    b'lemma:type'
-5.250724 O        b'lemma:rep3'
-5.250467 Med      b'lemma:lb'
-5.157840 Supp     b'lemma:rifampicin'
-5.124923 O        b'lemma:b'
-5.111909 Gtype    b'lemma:delta-arca'
-5.091556 OD       b'+1:lemma:stationary'
-5.048220 Supp     b'lemma:glucose'
-5.001772 O        b'postag:IN'
-4.994648 Gversion b'lemma:nc'
-4.925252 Gtype    b'lemma:fnr8myc'
-4.905784 OD       b'lemma:od450'
-4.901181 Gtype    b'+1:lemma:type'
-4.837803 Technique b'lemma:rna-seq'
-4.828361 Gtype    b'lemma:wt'
-4.778406 O        b'lemma:a'
-4.678498 Supp     b'lemma:acetate'
-4.667864 Anti     b'lemma:none'
-4.612775 Technique b'lemma:rnaseq'
-4.597784 Supp     b'-1:lemma:Cra'
-4.596321 Technique b'lemma:ChIP-Seq'
-4.580488 O        b'-1:lemma:0.3-0.35'
-4.559265 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.543048 Supp     b'lemma:no3'
-4.494990 Supp     b'lemma:Fe'
-4.475916 O        b'lemma:-'
-4.465899 Anti     b'lemma:seqa'
-4.445546 Gtype    b'lemma:delta-fnr'
-4.372585 OD       b'lemma:od600'
-4.346955 Technique b'lemma:chip-seq'
-4.301785 O        b'lemma:or'
-4.260295 Gtype    b'lemma:\xce\xb4fur'
-4.236090 O        b'lemma:for'
-4.225287 O        b'lemma:.'
-4.225287 O        b'postag:.'
-4.161720 Supp     b'lemma:dpd'
-4.122022 O        b'+1:lemma:od600'
-4.073219 Vess     b'lemma:flask'
-4.073219 Vess     b'-1:lemma:warm'
-4.068384 O        b'-1:lemma:anaerobic'
-4.063188 Supp     b'lemma:arginine'
-4.026011 O        b'-1:lemma:Aerobic'
-4.023826 O        b'postag::'
-4.014353 Med      b'+1:lemma:0.4'
-3.983642 O        b'lemma:chip'
-3.937745 O        b'lemma:CEL'
-3.912596 Supp     b'+1:lemma:1'
-3.911905 Anti     b'lemma:anti-myc'
-3.908162 O        b'-1:lemma:glucose'
-3.843811 Supp     b'lemma:fructose'
-3.821238 Gtype    b'lemma:nsrr'
-3.805915 Gversion b'-1:lemma:nc'
-3.773446 Gversion b'lemma:chip-seq'
-3.714736 Gtype    b'lemma:\xce\xb4ompr'
-3.700490 O        b'-1:lemma:type'
-3.624739 O        b'+1:postag:RB'
-3.602969 Strain   b'+1:lemma:substr'
-3.596045 Med      b'+1:lemma:minimal'
-3.588702 O        b'-1:lemma:lb'
-3.537935 O        b'+1:lemma:o.d.'
-3.533153 Gversion b'lemma:000913'
-3.531194 Temp     b'lemma:\xc2\xb0c'
-3.520259 pH       b'lemma:ph5'
-3.520259 pH       b'+1:lemma:.5'
-3.511450 Gtype    b'lemma:\xe2\x88\x86'
-3.509713 Technique b'-1:lemma:IP'
-3.496996 Med      b'lemma:m63'
-3.478233 Anti     b'+1:lemma:antibody'
-3.475022 Temp     b'-1:lemma:sample'
-3.455068 Supp     b'-1:lemma:+'
-3.449758 Anti     b'lemma:anti-rpos'
-3.439491 Supp     b'+1:lemma:2'
-3.415465 O        b'lemma:oxyr'
-3.385223 Gtype    b'lemma:wild-type'
-3.352842 O        b'postag:VBN'
-3.343983 Gtype    b'+1:lemma:ph5'
-3.343718 Air      b'postag:RB'
-3.343342 Supp     b'lemma:nacl'
-3.321016 Gtype    b'-1:lemma:ptac'
-3.317465 Gtype    b'-1:lemma:rpob'
-3.298959 O        b'lemma:with'
-3.236711 O        b'lemma:s'
-3.233948 Temp     b'-1:lemma:\xcf\x8332'
-3.232171 Supp     b'+1:lemma:hour'
-3.226682 O        b'-1:lemma:0.3'
-3.213829 Gversion b'lemma:u00096'
-3.213829 Gversion b'+1:lemma:.2'
-3.176657 O        b'lemma:ompr'
-3.173449 Gversion b'lemma:.2'
-3.173449 Gversion b'-1:lemma:u00096'
-3.148343 Gtype    b'+1:lemma:with'
-3.113186 O        b'lemma:at'
-3.099394 Gtype    b'lemma:\xce\xb4soxs'
-3.081492 Gtype    b'lemma:pk4854'
-3.081097 Supp     b'+1:lemma:_'
-3.076137 Air      b'lemma:Anaerobic'
-3.073681 O        b'lemma:Lrp'
-3.064586 Phase    b'+1:lemma:for'
-3.047746 O        b'+1:lemma:chip-seq'
-3.047210 Gtype    b'lemma:ptac'
-3.045585 Phase    b'-1:lemma:until'
-3.043072 O        b'-1:lemma:dpd'
-3.032395 Gtype    b'lemma:WT'
-3.021945 Technique b'+1:lemma:chip-exo'
-3.010904 Supp     b'lemma:iptg'
-3.001563 Anti     b'+1:lemma:polyclonal'
-2.979219 Supp     b'lemma:Leu'
-2.976675 O        b'lemma:chip-arca'
-2.972333 Gtype    b'lemma:deltaseqa'
-2.972333 Gtype    b'-1:lemma:old'
-2.971020 O        b'lemma:affyexp'
-2.960652 Air      b'lemma:anerobically'
-2.938684 Supp     b'+1:lemma:Deficient'
-2.913605 Technique b'-1:lemma:chip-exo'
-2.890017 O        b'lemma:argr'
-2.883731 O        b'+1:lemma:sparging'
-2.880763 Temp     b'-1:lemma:43'
-2.874818 Med      b'-1:lemma:ml'
-2.860187 pH       b'lemma:.5'
-2.860187 pH       b'-1:lemma:ph5'
-2.852362 Gtype    b'+1:lemma:pq'
-2.822626 O        b'lemma:soxs'
-2.822626 O        b'lemma:soxr'
-2.796727 Temp     b'lemma:43'
-2.764833 Med      b'lemma:L'
-2.764833 Med      b'+1:lemma:broth'
-2.762054 O        b'+1:postag:NNP'
-2.755377 O        b'-1:lemma:stpa'
-2.737365 Supp     b'-1:lemma:\xc2\xb5m'
-2.727294 Temp     b'lemma:37'
-2.708825 Med      b'-1:lemma:LB'
-2.705181 O        b'-1:lemma:\xc2\xb0c'
-2.692331 O        b'+1:lemma:pq'
-2.691434 Substrain b'+1:lemma:phtpg'
-2.690410 O        b'lemma:purr'
-2.677844 Technique b'+1:lemma:rna-seq'
-2.650316 Technique b'-1:lemma:input'
-2.638625 Supp     b'lemma:methanol'
-2.634944 Med      b'+1:lemma:contain'
-2.625097 Supp     b'lemma:Adenine'
-2.623356 O        b'-1:lemma:l1'
-2.607859 O        b'postag:DT'
-2.598485 Med      b'+1:lemma:2.0'
-2.589920 Gtype    b'-1:lemma:phtpg'
-2.581102 Med      b'lemma:glucose'
-2.575292 Temp     b'-1:lemma:37'
-2.558206 Gtype    b'lemma:\xce\xb4soxr'
-2.550759 Gtype    b'+1:lemma:flagtag'
-2.550220 Gtype    b'lemma:\xce\xb4oxyr'
-2.549389 Gtype    b'+1:lemma:aerobic'
-2.517172 Supp     b'lemma:leucine'
-2.411127 O        b'-1:lemma:media'
-2.376812 O        b'lemma:2-3'
-2.368251 Med      b'lemma:broth'
-2.368251 Med      b'-1:lemma:L'
-2.353760 Gtype    b'-1:lemma:_'
-2.331107 O        b'lemma:culture'
-2.315361 Med      b'postag:NNP'
-2.299371 O        b'lemma:Fur'
-2.288936 Supp     b'+1:lemma:iptg'
-2.280717 Air      b'lemma:anaerobically'
-2.278786 Air      b'-1:lemma:-'
-2.266514 O        b'lemma:genotype/variation'
-2.259722 OD       b'lemma:0.3'
-2.256007 Technique b'postag:NNP'
-2.224072 Air      b'+1:lemma:at'
-
-
-Top negative:
--0.002409 Med      b'lemma:-lrb-'
--0.002765 O        b'+1:lemma:minimal'
--0.002819 Med      b'postag:-LRB-'
--0.002883 Supp     b'-1:lemma:-'
--0.003857 Agit     b'postag:NN'
--0.005100 Air      b'-1:lemma:anaerobically'
--0.007289 O        b'lemma:lb'
--0.010248 O        b'lemma:mg/ml'
--0.010248 O        b'-1:lemma:150'
--0.010774 Supp     b'+1:postag:CD'
--0.011526 Air      b'-1:lemma:95'
--0.011818 Air      b'-1:postag:CC'
--0.012619 Supp     b'lemma:mm'
--0.013393 O        b'-1:lemma:1'
--0.013525 O        b'+1:lemma:rep1'
--0.013581 Gtype    b'-1:postag:SYM'
--0.013782 OD       b'+1:lemma:-lrb-'
--0.015901 OD       b'-1:postag:DT'
--0.015963 O        b'-1:lemma:70'
--0.016924 OD       b'+1:postag:-LRB-'
--0.019258 O        b'lemma:m63'
--0.020349 Gversion b'-1:postag:NN'
--0.021440 OD       b'+1:lemma:0.4'
--0.022594 Air      b'-1:lemma:or'
--0.022941 OD       b'-1:lemma:a'
--0.026771 O        b'lemma:glucose'
--0.027346 O        b'+1:lemma:25'
--0.028054 OD       b'lemma:~'
--0.029216 Gtype    b'+1:lemma:cra'
--0.030932 Gtype    b'-1:postag:NN'
--0.031890 O        b'+1:lemma:~'
--0.033995 O        b'+1:lemma:95'
--0.035517 O        b'-1:lemma:-lrb-'
--0.036049 O        b'lemma:pahse'
--0.036135 O        b'lemma:purify'
--0.036681 Gtype    b'-1:postag:CD'
--0.038170 Med      b'-1:lemma:m63'
--0.042355 O        b'+1:lemma:antibody'
--0.042769 O        b'+1:lemma:0.4'
--0.043812 O        b'-1:lemma:25'
--0.050331 Phase    b'-1:lemma:at'
--0.051370 O        b'+1:lemma:5'
--0.052602 Phase    b'+1:postag:NN'
--0.053544 OD       b'+1:postag:CD'
--0.055596 O        b'+1:lemma:o2'
--0.056365 O        b'lemma:25'
--0.065474 O        b'-1:lemma:o2'
--0.070061 Gtype    b'-1:postag:DT'
--0.070234 O        b'-1:lemma:the'
--0.072402 O        b'+1:lemma:shake'
--0.079220 Strain   b'+1:postag:NN'
--0.079451 O        b'+1:lemma:grow'
--0.084137 Gtype    b'lemma:_'
--0.085976 O        b'+1:lemma:mm'
--0.093102 Med      b'+1:postag:CC'
--0.095082 Air      b'postag:CD'
--0.097194 O        b'lemma:o2'
--0.101822 O        b'-1:lemma:30'
--0.102523 O        b'-1:postag:VBN'
--0.107653 O        b'lemma:cell'
--0.112633 Supp     b'-1:postag:NN'
--0.116970 O        b'lemma:grow'
--0.120130 O        b'lemma:30'
--0.121820 Supp     b'+1:postag:IN'
--0.124237 Supp     b'-1:postag:NNP'
--0.125482 O        b'-1:lemma:mm'
--0.128019 O        b'+1:lemma:300'
--0.129344 O        b'lemma:\xc2\xb0c'
--0.144557 Med      b'-1:postag:NN'
--0.144770 O        b'-1:postag:IN'
--0.146162 O        b'-1:lemma:of'
--0.149674 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.154228 OD       b'postag:JJ'
--0.167420 O        b'lemma:n2'
--0.171707 O        b'lemma:co2'
--0.172528 O        b'lemma:medium'
--0.179654 Med      b'+1:postag:NNS'
--0.184135 O        b'-1:lemma:n2'
--0.189770 O        b'+1:lemma:-rrb-'
--0.192678 O        b'lemma:aerobically'
--0.195762 O        b'-1:lemma:with'
--0.196208 O        b'-1:lemma:ml'
--0.204813 Gtype    b'-1:lemma:mg1655'
--0.205462 O        b'lemma:mg1655'
--0.206806 O        b'-1:lemma:e.'
--0.207893 O        b'lemma:minimal'
--0.224766 Temp     b'postag:JJ'
--0.225885 O        b'+1:lemma:.'
--0.225885 O        b'+1:postag:.'
--0.227519 O        b'lemma:e.'
--0.236166 O        b'-1:lemma:rifampicin'
--0.247403 O        b'-1:lemma:0.2'
--0.259717 Phase    b'-1:postag:NN'
--0.263053 Supp     b'lemma:and'
--0.270443 O        b'-1:postag:-LRB-'
--0.283380 O        b'-1:lemma:um'
--0.283380 O        b'+1:lemma:paraquat'
--0.289228 Med      b'postag:CD'
--0.290905 O        b'-1:lemma:0.1'
--0.295102 OD       b'+1:lemma:and'
--0.300641 O        b'-1:lemma:until'
--0.306863 O        b'+1:lemma:phase'
--0.322631 O        b'lemma:phase'
--0.347838 O        b'+1:lemma:until'
--0.351130 O        b'+1:lemma:_'
--0.365836 O        b'-1:lemma:\xe2\x88\x86'
--0.367298 Anti     b'+1:postag:JJ'
--0.375233 Gtype    b'postag:CD'
--0.377830 Supp     b'postag:CC'
--0.381771 O        b'postag:RB'
--0.385165 Technique b'-1:lemma::'
--0.387729 O        b'+1:postag:IN'
--0.405861 O        b'+1:postag:-RRB-'
--0.419130 O        b'-1:lemma:from'
--0.425366 O        b'-1:lemma:od600'
--0.432532 O        b'-1:lemma:cra'
--0.441409 Temp     b'postag:NN'
--0.447218 O        b'+1:lemma:arginine'
--0.454986 O        b'+1:lemma:%'
--0.469664 Med      b'+1:postag:IN'
--0.481296 Technique b'-1:postag::'
--0.482628 Gversion b'+1:postag:NN'
--0.484056 O        b'-1:lemma:grow'
--0.485046 pH       b'postag:NN'
--0.490017 Med      b'+1:postag:NN'
--0.496154 O        b'lemma:od600'
--0.500947 Supp     b'+1:postag:VBN'
--0.517928 O        b'+1:lemma:cell'
--0.520851 O        b'-1:lemma:sample'
--0.520873 OD       b'+1:postag:CC'
--0.521577 O        b'+1:lemma:\xc2\xb0c'
--0.525190 Anti     b'+1:lemma:anti-fur'
--0.527700 O        b'-1:lemma:mid-log'
--0.533028 O        b'lemma:dissolve'
--0.550892 O        b'lemma:150'
--0.550892 O        b'+1:lemma:mg/ml'
--0.551731 Phase    b'-1:postag:JJ'
--0.571169 O        b'+1:lemma:0.3'
--0.600234 O        b'postag:VBP'
--0.623446 O        b'lemma:anaerobic'
--0.655760 Gtype    b'lemma:delta'
--0.668609 Supp     b'+1:lemma:rifampicin'
--0.673715 O        b'lemma:\xce\xb4fur'
--0.724036 OD       b'+1:postag:NN'
--0.742000 O        b'+1:postag:NNS'
--0.743016 O        b'+1:lemma:c'
--0.767018 O        b'-1:lemma:~'
--0.767765 Air      b'-1:postag:JJ'
--0.779655 O        b'lemma:media'
--0.790170 O        b'lemma:\xe2\x88\x86'
--0.816065 O        b'lemma:fecl2'
--0.817183 O        b'lemma:dpd'
--0.835270 O        b'lemma:0.3'
--0.843288 OD       b'lemma:-lrb-'
--0.853171 O        b'+1:lemma:fecl2'
--0.889568 O        b'lemma:0.2'
--0.905209 OD       b'postag:-LRB-'
--0.911568 O        b'lemma:anaerobically'
--0.915420 O        b'lemma:of'
--0.950583 Temp     b'+1:lemma:to'
--0.950583 Temp     b'+1:postag:TO'
--0.951305 O        b'lemma:20'
--0.951858 O        b'-1:lemma:co2'
--1.045949 O        b'lemma:0.1'
--1.056174 O        b'+1:lemma:supplement'
--1.088532 Supp     b'+1:lemma:acetate'
--1.092708 O        b'+1:postag:VBG'
--1.103190 O        b'-1:postag:VBG'
--1.119328 O        b'lemma:2h'
--1.119328 O        b'-1:lemma:additional'
--1.131219 Supp     b'-1:lemma:%'
--1.142227 O        b'-1:lemma:rpob'
--1.149700 O        b'lemma:mid-log'
--1.157098 Med      b'-1:postag:IN'
--1.158833 O        b'-1:lemma:dissolve'
--1.158833 O        b'+1:lemma:methanol'
--1.159433 O        b'-1:postag::'
--1.197832 Air      b'postag:NN'
--1.224684 O        b'-1:lemma:37'
--1.250547 O        b'+1:lemma:g/l'
--1.287510 O        b'+1:lemma:at'
--1.343885 O        b'+1:lemma:+'
--1.550316 Air      b'+1:postag:JJ'
--1.550420 O        b'+1:lemma:in'
--1.655179 O        b'-1:lemma:IP'
--1.671646 Anti     b'postag:NNP'
--1.676942 O        b'lemma:37'
--1.709933 O        b'lemma:rifampicin'
--1.740594 O        b'-1:lemma:nsrr'
--1.813332 O        b'lemma:wt'
--1.837591 Supp     b'postag:JJ'
--1.875538 O        b'-1:lemma:ompr'
--1.956251 O        b'+1:lemma:hour'
--2.104216 O        b'-1:lemma:2'
--2.173171 Phase    b'postag:JJ'
--2.198016 O        b'+1:lemma:2'
--2.302343 O        b'lemma:methanol'
--2.686054 O        b'+1:lemma:1'
--3.664514 O        b'-1:lemma:_'
--4.711592 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.07838162718183349, 'c2': 0.05887606797757319}
+best CV score:0.87030448615518
+model size: 0.16M
+
+Flat F1: 0.7823412170507693
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.925     0.961        53
+       Temp      0.917     0.759     0.830        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.875     0.933     0.903        15
+        Air      0.556     0.362     0.439        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.849     0.859     0.854        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.686     0.813     0.744       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.798     0.778     0.782       451
+
+
+Top likely transitions:
+Temp   -> Temp    4.911417
+OD     -> OD      4.541853
+Med    -> Med     4.405893
+Supp   -> Supp    4.305413
+Agit   -> Agit    4.272648
+Anti   -> Anti    3.837258
+O      -> O       3.787660
+Gtype  -> Gtype   3.752687
+Gversion -> Gversion 3.628661
+Air    -> Air     3.521236
+Phase  -> Phase   3.320009
+Technique -> Technique 2.966375
+pH     -> pH      2.362986
+Substrain -> Gtype   1.121355
+O      -> Technique 0.896285
+Gtype  -> Supp    0.860650
+O      -> Supp    0.689540
+O      -> Gtype   0.595827
+Gtype  -> Air     0.530941
+Technique -> Air     0.501834
+Air    -> O       0.490782
+Gtype  -> pH      0.392258
+Temp   -> O       0.195983
+Med    -> O       0.164949
+Supp   -> O       0.068384
+O      -> Temp    0.032340
+O      -> pH      0.007653
+O      -> Strain  -0.003076
+Gversion -> Gtype   -0.013131
+Gversion -> Air     -0.016755
+Supp   -> Anti    -0.028664
+Vess   -> O       -0.036195
+Agit   -> Supp    -0.042183
+Gtype  -> Phase   -0.047540
+Supp   -> Technique -0.060640
+Supp   -> pH      -0.062714
+O      -> Phase   -0.068478
+Technique -> OD      -0.069783
+Supp   -> OD      -0.073453
+O      -> Agit    -0.079631
+Phase  -> Air     -0.079705
+Anti   -> Med     -0.089699
+Anti   -> Gtype   -0.095119
+Gtype  -> Gversion -0.100232
+Temp   -> Air     -0.116744
+OD     -> O       -0.129801
+Phase  -> Med     -0.135688
+Air    -> Agit    -0.138019
+Phase  -> O       -0.139580
+pH     -> Supp    -0.141124
+
+
+Top unlikely transitions:
+Supp   -> Technique -0.060640
+Supp   -> pH      -0.062714
+O      -> Phase   -0.068478
+Technique -> OD      -0.069783
+Supp   -> OD      -0.073453
+O      -> Agit    -0.079631
+Phase  -> Air     -0.079705
+Anti   -> Med     -0.089699
+Anti   -> Gtype   -0.095119
+Gtype  -> Gversion -0.100232
+Temp   -> Air     -0.116744
+OD     -> O       -0.129801
+Phase  -> Med     -0.135688
+Air    -> Agit    -0.138019
+Phase  -> O       -0.139580
+pH     -> Supp    -0.141124
+Air    -> Temp    -0.146478
+OD     -> Supp    -0.177929
+Gversion -> O       -0.195235
+Med    -> Air     -0.218392
+Technique -> Supp    -0.218928
+O      -> OD      -0.220859
+Anti   -> O       -0.227867
+Anti   -> Supp    -0.241653
+Temp   -> Med     -0.265069
+Air    -> Gtype   -0.270959
+Gversion -> Supp    -0.271472
+Phase  -> OD      -0.278093
+O      -> Med     -0.292957
+Supp   -> Phase   -0.310262
+Agit   -> O       -0.315551
+Technique -> O       -0.317964
+Agit   -> Air     -0.327189
+Air    -> Phase   -0.332685
+Supp   -> Gtype   -0.386391
+Gtype  -> Technique -0.394676
+Supp   -> Air     -0.403362
+Gtype  -> Anti    -0.428993
+Phase  -> Supp    -0.440098
+Air    -> Supp    -0.449326
+Technique -> pH      -0.462944
+Air    -> Med     -0.469469
+OD     -> Air     -0.509283
+Gtype  -> Med     -0.621751
+Supp   -> Med     -0.659958
+Gtype  -> O       -0.671881
+O      -> Air     -0.712510
+Technique -> Gtype   -1.006943
+Substrain -> O       -1.077790
+Med    -> Supp    -1.486790
+
+
+Top positive:
+4.124249 Anti     b'-2:lemma:antibody'
+3.641687 Air      b'word:Aerobic'
+3.497811 O        b'-2:lemma:_'
+3.258366 Air      b'lemma:anaerobic'
+3.145552 O        b'lemma:_'
+3.145552 O        b'word:_'
+3.024671 Gtype    b'-2:lemma:genotype/variation'
+2.928771 Air      b'postag:RB'
+2.783339 Technique b'word:ChIP-Seq'
+2.697083 O        b'lemma:2'
+2.697083 O        b'word:2'
+2.670728 Phase    b'-2:lemma:phase'
+2.637125 O        b'postag::'
+2.618748 O        b'word:Cra'
+2.610104 Technique b'word:ChIP-exo'
+2.571728 O        b'lemma:1'
+2.571728 O        b'word:1'
+2.511177 O        b'postag:IN'
+2.472685 Gtype    b'-2:lemma:genotype'
+2.396386 Supp     b'lemma:pq'
+2.396386 Supp     b'word:PQ'
+2.337247 O        b'lemma:.'
+2.337247 O        b'postag:.'
+2.337247 O        b'word:.'
+2.332296 Technique b'lemma:rna-seq'
+2.320371 Gtype    b'word:WT'
+2.309222 Gtype    b'lemma:wt'
+2.274976 O        b'-2:lemma:flagtag'
+2.273949 Technique b'word:ChIPSeq'
+2.258997 Technique b'lemma:ChIP-exo'
+2.199264 Air      b'word:Anaerobic'
+2.142635 O        b'-1:lemma:ChIP-exo'
+2.096906 Supp     b'lemma:nh4cl'
+2.072818 Phase    b'lemma:mid-log'
+2.072818 Phase    b'word:mid-log'
+2.053563 Gtype    b'lemma:wild-type'
+2.044128 O        b'lemma:rpob'
+2.044128 O        b'word:RpoB'
+2.020270 O        b'postag:VBN'
+2.020107 O        b'lemma:3'
+2.020107 O        b'word:3'
+2.011865 Supp     b'-1:word:Cra'
+1.983566 Gtype    b'lemma:type'
+1.983566 Gtype    b'word:type'
+1.975796 O        b'lemma:-'
+1.975796 O        b'word:-'
+1.959537 O        b'-2:lemma:medium'
+1.955236 Gtype    b'-2:lemma:affyexp'
+1.942868 Gtype    b'lemma:\xce\xb4cra'
+1.939375 Gtype    b'word:\xce\x94cra'
+1.938173 Technique b'lemma:chipseq'
+1.890561 Supp     b'lemma:Iron'
+1.890561 Supp     b'word:Iron'
+1.890561 Supp     b'+1:word:Deficient'
+1.890561 Supp     b'-2:lemma:Anaerobic'
+1.874088 Supp     b'lemma:acetate'
+1.874088 Supp     b'word:acetate'
+1.819674 pH       b'+1:postag:CD'
+1.788257 O        b'lemma:b'
+1.788257 O        b'word:B'
+1.782368 O        b'word:A'
+1.774988 O        b'+2:lemma:\xc2\xb0c'
+1.768402 O        b'+2:postag:JJ'
+1.762269 Gtype    b'lemma:\xe2\x88\x86'
+1.762269 Gtype    b'word:\xe2\x88\x86'
+1.746520 Med      b'lemma:MOPS'
+1.746520 Med      b'word:MOPS'
+1.723641 Supp     b'+2:lemma:iptg'
+1.722034 Air      b'lemma:Aerobic'
+1.705697 O        b'-1:word:Aerobic'
+1.703316 Anti     b'+2:lemma:antibody'
+1.702891 O        b'postag:CC'
+1.699990 Supp     b'-1:lemma:with'
+1.699990 Supp     b'-1:word:with'
+1.688533 Supp     b'lemma:glucose'
+1.688533 Supp     b'word:glucose'
+1.674465 Supp     b'lemma:no3'
+1.674465 Supp     b'word:NO3'
+1.666479 Supp     b'lemma:nacl'
+1.666479 Supp     b'word:NaCl'
+1.641938 Supp     b'lemma:arginine'
+1.638237 Substrain b'lemma:mg1655'
+1.638237 Substrain b'word:MG1655'
+1.637725 Supp     b'+1:lemma:\xc2\xb5m'
+1.637725 Supp     b'+1:word:\xc2\xb5M'
+1.636903 Med      b'isUpper'
+1.611838 O        b'+1:postag:NNP'
+1.611343 O        b'lemma:a'
+1.607795 Technique b'+2:lemma:ph5'
+1.602510 Air      b'word:anaerobic'
+1.599293 O        b'+1:postag:RB'
+1.590988 Gtype    b'-1:lemma:\xe2\x88\x86'
+1.590988 Gtype    b'-1:word:\xe2\x88\x86'
+1.589631 Gtype    b'-2:postag:DT'
+1.583352 Med      b'+2:postag:CC'
+1.579250 O        b'isLower'
+1.578231 Gtype    b'+2:lemma:glucose'
+1.552685 Gtype    b'+1:lemma:type'
+1.552685 Gtype    b'+1:word:type'
+1.528892 Substrain b'-2:lemma:substr'
+1.515887 Supp     b'lemma:nitrate'
+1.515887 Supp     b'word:nitrate'
+1.503178 O        b'-1:lemma:tag'
+1.473485 Gtype    b'lemma:\xce\xb4soxr'
+1.473485 Gtype    b'word:\xce\x94soxR'
+1.456677 O        b'-1:word:tag'
+1.455346 Gtype    b'lemma:flag-tag'
+1.455346 Gtype    b'-1:lemma:c-terminal'
+1.455346 Gtype    b'word:Flag-tag'
+1.455346 Gtype    b'-1:word:C-terminal'
+1.451462 Technique b'word:RNA-Seq'
+1.434331 Supp     b'-1:lemma:Cra'
+1.432730 O        b'+1:word:ChIP-Seq'
+1.426572 O        b'-1:lemma:anaerobic'
+1.425108 Gtype    b'lemma:\xce\xb4fur'
+1.425108 Gtype    b'word:\xce\x94fur'
+1.425025 Technique b'lemma:rnaseq'
+1.425025 Technique b'word:RNASeq'
+1.416012 O        b'postag:VBG'
+1.415750 Gversion b'-2:lemma:nc'
+1.408974 Gversion b'lemma:chip-seq'
+1.379843 O        b'+1:lemma:arca-8myc'
+1.379843 O        b'+1:word:ArcA-8myc'
+1.374672 O        b'lemma:with'
+1.374672 O        b'word:with'
+1.374577 O        b'lemma:Cra'
+1.373182 Gversion b'word:ChIP-Seq'
+1.372454 Gtype    b'-2:lemma:delta'
+1.369100 O        b'+2:lemma:cra'
+1.367463 O        b'-1:lemma:0.3'
+1.367463 O        b'-1:word:0.3'
+1.366576 O        b'-2:lemma:myc'
+1.365144 O        b'lemma:ompr'
+1.365144 O        b'word:OmpR'
+1.358116 Supp     b'-1:postag:CC'
+1.351356 Gtype    b'postag:JJ'
+1.340661 Strain   b'+1:lemma:substr'
+1.340661 Strain   b'+1:word:substr'
+1.340661 Strain   b'-2:lemma:str'
+1.337333 Gtype    b'+1:lemma:with'
+1.337333 Gtype    b'+1:word:with'
+1.331237 Supp     b'-2:lemma:agent'
+1.319017 Air      b'+1:postag:IN'
+1.313717 O        b'lemma:harbor'
+1.313717 O        b'word:harboring'
+1.311281 Technique b'-1:lemma:chip-exo'
+1.310088 Air      b'lemma:aerobic'
+1.301908 Temp     b'isNumber'
+1.296057 O        b'lemma:chip'
+1.294021 Med      b'+2:lemma:b2'
+1.290231 O        b'+1:lemma:pq'
+1.290231 O        b'+1:word:PQ'
+1.288968 Supp     b'-2:lemma:media'
+1.285093 O        b'-1:lemma:lb'
+1.285093 O        b'-1:word:LB'
+1.284396 O        b'-1:lemma:glucose'
+1.284396 O        b'-1:word:glucose'
+1.281083 O        b'-1:lemma:media'
+1.281083 O        b'-1:word:media'
+1.280357 Med      b'lemma:lb'
+1.280357 Med      b'word:LB'
+1.277491 O        b'+2:lemma:70'
+1.276083 Supp     b'lemma:Leu'
+1.276083 Supp     b'word:Leu'
+1.276083 Supp     b'-2:lemma:Lrp'
+1.266271 Supp     b'-2:lemma:induce'
+1.263127 Phase    b'lemma:exponential'
+1.263127 Phase    b'word:exponential'
+1.263127 Phase    b'lemma:stationary'
+1.263127 Phase    b'word:stationary'
+1.250254 Air      b'-1:lemma:ChIP-Seq'
+1.250254 Air      b'-1:word:ChIP-Seq'
+1.245392 Air      b'-2:lemma:IP'
+1.237417 OD       b'postag:CD'
+1.227048 Supp     b'-1:lemma:+'
+1.227048 Supp     b'-1:word:+'
+1.225001 Gtype    b'-1:postag:VBG'
+1.222768 O        b'lemma:Custom'
+1.222768 O        b'word:Custom'
+1.222690 Strain   b'lemma:k-12'
+1.222690 Strain   b'word:K-12'
+1.211762 Gversion b'-2:lemma:build'
+1.207468 Supp     b'+1:lemma:1'
+1.207468 Supp     b'+1:word:1'
+1.200932 Air      b'-1:lemma:-'
+1.200932 Air      b'-1:word:-'
+1.200071 Gversion b'lemma:nc'
+1.200071 Gversion b'word:NC'
+1.192535 O        b'+2:lemma:fructose'
+1.191869 Gtype    b'postag:NN'
+1.189235 pH       b'lemma:ph5'
+1.189235 pH       b'+1:lemma:.5'
+1.189235 pH       b'word:pH5'
+1.189235 pH       b'+1:word:.5'
+1.180856 O        b'lemma:at'
+1.174453 Supp     b'lemma:rifampicin'
+1.174453 Supp     b'word:rifampicin'
+1.166521 O        b'lemma:argr'
+1.166521 O        b'word:ArgR'
+1.162681 OD       b'-1:postag:IN'
+
+
+Top negative:
+-0.311652 O        b'+1:word:supplemented'
+-0.312640 O        b'-2:lemma:control'
+-0.323532 O        b'lemma:minimal'
+-0.323532 O        b'word:minimal'
+-0.323844 O        b'-1:lemma:ph'
+-0.323844 O        b'-1:word:pH'
+-0.324956 O        b'lemma:37'
+-0.324956 O        b'word:37'
+-0.328081 O        b'-1:lemma:cra'
+-0.328436 O        b'lemma:methanol'
+-0.328436 O        b'word:methanol'
+-0.328436 O        b'-2:lemma:dissolve'
+-0.332352 O        b'-1:lemma:37'
+-0.332352 O        b'-1:word:37'
+-0.337835 Anti     b'+1:lemma:anti-fur'
+-0.337835 Anti     b'+1:word:anti-Fur'
+-0.338497 O        b'+1:lemma:1m'
+-0.338497 O        b'+1:word:1M'
+-0.338497 O        b'-2:lemma:vol'
+-0.340286 O        b'+2:lemma:add'
+-0.348253 Supp     b'-1:lemma:10'
+-0.348253 Supp     b'-1:word:10'
+-0.355580 O        b'-2:lemma:10'
+-0.356547 O        b'-2:lemma:minimal'
+-0.359288 O        b'-1:lemma:ml'
+-0.359288 O        b'-1:word:ml'
+-0.361424 O        b'-1:lemma:dissolve'
+-0.361424 O        b'+1:lemma:methanol'
+-0.361424 O        b'-1:word:dissolved'
+-0.361424 O        b'+1:word:methanol'
+-0.367262 Substrain b'isLower'
+-0.367703 Supp     b'postag:CC'
+-0.367998 O        b'-1:lemma:co2'
+-0.367998 O        b'-1:word:CO2'
+-0.370364 O        b'+2:lemma:-rrb-'
+-0.374065 O        b'-2:lemma:genome'
+-0.375208 Supp     b'-2:lemma:.'
+-0.375208 Supp     b'-2:postag:.'
+-0.378770 O        b'+2:lemma:at'
+-0.385912 O        b'-1:lemma:fresh'
+-0.385912 O        b'-1:word:fresh'
+-0.389093 Strain   b'isLower'
+-0.389489 Temp     b'-2:postag:NN'
+-0.390296 O        b'lemma:aerobic'
+-0.391758 O        b'-2:lemma:aerobically'
+-0.393460 O        b'-1:lemma:2'
+-0.393460 O        b'-1:word:2'
+-0.397723 O        b'+1:lemma:mm'
+-0.397723 O        b'+1:word:mM'
+-0.398729 O        b'-1:lemma:rpob'
+-0.398729 O        b'-1:word:RpoB'
+-0.401643 O        b'-1:lemma:mm'
+-0.401643 O        b'-1:word:mM'
+-0.402690 Supp     b'-2:lemma:grow'
+-0.403521 O        b'-2:lemma:pahse'
+-0.404104 O        b'-1:lemma:grow'
+-0.411213 O        b'lemma:nitrogen'
+-0.411213 O        b'word:nitrogen'
+-0.411373 O        b'+1:lemma:+'
+-0.411373 O        b'+1:word:+'
+-0.415137 Gtype    b'-2:postag:CD'
+-0.424176 O        b'+1:word:ChIP-exo'
+-0.437712 O        b'-2:postag:SYM'
+-0.445165 Supp     b'+1:lemma:,'
+-0.445165 Supp     b'+1:postag:,'
+-0.445165 Supp     b'+1:word:,'
+-0.453707 O        b'lemma:fructose'
+-0.453707 O        b'word:fructose'
+-0.457985 O        b'-2:lemma:nh4cl'
+-0.460272 O        b'lemma:anaerobically'
+-0.460272 O        b'word:anaerobically'
+-0.460899 O        b'+2:lemma:reference'
+-0.461152 O        b'lemma:2h'
+-0.461152 O        b'-1:lemma:additional'
+-0.461152 O        b'word:2h'
+-0.461152 O        b'-1:word:additional'
+-0.465651 O        b'-2:lemma:rpob'
+-0.467210 O        b'lemma:anaerobic'
+-0.482841 Supp     b'+1:lemma:-lrb-'
+-0.482841 Supp     b'+1:word:-LRB-'
+-0.487123 O        b'-1:lemma:\xe2\x88\x86'
+-0.487123 O        b'-1:word:\xe2\x88\x86'
+-0.490214 O        b'lemma:aerobically'
+-0.490214 O        b'word:aerobically'
+-0.493650 O        b'lemma:of'
+-0.493650 O        b'word:of'
+-0.498710 O        b'+2:lemma:mid-log'
+-0.499349 O        b'-1:lemma:30'
+-0.499349 O        b'-1:word:30'
+-0.499545 O        b'+2:lemma:fnr'
+-0.506778 Supp     b'+1:postag:-LRB-'
+-0.511585 O        b'word:ChIP-exo'
+-0.513406 O        b'-1:lemma:chip-exo'
+-0.517504 Supp     b'+2:lemma:glucose'
+-0.518174 O        b'+1:lemma:g/l'
+-0.518174 O        b'+1:word:g/L'
+-0.520916 O        b'-2:lemma:anaerobically'
+-0.530292 O        b'+2:postag:-RRB-'
+-0.531458 Med      b'-1:postag:NN'
+-0.532473 O        b'lemma:nh4cl'
+-0.535293 O        b'-2:lemma:IP'
+-0.538050 Gtype    b'-2:lemma:\xe2\x88\x86'
+-0.542753 pH       b'isUpper'
+-0.559582 O        b'lemma:glucose'
+-0.559582 O        b'word:glucose'
+-0.563071 O        b'-2:lemma:dpd'
+-0.568245 O        b'+1:lemma:until'
+-0.568245 O        b'+1:word:until'
+-0.569455 Supp     b'-2:postag:NNS'
+-0.569843 Air      b'+1:postag:JJ'
+-0.573996 O        b'lemma:\xce\xb4fur'
+-0.573996 O        b'word:\xce\x94fur'
+-0.574100 O        b'+1:postag:IN'
+-0.583141 O        b'+1:lemma:in'
+-0.583141 O        b'+1:word:in'
+-0.584211 O        b'lemma:30'
+-0.584211 O        b'word:30'
+-0.587080 Agit     b'isUpper'
+-0.591540 Supp     b'-1:postag:NNP'
+-0.595806 O        b'-1:postag::'
+-0.599170 O        b'-2:lemma:phase'
+-0.601235 O        b'+2:lemma:b'
+-0.602048 O        b'+2:lemma:then'
+-0.608335 O        b'-1:lemma:1'
+-0.608335 O        b'-1:word:1'
+-0.608384 Anti     b'isUpper'
+-0.617575 O        b'-2:lemma:until'
+-0.617630 O        b'lemma:mid-log'
+-0.617630 O        b'word:mid-log'
+-0.621155 O        b'-2:lemma:fresh'
+-0.626295 O        b'-2:lemma:media'
+-0.635986 Phase    b'isUpper'
+-0.639041 O        b'+2:lemma:250'
+-0.644310 Supp     b'-2:postag:JJ'
+-0.653651 O        b'+1:lemma:at'
+-0.653651 O        b'+1:word:at'
+-0.658042 Supp     b'-2:lemma:treat'
+-0.664028 Med      b'+2:postag:VBN'
+-0.670366 O        b'-1:lemma:nsrr'
+-0.670366 O        b'-1:word:NsrR'
+-0.670591 O        b'-2:postag:DT'
+-0.674143 O        b'-1:lemma:vol'
+-0.674143 O        b'-1:word:vol'
+-0.674143 O        b'-2:lemma:1/100'
+-0.674143 O        b'+2:lemma:1m'
+-0.698342 Med      b'-2:postag:VBN'
+-0.715097 O        b'+1:lemma:2.0'
+-0.715097 O        b'+1:word:2.0'
+-0.721531 pH       b'isLower'
+-0.742327 O        b'-1:lemma:sample'
+-0.752266 O        b'lemma:nitrate'
+-0.752266 O        b'word:nitrate'
+-0.767047 O        b'-2:lemma::'
+-0.787116 O        b'lemma:rifampicin'
+-0.787116 O        b'word:rifampicin'
+-0.792673 O        b'+2:lemma:rifampicin'
+-0.797812 O        b'+1:postag:VBG'
+-0.816000 O        b'lemma:wt'
+-0.816563 O        b'-1:lemma:IP'
+-0.816563 O        b'-1:word:IP'
+-0.834409 O        b'lemma:0.3'
+-0.834409 O        b'word:0.3'
+-0.837034 Supp     b'+2:postag:CD'
+-0.838689 O        b'postag:VBP'
+-0.840231 Technique b'isNumber'
+-0.846346 Air      b'postag:NN'
+-0.850091 Gtype    b'postag:VBG'
+-0.854432 O        b'-2:postag:RB'
+-0.883296 Gtype    b'isLower'
+-0.888784 O        b'lemma:media'
+-0.888784 O        b'word:media'
+-0.895754 Gversion b'isLower'
+-0.904522 Temp     b'postag:NN'
+-0.924495 O        b'+2:lemma:+'
+-0.935152 Gtype    b'+2:lemma:cra'
+-0.943613 Gtype    b'isNumber'
+-0.975059 O        b'postag:RB'
+-1.021612 Med      b'-2:lemma:grow'
+-1.024421 Anti     b'+2:lemma:polyclonal'
+-1.031484 O        b'-2:lemma:rifampicin'
+-1.059929 O        b'+1:lemma:1'
+-1.059929 O        b'+1:word:1'
+-1.084068 Supp     b'+2:lemma:fructose'
+-1.123084 Technique b'isLower'
+-1.132053 O        b'-2:lemma:0.3'
+-1.168749 Supp     b'+2:lemma:1'
+-1.183772 OD       b'+1:postag:NN'
+-1.263288 OD       b'+2:lemma:aerobically'
+-1.270174 Supp     b'+2:lemma:2'
+-1.329893 Anti     b'postag:NNP'
+-1.366300 O        b'+1:lemma:2'
+-1.366300 O        b'+1:word:2'
+-1.389405 Phase    b'-1:postag:JJ'
+-1.607302 Supp     b'postag:JJ'
+-1.676382 O        b'-1:postag:VBG'
+-1.773723 O        b'-1:lemma::'
+-1.773723 O        b'-1:word::'
+-1.857508 Phase    b'postag:JJ'
+-1.945074 O        b'-1:lemma:_'
+-1.945074 O        b'-1:word:_'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.15174828379035918, 'c2': 0.004631150546332649}
-best CV score:0.8039437168420447
-model size: 0.06M
-
-Flat F1: 0.7844164550442063
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.807     0.742     0.773        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.866     0.792     0.828       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.807     0.676     0.736       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.848     0.746     0.784       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.791682
-OD     -> OD      6.218349
-Med    -> Med     5.630081
-Temp   -> Temp    5.606252
-Anti   -> Anti    5.592992
-Air    -> Air     5.496160
-Gtype  -> Gtype   5.032489
-O      -> O       4.908086
-Phase  -> Phase   4.730701
-Gversion -> Gversion 4.476840
-Technique -> Technique 4.434337
-Supp   -> Supp    4.084657
-pH     -> pH      1.968754
-Substrain -> Gtype   1.897449
-O      -> Supp    1.725753
-Air    -> O       1.650897
-O      -> Gtype   1.589697
-Gtype  -> Supp    1.521503
-O      -> Technique 1.404884
-Technique -> Air     0.905351
-O      -> Temp    0.873962
-O      -> Anti    0.719006
-Med    -> O       0.502394
-O      -> Gversion 0.498028
-Temp   -> O       0.179242
-OD     -> Phase   0.164045
-O      -> Phase   0.156883
-Phase  -> O       0.137263
-Gtype  -> Air     0.075321
-Gtype  -> pH      0.063986
-O      -> Med     0.051856
-O      -> Strain  0.030496
-Supp   -> O       0.016375
-Anti   -> O       0.009641
-O      -> OD      -0.006635
-OD     -> Med     -0.051166
-Technique -> OD      -0.093116
-Supp   -> OD      -0.100162
-Supp   -> Air     -0.273856
-Gtype  -> O       -0.276598
-Technique -> Gtype   -0.372736
-Gtype  -> Anti    -0.373755
-Gtype  -> Med     -0.384161
-OD     -> O       -0.433058
-Agit   -> O       -0.645946
-O      -> Air     -0.659946
-Substrain -> O       -0.912411
-Gtype  -> OD      -0.984268
-Supp   -> Med     -1.212185
-Med    -> Supp    -1.967819
-
-
-Top unlikely transitions:
-OD     -> OD      6.218349
-Med    -> Med     5.630081
-Temp   -> Temp    5.606252
-Anti   -> Anti    5.592992
-Air    -> Air     5.496160
-Gtype  -> Gtype   5.032489
-O      -> O       4.908086
-Phase  -> Phase   4.730701
-Gversion -> Gversion 4.476840
-Technique -> Technique 4.434337
-Supp   -> Supp    4.084657
-pH     -> pH      1.968754
-Substrain -> Gtype   1.897449
-O      -> Supp    1.725753
-Air    -> O       1.650897
-O      -> Gtype   1.589697
-Gtype  -> Supp    1.521503
-O      -> Technique 1.404884
-Technique -> Air     0.905351
-O      -> Temp    0.873962
-O      -> Anti    0.719006
-Med    -> O       0.502394
-O      -> Gversion 0.498028
-Temp   -> O       0.179242
-OD     -> Phase   0.164045
-O      -> Phase   0.156883
-Phase  -> O       0.137263
-Gtype  -> Air     0.075321
-Gtype  -> pH      0.063986
-O      -> Med     0.051856
-O      -> Strain  0.030496
-Supp   -> O       0.016375
-Anti   -> O       0.009641
-O      -> OD      -0.006635
-OD     -> Med     -0.051166
-Technique -> OD      -0.093116
-Supp   -> OD      -0.100162
-Supp   -> Air     -0.273856
-Gtype  -> O       -0.276598
-Technique -> Gtype   -0.372736
-Gtype  -> Anti    -0.373755
-Gtype  -> Med     -0.384161
-OD     -> O       -0.433058
-Agit   -> O       -0.645946
-O      -> Air     -0.659946
-Substrain -> O       -0.912411
-Gtype  -> OD      -0.984268
-Supp   -> Med     -1.212185
-Med    -> Supp    -1.967819
-Phase  -> OD      -2.190300
-
-
-Top positive:
-10.442312 Supp     b'lemma:Iron'
-9.237513 O        b'lemma:_'
-8.066306 Phase    b'lemma:stationary'
-8.024906 Air      b'lemma:aerobic'
-7.908903 O        b'lemma:1'
-7.889018 Supp     b'lemma:nitrate'
-7.674820 Air      b'lemma:anaerobic'
-7.633175 Technique b'lemma:ChIP-exo'
-6.899479 Strain   b'lemma:k-12'
-6.830547 Med      b'lemma:MOPS'
-6.657016 O        b'lemma:rpob'
-6.360670 O        b'lemma:2'
-6.250166 Gtype    b'lemma:type'
-6.190584 Substrain b'lemma:mg1655'
-6.146067 Air      b'-1:lemma:ChIP-Seq'
-6.024964 Gversion b'lemma:asm584v2'
-5.999859 Technique b'lemma:chipseq'
-5.989574 Phase    b'lemma:mid-log'
-5.930186 Supp     b'lemma:pq'
-5.914739 O        b'lemma:3'
-5.824268 O        b'lemma:Custom'
-5.823157 O        b'-1:lemma:tag'
-5.790768 O        b'-1:lemma:ChIP-exo'
-5.787399 Gtype    b'lemma:\xce\xb4cra'
-5.679226 Air      b'lemma:Aerobic'
-5.626571 OD       b'lemma:od600'
-5.547367 Technique b'lemma:ChIP-Seq'
-5.529761 O        b'lemma:rep2'
-5.480516 Med      b'lemma:LB'
-5.426406 O        b'lemma:rep1'
-5.393841 Gversion b'lemma:nc'
-5.303166 Gtype    b'lemma:flag-tag'
-5.303166 Gtype    b'-1:lemma:c-terminal'
-5.281475 Supp     b'+1:lemma:\xc2\xb5m'
-5.272063 O        b'lemma:b'
-5.200310 O        b'lemma:rep3'
-5.142193 OD       b'lemma:od450'
-5.096163 O        b'lemma:\xcf\x8332'
-4.990214 O        b'lemma:Cra'
-4.926222 O        b'lemma:a'
-4.919918 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.861544 Supp     b'lemma:nh4cl'
-4.812167 Gtype    b'+1:lemma:type'
-4.803668 Gtype    b'lemma:wt'
-4.778995 Gtype    b'lemma:delta-arca'
-4.686613 Gtype    b'lemma:arca8myc'
-4.679240 O        b'postag::'
-4.678684 O        b'postag:IN'
-4.626493 OD       b'+1:lemma:stationary'
-4.555800 Med      b'lemma:lb'
-4.525977 Gversion b'-1:lemma:nc'
-4.514336 Supp     b'lemma:glucose'
-4.505232 Supp     b'lemma:Fe'
-4.499806 Gtype    b'lemma:fnr8myc'
-4.365930 Technique b'lemma:rna-seq'
-4.353053 Supp     b'lemma:rifampicin'
-4.322748 Gtype    b'lemma:\xce\xb4fur'
-4.244815 Anti     b'lemma:none'
-4.188590 O        b'-1:lemma:Aerobic'
-4.181353 Temp     b'-1:lemma:sample'
-4.061718 Supp     b'lemma:dpd'
-4.014721 Gtype    b'lemma:delta-fnr'
-3.991603 Technique b'lemma:rnaseq'
-3.988938 O        b'lemma:-'
-3.968688 O        b'-1:lemma:0.3-0.35'
-3.942988 Technique b'lemma:chip-seq'
-3.894918 Supp     b'lemma:acetate'
-3.894666 O        b'lemma:or'
-3.891632 O        b'lemma:.'
-3.891632 O        b'postag:.'
-3.833478 Supp     b'lemma:arginine'
-3.829349 Supp     b'lemma:no3'
-3.814064 Temp     b'-1:lemma:\xcf\x8332'
-3.734701 Gtype    b'+1:lemma:ph5'
-3.730485 Gtype    b'lemma:\xce\xb4ompr'
-3.716590 Anti     b'lemma:seqa'
-3.692742 Gtype    b'lemma:wild-type'
-3.691658 Vess     b'lemma:flask'
-3.691658 Vess     b'-1:lemma:warm'
-3.680323 O        b'+1:lemma:od600'
-3.566813 pH       b'lemma:ph5'
-3.566813 pH       b'+1:lemma:.5'
-3.560406 Gtype    b'lemma:nsrr'
-3.535215 O        b'-1:lemma:type'
-3.524717 O        b'+1:postag:RB'
-3.508650 Supp     b'lemma:fructose'
-3.483038 O        b'lemma:chip'
-3.461944 Supp     b'-1:lemma:Cra'
-3.457426 Strain   b'+1:lemma:substr'
-3.436475 Supp     b'+1:lemma:1'
-3.379628 Anti     b'lemma:anti-myc'
-3.377053 Anti     b'+1:lemma:antibody'
-3.370766 Technique b'-1:lemma:IP'
-3.365056 Gtype    b'lemma:\xe2\x88\x86'
-3.358640 O        b'-1:lemma:anaerobic'
-3.348760 O        b'lemma:CEL'
-3.347149 Med      b'+1:lemma:0.4'
-3.346755 Anti     b'lemma:anti-rpos'
-3.291412 Gtype    b'-1:lemma:ptac'
-3.278055 Gversion b'lemma:chip-seq'
-3.276131 O        b'-1:lemma:0.3'
-3.234361 O        b'-1:lemma:glucose'
-3.215739 O        b'lemma:with'
-3.173824 Technique b'+1:lemma:chip-exo'
-3.151844 Med      b'lemma:m63'
-3.095334 O        b'lemma:2-3'
-3.095161 Gversion b'lemma:.2'
-3.095161 Gversion b'-1:lemma:u00096'
-3.091572 O        b'postag:VBN'
-3.064702 Gversion b'lemma:u00096'
-3.064702 Gversion b'+1:lemma:.2'
-3.050277 Temp     b'-1:lemma:37'
-3.030666 Gtype    b'+1:lemma:with'
-3.027065 Supp     b'+1:lemma:hour'
-3.014173 O        b'+1:lemma:chip-seq'
-3.004960 Gtype    b'+1:lemma:flagtag'
-2.985168 O        b'lemma:for'
-2.975989 Supp     b'-1:lemma:+'
-2.944441 O        b'lemma:oxyr'
-2.938101 Gtype    b'-1:lemma:phtpg'
-2.932689 Gtype    b'-1:lemma:rpob'
-2.920019 Gtype    b'+1:lemma:pq'
-2.881207 Supp     b'lemma:nacl'
-2.860299 O        b'lemma:s'
-2.845172 Supp     b'+1:lemma:2'
-2.832035 pH       b'lemma:.5'
-2.832035 pH       b'-1:lemma:ph5'
-2.826929 Supp     b'lemma:Leu'
-2.812269 O        b'+1:postag:NNP'
-2.781059 Air      b'lemma:anaerobically'
-2.778609 O        b'-1:lemma:lb'
-2.760280 O        b'+1:lemma:o.d.'
-2.735776 Temp     b'lemma:\xc2\xb0c'
-2.720218 O        b'lemma:at'
-2.711579 Technique b'-1:lemma:chip-exo'
-2.699401 O        b'lemma:ompr'
-2.690406 Air      b'-1:lemma:-'
-2.684684 Gtype    b'lemma:\xce\xb4soxs'
-2.665215 Supp     b'+1:lemma:_'
-2.660630 Phase    b'-1:lemma:until'
-2.607235 Med      b'lemma:L'
-2.607235 Med      b'+1:lemma:broth'
-2.606476 Med      b'+1:lemma:minimal'
-2.603782 O        b'+1:lemma:pq'
-2.599075 Supp     b'-1:lemma:\xc2\xb5m'
-2.567370 O        b'-1:lemma:\xc2\xb0c'
-2.524994 Supp     b'lemma:Adenine'
-2.522705 Gtype    b'lemma:deltaseqa'
-2.522705 Gtype    b'-1:lemma:old'
-2.484836 Temp     b'-1:lemma:43'
-2.470532 Supp     b'lemma:20'
-2.469573 O        b'lemma:culture'
-2.450105 Technique b'-1:lemma:input'
-2.449141 O        b'postag:DT'
-2.444936 Med      b'+1:lemma:2.0'
-2.421299 Med      b'-1:lemma:ml'
-2.419343 Temp     b'lemma:43'
-2.410866 O        b'+1:lemma:mid-log'
-2.405996 Supp     b'lemma:iptg'
-2.397598 Air      b'postag:RB'
-2.397388 Med      b'+1:lemma:g/l'
-2.360509 Gtype    b'-1:lemma:nsrr'
-2.349789 O        b'lemma:condition'
-2.348126 Gtype    b'lemma:ptac'
-2.347726 Gversion b'lemma:000913'
-2.337057 O        b'lemma:chip-arca'
-2.336687 Gtype    b'lemma:pk4854'
-2.327964 Med      b'lemma:media'
-2.272835 O        b'-1:lemma:stpa'
-2.265750 O        b'lemma:Lrp'
-2.265406 O        b'lemma:soxs'
-2.265406 O        b'lemma:soxr'
-2.262228 O        b'postag:VBG'
-2.253322 O        b'-1:lemma:l1'
-2.237857 Air      b'lemma:anerobically'
-2.184062 O        b'-1:lemma:media'
-2.159204 Supp     b'-1:lemma:with'
-2.158856 O        b'lemma:genotype/variation'
-2.157878 O        b'-1:lemma:dpd'
-2.152540 Gtype    b'lemma:dfnr'
-2.148134 O        b'lemma:affyexp'
-2.137699 O        b'postag:CC'
-2.111648 Supp     b'lemma:methanol'
-2.108494 O        b'+1:postag:VBP'
-2.075540 OD       b'lemma:phase'
-2.075417 Gversion b'postag:CD'
-2.068323 Supp     b'lemma:0.2'
-2.064252 Gtype    b'-1:lemma:vector'
-2.056563 OD       b'lemma:0.3'
-2.050748 OD       b'-1:lemma:~'
-2.050625 Gtype    b'lemma:WT'
-2.032571 Temp     b'lemma:37'
-2.018067 Gtype    b'+1:lemma:_'
-2.017840 O        b'lemma:Fur'
-2.011856 O        b'lemma:argr'
-2.006861 Technique b'+1:lemma:rna-seq'
-1.998918 O        b'lemma:purr'
-1.996704 Phase    b'+1:lemma:for'
-1.989638 Med      b'lemma:glucose'
-1.943868 Phase    b'-1:lemma:mid-log'
-
-
-Top negative:
-0.000312 OD       b'-1:lemma:mid-log'
-0.000096 OD       b'-1:postag:VBN'
-0.000087 Gtype    b'-1:lemma:small'
-0.000087 Med      b'-1:lemma:g/l'
-0.000084 Agit     b'+1:postag:NN'
-0.000056 O        b'+1:lemma:ChIP-Seq'
-0.000053 Supp     b'-1:lemma:1g/l'
-0.000051 O        b'lemma:hour'
-0.000051 Gtype    b'lemma:cra'
-0.000036 OD       b'lemma:and'
-0.000021 Temp     b'lemma:-lrb-'
-0.000021 Temp     b'postag:-LRB-'
-0.000019 O        b'-1:lemma:l2'
-0.000014 Technique b'+1:lemma:-rrb-'
-0.000014 Technique b'+1:postag:-RRB-'
-0.000007 Gtype    b'lemma:small'
--0.000002 Gversion b'-1:postag:NN'
--0.000046 O        b'-1:lemma:g/l'
--0.000070 Supp     b'-1:lemma:and'
--0.000073 O        b'-1:lemma:1'
--0.000129 Med      b'postag:CD'
--0.000455 O        b'-1:lemma:20'
--0.000511 OD       b'+1:postag:-LRB-'
--0.000708 OD       b'+1:postag:NNS'
--0.000735 Gtype    b'postag:CD'
--0.000807 Gtype    b'+1:postag:NNS'
--0.000867 O        b'+1:postag:CD'
--0.000974 Gtype    b'-1:postag:CD'
--0.001057 O        b'+1:lemma:~'
--0.001061 O        b'+1:lemma:fnr'
--0.001528 Air      b'+1:lemma:70'
--0.001678 O        b'-1:lemma:the'
--0.001682 O        b'postag:VBP'
--0.002024 O        b'+1:lemma:min'
--0.002325 Phase    b'-1:postag:NN'
--0.002352 O        b'lemma:n2'
--0.002519 O        b'lemma:\xce\xb4fur'
--0.002662 Air      b'lemma:,'
--0.002662 Air      b'postag:,'
--0.005486 Gtype    b'+1:lemma:2'
--0.006088 O        b'+1:lemma:o2'
--0.006828 Air      b'-1:lemma:and'
--0.008457 Temp     b'-1:lemma:\xc2\xb0c'
--0.009847 O        b'-1:lemma:,'
--0.009847 O        b'-1:postag:,'
--0.010744 O        b'+1:lemma:phase'
--0.011644 O        b'lemma:cell'
--0.011902 Gtype    b'-1:postag:NNP'
--0.013075 OD       b'+1:lemma:and'
--0.013273 O        b'-1:lemma:\xe2\x88\x86'
--0.013803 O        b'lemma:e.'
--0.013807 O        b'-1:lemma:sample'
--0.013821 O        b'+1:lemma:mm'
--0.014710 O        b'+1:lemma:rep1'
--0.015201 Air      b'+1:lemma:-lrb-'
--0.015350 OD       b'+1:postag:CD'
--0.017836 O        b'+1:lemma:grow'
--0.019975 O        b'lemma:anaerobic'
--0.024268 Air      b'+1:postag:CD'
--0.025672 O        b'lemma:medium'
--0.025888 O        b'+1:lemma:95'
--0.026118 O        b'lemma:k-12'
--0.027112 O        b'+1:lemma:25'
--0.029447 Air      b'postag:CC'
--0.030441 O        b'lemma:m63'
--0.030598 OD       b'+1:postag:CC'
--0.032367 O        b'lemma:grow'
--0.035584 Air      b'+1:postag:-LRB-'
--0.039003 O        b'lemma:mg/ml'
--0.039003 O        b'-1:lemma:150'
--0.041109 O        b'-1:lemma:e.'
--0.043248 Supp     b'-1:postag:NN'
--0.049539 Gversion b'+1:postag:NN'
--0.050421 O        b'lemma:25'
--0.053998 Temp     b'postag:JJ'
--0.060680 O        b'-1:lemma:at'
--0.060890 Phase    b'-1:postag:JJ'
--0.061474 O        b'lemma:lb'
--0.064297 Med      b'-1:postag:NN'
--0.065687 O        b'-1:postag:VBN'
--0.067931 O        b'-1:lemma:o2'
--0.068731 O        b'+1:lemma:5'
--0.069126 O        b'+1:lemma:shake'
--0.069173 O        b'-1:lemma:25'
--0.071503 Air      b'-1:postag:CC'
--0.075779 O        b'+1:lemma:0.4'
--0.077365 Air      b'-1:lemma:or'
--0.080349 O        b'lemma:30'
--0.087136 O        b'-1:lemma:mm'
--0.089014 pH       b'postag:NN'
--0.089177 O        b'lemma:o2'
--0.097371 Supp     b'lemma:and'
--0.101711 Gtype    b'-1:postag:DT'
--0.104337 O        b'+1:lemma:antibody'
--0.113298 O        b'-1:lemma:um'
--0.113298 O        b'+1:lemma:paraquat'
--0.118293 Phase    b'+1:postag:NN'
--0.119989 O        b'-1:lemma:30'
--0.126122 Phase    b'-1:lemma:at'
--0.135089 Supp     b'postag:CC'
--0.137129 O        b'-1:postag:IN'
--0.138660 O        b'+1:lemma:arginine'
--0.139143 O        b'+1:lemma:until'
--0.162860 O        b'lemma:150'
--0.162860 O        b'+1:lemma:mg/ml'
--0.164772 OD       b'postag:JJ'
--0.171975 Temp     b'postag:NN'
--0.183842 O        b'lemma:phase'
--0.184042 O        b'+1:lemma:-rrb-'
--0.185930 O        b'-1:lemma:-lrb-'
--0.185933 O        b'-1:lemma:rifampicin'
--0.195035 Med      b'-1:postag:IN'
--0.204004 Anti     b'+1:postag:JJ'
--0.210272 Gtype    b'lemma:delta'
--0.217084 Supp     b'+1:postag:VBN'
--0.218515 O        b'lemma:co2'
--0.219042 O        b'-1:lemma:of'
--0.220276 O        b'+1:lemma:%'
--0.228465 Med      b'+1:postag:NN'
--0.229909 O        b'-1:lemma:n2'
--0.230847 OD       b'+1:postag:NN'
--0.248221 O        b'-1:lemma:ml'
--0.250359 Anti     b'+1:lemma:anti-fur'
--0.279734 O        b'+1:lemma:0.3'
--0.283648 O        b'-1:postag:-LRB-'
--0.286892 O        b'-1:lemma:mid-log'
--0.312152 Gtype    b'-1:postag:NN'
--0.322232 O        b'-1:lemma:0.1'
--0.331861 O        b'+1:postag:-RRB-'
--0.336159 O        b'-1:lemma:from'
--0.340286 Med      b'+1:postag:IN'
--0.341633 O        b'+1:postag:IN'
--0.355453 O        b'-1:lemma:cra'
--0.366315 O        b'+1:lemma:.'
--0.366315 O        b'+1:postag:.'
--0.376920 O        b'postag:RB'
--0.405053 O        b'lemma:\xe2\x88\x86'
--0.424434 O        b'+1:postag:NNS'
--0.430071 O        b'lemma:aerobically'
--0.440727 Air      b'postag:CD'
--0.446825 O        b'lemma:anaerobically'
--0.447447 O        b'-1:lemma:od600'
--0.465924 O        b'+1:lemma:cell'
--0.468267 O        b'lemma:od600'
--0.472878 O        b'lemma:dissolve'
--0.502409 O        b'lemma:20'
--0.508433 O        b'-1:lemma:~'
--0.524904 Air      b'-1:postag:JJ'
--0.543671 O        b'+1:lemma:fecl2'
--0.554628 O        b'-1:lemma:0.2'
--0.556138 Temp     b'+1:lemma:to'
--0.556138 Temp     b'+1:postag:TO'
--0.589220 Supp     b'+1:lemma:rifampicin'
--0.610212 O        b'lemma:0.3'
--0.622831 O        b'lemma:media'
--0.657974 O        b'-1:lemma:37'
--0.677014 Supp     b'-1:lemma:%'
--0.678005 O        b'+1:lemma:\xc2\xb0c'
--0.707832 O        b'lemma:of'
--0.722898 O        b'-1:lemma:rpob'
--0.723244 O        b'+1:lemma:+'
--0.755790 OD       b'lemma:-lrb-'
--0.789730 O        b'lemma:0.2'
--0.814406 O        b'-1:lemma:grow'
--0.909402 O        b'-1:postag::'
--0.915529 O        b'-1:postag:VBG'
--0.926818 Technique b'-1:postag::'
--0.933497 OD       b'postag:-LRB-'
--0.980631 O        b'lemma:fecl2'
--1.017727 O        b'-1:lemma:dissolve'
--1.017727 O        b'+1:lemma:methanol'
--1.020513 O        b'lemma:2h'
--1.020513 O        b'-1:lemma:additional'
--1.034839 O        b'lemma:37'
--1.121637 O        b'lemma:0.1'
--1.205775 O        b'+1:lemma:supplement'
--1.230075 Supp     b'+1:lemma:acetate'
--1.250120 O        b'+1:postag:VBG'
--1.256564 O        b'lemma:wt'
--1.276371 O        b'+1:lemma:g/l'
--1.304341 O        b'-1:lemma:IP'
--1.328183 O        b'-1:lemma:co2'
--1.391087 O        b'-1:lemma:ompr'
--1.452522 Anti     b'postag:NNP'
--1.489210 O        b'+1:lemma:at'
--1.603327 Air      b'+1:postag:JJ'
--1.726036 O        b'lemma:mid-log'
--1.737094 O        b'lemma:rifampicin'
--1.758957 O        b'-1:lemma:nsrr'
--1.762287 Supp     b'postag:JJ'
--1.770399 Air      b'postag:NN'
--1.810971 O        b'+1:lemma:hour'
--2.081711 Phase    b'postag:JJ'
--2.115674 O        b'lemma:methanol'
--2.200974 O        b'+1:lemma:in'
--2.263160 O        b'+1:lemma:2'
--2.388655 O        b'-1:lemma:2'
--2.590523 O        b'+1:lemma:1'
--4.545984 O        b'-1:lemma::'
--4.681648 O        b'-1:lemma:_'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.04223966754804299, 'c2': 0.014836666503726496}
+best CV score:0.879077327666518
+model size: 0.17M
+
+Flat F1: 0.7889011067174645
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.962     0.981        53
+       Temp      0.923     0.828     0.873        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.556     0.362     0.439        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.864     0.824     0.843        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.716     0.791     0.752       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.811     0.776     0.789       451
+
+
+Top likely transitions:
+Temp   -> Temp    6.132401
+Agit   -> Agit    5.867978
+Med    -> Med     5.493382
+Anti   -> Anti    4.899201
+Gversion -> Gversion 4.720775
+OD     -> OD      4.580439
+Gtype  -> Gtype   4.270714
+Supp   -> Supp    4.146870
+O      -> O       4.001305
+Phase  -> Phase   3.777096
+Air    -> Air     3.280795
+Technique -> Technique 3.042386
+pH     -> pH      2.638890
+Substrain -> Gtype   0.639428
+O      -> Technique 0.597359
+O      -> Gtype   0.301586
+Med    -> O       0.113620
+Gtype  -> Air     0.032970
+Air    -> O       0.023112
+Temp   -> O       0.007528
+O      -> Temp    0.000729
+Agit   -> O       -0.000016
+Supp   -> Technique -0.000031
+O      -> Strain  -0.002771
+Phase  -> Air     -0.018013
+Technique -> OD      -0.019361
+Supp   -> OD      -0.031281
+pH     -> Supp    -0.038004
+Air    -> Gtype   -0.060170
+OD     -> Supp    -0.078565
+Anti   -> Gtype   -0.100971
+Gtype  -> Phase   -0.118162
+Gtype  -> Anti    -0.120765
+Air    -> Agit    -0.147345
+Air    -> Temp    -0.149520
+Anti   -> Air     -0.164013
+Gversion -> Supp    -0.166044
+Anti   -> O       -0.170392
+Gtype  -> OD      -0.173948
+Anti   -> Supp    -0.206647
+Air    -> Technique -0.220913
+Technique -> Gtype   -0.276956
+Supp   -> Phase   -0.297344
+Air    -> Phase   -0.306210
+O      -> Supp    -0.348583
+O      -> Med     -0.368131
+Phase  -> OD      -0.382985
+O      -> Phase   -0.399249
+OD     -> Air     -0.479222
+Phase  -> Supp    -0.503166
+
+
+Top unlikely transitions:
+Agit   -> O       -0.000016
+Supp   -> Technique -0.000031
+O      -> Strain  -0.002771
+Phase  -> Air     -0.018013
+Technique -> OD      -0.019361
+Supp   -> OD      -0.031281
+pH     -> Supp    -0.038004
+Air    -> Gtype   -0.060170
+OD     -> Supp    -0.078565
+Anti   -> Gtype   -0.100971
+Gtype  -> Phase   -0.118162
+Gtype  -> Anti    -0.120765
+Air    -> Agit    -0.147345
+Air    -> Temp    -0.149520
+Anti   -> Air     -0.164013
+Gversion -> Supp    -0.166044
+Anti   -> O       -0.170392
+Gtype  -> OD      -0.173948
+Anti   -> Supp    -0.206647
+Air    -> Technique -0.220913
+Technique -> Gtype   -0.276956
+Supp   -> Phase   -0.297344
+Air    -> Phase   -0.306210
+O      -> Supp    -0.348583
+O      -> Med     -0.368131
+Phase  -> OD      -0.382985
+O      -> Phase   -0.399249
+OD     -> Air     -0.479222
+Phase  -> Supp    -0.503166
+Supp   -> Air     -0.513142
+Phase  -> O       -0.522452
+Air    -> Med     -0.532689
+Gtype  -> Med     -0.539650
+Technique -> Supp    -0.572989
+Gtype  -> Technique -0.595348
+Temp   -> Med     -0.595579
+Supp   -> Gtype   -0.613937
+Agit   -> Air     -0.625302
+OD     -> O       -0.641071
+Gversion -> O       -0.641193
+Technique -> pH      -0.782400
+Supp   -> O       -0.786822
+Supp   -> Med     -0.932343
+Air    -> Supp    -0.964410
+Technique -> O       -1.106191
+O      -> OD      -1.374945
+Gtype  -> O       -1.475612
+Substrain -> O       -1.620808
+Med    -> Supp    -1.753990
+O      -> Air     -1.843623
+
+
+Top positive:
+5.458764 Anti     b'-2:lemma:antibody'
+4.034933 O        b'-2:lemma:_'
+3.995360 Technique b'lemma[:2]:Ch'
+3.737588 O        b'lemma[:2]:re'
+3.686472 Gtype    b'lemma[:1]:\xce\xb4'
+3.552793 Phase    b'-2:lemma:phase'
+3.469041 Air      b'word:Aerobic'
+3.439462 O        b'lemma:2'
+3.439462 O        b'word:2'
+3.243564 Air      b'lemma:anaerobic'
+3.182295 Supp     b'-1:word:Cra'
+3.047566 Gtype    b'-2:lemma:genotype/variation'
+3.006963 O        b'-2:lemma:medium'
+2.984615 O        b'lemma:1'
+2.984615 O        b'word:1'
+2.738121 O        b'lemma:-'
+2.738121 O        b'word:-'
+2.718196 O        b'+1:postag:RB'
+2.700586 O        b'word:Cra'
+2.653876 Supp     b'+2:lemma:iptg'
+2.620648 O        b'lemma:with'
+2.620648 O        b'word:with'
+2.599865 O        b'lemma:_'
+2.599865 O        b'lemma[:1]:_'
+2.599865 O        b'word:_'
+2.575314 Med      b'+2:postag:CC'
+2.571913 Supp     b'lemma:arginine'
+2.568347 O        b'word:A'
+2.546240 Gtype    b'lemma[:2]:pk'
+2.527855 O        b'lemma:3'
+2.527855 O        b'word:3'
+2.379121 O        b'-1:lemma:ChIP-exo'
+2.355972 O        b'lemma[:2]:ge'
+2.355054 Technique b'lemma[:2]:rn'
+2.341062 Supp     b'lemma:pq'
+2.341062 Supp     b'lemma[:2]:pq'
+2.341062 Supp     b'word:PQ'
+2.297430 O        b'+2:lemma:cra'
+2.280338 O        b'+2:lemma:\xc2\xb0c'
+2.251142 O        b'+2:lemma:70'
+2.245883 Gtype    b'word:WT'
+2.241264 Air      b'word:Anaerobic'
+2.237739 Supp     b'+2:lemma:for'
+2.234179 Anti     b'+2:lemma:antibody'
+2.153589 O        b'-1:lemma:tag'
+2.117142 O        b'lemma[:1]:h'
+2.088934 Air      b'lemma[:2]:ae'
+2.076795 Technique b'word:ChIPSeq'
+2.068935 Gtype    b'hGreek'
+2.047132 O        b'-2:lemma:mid-log'
+2.041924 O        b'lemma:.'
+2.041924 O        b'postag:.'
+2.041924 O        b'postag[:1]:.'
+2.041924 O        b'word:.'
+2.032495 Gtype    b'-1:lemma:\xe2\x88\x86'
+2.032495 Gtype    b'-1:word:\xe2\x88\x86'
+2.016938 Gtype    b'lemma[:1]:w'
+2.000225 O        b'+2:lemma:fructose'
+1.992930 Supp     b'-1:lemma:with'
+1.992930 Supp     b'-1:word:with'
+1.991763 Gtype    b'-2:lemma:delta'
+1.990954 Substrain b'lemma[:2]:mg'
+1.983708 Phase    b'+2:lemma:o.d.'
+1.977886 Supp     b'-1:lemma:Cra'
+1.960916 Phase    b'lemma:mid-log'
+1.960916 Phase    b'word:mid-log'
+1.958437 Phase    b'lemma[:2]:ex'
+1.945077 Supp     b'-1:postag:CC'
+1.944452 Substrain b'lemma[:1]:m'
+1.940793 Gtype    b'lemma:type'
+1.940793 Gtype    b'lemma[:2]:ty'
+1.940793 Gtype    b'word:type'
+1.931978 Technique b'lemma:chipseq'
+1.906924 O        b'+1:postag:NNP'
+1.904357 O        b'lemma:b'
+1.904357 O        b'word:B'
+1.900770 O        b'-1:word:tag'
+1.894287 Technique b'lemma:ChIP-exo'
+1.866276 Technique b'lemma[:1]:C'
+1.856571 O        b'-1:word:Aerobic'
+1.849985 Supp     b'lemma:Iron'
+1.849985 Supp     b'lemma[:2]:Ir'
+1.849985 Supp     b'word:Iron'
+1.849985 Supp     b'+1:word:Deficient'
+1.849985 Supp     b'-2:lemma:Anaerobic'
+1.843831 Supp     b'lemma:acetate'
+1.843831 Supp     b'word:acetate'
+1.843349 Air      b'lemma[:1]:A'
+1.840981 Supp     b'-2:lemma:media'
+1.831812 Technique b'lemma[:2]:ch'
+1.820538 Gtype    b'-2:postag:DT'
+1.819950 Supp     b'-1:lemma:+'
+1.819950 Supp     b'-1:word:+'
+1.813584 Air      b'lemma[:1]:a'
+1.788160 Gversion b'word:ChIP-Seq'
+1.786490 Gtype    b'-2:lemma:genotype'
+1.771090 Gtype    b'+1:lemma:type'
+1.771090 Gtype    b'+1:word:type'
+1.765859 Gtype    b'-2:lemma:affyexp'
+1.729836 Gversion b'lemma:chip-seq'
+1.715972 Air      b'lemma[:2]:an'
+1.702637 O        b'-2:lemma:myc'
+1.701777 O        b'-2:lemma:flagtag'
+1.685559 Supp     b'-2:lemma:agent'
+1.676248 Supp     b'lemma[:1]:n'
+1.665235 Technique b'symb'
+1.650041 Technique b'-1:lemma:chip-exo'
+1.645472 O        b'-1:lemma:anaerobic'
+1.628175 Gtype    b'lemma[:2]:ar'
+1.620209 Supp     b'postag:VBP'
+1.612275 O        b'isLower'
+1.611690 O        b'+1:lemma:pq'
+1.611690 O        b'+1:word:PQ'
+1.609561 Supp     b'lemma[:1]:I'
+1.608561 O        b'-1:lemma:media'
+1.608561 O        b'-1:word:media'
+1.597175 Med      b'isUpper'
+1.593363 Gtype    b'lemma:wt'
+1.593363 Gtype    b'lemma[:2]:wt'
+1.593216 Med      b'+2:lemma:b2'
+1.592123 Supp     b'-2:lemma:induce'
+1.590184 Air      b'lemma:Aerobic'
+1.590184 Air      b'lemma[:2]:Ae'
+1.571628 Phase    b'lemma:stationary'
+1.571628 Phase    b'word:stationary'
+1.555960 Gtype    b'lemma[:1]:f'
+1.552005 Med      b'lemma:MOPS'
+1.552005 Med      b'lemma[:1]:M'
+1.552005 Med      b'lemma[:2]:MO'
+1.552005 Med      b'word:MOPS'
+1.545220 Technique b'word:ChIP-Seq'
+1.544051 Supp     b'lemma[:2]:gl'
+1.540691 O        b'-1:lemma:0.3'
+1.540691 O        b'-1:word:0.3'
+1.540357 Supp     b'-2:lemma:argr'
+1.535458 Gtype    b'symb'
+1.531560 O        b'-2:lemma:fructose'
+1.530754 O        b'-1:lemma:lb'
+1.530754 O        b'-1:word:LB'
+1.528067 Supp     b'-1:lemma:final'
+1.528067 Supp     b'-1:word:final'
+1.513494 Phase    b'-2:lemma:until'
+1.493341 Supp     b'lemma:fructose'
+1.493341 Supp     b'word:fructose'
+1.491583 Technique b'-1:lemma:input'
+1.491583 Technique b'-1:word:Input'
+1.487376 Supp     b'lemma[:2]:ac'
+1.472895 pH       b'+1:postag:CD'
+1.458550 O        b'-1:lemma:glucose'
+1.458550 O        b'-1:word:glucose'
+1.450710 Gtype    b'-1:postag:VBG'
+1.450118 Air      b'-1:postag::'
+1.449701 Supp     b'+1:lemma:\xc2\xb5m'
+1.449701 Supp     b'+1:word:\xc2\xb5M'
+1.430882 O        b'+1:lemma:mid-log'
+1.430882 O        b'+1:word:mid-log'
+1.420013 Strain   b'+1:lemma:substr'
+1.420013 Strain   b'+1:word:substr'
+1.420013 Strain   b'-2:lemma:str'
+1.408799 O        b'lemma:Custom'
+1.408799 O        b'lemma[:2]:Cu'
+1.408799 O        b'word:Custom'
+1.401545 O        b'lemma:chip'
+1.400074 O        b'lemma[:1]:C'
+1.398389 Gtype    b'lemma[:2]:wi'
+1.394023 O        b'lemma:rpob'
+1.394023 O        b'word:RpoB'
+1.389762 Supp     b'-2:lemma:supplement'
+1.388021 Supp     b'lemma[:2]:ni'
+1.387197 Phase    b'lemma[:1]:e'
+1.380149 Air      b'postag:RB'
+1.380149 Air      b'postag[:1]:R'
+1.380149 Air      b'postag[:2]:RB'
+1.378405 O        b'lemma:a'
+1.377531 O        b'+1:word:ChIP-Seq'
+1.375054 Technique b'+2:lemma:ph5'
+1.371660 Anti     b'+1:lemma:antibody'
+1.371660 Anti     b'+1:word:antibody'
+1.355865 O        b'postag:VBN'
+1.352947 OD       b'lemma:0.3'
+1.352947 OD       b'word:0.3'
+1.351689 Phase    b'+1:lemma:phase'
+1.351689 Phase    b'+1:word:phase'
+1.350446 pH       b'lemma[:2]:ph'
+1.341756 O        b'isNumber'
+1.330917 Supp     b'+1:lemma:1'
+1.330917 Supp     b'+1:word:1'
+1.327538 Gversion b'-2:lemma:build'
+1.323732 O        b'lemma:ompr'
+1.323732 O        b'word:OmpR'
+1.322881 Air      b'+1:postag:IN'
+1.322130 Temp     b'-1:lemma:43'
+1.322130 Temp     b'-1:word:43'
+1.298940 O        b'-1:lemma:aerobically'
+1.298940 O        b'-1:word:aerobically'
+1.297300 OD       b'lemma[:1]:o'
+1.295797 Med      b'+1:lemma:0.4'
+1.295797 Med      b'+1:word:0.4'
+1.282176 O        b'+2:postag:JJ'
+1.271164 O        b'+2:lemma:polyclonal'
+
+
+Top negative:
+-0.367697 Supp     b'-1:postag:-LRB-'
+-0.371915 O        b'-2:lemma:fresh'
+-0.376710 O        b'+2:lemma:fnr'
+-0.377206 O        b'lemma:2h'
+-0.377206 O        b'-1:lemma:additional'
+-0.377206 O        b'lemma[:2]:2h'
+-0.377206 O        b'word:2h'
+-0.377206 O        b'-1:word:additional'
+-0.379729 O        b'-2:postag:-LRB-'
+-0.380849 Air      b'-1:postag:JJ'
+-0.381928 Strain   b'isLower'
+-0.382657 Med      b'-1:postag:IN'
+-0.383403 O        b'-2:lemma:at'
+-0.384281 Technique b'postag:NN'
+-0.389220 O        b'-1:lemma:until'
+-0.389220 O        b'-1:word:until'
+-0.393047 O        b'lemma[:1]:4'
+-0.393058 O        b'+2:lemma:follow'
+-0.393999 O        b'-1:lemma:control'
+-0.393999 O        b'-1:word:control'
+-0.395395 O        b'lemma[:2]:0.'
+-0.396201 O        b'-2:lemma:minimal'
+-0.397167 O        b'lemma:37'
+-0.397167 O        b'lemma[:2]:37'
+-0.397167 O        b'word:37'
+-0.397928 Gtype    b'lemma[:1]:g'
+-0.404533 O        b'lemma:glucose'
+-0.404533 O        b'word:glucose'
+-0.408273 O        b'lemma:30'
+-0.408273 O        b'word:30'
+-0.409885 O        b'-2:lemma:supplement'
+-0.411648 O        b'+1:lemma:mm'
+-0.411648 O        b'+1:word:mM'
+-0.412683 O        b'+2:lemma:at'
+-0.413401 O        b'-2:lemma:of'
+-0.419317 O        b'-2:postag:RB'
+-0.420417 Temp     b'isLower'
+-0.424626 O        b'+1:lemma:phase'
+-0.424626 O        b'+1:word:phase'
+-0.426973 Supp     b'lemma[:1]:s'
+-0.427251 O        b'lemma:wt'
+-0.427251 O        b'lemma[:2]:wt'
+-0.434566 O        b'+2:lemma:mid-log'
+-0.434970 O        b'lemma[:1]:0'
+-0.440663 O        b'-1:lemma:37'
+-0.440663 O        b'-1:word:37'
+-0.441568 Temp     b'-2:postag:NN'
+-0.443930 O        b'lemma[:1]:\xce\xb4'
+-0.458877 O        b'-1:lemma:mm'
+-0.458877 O        b'-1:word:mM'
+-0.463660 Supp     b'+1:postag:NNS'
+-0.463834 O        b'lemma:media'
+-0.463834 O        b'word:media'
+-0.464229 O        b'-2:lemma:a'
+-0.482105 O        b'-1:lemma:\xe2\x88\x86'
+-0.482105 O        b'-1:word:\xe2\x88\x86'
+-0.485832 O        b'+1:word:ChIP-exo'
+-0.487845 Supp     b'hGreek'
+-0.488218 O        b'-2:lemma:nh4cl'
+-0.497873 Supp     b'+2:postag:NNP'
+-0.503699 O        b'-2:lemma:genome'
+-0.505194 O        b'+2:lemma:b'
+-0.506273 O        b'-1:lemma:IP'
+-0.506273 O        b'-1:word:IP'
+-0.506359 O        b'-1:lemma:nsrr'
+-0.506359 O        b'-1:word:NsrR'
+-0.506668 O        b'lemma[:1]:L'
+-0.507329 O        b'+1:postag:VBG'
+-0.511337 O        b'+1:lemma:2.0'
+-0.511337 O        b'+1:word:2.0'
+-0.514855 Gtype    b'lemma[:1]:h'
+-0.521122 Med      b'-1:postag:NN'
+-0.525468 O        b'+1:lemma:until'
+-0.525468 O        b'+1:word:until'
+-0.529295 Med      b'postag[:1]:C'
+-0.531677 O        b'+1:lemma:+'
+-0.531677 O        b'+1:word:+'
+-0.535215 O        b'lemma[:2]:ar'
+-0.537907 O        b'lemma[:2]:gl'
+-0.550679 Air      b'isLower'
+-0.551345 O        b'-1:lemma:ml'
+-0.551345 O        b'-1:word:ml'
+-0.555528 Supp     b'+1:lemma:,'
+-0.555528 Supp     b'+1:postag:,'
+-0.555528 Supp     b'+1:word:,'
+-0.562680 Gtype    b'lemma[:1]:s'
+-0.564487 O        b'lemma[:1]:p'
+-0.574109 Agit     b'symb'
+-0.582388 O        b'-2:postag:DT'
+-0.587178 O        b'-2:lemma:rpob'
+-0.589072 O        b'+2:lemma:.'
+-0.589072 O        b'+2:postag:.'
+-0.595658 O        b'+1:lemma:g/l'
+-0.595658 O        b'+1:word:g/L'
+-0.596954 O        b'-2:postag:SYM'
+-0.599195 O        b'-1:lemma:rpob'
+-0.599195 O        b'-1:word:RpoB'
+-0.604186 O        b'+2:lemma:250'
+-0.608815 Supp     b'+1:lemma:-lrb-'
+-0.608815 Supp     b'+1:word:-LRB-'
+-0.609845 Anti     b'isUpper'
+-0.610591 Technique b'isNumber'
+-0.617650 O        b'-1:lemma:co2'
+-0.617650 O        b'-1:word:CO2'
+-0.622948 Supp     b'+1:postag:-LRB-'
+-0.641001 Agit     b'hUpper'
+-0.641001 Agit     b'hLower'
+-0.645491 O        b'+1:postag:IN'
+-0.647159 Gtype    b'postag[:1]:V'
+-0.647159 Gtype    b'postag[:2]:VB'
+-0.659968 O        b'lemma[:2]:ri'
+-0.661117 Anti     b'+2:postag:JJ'
+-0.661585 O        b'-1:lemma:1'
+-0.661585 O        b'-1:word:1'
+-0.666026 O        b'lemma:mid-log'
+-0.666026 O        b'word:mid-log'
+-0.667310 O        b'-2:lemma:pahse'
+-0.680963 Anti     b'+2:lemma:polyclonal'
+-0.685918 Supp     b'-1:postag:NNP'
+-0.698925 Supp     b'-2:postag:JJ'
+-0.704054 O        b'lemma[:1]:d'
+-0.707980 Gtype    b'-2:lemma:\xe2\x88\x86'
+-0.710771 O        b'+2:postag:-RRB-'
+-0.713877 O        b'+1:lemma:at'
+-0.713877 O        b'+1:word:at'
+-0.722406 O        b'-2:lemma::'
+-0.722643 O        b'lemma:rifampicin'
+-0.722643 O        b'word:rifampicin'
+-0.728674 Med      b'-2:postag:VBN'
+-0.732685 Supp     b'-2:lemma:treat'
+-0.742976 Anti     b'+1:lemma:anti-fur'
+-0.742976 Anti     b'+1:word:anti-Fur'
+-0.744610 O        b'lemma[:1]:k'
+-0.745118 O        b'-2:lemma:aerobically'
+-0.745353 O        b'lemma:anaerobic'
+-0.747402 O        b'+1:lemma:in'
+-0.747402 O        b'+1:word:in'
+-0.757568 O        b'+2:lemma:tag'
+-0.766874 O        b'lemma[:1]:I'
+-0.768100 O        b'-1:postag::'
+-0.770179 O        b'-1:lemma:2'
+-0.770179 O        b'-1:word:2'
+-0.779152 Gtype    b'isNumber'
+-0.782788 Technique b'isLower'
+-0.789896 Phase    b'hUpper'
+-0.789896 Phase    b'hLower'
+-0.799453 O        b'lemma[:1]:n'
+-0.803431 pH       b'isLower'
+-0.809089 O        b'-2:postag::'
+-0.822848 O        b'-2:lemma:dpd'
+-0.835295 Supp     b'lemma[:2]:an'
+-0.862215 O        b'-2:lemma:phase'
+-0.867939 Gtype    b'lemma[:1]:c'
+-0.884275 Supp     b'+2:lemma:glucose'
+-0.904915 Gtype    b'lemma[:1]:a'
+-0.913465 O        b'-1:lemma:vol'
+-0.913465 O        b'-1:word:vol'
+-0.913465 O        b'-2:lemma:1/100'
+-0.913465 O        b'+2:lemma:1m'
+-0.930521 Supp     b'+2:postag:CD'
+-0.948465 O        b'-2:lemma:rifampicin'
+-0.960959 O        b'-2:lemma:until'
+-0.973929 O        b'+2:lemma:+'
+-0.989863 OD       b'+1:postag:NN'
+-0.993812 Med      b'symb'
+-1.066464 Gtype    b'+2:lemma:cra'
+-1.076108 Gtype    b'isUpper'
+-1.103829 O        b'lemma[:2]:ae'
+-1.145933 Supp     b'-2:lemma:grow'
+-1.165009 O        b'+2:lemma:then'
+-1.184152 Phase    b'postag[:1]:J'
+-1.184152 Phase    b'postag[:2]:JJ'
+-1.216149 Gtype    b'lemma[:1]:r'
+-1.241717 O        b'+2:lemma:rifampicin'
+-1.245965 Gversion b'isLower'
+-1.248268 O        b'lemma[:2]:30'
+-1.250676 O        b'+1:lemma:1'
+-1.250676 O        b'+1:word:1'
+-1.261488 Phase    b'postag:JJ'
+-1.293329 Anti     b'postag:NNP'
+-1.311043 Supp     b'lemma[:1]:c'
+-1.361957 O        b'-1:lemma:sample'
+-1.486502 Phase    b'-1:postag:JJ'
+-1.506572 Supp     b'+2:lemma:1'
+-1.518267 Supp     b'+2:lemma:2'
+-1.561744 O        b'-2:lemma:0.3'
+-1.581023 O        b'-2:lemma:media'
+-1.615538 Med      b'-2:lemma:grow'
+-1.662192 O        b'+1:lemma:2'
+-1.662192 O        b'+1:word:2'
+-1.765435 Med      b'+2:postag:VBN'
+-1.789575 Supp     b'+2:lemma:fructose'
+-1.949737 O        b'postag:VBP'
+-2.303519 O        b'-1:postag:VBG'
+-2.349341 O        b'lemma[:2]:fl'
+-2.351661 OD       b'+2:lemma:aerobically'
+-2.480527 O        b'-1:lemma::'
+-2.480527 O        b'-1:word::'
+-2.674521 O        b'-1:lemma:_'
+-2.674521 O        b'-1:word:_'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.16058815571126603, 'c2': 0.009129664457456948}
-best CV score:0.7991895289243558
-model size: 0.07M
-
-Flat F1: 0.7842038431135264
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.780     0.742     0.760        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.872     0.774     0.820       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.823     0.684     0.747       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.850     0.744     0.784       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.719064
-OD     -> OD      6.323533
-Temp   -> Temp    5.626965
-Med    -> Med     5.518631
-Anti   -> Anti    5.387568
-Air    -> Air     5.306006
-Gtype  -> Gtype   4.649741
-O      -> O       4.602569
-Phase  -> Phase   4.554949
-Gversion -> Gversion 4.497882
-Supp   -> Supp    4.147792
-Technique -> Technique 4.061262
-pH     -> pH      2.238372
-O      -> Supp    1.895496
-Air    -> O       1.750002
-Gtype  -> Supp    1.554366
-Substrain -> Gtype   1.504459
-O      -> Gtype   1.372037
-O      -> Technique 1.353039
-Technique -> Air     0.944695
-O      -> Anti    0.631594
-O      -> Temp    0.503749
-Med    -> O       0.429416
-O      -> Gversion 0.344788
-OD     -> Phase   0.332615
-Temp   -> O       0.259256
-O      -> Med     0.223793
-Gtype  -> Air     0.098960
-Supp   -> O       0.061572
-O      -> Phase   0.048636
-Gtype  -> pH      0.031023
-Phase  -> O       0.028306
-O      -> Strain  0.026662
-OD     -> Air     -0.000013
-Technique -> O       -0.002223
-Technique -> Gtype   -0.072225
-Supp   -> Air     -0.245156
-Technique -> OD      -0.270904
-OD     -> Med     -0.284259
-Gtype  -> Med     -0.389196
-Gtype  -> O       -0.401680
-OD     -> O       -0.570578
-Agit   -> O       -0.633985
-Gtype  -> Anti    -0.634022
-O      -> Air     -0.700283
-Gtype  -> OD      -0.910835
-Supp   -> Med     -0.967944
-Substrain -> O       -1.090330
-Med    -> Supp    -1.725214
-Phase  -> OD      -1.762859
-
-
-Top unlikely transitions:
-Agit   -> Agit    6.719064
-OD     -> OD      6.323533
-Temp   -> Temp    5.626965
-Med    -> Med     5.518631
-Anti   -> Anti    5.387568
-Air    -> Air     5.306006
-Gtype  -> Gtype   4.649741
-O      -> O       4.602569
-Phase  -> Phase   4.554949
-Gversion -> Gversion 4.497882
-Supp   -> Supp    4.147792
-Technique -> Technique 4.061262
-pH     -> pH      2.238372
-O      -> Supp    1.895496
-Air    -> O       1.750002
-Gtype  -> Supp    1.554366
-Substrain -> Gtype   1.504459
-O      -> Gtype   1.372037
-O      -> Technique 1.353039
-Technique -> Air     0.944695
-O      -> Anti    0.631594
-O      -> Temp    0.503749
-Med    -> O       0.429416
-O      -> Gversion 0.344788
-OD     -> Phase   0.332615
-Temp   -> O       0.259256
-O      -> Med     0.223793
-Gtype  -> Air     0.098960
-Supp   -> O       0.061572
-O      -> Phase   0.048636
-Gtype  -> pH      0.031023
-Phase  -> O       0.028306
-O      -> Strain  0.026662
-OD     -> Air     -0.000013
-Technique -> O       -0.002223
-Technique -> Gtype   -0.072225
-Supp   -> Air     -0.245156
-Technique -> OD      -0.270904
-OD     -> Med     -0.284259
-Gtype  -> Med     -0.389196
-Gtype  -> O       -0.401680
-OD     -> O       -0.570578
-Agit   -> O       -0.633985
-Gtype  -> Anti    -0.634022
-O      -> Air     -0.700283
-Gtype  -> OD      -0.910835
-Supp   -> Med     -0.967944
-Substrain -> O       -1.090330
-Med    -> Supp    -1.725214
-Phase  -> OD      -1.762859
-
-
-Top positive:
-8.837637 Phase    b'lemma:stationary'
-8.799335 Supp     b'lemma:Iron'
-8.611049 O        b'lemma:_'
-7.279883 O        b'lemma:1'
-6.932654 Supp     b'lemma:nitrate'
-6.880712 Air      b'lemma:anaerobic'
-6.848692 Strain   b'lemma:k-12'
-6.839307 Air      b'lemma:aerobic'
-6.789788 Technique b'lemma:ChIP-exo'
-6.727217 Phase    b'lemma:mid-log'
-6.413420 O        b'lemma:rpob'
-5.946980 O        b'lemma:2'
-5.848343 Technique b'lemma:chipseq'
-5.826514 Substrain b'lemma:mg1655'
-5.584982 Supp     b'lemma:pq'
-5.578193 O        b'-1:lemma:tag'
-5.564380 Gtype    b'lemma:\xce\xb4cra'
-5.533718 Air      b'-1:lemma:ChIP-Seq'
-5.522763 Gversion b'lemma:asm584v2'
-5.497653 O        b'lemma:3'
-5.471837 Med      b'lemma:MOPS'
-5.411070 O        b'lemma:\xcf\x8332'
-5.308684 Gtype    b'lemma:type'
-5.245931 O        b'-1:lemma:ChIP-exo'
-5.210520 O        b'lemma:rep1'
-5.173302 Air      b'lemma:Aerobic'
-4.949891 O        b'lemma:rep2'
-4.893059 Med      b'lemma:LB'
-4.891835 O        b'lemma:b'
-4.883141 O        b'postag:IN'
-4.880173 Gtype    b'lemma:flag-tag'
-4.880173 Gtype    b'-1:lemma:c-terminal'
-4.852218 O        b'lemma:rep3'
-4.830297 OD       b'lemma:od600'
-4.826485 Supp     b'lemma:nh4cl'
-4.743281 Technique b'lemma:ChIP-Seq'
-4.722036 O        b'lemma:Custom'
-4.717849 Gversion b'lemma:nc'
-4.701135 Gtype    b'+1:lemma:type'
-4.682123 O        b'postag::'
-4.648660 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.639269 Supp     b'+1:lemma:\xc2\xb5m'
-4.607690 O        b'lemma:a'
-4.570893 Med      b'lemma:lb'
-4.466395 O        b'lemma:Cra'
-4.390246 Supp     b'lemma:glucose'
-4.349340 Gtype    b'lemma:arca8myc'
-4.320335 Gtype    b'lemma:wt'
-4.311807 Gtype    b'lemma:delta-arca'
-4.197474 Technique b'lemma:rna-seq'
-4.168693 O        b'-1:lemma:Aerobic'
-4.160315 Supp     b'lemma:Fe'
-4.109646 Gtype    b'lemma:fnr8myc'
-4.033076 OD       b'lemma:od450'
-3.947930 Gversion b'-1:lemma:nc'
-3.908993 Anti     b'lemma:none'
-3.885757 O        b'-1:lemma:0.3-0.35'
-3.879994 Technique b'lemma:rnaseq'
-3.842850 Supp     b'lemma:dpd'
-3.840223 Supp     b'lemma:rifampicin'
-3.804681 Vess     b'lemma:flask'
-3.804681 Vess     b'-1:lemma:warm'
-3.791974 Supp     b'lemma:no3'
-3.760306 O        b'lemma:.'
-3.760306 O        b'postag:.'
-3.728479 Technique b'lemma:chip-seq'
-3.712550 Gtype    b'lemma:\xe2\x88\x86'
-3.655598 Gtype    b'lemma:delta-fnr'
-3.646988 Supp     b'lemma:acetate'
-3.634096 Gtype    b'lemma:\xce\xb4fur'
-3.586071 Gtype    b'lemma:nsrr'
-3.578964 OD       b'+1:lemma:stationary'
-3.567614 Med      b'+1:lemma:0.4'
-3.480912 Supp     b'+1:lemma:1'
-3.460781 Anti     b'lemma:seqa'
-3.449791 Supp     b'lemma:arginine'
-3.441583 Supp     b'+1:lemma:hour'
-3.432425 O        b'lemma:-'
-3.371367 O        b'+1:lemma:od600'
-3.362556 O        b'-1:lemma:type'
-3.291275 O        b'lemma:or'
-3.273720 O        b'postag:VBN'
-3.265269 Temp     b'-1:lemma:\xcf\x8332'
-3.250448 Supp     b'lemma:fructose'
-3.225849 Gtype    b'+1:lemma:ph5'
-3.222217 Temp     b'-1:lemma:sample'
-3.219063 Med      b'lemma:m63'
-3.216977 O        b'lemma:CEL'
-3.176530 Anti     b'lemma:anti-myc'
-3.146575 O        b'+1:postag:RB'
-3.134788 O        b'-1:lemma:glucose'
-3.125043 Gtype    b'lemma:\xce\xb4ompr'
-3.100972 Strain   b'+1:lemma:substr'
-3.072971 pH       b'lemma:ph5'
-3.072971 pH       b'+1:lemma:.5'
-3.067075 O        b'-1:lemma:0.3'
-3.036857 O        b'lemma:chip'
-3.030617 Supp     b'-1:lemma:Cra'
-3.025659 Gtype    b'+1:lemma:with'
-3.008031 Gversion b'lemma:chip-seq'
-2.994019 Gversion b'lemma:u00096'
-2.994019 Gversion b'+1:lemma:.2'
-2.993336 Supp     b'+1:lemma:2'
-2.990986 Gtype    b'lemma:wild-type'
-2.989694 O        b'-1:lemma:anaerobic'
-2.983685 Anti     b'+1:lemma:antibody'
-2.981744 Technique b'+1:lemma:chip-exo'
-2.956476 Gtype    b'+1:lemma:pq'
-2.936131 Technique b'-1:lemma:IP'
-2.919804 Gtype    b'-1:lemma:ptac'
-2.910451 Med      b'+1:lemma:minimal'
-2.869576 Gversion b'lemma:000913'
-2.862556 O        b'lemma:s'
-2.839985 O        b'lemma:with'
-2.828830 Gtype    b'-1:lemma:rpob'
-2.818885 Anti     b'lemma:anti-rpos'
-2.813806 Gtype    b'+1:lemma:flagtag'
-2.813297 O        b'-1:lemma:lb'
-2.741808 Temp     b'-1:lemma:43'
-2.719888 Supp     b'-1:lemma:+'
-2.682019 Technique b'-1:lemma:chip-exo'
-2.665763 O        b'+1:postag:NNP'
-2.664036 O        b'postag:CC'
-2.648305 Supp     b'lemma:nacl'
-2.635798 Gversion b'lemma:.2'
-2.635798 Gversion b'-1:lemma:u00096'
-2.631519 OD       b'-1:lemma:~'
-2.630404 pH       b'lemma:.5'
-2.630404 pH       b'-1:lemma:ph5'
-2.610537 Temp     b'-1:lemma:37'
-2.585402 O        b'postag:VBG'
-2.582024 O        b'lemma:oxyr'
-2.534944 Gtype    b'lemma:\xce\xb4soxs'
-2.529286 Med      b'lemma:media'
-2.526833 O        b'lemma:for'
-2.522683 Temp     b'lemma:\xc2\xb0c'
-2.517678 O        b'+1:lemma:pq'
-2.481621 O        b'postag:DT'
-2.467547 Air      b'postag:RB'
-2.465592 Supp     b'+1:lemma:_'
-2.465328 Supp     b'-1:lemma:\xc2\xb5m'
-2.462075 Supp     b'lemma:Leu'
-2.457045 Air      b'-1:lemma:-'
-2.398092 Supp     b'lemma:20'
-2.393465 O        b'-1:lemma:l1'
-2.392516 OD       b'lemma:0.3'
-2.388541 O        b'+1:lemma:chip-seq'
-2.372930 O        b'lemma:culture'
-2.354906 Med      b'+1:lemma:2.0'
-2.354774 O        b'lemma:2-3'
-2.346860 O        b'lemma:affyexp'
-2.323757 Technique b'-1:lemma:input'
-2.321220 Gtype    b'lemma:pk4854'
-2.318926 O        b'+1:lemma:o.d.'
-2.307787 Temp     b'lemma:43'
-2.301344 Med      b'+1:lemma:g/l'
-2.300110 Med      b'-1:lemma:ml'
-2.281743 Air      b'lemma:anaerobically'
-2.255382 Gtype    b'lemma:deltaseqa'
-2.255382 Gtype    b'-1:lemma:old'
-2.248647 Temp     b'lemma:37'
-2.228191 O        b'lemma:ompr'
-2.227705 O        b'-1:lemma:\xc2\xb0c'
-2.223375 Supp     b'lemma:Adenine'
-2.216690 Supp     b'lemma:iptg'
-2.192106 Gtype    b'lemma:ptac'
-2.185607 Phase    b'-1:lemma:until'
-2.150538 O        b'-1:lemma:stpa'
-2.139915 Gtype    b'-1:lemma:nsrr'
-2.138681 O        b'+1:lemma:sparging'
-2.124332 Med      b'lemma:L'
-2.124332 Med      b'+1:lemma:broth'
-2.090590 Air      b'lemma:Anaerobic'
-2.084963 O        b'lemma:condition'
-2.083373 Supp     b'lemma:0.2'
-2.071469 O        b'lemma:at'
-2.070008 O        b'+1:lemma:anti-fur'
-2.046312 O        b'lemma:Lrp'
-2.038220 Phase    b'-1:lemma:mid-log'
-2.029113 O        b'lemma:chip-arca'
-2.027744 Supp     b'lemma:methanol'
-2.017925 Technique b'+1:lemma:rna-seq'
-2.017005 Substrain b'+1:lemma:phtpg'
-2.011726 Med      b'lemma:broth'
-2.011726 Med      b'-1:lemma:L'
-1.998337 pH       b'+1:postag:CD'
-1.982325 O        b'lemma:Fur'
-1.968163 Med      b'lemma:glucose'
-1.939193 Gversion b'postag:CD'
-1.930022 Phase    b'+1:postag:NNS'
-1.926820 O        b'lemma:soxs'
-1.926820 O        b'lemma:soxr'
-1.910127 Supp     b'-1:lemma:with'
-1.904564 Air      b'lemma:anerobically'
-1.901117 O        b'lemma:genotype/variation'
-1.899206 Gtype    b'+1:lemma:_'
-1.889629 Gtype    b'lemma:WT'
-1.854673 Phase    b'+1:lemma:for'
-1.839203 Temp     b'-1:lemma:30'
-1.838657 Temp     b'+1:lemma:\xc2\xb0c'
-
-
-Top negative:
-0.009154 Gtype    b'-1:lemma:small'
-0.008958 O        b'-1:lemma:concentration'
-0.008958 O        b'+1:lemma:150'
-0.008749 Supp     b'+1:lemma:%'
-0.008295 Gtype    b'-1:postag:IN'
-0.007225 Temp     b'-1:postag:NN'
-0.007001 O        b'+1:lemma:dpd'
-0.006253 O        b'-1:lemma:to'
-0.006253 O        b'-1:postag:TO'
-0.005971 O        b'lemma:25'
-0.005588 Supp     b'-1:postag:VBN'
-0.005564 Supp     b'postag:NNP'
-0.005481 Vess     b'+1:postag:IN'
-0.005374 Med      b'-1:lemma:w2'
-0.005034 Med      b'-1:lemma:2'
-0.004923 Phase    b'+1:lemma:aerobically'
-0.004818 Air      b'-1:lemma:-lrb-'
-0.004778 Phase    b'+1:postag:RB'
-0.002918 Supp     b'+1:lemma:dpd'
-0.001853 Supp     b'-1:postag:NN'
-0.001254 O        b'-1:lemma:25'
-0.001130 O        b'+1:lemma:minute'
-0.000839 Supp     b'lemma:2'
-0.000645 O        b'lemma:250'
-0.000633 O        b'+1:lemma:use'
-0.000599 OD       b'+1:lemma:-rrb-'
-0.000522 Gtype    b'postag::'
-0.000521 O        b'lemma:contain'
-0.000301 Air      b'postag:CC'
-0.000277 O        b'-1:postag:DT'
-0.000223 Air      b'-1:lemma:and'
-0.000188 O        b'-1:lemma:Iron'
-0.000172 Technique b'+1:lemma:-rrb-'
-0.000156 O        b'+1:lemma:um'
-0.000120 Technique b'+1:postag:-RRB-'
-0.000082 O        b'lemma:fresh'
-0.000007 O        b'-1:lemma:chip'
-0.000004 Technique b'-1:postag:NN'
-0.000004 Gtype    b'lemma:input'
-0.000002 Supp     b'+1:lemma:feso4'
--0.000001 Supp     b'+1:lemma:-rrb-'
--0.000002 Supp     b'+1:postag:-RRB-'
--0.000013 O        b'+1:lemma:95'
--0.000014 Gtype    b'+1:postag:NNS'
--0.000015 OD       b'+1:postag:-LRB-'
--0.000019 Gtype    b'postag:CD'
--0.000030 O        b'lemma:purify'
--0.000053 O        b'lemma:10'
--0.000099 O        b'lemma:\xe2\x88\x86'
--0.000279 Temp     b'postag:JJ'
--0.000305 O        b'+1:lemma:0.4'
--0.000901 O        b'-1:lemma:iptg'
--0.002039 OD       b'+1:postag:NNS'
--0.002046 O        b'+1:lemma:mm'
--0.002243 O        b'-1:lemma:the'
--0.003015 O        b'-1:lemma:with'
--0.004660 Technique b'-1:lemma::'
--0.005024 OD       b'+1:lemma:of'
--0.006171 O        b'+1:postag:CD'
--0.006255 Air      b'+1:postag:-LRB-'
--0.006748 O        b'+1:lemma:rep1'
--0.009757 O        b'-1:lemma:g/l'
--0.010305 OD       b'lemma:~'
--0.012303 Air      b'+1:lemma:-lrb-'
--0.014317 O        b'+1:lemma:25'
--0.017635 O        b'lemma:lb'
--0.020425 O        b'-1:postag:VBN'
--0.020857 Air      b'-1:lemma:70'
--0.021641 OD       b'+1:postag:CD'
--0.026926 Anti     b'+1:postag:JJ'
--0.030050 O        b'-1:lemma:rifampicin'
--0.030184 O        b'+1:lemma:o2'
--0.033398 O        b'+1:lemma:grow'
--0.034272 O        b'lemma:o2'
--0.038973 O        b'lemma:medium'
--0.041512 O        b'+1:lemma:phase'
--0.047966 O        b'+1:lemma:300'
--0.051332 O        b'-1:lemma:mm'
--0.052636 O        b'lemma:e.'
--0.055634 Med      b'postag:CD'
--0.055801 Phase    b'+1:postag:NN'
--0.062955 Air      b'-1:postag:CC'
--0.065091 O        b'-1:lemma:o2'
--0.065456 OD       b'+1:lemma:and'
--0.079195 OD       b'+1:lemma:0.4'
--0.085840 Med      b'+1:postag:NN'
--0.089782 Gversion b'+1:postag:NN'
--0.090118 O        b'-1:lemma:e.'
--0.091747 O        b'+1:lemma:shake'
--0.096366 O        b'+1:lemma:5'
--0.104686 OD       b'postag:JJ'
--0.110082 O        b'+1:lemma:-rrb-'
--0.117489 Phase    b'-1:postag:NN'
--0.118330 Gtype    b'-1:postag:CD'
--0.123321 Air      b'-1:lemma:or'
--0.125308 O        b'lemma:co2'
--0.126112 Air      b'postag:CD'
--0.127371 O        b'-1:lemma:from'
--0.128004 Supp     b'lemma:and'
--0.138630 Med      b'+1:postag:IN'
--0.140700 OD       b'+1:postag:CC'
--0.141775 Med      b'-1:postag:NN'
--0.143861 O        b'lemma:grow'
--0.147202 O        b'-1:lemma:um'
--0.147202 O        b'+1:lemma:paraquat'
--0.151027 O        b'-1:postag:IN'
--0.151499 Gtype    b'-1:postag:NN'
--0.158428 Supp     b'+1:lemma:rifampicin'
--0.162488 O        b'-1:lemma:30'
--0.173747 O        b'-1:lemma:1'
--0.185340 O        b'-1:lemma:0.1'
--0.197510 O        b'lemma:anaerobic'
--0.202853 Supp     b'postag:CC'
--0.212861 O        b'-1:lemma:-lrb-'
--0.215175 O        b'-1:lemma:cra'
--0.224143 Supp     b'+1:postag:VBN'
--0.230836 O        b'-1:lemma:of'
--0.240457 O        b'lemma:aerobically'
--0.244805 O        b'+1:postag:IN'
--0.254690 Phase    b'-1:lemma:at'
--0.255175 Temp     b'postag:NN'
--0.261806 O        b'+1:postag:NNS'
--0.267878 pH       b'postag:NN'
--0.269047 O        b'postag:VBP'
--0.270124 O        b'lemma:150'
--0.270124 O        b'+1:lemma:mg/ml'
--0.276353 O        b'+1:lemma:until'
--0.286173 O        b'+1:lemma:.'
--0.286173 O        b'+1:postag:.'
--0.305770 O        b'+1:lemma:%'
--0.305965 O        b'-1:lemma:ml'
--0.324166 O        b'lemma:media'
--0.339524 O        b'lemma:phase'
--0.352773 O        b'+1:lemma:arginine'
--0.363361 O        b'lemma:\xce\xb4fur'
--0.388894 O        b'lemma:dissolve'
--0.389770 O        b'-1:postag:-LRB-'
--0.397946 O        b'-1:lemma:mid-log'
--0.420065 O        b'-1:lemma:~'
--0.440463 O        b'+1:lemma:0.3'
--0.449972 O        b'-1:lemma:od600'
--0.451810 O        b'+1:postag:-RRB-'
--0.452722 Temp     b'+1:lemma:to'
--0.452722 Temp     b'+1:postag:TO'
--0.483420 OD       b'+1:postag:NN'
--0.485997 Phase    b'-1:postag:JJ'
--0.497094 O        b'-1:lemma:0.2'
--0.501676 O        b'lemma:od600'
--0.531049 O        b'lemma:20'
--0.559644 O        b'-1:lemma:grow'
--0.580617 O        b'+1:lemma:\xc2\xb0c'
--0.620523 Technique b'-1:postag::'
--0.630289 O        b'lemma:0.3'
--0.679102 Supp     b'-1:lemma:%'
--0.685275 O        b'lemma:anaerobically'
--0.715057 OD       b'lemma:-lrb-'
--0.717401 O        b'+1:lemma:fecl2'
--0.759134 O        b'-1:lemma:37'
--0.770187 Air      b'-1:postag:JJ'
--0.786415 O        b'lemma:0.2'
--0.821217 O        b'+1:postag:VBG'
--0.822213 O        b'lemma:37'
--0.824982 O        b'+1:lemma:supplement'
--0.842762 O        b'-1:lemma:sample'
--0.857711 Supp     b'+1:lemma:acetate'
--0.859301 O        b'+1:lemma:cell'
--0.865248 O        b'lemma:fecl2'
--0.895821 OD       b'postag:-LRB-'
--0.909763 O        b'-1:postag:VBG'
--0.924925 O        b'lemma:of'
--0.938966 O        b'+1:lemma:hour'
--0.948215 O        b'lemma:2h'
--0.948215 O        b'-1:lemma:additional'
--1.035032 O        b'-1:lemma:co2'
--1.038239 O        b'-1:lemma:rpob'
--1.049551 O        b'-1:lemma:dissolve'
--1.049551 O        b'+1:lemma:methanol'
--1.057377 O        b'-1:postag::'
--1.072361 O        b'lemma:mid-log'
--1.076264 O        b'lemma:0.1'
--1.182064 O        b'+1:lemma:+'
--1.269769 O        b'+1:lemma:g/l'
--1.341512 O        b'+1:lemma:at'
--1.349849 O        b'-1:lemma:IP'
--1.412012 Air      b'+1:postag:JJ'
--1.427656 O        b'-1:lemma:ompr'
--1.459404 O        b'lemma:wt'
--1.465487 Anti     b'postag:NNP'
--1.539253 O        b'lemma:rifampicin'
--1.604435 O        b'lemma:methanol'
--1.624731 Supp     b'postag:JJ'
--1.646056 O        b'-1:lemma:nsrr'
--1.650493 Air      b'postag:NN'
--1.947720 O        b'+1:lemma:in'
--1.988778 O        b'+1:lemma:2'
--2.105490 O        b'+1:lemma:1'
--2.188210 O        b'-1:lemma:2'
--2.454354 Phase    b'postag:JJ'
--4.082146 O        b'-1:lemma::'
--4.315245 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.004866974423027767, 'c2': 0.056472219713063834}
-best CV score:0.7979749356861161
-model size: 0.13M
-
-Flat F1: 0.788756583016598
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.891     0.860     0.875        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.862     0.764     0.810       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.865     0.662     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.876     0.735     0.789       480
-
-
-Top likely transitions:
-OD     -> OD      5.351049
-Med    -> Med     4.871670
-Temp   -> Temp    4.705964
-Air    -> Air     4.663634
-Anti   -> Anti    4.552648
-Agit   -> Agit    4.406608
-O      -> O       4.159955
-Gversion -> Gversion 4.029197
-Phase  -> Phase   3.961410
-Gtype  -> Gtype   3.736759
-Supp   -> Supp    3.715319
-Technique -> Technique 2.638663
-pH     -> pH      2.247503
-O      -> Supp    1.602461
-Substrain -> Gtype   1.572374
-Gtype  -> Supp    1.509554
-Air    -> O       1.254615
-Technique -> Air     1.032953
-O      -> Gtype   1.031819
-O      -> Technique 0.950111
-Gtype  -> pH      0.787931
-O      -> Temp    0.697463
-O      -> Anti    0.689482
-Gtype  -> Air     0.553152
-Med    -> O       0.452122
-O      -> Strain  0.249152
-O      -> pH      0.230580
-OD     -> Phase   0.217826
-Phase  -> O       0.176822
-O      -> Vess    0.163152
-O      -> Gversion 0.124767
-Supp   -> O       0.087651
-Temp   -> O       0.034867
-Strain -> Substrain -0.000001
-Substrain -> Phase   -0.000221
-Strain -> Gversion -0.003698
-Vess   -> Technique -0.004821
-Temp   -> Substrain -0.012876
-Agit   -> Gversion -0.014323
-Temp   -> Strain  -0.014360
-Temp   -> Vess    -0.017410
-Substrain -> Med     -0.018817
-pH     -> Agit    -0.019211
-Med    -> Agit    -0.020010
-Gversion -> Agit    -0.021113
-Phase  -> Vess    -0.022758
-O      -> Phase   -0.024164
-Med    -> Strain  -0.025997
-pH     -> Phase   -0.028833
-pH     -> Anti    -0.029581
-
-
-Top unlikely transitions:
-Technique -> Med     -0.461151
-O      -> Agit    -0.476494
-Gtype  -> Temp    -0.480794
-Technique -> O       -0.518387
-Gtype  -> Phase   -0.520282
-Air    -> Temp    -0.525360
-Gversion -> Technique -0.535188
-Air    -> Gtype   -0.543291
-Anti   -> Gtype   -0.553848
-Technique -> Gversion -0.562140
-OD     -> Anti    -0.571138
-Gversion -> Air     -0.589331
-OD     -> Temp    -0.589841
-Anti   -> OD      -0.591125
-Supp   -> pH      -0.600581
-Supp   -> Phase   -0.607554
-Med    -> Air     -0.627218
-OD     -> Supp    -0.663510
-Air    -> Supp    -0.665817
-OD     -> Technique -0.667134
-Air    -> Med     -0.686105
-Gtype  -> Technique -0.710838
-Air    -> OD      -0.743300
-Technique -> Supp    -0.744356
-Phase  -> Technique -0.789682
-Temp   -> Med     -0.799451
-Supp   -> Anti    -0.809910
-Supp   -> Temp    -0.821276
-OD     -> Med     -0.825536
-Gtype  -> Gversion -0.857454
-Supp   -> OD      -0.882092
-Supp   -> Technique -0.895485
-Supp   -> Air     -0.917425
-O      -> Air     -0.919505
-Supp   -> Gversion -0.925617
-Gtype  -> Med     -0.929322
-Supp   -> Gtype   -0.987028
-OD     -> Gtype   -0.992669
-Gtype  -> Anti    -1.017609
-Agit   -> O       -1.031217
-Gtype  -> OD      -1.100242
-OD     -> O       -1.178810
-Substrain -> O       -1.224261
-OD     -> Air     -1.229479
-Supp   -> Med     -1.270572
-Technique -> OD      -1.299192
-Technique -> Gtype   -1.368938
-Technique -> pH      -1.381051
-Med    -> Supp    -1.415487
-Phase  -> OD      -1.647415
-
-
-Top positive:
-6.440045 O        b'lemma:_'
-5.284742 O        b'lemma:1'
-4.692157 Air      b'lemma:anaerobic'
-4.658957 O        b'lemma:2'
-4.619385 Technique b'lemma:ChIP-exo'
-4.561015 Strain   b'lemma:k-12'
-4.494705 Supp     b'lemma:Iron'
-4.430737 Technique b'lemma:chipseq'
-4.213284 O        b'lemma:rpob'
-4.193080 Air      b'lemma:aerobic'
-4.127725 Phase    b'lemma:stationary'
-4.112519 Supp     b'lemma:pq'
-4.107025 Supp     b'lemma:nh4cl'
-4.068762 O        b'postag:IN'
-3.990976 Supp     b'lemma:glucose'
-3.981614 O        b'lemma:3'
-3.895423 O        b'lemma:rep1'
-3.893328 Gtype    b'lemma:arca8myc'
-3.831178 Gtype    b'lemma:wt'
-3.766316 Gtype    b'lemma:flag-tag'
-3.766316 Gtype    b'-1:lemma:c-terminal'
-3.741501 Gtype    b'lemma:\xce\xb4cra'
-3.650417 Phase    b'lemma:mid-log'
-3.632631 O        b'lemma:rep2'
-3.630470 Substrain b'lemma:mg1655'
-3.547965 Gversion b'lemma:asm584v2'
-3.532543 Supp     b'lemma:acetate'
-3.517907 O        b'lemma:Cra'
-3.498084 Air      b'-1:lemma:ChIP-Seq'
-3.480891 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.424575 Supp     b'lemma:no3'
-3.422537 Supp     b'+1:lemma:\xc2\xb5m'
-3.363386 Supp     b'lemma:nitrate'
-3.346533 O        b'lemma:b'
-3.329553 O        b'-1:lemma:tag'
-3.312533 O        b'lemma:rep3'
-3.288138 O        b'postag::'
-3.274111 O        b'lemma:a'
-3.231297 Technique b'lemma:rna-seq'
-3.218715 O        b'lemma:.'
-3.218715 O        b'postag:.'
-3.215008 Gtype    b'lemma:delta-arca'
-3.202775 Supp     b'lemma:Fe'
-3.165237 Gtype    b'lemma:fnr8myc'
-3.155991 Air      b'lemma:Aerobic'
-3.133804 Supp     b'lemma:dpd'
-3.090343 Med      b'lemma:LB'
-3.073422 Technique b'lemma:chip-seq'
-3.060962 Med      b'lemma:lb'
-3.050123 O        b'postag:VBN'
-3.028391 Med      b'lemma:MOPS'
-3.017487 O        b'+1:postag:RB'
-2.979906 Anti     b'lemma:none'
-2.978981 O        b'-1:lemma:Aerobic'
-2.962117 Supp     b'lemma:fructose'
-2.953345 O        b'lemma:\xcf\x8332'
-2.890455 Anti     b'lemma:seqa'
-2.860514 O        b'-1:lemma:ChIP-exo'
-2.856286 Gtype    b'lemma:\xe2\x88\x86'
-2.827313 O        b'lemma:CEL'
-2.783360 Technique b'lemma:rnaseq'
-2.775420 Med      b'+1:lemma:0.4'
-2.774305 OD       b'lemma:od600'
-2.753373 O        b'lemma:-'
-2.742915 Supp     b'lemma:rifampicin'
-2.675772 Gtype    b'lemma:delta-fnr'
-2.630113 Supp     b'+1:lemma:1'
-2.629618 Supp     b'+1:lemma:Deficient'
-2.620392 Vess     b'lemma:flask'
-2.620392 Vess     b'-1:lemma:warm'
-2.618241 O        b'lemma:affyexp'
-2.609048 pH       b'lemma:ph5'
-2.609048 pH       b'+1:lemma:.5'
-2.605367 Temp     b'lemma:\xc2\xb0c'
-2.605338 Gtype    b'+1:lemma:type'
-2.604381 Gtype    b'lemma:\xce\xb4fur'
-2.603271 Air      b'postag:RB'
-2.594594 Gtype    b'+1:lemma:with'
-2.582369 O        b'lemma:Custom'
-2.567820 Gtype    b'lemma:type'
-2.567689 Gversion b'lemma:nc'
-2.557861 Supp     b'-1:lemma:Cra'
-2.552038 OD       b'lemma:od450'
-2.550932 Gtype    b'lemma:nsrr'
-2.550177 Gversion b'lemma:chip-seq'
-2.524549 O        b'+1:lemma:od600'
-2.502467 O        b'-1:lemma:glucose'
-2.498403 Gtype    b'lemma:wild-type'
-2.496663 Supp     b'lemma:arginine'
-2.495738 Supp     b'+1:lemma:_'
-2.483625 O        b'lemma:chip-arca'
-2.479625 O        b'lemma:with'
-2.455411 Supp     b'+1:lemma:2'
-2.454463 Gtype    b'lemma:WT'
-2.388316 O        b'-1:lemma:stpa'
-2.376289 O        b'lemma:s'
-2.368051 Phase    b'-1:lemma:mid-log'
-2.360684 Technique b'lemma:ChIP-Seq'
-2.349033 O        b'lemma:argr'
-2.347947 Strain   b'+1:lemma:substr'
-2.329446 O        b'lemma:oxyr'
-2.326483 Gversion b'lemma:u00096'
-2.326483 Gversion b'+1:lemma:.2'
-2.322186 O        b'-1:lemma:anaerobic'
-2.319676 Anti     b'lemma:anti-myc'
-2.310676 Gversion b'lemma:.2'
-2.310676 Gversion b'-1:lemma:u00096'
-2.309895 Gtype    b'lemma:\xce\xb4soxs'
-2.304666 O        b'-1:lemma:lb'
-2.286012 Gversion b'-1:lemma:nc'
-2.283995 Med      b'+1:lemma:2.0'
-2.263722 Gtype    b'-1:lemma:ptac'
-2.251060 Technique b'-1:lemma:IP'
-2.241105 O        b'postag:CC'
-2.233213 O        b'postag:SYM'
-2.228846 Air      b'lemma:Anaerobic'
-2.221020 O        b'+1:lemma:pq'
-2.217171 O        b'lemma:purr'
-2.215541 Med      b'lemma:m63'
-2.210660 Gversion b'lemma:000913'
-2.208620 Phase    b'lemma:phase'
-2.200256 Air      b'lemma:anaerobically'
-2.160285 Supp     b'lemma:nacl'
-2.159816 O        b'lemma:Lrp'
-2.146260 O        b'+1:lemma:anti-fur'
-2.142375 Gtype    b'+1:lemma:pq'
-2.137685 O        b'lemma:ompr'
-2.137493 O        b'-1:lemma:0.3-0.35'
-2.135033 pH       b'+1:postag:CD'
-2.132965 Gtype    b'+1:lemma:flagtag'
-2.132516 Air      b'-1:lemma:-'
-2.129831 O        b'lemma:or'
-2.127593 Air      b'-1:postag::'
-2.100892 Technique b'postag:NNP'
-2.095024 Air      b'-1:lemma:_'
-2.079808 Gtype    b'lemma:ptac'
-2.078817 Med      b'postag:NNP'
-2.065995 Supp     b'lemma:Leu'
-2.045237 O        b'lemma:chip'
-2.027925 Temp     b'lemma:43'
-2.022011 Gtype    b'lemma:\xce\xb4ompr'
-2.015716 Supp     b'-1:lemma:+'
-2.010073 Substrain b'+1:lemma:phtpg'
-2.008340 Temp     b'-1:lemma:37'
-2.004601 Temp     b'-1:lemma:43'
-1.996465 Gtype    b'lemma:deltaseqa'
-1.996465 Gtype    b'-1:lemma:old'
-1.991818 Anti     b'+1:lemma:antibody'
-1.986009 Gtype    b'lemma:pk4854'
-1.981713 Technique b'-1:lemma:input'
-1.981625 Med      b'+1:lemma:+'
-1.979648 Gtype    b'-1:lemma:rpob'
-1.974870 Gtype    b'-1:lemma:_'
-1.973288 O        b'lemma:chip-fnr'
-1.969889 Temp     b'+1:lemma:\xc2\xb0c'
-1.968489 O        b'-1:lemma:type'
-1.959681 Supp     b'lemma:iptg'
-1.950150 Gtype    b'+1:lemma:_'
-1.947863 Supp     b'lemma:Adenine'
-1.947687 Technique b'-1:lemma:chip-exo'
-1.941978 Anti     b'lemma:anti-rpos'
-1.937288 Med      b'-1:lemma:ml'
-1.924562 Gtype    b'+1:lemma:aerobic'
-1.924487 Phase    b'+1:lemma:for'
-1.922675 O        b'postag:DT'
-1.914419 Supp     b'+1:lemma:hour'
-1.913395 O        b'+1:lemma:43'
-1.912727 O        b'lemma:Fur'
-1.876476 O        b'lemma:genotype/variation'
-1.869806 Supp     b'-1:lemma:\xc2\xb5m'
-1.868961 O        b'+1:lemma:mid-log'
-1.867289 O        b'+1:lemma:chip-seq'
-1.863790 Supp     b'lemma:methanol'
-1.861757 Supp     b'lemma:20'
-1.857902 Supp     b'-1:lemma:with'
-1.856991 OD       b'+1:lemma:stationary'
-1.852369 Temp     b'-1:lemma:sample'
-1.848158 Gversion b'+1:lemma:000913'
-1.846987 Gtype    b'-1:lemma:nsrr'
-1.845305 O        b'lemma:for'
-1.843025 Technique b'+1:lemma:chip-exo'
-1.842623 O        b'postag:VBG'
-1.827664 Gversion b'postag:CD'
-1.820283 O        b'lemma:soxs'
-1.820283 O        b'lemma:soxr'
-1.820233 Gtype    b'+1:lemma:ph5'
-1.815561 Supp     b'+1:lemma:respiratory'
-1.810671 O        b'lemma:culture'
-1.809579 pH       b'lemma:.5'
-1.809579 pH       b'-1:lemma:ph5'
-1.802708 Gtype    b'lemma:\xce\xb4oxyr'
-1.802434 Temp     b'lemma:37'
-1.802103 Med      b'+1:lemma:minimal'
-1.788823 Gtype    b'lemma:\xce\xb4soxr'
-1.787884 Supp     b'+1:lemma:deficient'
-1.781577 O        b'lemma:at'
-1.774963 O        b'lemma:pt7'
-1.766232 Vess     b'-1:postag:VBN'
-1.758278 Gversion b'lemma:_'
-1.754083 Supp     b'+1:lemma:and'
-
-
-Top negative:
--0.165340 O        b'-1:lemma:with'
--0.170223 Phase    b'+1:postag:NN'
--0.171143 Med      b'-1:lemma:MOPS'
--0.171691 O        b'lemma:co2'
--0.172496 O        b'+1:lemma:antibody'
--0.173573 O        b'-1:lemma:control'
--0.175923 O        b'-1:postag:-LRB-'
--0.178273 O        b'+1:lemma:purify'
--0.178964 Gtype    b'+1:lemma:1'
--0.179388 O        b'lemma:medium'
--0.190175 Gtype    b'+1:lemma:-lrb-'
--0.193476 Anti     b'+1:postag:JJ'
--0.194108 O        b'+1:lemma:2.0'
--0.195669 O        b'lemma:n2'
--0.198645 O        b'-1:lemma:300'
--0.201659 O        b'-1:lemma:of'
--0.210827 O        b'lemma:aerobically'
--0.216287 O        b'+1:lemma:pahse'
--0.216954 Gtype    b'+1:lemma:2'
--0.222719 Technique b'-1:lemma::'
--0.225921 Gtype    b'lemma:rna'
--0.227807 O        b'+1:lemma:sample'
--0.229277 Gtype    b'+1:postag:NNS'
--0.232261 O        b'-1:lemma:n2'
--0.233570 Gtype    b'-1:lemma:-'
--0.237526 OD       b'+1:lemma:in'
--0.240536 Gtype    b'lemma:control'
--0.242225 Phase    b'-1:postag:NN'
--0.252367 O        b'-1:lemma:delta'
--0.255317 O        b'-1:postag:VBP'
--0.255936 O        b'-1:lemma:rna'
--0.260735 Gtype    b'postag:NNS'
--0.263059 O        b'-1:lemma:e.'
--0.265319 O        b'+1:lemma:from'
--0.273429 O        b'-1:lemma:minimal'
--0.276572 O        b'lemma:e.'
--0.276704 Gtype    b'-1:lemma:,'
--0.276704 Gtype    b'-1:postag:,'
--0.279370 O        b'postag:RB'
--0.280295 O        b'-1:lemma:grow'
--0.282926 O        b'+1:lemma:mg1655'
--0.288333 O        b'lemma:10'
--0.289288 O        b'lemma:pahse'
--0.291441 Gtype    b'+1:lemma:cra'
--0.295834 Air      b'postag:CD'
--0.300317 O        b'lemma:nacl'
--0.302273 Supp     b'+1:postag:IN'
--0.304479 O        b'lemma:30'
--0.305051 O        b'-1:lemma:purify'
--0.306221 OD       b'+1:lemma:0.4'
--0.306561 OD       b'+1:lemma:and'
--0.315073 Supp     b'lemma:and'
--0.317269 O        b'-1:lemma:0.1'
--0.320606 O        b'+1:lemma:delta'
--0.324445 O        b'+1:lemma:%'
--0.328680 O        b'+1:lemma:or'
--0.335995 Gtype    b'lemma:ompr'
--0.337994 Med      b'postag:CD'
--0.339794 O        b'+1:lemma:-lcb-'
--0.341876 O        b'+1:postag:-RRB-'
--0.348075 OD       b'+1:postag:CC'
--0.350623 O        b'+1:lemma:strain'
--0.351953 O        b'-1:lemma:mm'
--0.354366 Med      b'+1:postag:NN'
--0.359119 Gtype    b'+1:lemma:a'
--0.368580 Med      b'-1:postag:CD'
--0.369042 O        b'-1:lemma:mid-log'
--0.369832 O        b'+1:lemma:phase'
--0.374612 O        b'-1:lemma:um'
--0.374612 O        b'+1:lemma:paraquat'
--0.378047 Gtype    b'-1:postag:CD'
--0.378990 O        b'lemma:\xc2\xb0c'
--0.382063 O        b'+1:lemma:cell'
--0.383941 O        b'lemma:minimal'
--0.383980 Temp     b'postag:JJ'
--0.384553 O        b'+1:lemma:dissolve'
--0.390868 O        b'+1:lemma:until'
--0.397770 Technique b'-1:postag::'
--0.403782 O        b'+1:postag:IN'
--0.420663 Supp     b'+1:lemma:glucose'
--0.421882 O        b'-1:lemma:fresh'
--0.423208 O        b'-1:lemma:iptg'
--0.425203 O        b'lemma:8'
--0.425322 O        b'lemma:phase'
--0.426379 Gtype    b'+1:lemma:b'
--0.436102 O        b'+1:lemma:shake'
--0.441221 O        b'-1:lemma:rifampicin'
--0.444583 Air      b'-1:lemma:or'
--0.447161 Supp     b'-1:postag:VBG'
--0.448411 Med      b'+1:postag:NNS'
--0.460422 O        b'-1:lemma:affinity'
--0.461216 Supp     b'+1:postag:VBN'
--0.467958 O        b'-1:lemma:cra'
--0.469465 O        b'+1:lemma:minimal'
--0.469624 Supp     b'-1:lemma:%'
--0.477155 O        b'-1:lemma:20'
--0.479874 O        b'lemma:of'
--0.505244 O        b'lemma:glucose'
--0.508080 O        b'-1:lemma:from'
--0.508329 Phase    b'postag:JJ'
--0.519825 O        b'lemma:mg1655'
--0.520316 O        b'+1:lemma:0.4'
--0.531961 Gtype    b'lemma:_'
--0.540846 O        b'lemma:dissolve'
--0.541927 Temp     b'+1:lemma:to'
--0.541927 Temp     b'+1:postag:TO'
--0.543538 OD       b'+1:lemma:mid-log'
--0.554268 Phase    b'-1:lemma:at'
--0.567076 O        b'lemma:150'
--0.567076 O        b'+1:lemma:mg/ml'
--0.586115 O        b'+1:lemma:Aerobic'
--0.590065 OD       b'+1:postag:NN'
--0.591060 O        b'+1:lemma:b'
--0.601984 OD       b'lemma:-lrb-'
--0.602651 O        b'-1:lemma:30'
--0.610779 Gtype    b'-1:postag:SYM'
--0.611922 O        b'-1:lemma:chip-exo'
--0.624890 pH       b'postag:NN'
--0.628877 Supp     b'postag:CC'
--0.642872 O        b'lemma:lb'
--0.645246 O        b'+1:lemma:rep1'
--0.646910 O        b'+1:postag:NNS'
--0.648451 Gtype    b'-1:postag:DT'
--0.656497 O        b'+1:lemma:c'
--0.671297 Temp     b'-1:lemma:\xc2\xb0c'
--0.672555 Supp     b'+1:lemma:rifampicin'
--0.675146 Med      b'+1:postag:IN'
--0.684210 OD       b'postag:-LRB-'
--0.690268 O        b'lemma:m63'
--0.692418 O        b'lemma:purify'
--0.711910 O        b'-1:lemma:g/l'
--0.714120 O        b'+1:lemma:300'
--0.719637 O        b'+1:lemma:arginine'
--0.720246 Temp     b'postag:NN'
--0.723885 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.729214 O        b'-1:lemma:until'
--0.731048 O        b'+1:lemma:fecl2'
--0.733838 O        b'-1:lemma:1'
--0.754956 O        b'+1:lemma:\xc2\xb0c'
--0.760036 O        b'-1:lemma:od600'
--0.785671 Anti     b'+1:lemma:anti-fur'
--0.789666 OD       b'postag:JJ'
--0.822362 O        b'lemma:dpd'
--0.825176 O        b'-1:lemma:o2'
--0.856382 O        b'-1:lemma:~'
--0.858874 O        b'lemma:od600'
--0.861229 O        b'+1:lemma:0.3'
--0.867648 O        b'lemma:media'
--0.877526 O        b'+1:lemma:in'
--0.899345 O        b'+1:lemma:at'
--0.903562 Gtype    b'lemma:delta'
--0.909951 O        b'-1:lemma:0.2'
--0.924018 O        b'-1:lemma:\xe2\x88\x86'
--0.936952 Phase    b'-1:postag:JJ'
--0.937687 O        b'lemma:anaerobically'
--0.958929 O        b'lemma:0.3'
--0.977286 Air      b'-1:postag:JJ'
--0.979403 O        b'lemma:20'
--0.989887 O        b'lemma:0.1'
--1.003141 O        b'lemma:mid-log'
--1.016700 Supp     b'+1:lemma:acetate'
--1.042214 O        b'lemma:2h'
--1.042214 O        b'-1:lemma:additional'
--1.072377 O        b'+1:postag:VBG'
--1.075398 O        b'-1:lemma:dissolve'
--1.075398 O        b'+1:lemma:methanol'
--1.082645 O        b'+1:lemma:g/l'
--1.096557 O        b'lemma:anaerobic'
--1.126451 O        b'lemma:0.2'
--1.166660 O        b'lemma:\xe2\x88\x86'
--1.172209 O        b'lemma:fecl2'
--1.173636 O        b'+1:lemma:supplement'
--1.193870 O        b'-1:postag:VBG'
--1.194541 O        b'-1:lemma:ompr'
--1.232022 O        b'lemma:k-12'
--1.253980 O        b'lemma:\xce\xb4fur'
--1.288532 O        b'-1:lemma:ml'
--1.301101 O        b'postag:VBP'
--1.312157 O        b'-1:lemma:co2'
--1.347620 O        b'-1:lemma:rpob'
--1.379029 O        b'-1:postag::'
--1.416689 Supp     b'postag:JJ'
--1.422574 O        b'-1:lemma:37'
--1.454115 O        b'-1:lemma:sample'
--1.461328 O        b'lemma:37'
--1.464702 Anti     b'postag:NNP'
--1.488429 Air      b'+1:postag:JJ'
--1.542774 O        b'lemma:rifampicin'
--1.620387 O        b'-1:lemma:2'
--1.621084 O        b'lemma:wt'
--1.634867 Air      b'postag:NN'
--1.635440 O        b'-1:lemma:IP'
--1.705295 O        b'lemma:methanol'
--1.742392 O        b'+1:lemma:+'
--1.747036 O        b'-1:lemma:nsrr'
--1.856713 O        b'+1:lemma:hour'
--1.966783 O        b'+1:lemma:2'
--2.387888 O        b'+1:lemma:1'
--2.893303 O        b'-1:lemma::'
--2.945684 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.29457600411613616, 'c2': 0.0017589762043383245}
-best CV score:0.8078796055237475
-model size: 0.05M
-
-Flat F1: 0.7794612343667667
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      1.000     0.737     0.848        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.780     0.742     0.760        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.848     0.792     0.820       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.796     0.662     0.723       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.861     0.727     0.779       480
-
-
-Top likely transitions:
-OD     -> OD      6.390430
-Agit   -> Agit    6.117830
-Temp   -> Temp    5.690422
-Anti   -> Anti    5.526528
-Med    -> Med     5.389776
-Gtype  -> Gtype   5.136395
-Air    -> Air     4.861639
-Gversion -> Gversion 4.681583
-Technique -> Technique 4.547400
-O      -> O       4.328164
-Supp   -> Supp    4.275170
-Phase  -> Phase   3.947478
-O      -> Supp    2.168179
-Gtype  -> Supp    2.126815
-pH     -> pH      1.951624
-O      -> Technique 1.752428
-O      -> Gtype   1.686100
-Air    -> O       1.391236
-Substrain -> Gtype   0.941140
-O      -> Anti    0.799854
-Med    -> O       0.671251
-O      -> Temp    0.557904
-O      -> Gversion 0.509095
-Technique -> Air     0.285589
-Gtype  -> pH      0.187722
-Temp   -> O       0.127072
-Supp   -> O       0.081093
-O      -> OD      0.056972
-Gtype  -> Air     0.021236
-O      -> Med     0.002225
-OD     -> Phase   0.001636
-OD     -> Med     -0.056726
-Technique -> O       -0.084720
-Gtype  -> Anti    -0.290184
-Gtype  -> O       -0.349078
-Gtype  -> OD      -0.351477
-OD     -> O       -0.547705
-O      -> Air     -0.672320
-Supp   -> Med     -0.757781
-Substrain -> O       -0.945716
-Phase  -> OD      -0.974380
-Agit   -> O       -1.057441
-Med    -> Supp    -1.117202
-
-
-Top unlikely transitions:
-OD     -> OD      6.390430
-Agit   -> Agit    6.117830
-Temp   -> Temp    5.690422
-Anti   -> Anti    5.526528
-Med    -> Med     5.389776
-Gtype  -> Gtype   5.136395
-Air    -> Air     4.861639
-Gversion -> Gversion 4.681583
-Technique -> Technique 4.547400
-O      -> O       4.328164
-Supp   -> Supp    4.275170
-Phase  -> Phase   3.947478
-O      -> Supp    2.168179
-Gtype  -> Supp    2.126815
-pH     -> pH      1.951624
-O      -> Technique 1.752428
-O      -> Gtype   1.686100
-Air    -> O       1.391236
-Substrain -> Gtype   0.941140
-O      -> Anti    0.799854
-Med    -> O       0.671251
-O      -> Temp    0.557904
-O      -> Gversion 0.509095
-Technique -> Air     0.285589
-Gtype  -> pH      0.187722
-Temp   -> O       0.127072
-Supp   -> O       0.081093
-O      -> OD      0.056972
-Gtype  -> Air     0.021236
-O      -> Med     0.002225
-OD     -> Phase   0.001636
-OD     -> Med     -0.056726
-Technique -> O       -0.084720
-Gtype  -> Anti    -0.290184
-Gtype  -> O       -0.349078
-Gtype  -> OD      -0.351477
-OD     -> O       -0.547705
-O      -> Air     -0.672320
-Supp   -> Med     -0.757781
-Substrain -> O       -0.945716
-Phase  -> OD      -0.974380
-Agit   -> O       -1.057441
-Med    -> Supp    -1.117202
-
-
-Top positive:
-9.784769 O        b'lemma:_'
-8.777655 Air      b'lemma:anaerobic'
-7.930641 Air      b'lemma:aerobic'
-7.220796 Technique b'lemma:ChIP-exo'
-7.196554 O        b'lemma:1'
-7.103993 Phase    b'lemma:stationary'
-6.998968 O        b'lemma:rpob'
-6.988146 Supp     b'lemma:Iron'
-6.971195 Supp     b'lemma:nitrate'
-6.730326 Med      b'lemma:MOPS'
-6.729792 Air      b'-1:lemma:ChIP-Seq'
-6.615444 Gtype    b'lemma:type'
-6.497802 O        b'-1:lemma:ChIP-exo'
-6.115603 Strain   b'lemma:k-12'
-6.006143 Phase    b'lemma:mid-log'
-5.813042 Substrain b'lemma:mg1655'
-5.750692 Supp     b'lemma:pq'
-5.692854 O        b'postag::'
-5.640080 Gversion b'lemma:asm584v2'
-5.442313 Gtype    b'-1:lemma:\xe2\x88\x86'
-5.421944 Gversion b'lemma:nc'
-5.369011 O        b'lemma:2'
-5.323172 O        b'lemma:3'
-5.227211 O        b'lemma:Custom'
-5.221194 Supp     b'lemma:nh4cl'
-5.036519 Technique b'lemma:chipseq'
-5.002570 O        b'lemma:b'
-4.911066 Temp     b'-1:lemma:sample'
-4.803502 Gversion b'-1:lemma:nc'
-4.759594 Gtype    b'lemma:wt'
-4.756971 Air      b'lemma:Aerobic'
-4.733958 Supp     b'+1:lemma:\xc2\xb5m'
-4.696241 OD       b'lemma:od600'
-4.618934 O        b'lemma:\xcf\x8332'
-4.610324 Gtype    b'+1:lemma:type'
-4.544628 Gtype    b'lemma:\xce\xb4cra'
-4.517060 O        b'lemma:a'
-4.407754 OD       b'lemma:od450'
-4.400043 O        b'postag:IN'
-4.361805 Supp     b'lemma:no3'
-4.357088 O        b'-1:lemma:tag'
-4.352412 Gtype    b'lemma:delta-fnr'
-4.311823 O        b'lemma:Cra'
-4.167960 Gtype    b'lemma:flag-tag'
-4.167960 Gtype    b'-1:lemma:c-terminal'
-4.162564 Med      b'lemma:LB'
-4.113496 Strain   b'+1:lemma:substr'
-4.107297 Anti     b'+1:lemma:antibody'
-4.060899 Technique b'lemma:ChIP-Seq'
-4.009046 O        b'lemma:rep1'
-3.995454 Supp     b'lemma:rifampicin'
-3.963685 Technique b'lemma:rna-seq'
-3.933835 Supp     b'lemma:glucose'
-3.917748 O        b'lemma:.'
-3.917748 O        b'postag:.'
-3.845505 Supp     b'lemma:dpd'
-3.808636 O        b'lemma:rep2'
-3.774698 Gtype    b'lemma:wild-type'
-3.760833 Med      b'lemma:lb'
-3.747355 Technique b'-1:lemma:IP'
-3.703487 Air      b'postag:RB'
-3.662819 O        b'lemma:rep3'
-3.662186 Supp     b'lemma:Fe'
-3.579211 Temp     b'-1:lemma:\xcf\x8332'
-3.504088 Technique b'lemma:chip-seq'
-3.459881 Vess     b'lemma:flask'
-3.459881 Vess     b'-1:lemma:warm'
-3.395894 Supp     b'lemma:acetate'
-3.371382 O        b'+1:lemma:od600'
-3.355281 Supp     b'lemma:arginine'
-3.288615 Anti     b'lemma:seqa'
-3.267673 Gtype    b'lemma:arca8myc'
-3.257108 Gtype    b'-1:lemma:rpob'
-3.214124 Med      b'+1:lemma:0.4'
-3.198215 O        b'lemma:chip'
-3.191605 OD       b'+1:lemma:stationary'
-3.129303 pH       b'lemma:ph5'
-3.129303 pH       b'+1:lemma:.5'
-3.116874 Supp     b'-1:lemma:Cra'
-3.111015 O        b'+1:lemma:chip-seq'
-3.100779 Gtype    b'+1:lemma:with'
-3.096274 Technique b'+1:lemma:chip-exo'
-3.080007 O        b'-1:lemma:0.3-0.35'
-3.076638 Technique b'lemma:rnaseq'
-2.996028 Gtype    b'+1:lemma:ph5'
-2.989922 Anti     b'lemma:none'
-2.975187 O        b'-1:lemma:Aerobic'
-2.962110 Anti     b'lemma:anti-rpos'
-2.927775 Supp     b'+1:lemma:1'
-2.897627 Gtype    b'lemma:delta-arca'
-2.894293 Supp     b'+1:lemma:2'
-2.870010 Gtype    b'lemma:nsrr'
-2.836891 O        b'lemma:escherichia'
-2.823759 O        b'+1:lemma:pq'
-2.729622 Gtype    b'+1:lemma:pq'
-2.721450 Supp     b'lemma:fructose'
-2.715488 Supp     b'lemma:iptg'
-2.707351 Gtype    b'lemma:\xce\xb4ompr'
-2.706414 Gtype    b'lemma:fnr8myc'
-2.705613 O        b'-1:lemma:0.3'
-2.696678 O        b'-1:lemma:type'
-2.677637 O        b'-1:lemma:anaerobic'
-2.617637 Technique b'-1:lemma:chip-exo'
-2.601501 O        b'lemma:with'
-2.598938 O        b'postag:CC'
-2.589617 Gversion b'lemma:chip-seq'
-2.564844 Gtype    b'lemma:\xce\xb4fur'
-2.529911 Temp     b'-1:lemma:37'
-2.512630 Temp     b'-1:lemma:43'
-2.501323 O        b'-1:lemma:glucose'
-2.465702 Supp     b'-1:lemma:+'
-2.437465 Gversion b'lemma:u00096'
-2.437465 Gversion b'+1:lemma:.2'
-2.390733 O        b'lemma:-'
-2.390656 O        b'lemma:oxyr'
-2.389452 Gtype    b'lemma:WT'
-2.388101 O        b'+1:postag:RB'
-2.371844 Gtype    b'lemma:\xe2\x88\x86'
-2.368954 Gversion b'lemma:000913'
-2.357589 pH       b'lemma:.5'
-2.357589 pH       b'-1:lemma:ph5'
-2.347080 Med      b'lemma:m63'
-2.341653 Med      b'+1:lemma:minimal'
-2.312104 Temp     b'lemma:43'
-2.303920 Supp     b'lemma:Leu'
-2.303021 Anti     b'lemma:anti-myc'
-2.298956 Gtype    b'lemma:pk4854'
-2.289285 Med      b'lemma:glucose'
-2.270819 O        b'+1:postag:NNP'
-2.250795 Air      b'lemma:anaerobically'
-2.249574 Gtype    b'postag:-RRB-'
-2.245776 Gversion b'lemma:.2'
-2.245776 Gversion b'-1:lemma:u00096'
-2.239995 Air      b'-1:lemma:co2'
-2.227457 Supp     b'lemma:20'
-2.212330 Supp     b'+1:lemma:hour'
-2.212247 Temp     b'-1:lemma:30'
-2.173944 Supp     b'lemma:nacl'
-2.172282 O        b'+1:lemma:sparging'
-2.129033 O        b'lemma:s'
-2.126416 Phase    b'-1:lemma:mid-log'
-2.125863 Supp     b'+1:lemma:_'
-2.114093 Med      b'+1:lemma:2.0'
-2.111768 Med      b'-1:lemma:glucose'
-2.073983 Gtype    b'+1:lemma:flagtag'
-2.071701 O        b'-1:lemma:lb'
-2.052281 Med      b'-1:lemma:ml'
-2.050869 Gtype    b'-1:lemma:nsrr'
-1.973985 O        b'postag:VBN'
-1.966483 Med      b'lemma:L'
-1.966483 Med      b'+1:lemma:broth'
-1.943849 Med      b'lemma:broth'
-1.943849 Med      b'-1:lemma:L'
-1.943198 Supp     b'-1:lemma:with'
-1.933549 Supp     b'lemma:Adenine'
-1.928306 O        b'lemma:CEL'
-1.904039 Supp     b'-1:lemma:\xc2\xb5m'
-1.854835 Med      b'lemma:media'
-1.849121 O        b'lemma:at'
-1.846853 Phase    b'-1:lemma:until'
-1.845040 OD       b'lemma:phase'
-1.843752 Supp     b'+1:lemma:Deficient'
-1.834795 Gtype    b'+1:lemma:_'
-1.832489 O        b'-1:lemma:\xc2\xb0c'
-1.818739 O        b'lemma:chip-arca'
-1.813945 OD       b'lemma:0.3'
-1.805051 O        b'+1:lemma:o.d.'
-1.797440 Temp     b'lemma:37'
-1.792631 Vess     b'-1:postag:VBN'
-1.776920 Technique b'-1:lemma:_'
-1.773247 OD       b'+1:lemma:phase'
-1.762789 Temp     b'lemma:\xc2\xb0c'
-1.761249 Technique b'+1:lemma:rna-seq'
-1.758774 Gtype    b'-1:postag::'
-1.752571 O        b'lemma:or'
-1.747526 O        b'-1:lemma:l1'
-1.747292 Supp     b'lemma:of'
-1.740326 Temp     b'+1:lemma:\xc2\xb0c'
-1.701975 O        b'lemma:ompr'
-1.696253 O        b'lemma:c-terminal'
-1.696253 O        b'+1:lemma:flag-tag'
-1.690400 Med      b'+1:lemma:supplement'
-1.689524 pH       b'+1:postag:CD'
-1.687584 O        b'+1:lemma:nacl'
-1.685346 O        b'+1:lemma:acetate'
-1.674079 O        b'-1:lemma:dpd'
-1.668207 Gtype    b'-1:lemma:_'
-1.667206 Temp     b'+1:lemma:in'
-1.666468 Supp     b'lemma:methanol'
-1.660722 Air      b'-1:lemma:-'
-1.655979 Gtype    b'-1:lemma:vector'
-1.642097 O        b'lemma:culture'
-1.641394 Med      b'-1:lemma:LB'
-1.639030 Phase    b'+1:lemma:for'
-1.635194 OD       b'-1:lemma:about'
-1.632144 Gtype    b'lemma:\xce\xb4soxs'
-1.622571 O        b'-1:lemma:media'
-1.574984 Gversion b'postag:CD'
-1.574818 O        b'lemma:soxs'
-1.574818 O        b'lemma:soxr'
-
-
-Top negative:
-0.012428 O        b'lemma:build'
-0.011706 OD       b'-1:postag:JJ'
-0.010758 O        b'-1:lemma:m63'
-0.010555 Temp     b'+1:lemma:rep1'
-0.009338 O        b'-1:lemma:\xce\xbcm'
-0.009111 OD       b'lemma:of'
-0.008729 O        b'lemma:~'
-0.008132 Gtype    b'lemma:cra-8myc-tagged'
-0.008132 Gtype    b'lemma:fur-8myc'
-0.007873 Air      b'-1:lemma:95'
-0.005830 OD       b'+1:postag:-RRB-'
-0.005750 Air      b'lemma:-lrb-'
-0.005529 Phase    b'-1:postag::'
-0.005242 Gtype    b'+1:postag:CD'
-0.004042 Substrain b'isUpper'
-0.003852 O        b'-1:lemma:5'
-0.003021 O        b'+1:lemma:use'
-0.003019 Air      b'postag:CC'
-0.002663 Air      b'postag:-LRB-'
-0.002334 O        b'+1:lemma:ml'
-0.001862 O        b'-1:lemma:pq'
-0.000956 O        b'lemma:short'
-0.000945 O        b'+1:postag:SYM'
-0.000941 Med      b'-1:postag::'
-0.000813 O        b'+1:lemma:mm'
-0.000791 Supp     b'lemma:\xc2\xb5l'
-0.000791 Supp     b'+1:lemma:cm20'
-0.000762 O        b'-1:lemma:k-12'
-0.000330 Supp     b'+1:postag:RB'
-0.000321 O        b'+1:lemma:rnase'
-0.000279 OD       b'postag:CC'
-0.000211 Gtype    b'+1:lemma:-lcb-'
-0.000154 Med      b'postag:NN'
-0.000123 Supp     b'-1:lemma:1mm'
-0.000066 O        b'-1:lemma:respiratory'
-0.000047 O        b'postag:VB'
-0.000031 O        b'+1:postag:JJ'
-0.000022 O        b'+1:postag:FW'
-0.000021 Phase    b'postag:VBG'
-0.000014 Temp     b'-1:postag:NNS'
-0.000012 O        b'-1:lemma:genotype/variation'
-0.000011 Phase    b'lemma:grow'
-0.000009 O        b'+1:lemma:genbank'
-0.000009 O        b'postag:FW'
-0.000006 Gtype    b'lemma:knock-out'
-0.000005 O        b'lemma:ip'
-0.000005 Gtype    b'+1:lemma:strain'
-0.000001 O        b'+1:lemma:ph5'
-0.000000 Phase    b'-1:lemma::'
--0.000002 O        b'-1:lemma:from'
--0.000009 O        b'-1:lemma:rifampicin'
--0.000018 O        b'+1:lemma:95'
--0.000109 O        b'-1:lemma:um'
--0.000109 O        b'+1:lemma:paraquat'
--0.000363 Agit     b'-1:postag:NN'
--0.000429 O        b'+1:lemma:+'
--0.000494 O        b'-1:lemma:iptg'
--0.000617 Supp     b'postag:CD'
--0.000722 O        b'lemma:150'
--0.000722 O        b'+1:lemma:mg/ml'
--0.000846 O        b'lemma:grow'
--0.001402 Air      b'-1:lemma:or'
--0.001659 O        b'-1:lemma:to'
--0.001659 O        b'-1:postag:TO'
--0.001932 Gtype    b'+1:lemma:-lrb-'
--0.002534 O        b'+1:lemma:until'
--0.004418 Phase    b'-1:postag:NN'
--0.004820 O        b'+1:lemma:rep1'
--0.005823 Gtype    b'-1:postag:NNP'
--0.006241 O        b'+1:lemma:300'
--0.006734 Air      b'lemma:,'
--0.006734 Air      b'postag:,'
--0.008040 Air      b'-1:lemma:25'
--0.010122 O        b'+1:lemma:-rrb-'
--0.010159 O        b'-1:lemma:-lrb-'
--0.012456 Supp     b'-1:postag:NN'
--0.013973 OD       b'postag:JJ'
--0.014420 OD       b'isUpper'
--0.015511 OD       b'+1:postag:CD'
--0.022697 Air      b'+1:postag:-RRB-'
--0.022913 O        b'-1:lemma:30'
--0.023313 OD       b'+1:postag:-LRB-'
--0.023317 Air      b'-1:postag:RB'
--0.024110 O        b'-1:lemma:,'
--0.024110 O        b'-1:postag:,'
--0.024675 O        b'+1:lemma:hour'
--0.025573 O        b'-1:lemma:of'
--0.028769 Air      b'-1:postag:-LRB-'
--0.030732 Anti     b'+1:postag:JJ'
--0.030900 Air      b'-1:lemma:and'
--0.032775 Med      b'postag:CD'
--0.033408 O        b'-1:postag:JJ'
--0.041591 Air      b'lemma:95'
--0.044656 Air      b'-1:lemma:-lrb-'
--0.060308 O        b'-1:lemma:o2'
--0.063061 O        b'-1:lemma:rpob'
--0.066181 O        b'-1:postag:VBN'
--0.069187 Med      b'-1:postag:CD'
--0.069620 O        b'lemma:and'
--0.080450 Gtype    b'-1:postag:CD'
--0.085466 O        b'+1:lemma:c'
--0.087314 O        b'+1:lemma:5'
--0.091477 O        b'+1:lemma:shake'
--0.095092 Med      b'+1:postag:IN'
--0.102952 Air      b'+1:lemma:-lrb-'
--0.103900 Supp     b'-1:postag:NNP'
--0.104806 Air      b'-1:postag:CC'
--0.130716 Phase    b'-1:postag:JJ'
--0.144760 O        b'lemma:20'
--0.147668 O        b'+1:lemma:phase'
--0.151840 Supp     b'+1:lemma:rifampicin'
--0.155431 O        b'lemma:medium'
--0.157846 Agit     b'isUpper'
--0.162132 O        b'-1:lemma:ml'
--0.163703 Air      b'+1:postag:-LRB-'
--0.168213 Agit     b'postag:NN'
--0.197124 Temp     b'postag:JJ'
--0.199293 Med      b'-1:postag:IN'
--0.201861 O        b'lemma:fecl2'
--0.233445 Air      b'isLower'
--0.243970 O        b'-1:lemma:the'
--0.256444 Air      b'-1:postag:JJ'
--0.259109 O        b'-1:lemma:~'
--0.278225 O        b'+1:lemma:%'
--0.280267 Temp     b'+1:lemma:to'
--0.280267 Temp     b'+1:postag:TO'
--0.288621 Supp     b'+1:postag:VBN'
--0.292707 O        b'+1:lemma:cell'
--0.315187 O        b'lemma:od600'
--0.355514 Phase    b'-1:lemma:at'
--0.357298 O        b'lemma:0.1'
--0.357570 O        b'lemma:glucose'
--0.360899 Temp     b'isLower'
--0.411019 O        b'lemma:anaerobically'
--0.420592 O        b'lemma:dissolve'
--0.443294 O        b'lemma:0.2'
--0.451505 Technique b'isNumber'
--0.453164 pH       b'postag:NN'
--0.453934 O        b'-1:lemma:37'
--0.477659 Med      b'+1:postag:NN'
--0.482028 Supp     b'isUpper'
--0.486122 Supp     b'+1:lemma:acetate'
--0.490659 O        b'+1:postag:IN'
--0.492086 O        b'-1:lemma:cra'
--0.499001 O        b'+1:lemma:fecl2'
--0.542612 O        b'-1:lemma:od600'
--0.556265 Supp     b'-1:lemma:%'
--0.559133 O        b'-1:postag:IN'
--0.563772 O        b'-1:postag:-LRB-'
--0.590111 Technique b'-1:postag::'
--0.595480 O        b'+1:postag:NNS'
--0.600550 O        b'postag:RB'
--0.603193 O        b'+1:postag:-RRB-'
--0.608705 OD       b'+1:postag:NN'
--0.619170 O        b'+1:lemma:.'
--0.619170 O        b'+1:postag:.'
--0.631410 Temp     b'postag:NN'
--0.680972 OD       b'lemma:-lrb-'
--0.692074 O        b'lemma:phase'
--0.696523 O        b'+1:lemma:g/l'
--0.703554 Med      b'-1:postag:NN'
--0.722638 O        b'-1:lemma:co2'
--0.737448 O        b'lemma:37'
--0.793378 O        b'-1:lemma:IP'
--0.881901 O        b'-1:lemma:grow'
--0.936753 O        b'lemma:2h'
--0.936753 O        b'-1:lemma:additional'
--0.951203 O        b'-1:lemma:ompr'
--0.961075 OD       b'isNumber'
--0.975747 O        b'lemma:media'
--0.999574 O        b'lemma:mid-log'
--1.013924 O        b'-1:lemma:dissolve'
--1.013924 O        b'+1:lemma:methanol'
--1.038456 O        b'+1:postag:VBG'
--1.044424 Gtype    b'isLower'
--1.054187 Anti     b'postag:NNP'
--1.055980 Air      b'+1:postag:JJ'
--1.097851 O        b'-1:postag::'
--1.150472 Gtype    b'isUpper'
--1.157093 O        b'-1:postag:VBG'
--1.186007 O        b'lemma:wt'
--1.252971 O        b'+1:lemma:supplement'
--1.282305 Gversion b'isLower'
--1.308302 Technique b'isLower'
--1.325280 O        b'+1:lemma:in'
--1.418383 O        b'-1:lemma:nsrr'
--1.424917 O        b'+1:lemma:at'
--1.469077 O        b'lemma:methanol'
--1.485871 OD       b'postag:-LRB-'
--1.502986 Air      b'postag:NN'
--1.512421 O        b'lemma:of'
--1.560223 Phase    b'postag:JJ'
--1.560628 O        b'lemma:rifampicin'
--1.895357 Supp     b'postag:JJ'
--1.938119 O        b'+1:lemma:2'
--2.020790 O        b'-1:lemma:2'
--2.056482 Gtype    b'isNumber'
--2.518371 O        b'+1:lemma:1'
--3.915561 O        b'-1:lemma::'
--4.466114 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.3717925853055416, 'c2': 0.017924580629424793}
-best CV score:0.8125475599052483
-model size: 0.07M
-
-Flat F1: 0.8015576085711513
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.891     0.860     0.875        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.783     0.758     0.770        62
-       Anti      0.857     0.667     0.750         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.897     0.821     0.857       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.857     0.662     0.747       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.868     0.754     0.802       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.913143
-OD     -> OD      6.546357
-Temp   -> Temp    5.712726
-Med    -> Med     5.305596
-Anti   -> Anti    5.023718
-Supp   -> Supp    4.631165
-Phase  -> Phase   4.500208
-Gtype  -> Gtype   4.293158
-Air    -> Air     4.246276
-Gversion -> Gversion 4.168987
-O      -> O       3.925497
-Technique -> Technique 3.566379
-pH     -> pH      2.052884
-O      -> Supp    1.936178
-Gtype  -> Supp    1.326152
-Air    -> O       1.051292
-O      -> Technique 0.918460
-O      -> Gtype   0.855955
-O      -> Anti    0.549728
-Med    -> O       0.455808
-Phase  -> O       0.391302
-O      -> Temp    0.389367
-OD     -> Phase   0.349412
-Supp   -> O       0.327410
-Substrain -> Gtype   0.326440
-Temp   -> O       0.267368
-O      -> Med     0.077179
-O      -> Phase   0.028994
-O      -> Gversion 0.026775
-Technique -> pH      -0.006596
-Air    -> Temp    -0.006647
-Phase  -> OD      -0.020087
-Gtype  -> Anti    -0.153729
-Supp   -> Gtype   -0.163416
-Gtype  -> OD      -0.192090
-Supp   -> Med     -0.235685
-OD     -> O       -0.243341
-Med    -> Supp    -0.274565
-Agit   -> O       -0.322550
-Gtype  -> O       -0.369110
-OD     -> Air     -0.568717
-O      -> Air     -0.731642
-Technique -> O       -0.757868
-Substrain -> O       -0.822866
-
-
-Top unlikely transitions:
-Agit   -> Agit    6.913143
-OD     -> OD      6.546357
-Temp   -> Temp    5.712726
-Med    -> Med     5.305596
-Anti   -> Anti    5.023718
-Supp   -> Supp    4.631165
-Phase  -> Phase   4.500208
-Gtype  -> Gtype   4.293158
-Air    -> Air     4.246276
-Gversion -> Gversion 4.168987
-O      -> O       3.925497
-Technique -> Technique 3.566379
-pH     -> pH      2.052884
-O      -> Supp    1.936178
-Gtype  -> Supp    1.326152
-Air    -> O       1.051292
-O      -> Technique 0.918460
-O      -> Gtype   0.855955
-O      -> Anti    0.549728
-Med    -> O       0.455808
-Phase  -> O       0.391302
-O      -> Temp    0.389367
-OD     -> Phase   0.349412
-Supp   -> O       0.327410
-Substrain -> Gtype   0.326440
-Temp   -> O       0.267368
-O      -> Med     0.077179
-O      -> Phase   0.028994
-O      -> Gversion 0.026775
-Technique -> pH      -0.006596
-Air    -> Temp    -0.006647
-Phase  -> OD      -0.020087
-Gtype  -> Anti    -0.153729
-Supp   -> Gtype   -0.163416
-Gtype  -> OD      -0.192090
-Supp   -> Med     -0.235685
-OD     -> O       -0.243341
-Med    -> Supp    -0.274565
-Agit   -> O       -0.322550
-Gtype  -> O       -0.369110
-OD     -> Air     -0.568717
-O      -> Air     -0.731642
-Technique -> O       -0.757868
-Substrain -> O       -0.822866
-
-
-Top positive:
-7.111444 Technique b'lemma[:2]:Ch'
-4.825937 O        b'lemma[:2]:re'
-4.279457 Air      b'lemma:anaerobic'
-3.725935 O        b'lemma[:2]:ge'
-3.543228 O        b'lemma:1'
-3.543228 O        b'lemma[:2]:1'
-3.524472 OD       b'lemma[:2]:od'
-3.478950 Phase    b'lemma:stationary'
-3.469718 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.448630 Gtype    b'lemma:arca8myc'
-3.428352 Air      b'-1:lemma:ChIP-Seq'
-3.363763 Air      b'lemma:aerobic'
-3.207046 O        b'lemma:rpob'
-3.019693 Supp     b'lemma:Iron'
-3.019693 Supp     b'lemma[:2]:Ir'
-3.010875 O        b'-1:lemma:ChIP-exo'
-2.921711 Supp     b'+1:lemma:\xc2\xb5m'
-2.911305 Gtype    b'lemma[:1]:\xce\xb4'
-2.889155 O        b'-1:lemma:tag'
-2.855933 O        b'lemma:with'
-2.855646 Med      b'lemma[:1]:L'
-2.846749 Technique b'lemma:chipseq'
-2.827870 O        b'lemma:2'
-2.827870 O        b'lemma[:2]:2'
-2.817912 Air      b'lemma[:2]:ae'
-2.797895 Substrain b'lemma:mg1655'
-2.792078 Phase    b'lemma:mid-log'
-2.745493 Supp     b'+1:lemma:1'
-2.729132 Technique b'lemma[:2]:rn'
-2.682269 O        b'lemma:3'
-2.682269 O        b'lemma[:2]:3'
-2.657675 Gtype    b'lemma:type'
-2.657675 Gtype    b'lemma[:2]:ty'
-2.623761 Med      b'+1:lemma:0.4'
-2.580684 Gtype    b'lemma[:2]:cr'
-2.579976 O        b'lemma:_'
-2.579976 O        b'lemma[:1]:_'
-2.579976 O        b'lemma[:2]:_'
-2.569904 O        b'+1:lemma:od600'
-2.544048 Gtype    b'lemma[:2]:de'
-2.507607 Temp     b'-1:lemma:sample'
-2.491621 Supp     b'lemma:nitrate'
-2.491621 Supp     b'lemma[:2]:ni'
-2.487340 Gtype    b'lemma:flag-tag'
-2.487340 Gtype    b'-1:lemma:c-terminal'
-2.476917 Supp     b'lemma:arginine'
-2.470339 Anti     b'+1:lemma:antibody'
-2.468809 Gtype    b'lemma[:2]:fl'
-2.457061 Air      b'lemma[:2]:an'
-2.401035 Gversion b'lemma:nc'
-2.401035 Gversion b'lemma[:2]:nc'
-2.380072 O        b'-1:lemma:0.3-0.35'
-2.346761 O        b'+1:lemma:pq'
-2.337210 Supp     b'+1:lemma:2'
-2.311094 Gversion b'-1:lemma:nc'
-2.292513 Gtype    b'+1:lemma::'
-2.281017 Med      b'lemma:MOPS'
-2.281017 Med      b'lemma[:1]:M'
-2.281017 Med      b'lemma[:2]:MO'
-2.204715 Substrain b'lemma[:2]:mg'
-2.199859 O        b'lemma:0.4'
-2.194544 Gversion b'lemma[:2]:00'
-2.169851 Temp     b'-1:lemma:\xcf\x8332'
-2.168672 Gtype    b'lemma:fnr8myc'
-2.159299 Air      b'-1:lemma:co2'
-2.156668 Strain   b'lemma:k-12'
-2.156668 Strain   b'lemma[:2]:k-'
-2.155314 O        b'-1:lemma:Aerobic'
-2.138255 Supp     b'-1:lemma:Cra'
-2.135365 Anti     b'lemma[:2]:an'
-2.117472 pH       b'lemma:ph5'
-2.117472 pH       b'+1:lemma:.5'
-2.108610 Temp     b'lemma[:1]:3'
-2.107391 Air      b'lemma[:1]:A'
-2.102650 Supp     b'lemma:pq'
-2.102650 Supp     b'lemma[:2]:pq'
-2.096866 Air      b'-1:lemma:-'
-2.086323 Supp     b'lemma[:2]:gl'
-2.074272 O        b'-1:lemma:anaerobic'
-2.064241 Gtype    b'lemma:nsrr'
-2.064241 Gtype    b'lemma[:2]:ns'
-2.029654 O        b'lemma:b'
-2.029654 O        b'lemma[:2]:b'
-2.016572 Gtype    b'lemma[:1]:W'
-1.998951 Technique b'lemma[:2]:ch'
-1.998131 O        b'lemma:a'
-1.998131 O        b'lemma[:2]:a'
-1.968766 Gtype    b'-1:lemma:rpob'
-1.962195 Gtype    b'hGreek'
-1.961034 Med      b'lemma:lb'
-1.961034 Med      b'lemma[:2]:lb'
-1.938806 Gtype    b'lemma[:2]:ar'
-1.930507 OD       b'+1:lemma:stationary'
-1.923810 Gversion b'lemma:chip-seq'
-1.891990 O        b'-1:lemma:0.3'
-1.889150 Strain   b'+1:lemma:substr'
-1.888844 Technique b'lemma[:1]:C'
-1.884878 Gtype    b'+1:lemma:flagtag'
-1.882512 O        b'postag::'
-1.882512 O        b'postag[:1]::'
-1.882512 O        b'postag[:2]::'
-1.856991 O        b'+1:postag:RB'
-1.851608 O        b'postag:IN'
-1.851608 O        b'postag[:1]:I'
-1.851608 O        b'postag[:2]:IN'
-1.840138 Supp     b'-1:lemma:with'
-1.839774 Supp     b'lemma[:1]:\xc2\xb5'
-1.822500 Gtype    b'+1:lemma:type'
-1.816568 O        b'lemma[:1]:C'
-1.815184 Gversion b'lemma:asm584v2'
-1.805652 Gversion b'lemma[:2]:as'
-1.792629 O        b'+1:postag:NNP'
-1.791305 Supp     b'lemma:fructose'
-1.786544 O        b'-1:lemma:type'
-1.762437 Supp     b'+1:lemma:_'
-1.759820 O        b'-1:lemma:lb'
-1.756744 O        b'-1:lemma:glucose'
-1.754105 Vess     b'lemma:flask'
-1.754105 Vess     b'-1:lemma:warm'
-1.750186 O        b'lemma:Custom'
-1.750186 O        b'lemma[:2]:Cu'
-1.745341 Strain   b'lemma[:1]:k'
-1.739577 Vess     b'lemma[:2]:fl'
-1.726669 Supp     b'lemma:rifampicin'
-1.707436 Supp     b'lemma[:2]:ri'
-1.707207 Gtype    b'+1:lemma:with'
-1.696113 O        b'lemma[:1]:-'
-1.692259 Air      b'lemma[:1]:a'
-1.639949 Air      b'lemma:Aerobic'
-1.639949 Air      b'lemma[:2]:Ae'
-1.635409 O        b'postag:CC'
-1.635409 O        b'postag[:2]:CC'
-1.628056 Med      b'+1:lemma:g/l'
-1.615358 Technique b'symb'
-1.610565 Supp     b'lemma[:1]:1'
-1.597091 pH       b'+1:postag:CD'
-1.589795 O        b'lemma:\xcf\x8332'
-1.589795 O        b'lemma[:1]:\xcf\x83'
-1.589795 O        b'lemma[:2]:\xcf\x833'
-1.563036 O        b'-1:lemma:l1'
-1.532125 Supp     b'lemma:acetate'
-1.523450 Supp     b'lemma[:1]:I'
-1.498488 O        b'+1:lemma:nacl'
-1.484546 Supp     b'lemma:no3'
-1.474134 Gtype    b'-1:lemma:_'
-1.462775 Technique b'-1:lemma:input'
-1.457922 O        b'+1:lemma:ph5'
-1.445969 Gtype    b'-1:postag:VBG'
-1.435822 Gtype    b'+1:lemma:_'
-1.434655 Supp     b'lemma:Fe'
-1.434655 Supp     b'lemma[:2]:Fe'
-1.433511 Gtype    b'-1:lemma:vector'
-1.429069 Supp     b'-1:postag:CD'
-1.428528 Gtype    b'lemma[:1]:w'
-1.424222 pH       b'lemma:.5'
-1.424222 pH       b'-1:lemma:ph5'
-1.424222 pH       b'lemma[:2]:.5'
-1.422747 Med      b'+1:lemma:2.0'
-1.408132 Supp     b'+1:lemma:hour'
-1.397778 O        b'lemma:.'
-1.397778 O        b'postag:.'
-1.397778 O        b'postag[:1]:.'
-1.397778 O        b'postag[:2]:.'
-1.397778 O        b'lemma[:2]:.'
-1.381316 Gtype    b'lemma:wt'
-1.381316 Gtype    b'lemma[:2]:wt'
-1.377815 Temp     b'lemma:43'
-1.377815 Temp     b'lemma[:2]:43'
-1.377716 Air      b'+1:postag:IN'
-1.372036 Med      b'+1:postag:-LRB-'
-1.371743 Med      b'+1:lemma:-lrb-'
-1.357313 Anti     b'lemma:none'
-1.356053 Temp     b'-1:lemma:43'
-1.355054 Supp     b'lemma[:2]:fr'
-1.352442 Gversion b'+1:lemma:000913'
-1.348258 O        b'-1:lemma:\xc2\xb0c'
-1.339531 Supp     b'-1:postag:SYM'
-1.337456 O        b'lemma:delta'
-1.335121 Supp     b'lemma[:2]:ac'
-1.330202 O        b'+1:lemma:mid-log'
-1.317551 Supp     b'-1:postag:CC'
-1.312876 OD       b'lemma:od600'
-1.304321 O        b'lemma[:1]:s'
-1.301244 Technique b'+1:lemma:chip-exo'
-1.288165 Supp     b'lemma[:1]:2'
-1.287921 Phase    b'+1:lemma:-lrb-'
-1.287384 Temp     b'-1:lemma:37'
-1.287206 Supp     b'lemma:nh4cl'
-1.287206 Supp     b'lemma[:2]:nh'
-1.285698 Supp     b'lemma[:2]:0.'
-1.283844 Supp     b'lemma[:2]:fe'
-1.280443 Med      b'+1:lemma:supplement'
-1.280143 Gtype    b'lemma[:1]:t'
-1.278668 Phase    b'+1:postag:-LRB-'
-1.258754 Technique b'-1:lemma:1'
-1.258397 Med      b'+1:lemma:minimal'
-1.256238 Med      b'lemma[:1]:m'
-1.247668 OD       b'lemma[:1]:o'
-1.247204 Gversion b'lemma:u00096'
-1.247204 Gversion b'+1:lemma:.2'
-
-
-Top negative:
--0.000006 O        b'lemma[:1]:f'
--0.000014 Temp     b'postag:NN'
--0.000014 O        b'lemma[:1]:4'
--0.000077 O        b'-1:postag:JJ'
--0.000104 O        b'lemma:\xe2\x88\x86'
--0.000104 O        b'lemma[:1]:\xe2\x88\x86'
--0.000104 O        b'lemma[:2]:\xe2\x88\x86'
--0.000117 O        b'-1:lemma:to'
--0.000117 O        b'-1:postag:TO'
--0.000139 Gtype    b'lemma[:1]:-'
--0.000165 O        b'-1:lemma:rifampicin'
--0.000244 Air      b'postag:-RRB-'
--0.000244 Air      b'postag[:2]:-R'
--0.000244 Air      b'lemma[:2]:-r'
--0.000251 O        b'+1:lemma:n2'
--0.000490 O        b'-1:lemma:\xe2\x88\x86'
--0.000570 OD       b'+1:postag:NNS'
--0.001255 Supp     b'postag[:1]:N'
--0.001255 Supp     b'postag[:2]:NN'
--0.001277 O        b'lemma[:2]:an'
--0.001620 Supp     b'+1:postag:IN'
--0.001834 O        b'-1:lemma:mid-log'
--0.004139 Air      b'lemma[:2]:25'
--0.004380 O        b'postag:VBP'
--0.004418 O        b'+1:lemma:phase'
--0.004475 Gtype    b'+1:lemma:-rrb-'
--0.004892 O        b'lemma:phase'
--0.005013 Anti     b'postag[:1]:N'
--0.005013 Anti     b'postag[:2]:NN'
--0.005037 O        b'lemma[:2]:ph'
--0.005405 Air      b'lemma:-lrb-'
--0.005662 O        b'-1:lemma:of'
--0.006882 O        b'lemma:media'
--0.007168 Gtype    b'lemma[:1]:g'
--0.007303 Air      b'postag:-LRB-'
--0.007303 Air      b'postag[:2]:-L'
--0.007303 Air      b'lemma[:2]:-l'
--0.007834 Air      b'+1:lemma:and'
--0.008160 Air      b'lemma:25'
--0.008761 OD       b'postag[:1]:C'
--0.010588 OD       b'postag:CD'
--0.010588 OD       b'postag[:2]:CD'
--0.012329 Phase    b'-1:lemma:at'
--0.013171 Med      b'postag[:1]:C'
--0.013817 Air      b'+1:lemma:until'
--0.016734 OD       b'postag[:1]:N'
--0.016734 OD       b'postag[:2]:NN'
--0.018208 Air      b'lemma[:1]:n'
--0.022588 Supp     b'hUpper'
--0.022588 Supp     b'hLower'
--0.023822 Air      b'postag[:1]:C'
--0.024287 O        b'symb'
--0.025967 Med      b'lemma[:1]:c'
--0.026538 Air      b'-1:postag:-LRB-'
--0.031765 Technique b'postag[:1]:N'
--0.031765 Technique b'postag[:2]:NN'
--0.032068 Supp     b'lemma[:2]:mi'
--0.037401 Air      b'lemma[:1]:o'
--0.040028 Med      b'postag:NN'
--0.043803 Air      b'+1:lemma:-lrb-'
--0.044062 OD       b'+1:postag:CD'
--0.044602 Supp     b'-1:lemma:%'
--0.044731 Air      b'+1:postag:-LRB-'
--0.046035 OD       b'postag:JJ'
--0.046795 Air      b'-1:lemma:-lrb-'
--0.048808 OD       b'postag[:1]:J'
--0.048808 OD       b'postag[:2]:JJ'
--0.049349 O        b'+1:lemma:rep1'
--0.050801 Supp     b'postag:CD'
--0.050801 Supp     b'postag[:2]:CD'
--0.056455 O        b'+1:lemma:0.3'
--0.057472 O        b'-1:lemma:from'
--0.066677 O        b'lemma:dissolve'
--0.071601 Supp     b'lemma[:1]:o'
--0.072755 O        b'lemma[:1]:k'
--0.073873 O        b'lemma:150'
--0.073873 O        b'+1:lemma:mg/ml'
--0.073873 O        b'lemma[:2]:15'
--0.076685 O        b'-1:lemma:ml'
--0.076846 O        b'lemma[:2]:gl'
--0.077209 O        b'-1:lemma:od600'
--0.083778 O        b'+1:lemma:300'
--0.087471 Air      b'symb'
--0.091928 Supp     b'+1:postag:VBN'
--0.092333 Air      b'postag:CC'
--0.092333 Air      b'postag[:2]:CC'
--0.092993 O        b'+1:lemma:%'
--0.100219 Supp     b'+1:lemma:rifampicin'
--0.100582 O        b'lemma:0.1'
--0.102695 O        b'-1:lemma:-lrb-'
--0.109000 Air      b'-1:lemma:or'
--0.111199 Supp     b'lemma[:2]:an'
--0.112020 Air      b'-1:postag:CC'
--0.113367 O        b'+1:lemma:shake'
--0.119111 Anti     b'+1:lemma:anti-fur'
--0.124927 O        b'+1:lemma:+'
--0.125975 O        b'-1:postag:VBN'
--0.128619 O        b'-1:lemma:ompr'
--0.137106 Gtype    b'-1:lemma:,'
--0.137106 Gtype    b'-1:postag:,'
--0.145475 Gtype    b'lemma[:1]:n'
--0.150071 O        b'lemma[:1]:d'
--0.151088 Anti     b'symb'
--0.158504 Air      b'+1:postag:JJ'
--0.162749 O        b'-1:lemma:37'
--0.168152 O        b'-1:lemma:grow'
--0.177645 Technique b'-1:lemma::'
--0.186245 O        b'-1:lemma:IP'
--0.188141 Temp     b'+1:lemma:to'
--0.188141 Temp     b'+1:postag:TO'
--0.189069 O        b'-1:lemma:rna'
--0.190006 O        b'+1:lemma:-rrb-'
--0.192143 O        b'lemma[:2]:30'
--0.219680 O        b'lemma:co2'
--0.231361 Agit     b'symb'
--0.256617 O        b'lemma:of'
--0.256617 O        b'lemma[:2]:of'
--0.259140 O        b'lemma:37'
--0.259140 O        b'lemma[:2]:37'
--0.267489 O        b'lemma[:2]:od'
--0.270561 Med      b'+1:postag:NN'
--0.273391 O        b'+1:lemma:fecl2'
--0.274839 O        b'+1:postag:IN'
--0.277041 Technique b'postag:NN'
--0.281854 O        b'+1:lemma:\xc2\xb0c'
--0.292441 O        b'lemma:20'
--0.295792 Med      b'-1:postag:CD'
--0.308709 Supp     b'postag[:1]:C'
--0.308783 O        b'lemma[:1]:p'
--0.311181 O        b'lemma:wt'
--0.311181 O        b'lemma[:2]:wt'
--0.318567 Med      b'+1:postag:IN'
--0.318793 O        b'lemma:2h'
--0.318793 O        b'-1:lemma:additional'
--0.318793 O        b'lemma[:2]:2h'
--0.330370 O        b'+1:postag:-RRB-'
--0.332499 Air      b'postag[:1]:N'
--0.332499 Air      b'postag[:2]:NN'
--0.334391 Med      b'-1:postag:NN'
--0.338586 Temp     b'hGreek'
--0.351814 O        b'lemma[:2]:me'
--0.363828 O        b'lemma[:1]:L'
--0.365790 Gtype    b'lemma:delta'
--0.396021 O        b'+1:lemma:.'
--0.396021 O        b'+1:postag:.'
--0.405253 OD       b'+1:postag:NN'
--0.409588 O        b'lemma[:2]:ri'
--0.436123 O        b'lemma[:2]:0.'
--0.437523 O        b'-1:postag:IN'
--0.461538 O        b'-1:postag:-LRB-'
--0.480537 O        b'-1:lemma:cra'
--0.524678 Technique b'-1:postag::'
--0.534816 Supp     b'postag:JJ'
--0.541445 O        b'-1:lemma:sample'
--0.544159 Med      b'symb'
--0.553976 Anti     b'postag:NNP'
--0.557482 O        b'+1:lemma:hour'
--0.572719 Gtype    b'lemma[:2]:rp'
--0.577168 Air      b'postag:NN'
--0.603309 Supp     b'postag[:1]:J'
--0.603309 Supp     b'postag[:2]:JJ'
--0.608253 Air      b'-1:postag:JJ'
--0.609440 O        b'lemma[:1]:A'
--0.611762 Agit     b'hUpper'
--0.611762 Agit     b'hLower'
--0.616867 Supp     b'lemma[:1]:c'
--0.662379 O        b'-1:lemma:the'
--0.665646 O        b'+1:postag:VBG'
--0.667220 O        b'+1:postag:NNS'
--0.672166 O        b'lemma:methanol'
--0.688760 O        b'+1:lemma:cell'
--0.696400 Gtype    b'lemma[:1]:m'
--0.709438 O        b'-1:lemma:rpob'
--0.746988 O        b'+1:lemma:supplement'
--0.748227 O        b'-1:lemma:nsrr'
--0.750862 Gtype    b'lemma[:1]:c'
--0.762647 O        b'lemma:mid-log'
--0.764019 O        b'+1:lemma:g/l'
--0.820923 O        b'-1:lemma:dissolve'
--0.820923 O        b'+1:lemma:methanol'
--0.849761 Phase    b'hUpper'
--0.849761 Phase    b'hLower'
--0.878961 O        b'lemma:rifampicin'
--0.991808 O        b'-1:lemma:co2'
--1.038541 O        b'lemma[:1]:0'
--1.156169 O        b'+1:lemma:at'
--1.157980 Gtype    b'lemma[:1]:a'
--1.204180 Supp     b'symb'
--1.233540 O        b'lemma[:1]:\xce\xb4'
--1.266754 Supp     b'hGreek'
--1.301358 O        b'-1:postag:VBG'
--1.514277 O        b'-1:postag::'
--1.655597 OD       b'postag[:1]:-'
--1.753063 O        b'+1:lemma:in'
--1.852806 OD       b'lemma[:1]:-'
--1.885226 O        b'-1:lemma:2'
--1.959854 O        b'+1:lemma:2'
--2.144976 O        b'+1:lemma:1'
--3.787456 O        b'-1:lemma::'
--4.714231 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.279361962019874, 'c2': 0.0038200106679588276}
-best CV score:0.8186573824050531
-model size: 0.07M
-
-Flat F1: 0.8128691445699846
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.780     0.742     0.760        62
-       Anti      1.000     0.889     0.941         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.918     0.849     0.882       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.835     0.669     0.743       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.869     0.773     0.813       480
-
-
-Top likely transitions:
-Agit   -> Agit    7.239488
-OD     -> OD      6.986110
-Temp   -> Temp    6.018161
-Anti   -> Anti    5.460406
-Med    -> Med     5.405632
-Supp   -> Supp    4.891085
-Air    -> Air     4.827197
-Phase  -> Phase   4.808148
-Gversion -> Gversion 4.563407
-Gtype  -> Gtype   4.416717
-O      -> O       3.914205
-Technique -> Technique 3.585291
-pH     -> pH      2.066900
-O      -> Supp    2.030835
-Gtype  -> Supp    1.504335
-Air    -> O       1.080882
-O      -> Technique 0.833471
-O      -> Gtype   0.713793
-O      -> Anti    0.531693
-OD     -> Phase   0.408195
-Substrain -> Gtype   0.381038
-O      -> Gversion 0.245512
-O      -> Temp    0.216347
-Med    -> O       0.140439
-Supp   -> O       0.136031
-Phase  -> O       0.111016
-O      -> Phase   0.102578
-O      -> Med     0.027873
-Technique -> Air     0.004864
-Temp   -> O       0.002877
-Phase  -> Air     0.002070
-O      -> OD      -0.000053
-Air    -> Temp    -0.001109
-Technique -> pH      -0.003137
-Anti   -> O       -0.004004
-OD     -> Air     -0.082107
-Supp   -> Med     -0.222493
-Gtype  -> Anti    -0.266509
-Phase  -> OD      -0.268963
-OD     -> O       -0.365524
-Gtype  -> O       -0.470283
-Supp   -> Gtype   -0.575625
-Agit   -> O       -0.740344
-O      -> Air     -0.754198
-Med    -> Supp    -0.916394
-Technique -> O       -0.944892
-Substrain -> O       -1.056452
-
-
-Top unlikely transitions:
-Agit   -> Agit    7.239488
-OD     -> OD      6.986110
-Temp   -> Temp    6.018161
-Anti   -> Anti    5.460406
-Med    -> Med     5.405632
-Supp   -> Supp    4.891085
-Air    -> Air     4.827197
-Phase  -> Phase   4.808148
-Gversion -> Gversion 4.563407
-Gtype  -> Gtype   4.416717
-O      -> O       3.914205
-Technique -> Technique 3.585291
-pH     -> pH      2.066900
-O      -> Supp    2.030835
-Gtype  -> Supp    1.504335
-Air    -> O       1.080882
-O      -> Technique 0.833471
-O      -> Gtype   0.713793
-O      -> Anti    0.531693
-OD     -> Phase   0.408195
-Substrain -> Gtype   0.381038
-O      -> Gversion 0.245512
-O      -> Temp    0.216347
-Med    -> O       0.140439
-Supp   -> O       0.136031
-Phase  -> O       0.111016
-O      -> Phase   0.102578
-O      -> Med     0.027873
-Technique -> Air     0.004864
-Temp   -> O       0.002877
-Phase  -> Air     0.002070
-O      -> OD      -0.000053
-Air    -> Temp    -0.001109
-Technique -> pH      -0.003137
-Anti   -> O       -0.004004
-OD     -> Air     -0.082107
-Supp   -> Med     -0.222493
-Gtype  -> Anti    -0.266509
-Phase  -> OD      -0.268963
-OD     -> O       -0.365524
-Gtype  -> O       -0.470283
-Supp   -> Gtype   -0.575625
-Agit   -> O       -0.740344
-O      -> Air     -0.754198
-Med    -> Supp    -0.916394
-Technique -> O       -0.944892
-Substrain -> O       -1.056452
-
-
-Top positive:
-8.966672 Technique b'lemma[:2]:Ch'
-6.588612 Phase    b'lemma:stationary'
-5.718268 Air      b'lemma:anaerobic'
-5.159572 O        b'lemma[:2]:re'
-4.823035 O        b'-1:lemma:tag'
-4.717845 Air      b'lemma:aerobic'
-4.658070 Phase    b'lemma:mid-log'
-4.421877 OD       b'lemma[:2]:od'
-4.420602 Gtype    b'lemma:arca8myc'
-4.062533 O        b'lemma:1'
-4.062533 O        b'lemma[:2]:1'
-3.912148 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.888418 Air      b'-1:lemma:ChIP-Seq'
-3.848911 O        b'lemma:rpob'
-3.769611 O        b'lemma[:2]:ge'
-3.714984 Strain   b'+1:lemma:substr'
-3.670004 Gtype    b'lemma[:2]:fl'
-3.560689 O        b'lemma:with'
-3.436525 O        b'-1:lemma:ChIP-exo'
-3.429177 Supp     b'lemma:arginine'
-3.425608 Technique b'lemma[:2]:rn'
-3.371645 Med      b'+1:lemma:0.4'
-3.328846 Supp     b'lemma:Iron'
-3.328846 Supp     b'lemma[:2]:Ir'
-3.321795 Supp     b'+1:lemma:1'
-3.310404 Supp     b'+1:lemma:\xc2\xb5m'
-3.308999 Temp     b'-1:lemma:sample'
-3.277763 Technique b'lemma:chipseq'
-3.240649 Gversion b'-1:lemma:nc'
-3.124383 Gtype    b'lemma[:1]:\xce\xb4'
-3.090861 O        b'-1:lemma:Aerobic'
-3.008868 O        b'lemma:3'
-3.008868 O        b'lemma[:2]:3'
-3.007173 O        b'+1:lemma:pq'
-3.000180 O        b'+1:lemma:od600'
-3.000100 Gtype    b'lemma[:2]:cr'
-2.948508 OD       b'+1:lemma:stationary'
-2.947897 O        b'-1:lemma:0.3-0.35'
-2.947877 O        b'lemma:2'
-2.947877 O        b'lemma[:2]:2'
-2.932527 Gtype    b'lemma:fnr8myc'
-2.885967 Supp     b'lemma:fructose'
-2.838346 Temp     b'lemma[:1]:3'
-2.804560 Supp     b'+1:lemma:2'
-2.762138 Med      b'lemma:MOPS'
-2.762138 Med      b'lemma[:1]:M'
-2.762138 Med      b'lemma[:2]:MO'
-2.737960 O        b'-1:lemma:anaerobic'
-2.712644 Gtype    b'lemma[:2]:de'
-2.710120 Anti     b'+1:lemma:antibody'
-2.704453 Supp     b'lemma[:2]:0.'
-2.695502 O        b'-1:lemma:0.3'
-2.674794 O        b'lemma:_'
-2.674794 O        b'lemma[:1]:_'
-2.674794 O        b'lemma[:2]:_'
-2.661858 Supp     b'-1:lemma:Cra'
-2.648028 Anti     b'lemma[:2]:an'
-2.616030 Supp     b'lemma:nitrate'
-2.616030 Supp     b'lemma[:2]:ni'
-2.599686 Technique b'-1:lemma:input'
-2.597924 Med      b'lemma[:1]:L'
-2.576426 Gtype    b'-1:lemma:rpob'
-2.565057 Gtype    b'lemma:type'
-2.565057 Gtype    b'lemma[:2]:ty'
-2.560359 pH       b'lemma:ph5'
-2.560359 pH       b'+1:lemma:.5'
-2.509084 O        b'lemma:delta'
-2.478623 Gtype    b'lemma[:1]:W'
-2.469353 O        b'+1:postag:RB'
-2.432106 Gtype    b'lemma:nsrr'
-2.432106 Gtype    b'lemma[:2]:ns'
-2.399084 Temp     b'-1:lemma:\xcf\x8332'
-2.385698 Gversion b'lemma:nc'
-2.385698 Gversion b'lemma[:2]:nc'
-2.368284 Supp     b'lemma:rifampicin'
-2.366613 Gtype    b'lemma:flag-tag'
-2.366613 Gtype    b'-1:lemma:c-terminal'
-2.365159 O        b'+1:lemma:sparging'
-2.361737 Gversion b'lemma[:2]:00'
-2.353117 Substrain b'lemma:mg1655'
-2.347459 O        b'-1:lemma:lb'
-2.343081 Supp     b'lemma[:2]:ri'
-2.304781 O        b'lemma:b'
-2.304781 O        b'lemma[:2]:b'
-2.284446 Gversion b'lemma:chip-seq'
-2.229948 Supp     b'lemma:pq'
-2.229948 Supp     b'lemma[:2]:pq'
-2.222205 Strain   b'lemma:k-12'
-2.222205 Strain   b'lemma[:2]:k-'
-2.167335 Supp     b'lemma[:1]:I'
-2.161918 Gtype    b'+1:lemma:flagtag'
-2.159386 Gversion b'lemma:asm584v2'
-2.144731 Gversion b'lemma[:2]:as'
-2.113656 Supp     b'+1:lemma:_'
-2.112060 Supp     b'lemma:acetate'
-2.090761 O        b'lemma[:2]:fo'
-2.078514 O        b'-1:lemma:glucose'
-2.068162 Air      b'lemma[:2]:an'
-2.062479 Air      b'lemma[:2]:ae'
-2.059001 Strain   b'lemma[:1]:k'
-2.056638 Technique b'+1:lemma:chip-exo'
-2.052703 O        b'-1:lemma:type'
-2.051285 O        b'lemma:\xcf\x8332'
-2.051285 O        b'lemma[:1]:\xcf\x83'
-2.051285 O        b'lemma[:2]:\xcf\x833'
-2.050334 Vess     b'lemma:flask'
-2.050334 Vess     b'-1:lemma:warm'
-2.032344 Substrain b'lemma[:2]:mg'
-2.030892 Vess     b'lemma[:2]:fl'
-2.027838 Air      b'-1:lemma:-'
-2.024791 Air      b'lemma[:1]:A'
-2.015955 Technique b'lemma[:2]:ch'
-2.002652 O        b'lemma:a'
-2.002652 O        b'lemma[:2]:a'
-1.996430 Substrain b'+1:lemma:phtpg'
-1.981067 Supp     b'lemma[:1]:1'
-1.954710 pH       b'+1:postag:CD'
-1.953189 Gtype    b'lemma[:2]:ar'
-1.939301 Gtype    b'hGreek'
-1.934603 Gtype    b'-1:lemma:_'
-1.932040 Med      b'+1:lemma:2.0'
-1.930878 O        b'lemma:0.4'
-1.909748 Supp     b'-1:lemma:+'
-1.867334 O        b'+1:postag:NNP'
-1.854658 Supp     b'+1:lemma:hour'
-1.852643 Supp     b'lemma[:2]:gl'
-1.850156 Supp     b'-1:lemma:with'
-1.841046 O        b'postag:IN'
-1.841046 O        b'postag[:1]:I'
-1.841046 O        b'postag[:2]:IN'
-1.840736 Air      b'lemma:Aerobic'
-1.840736 Air      b'lemma[:2]:Ae'
-1.839093 O        b'lemma[:1]:C'
-1.831912 Gtype    b'+1:lemma::'
-1.810536 Med      b'lemma:lb'
-1.810536 Med      b'lemma[:2]:lb'
-1.802382 Gtype    b'-1:lemma:vector'
-1.794761 Supp     b'lemma[:1]:\xc2\xb5'
-1.793907 O        b'lemma:Custom'
-1.793907 O        b'lemma[:2]:Cu'
-1.710377 Anti     b'lemma:none'
-1.695245 Air      b'lemma[:1]:a'
-1.679966 Gtype    b'+1:lemma:with'
-1.678353 O        b'postag::'
-1.678353 O        b'postag[:1]::'
-1.678353 O        b'postag[:2]::'
-1.672503 O        b'-1:lemma:l1'
-1.660511 O        b'+1:lemma:nacl'
-1.634575 Gtype    b'+1:lemma:type'
-1.633916 Air      b'-1:lemma:co2'
-1.633212 Temp     b'lemma:43'
-1.633212 Temp     b'lemma[:2]:43'
-1.630422 Technique b'+1:lemma:rna-seq'
-1.627467 Supp     b'lemma[:1]:2'
-1.617176 Med      b'+1:lemma:g/l'
-1.591078 Temp     b'-1:lemma:43'
-1.584703 Phase    b'lemma:exponentially'
-1.580088 Gtype    b'lemma[:1]:w'
-1.569142 Technique b'symb'
-1.544136 Med      b'+1:lemma:minimal'
-1.543828 Gversion b'lemma:.2'
-1.543828 Gversion b'-1:lemma:u00096'
-1.543828 Gversion b'lemma[:2]:.2'
-1.539233 Technique b'-1:lemma:1'
-1.535225 Gtype    b'-1:lemma:Combined'
-1.530825 O        b'lemma[:1]:-'
-1.529855 Gtype    b'lemma:wt'
-1.529855 Gtype    b'lemma[:2]:wt'
-1.526054 Med      b'lemma:broth'
-1.526054 Med      b'-1:lemma:L'
-1.526054 Med      b'lemma[:2]:br'
-1.523299 O        b'lemma:chip'
-1.508452 Supp     b'lemma:Fe'
-1.508452 Supp     b'lemma[:2]:Fe'
-1.503882 O        b'+1:lemma:mid-log'
-1.496251 Anti     b'-1:lemma::'
-1.486906 Supp     b'lemma[:2]:fe'
-1.470644 Anti     b'lemma:anti-rpos'
-1.462451 Supp     b'lemma:dpd'
-1.462451 Supp     b'lemma[:2]:dp'
-1.460661 Med      b'+1:lemma:-lrb-'
-1.458027 O        b'lemma[:2]:in'
-1.451098 pH       b'lemma:.5'
-1.451098 pH       b'-1:lemma:ph5'
-1.451098 pH       b'lemma[:2]:.5'
-1.446735 Med      b'+1:postag:-LRB-'
-1.442566 O        b'+1:lemma:ph5'
-1.438411 Supp     b'lemma:no3'
-1.436805 Supp     b'lemma:iptg'
-1.433263 O        b'lemma:.'
-1.433263 O        b'postag:.'
-1.433263 O        b'postag[:1]:.'
-1.433263 O        b'postag[:2]:.'
-1.433263 O        b'lemma[:2]:.'
-1.423900 O        b'-1:lemma:\xc2\xb0c'
-1.418739 Supp     b'lemma:0.1'
-1.401196 O        b'lemma:purr'
-1.384007 Med      b'+1:lemma:contain'
-1.375436 Supp     b'lemma:nh4cl'
-1.375436 Supp     b'lemma[:2]:nh'
-
-
-Top negative:
--0.001541 O        b'+1:lemma:mm'
--0.001854 Gtype    b'postag[:1]:V'
--0.001854 Gtype    b'postag[:2]:VB'
--0.001951 Med      b'-1:postag:IN'
--0.002248 Air      b'lemma:-rrb-'
--0.002552 O        b'+1:lemma:phase'
--0.002974 O        b'lemma[:2]:an'
--0.003066 OD       b'postag[:1]:N'
--0.003066 OD       b'postag[:2]:NN'
--0.003120 O        b'lemma[:2]:de'
--0.004645 Supp     b'lemma:2'
--0.004645 Supp     b'lemma[:2]:2'
--0.004667 Med      b'+1:postag:NNS'
--0.005354 O        b'-1:lemma:from'
--0.006386 Temp     b'postag:NN'
--0.006593 Air      b'-1:postag:-LRB-'
--0.007131 Supp     b'postag:NNS'
--0.007895 O        b'-1:lemma:mid-log'
--0.011115 O        b'+1:lemma:delta'
--0.011562 Agit     b'-1:postag:NN'
--0.011701 Air      b'-1:lemma:-lrb-'
--0.012537 Technique b'postag[:1]:N'
--0.012537 Technique b'postag[:2]:NN'
--0.013175 OD       b'+1:postag:CC'
--0.013422 O        b'-1:lemma:o2'
--0.014314 Air      b'-1:lemma:aerobically'
--0.014690 OD       b'+1:lemma:of'
--0.019165 Air      b'lemma:and'
--0.019727 Air      b'-1:lemma:and'
--0.020299 Gtype    b'lemma[:1]:g'
--0.020563 O        b'-1:lemma:mm'
--0.020740 O        b'+1:lemma:shake'
--0.024009 Supp     b'-1:lemma:for'
--0.028824 Phase    b'-1:postag:NN'
--0.029809 Supp     b'lemma[:1]:t'
--0.031578 Gtype    b'lemma[:1]:,'
--0.032015 Gtype    b'lemma:,'
--0.032015 Gtype    b'postag:,'
--0.032015 Gtype    b'postag[:1]:,'
--0.032015 Gtype    b'postag[:2]:,'
--0.032015 Gtype    b'lemma[:2]:,'
--0.032915 Gversion b'+1:postag:NN'
--0.035323 Air      b'lemma[:1]:o'
--0.039237 O        b'-1:postag:JJ'
--0.040153 Supp     b'+1:postag:IN'
--0.043438 Supp     b'hUpper'
--0.043438 Supp     b'hLower'
--0.046431 O        b'lemma[:1]:d'
--0.048385 O        b'+1:lemma:co2'
--0.051633 Supp     b'+1:lemma:rifampicin'
--0.053267 O        b'+1:lemma:c'
--0.060706 O        b'+1:lemma:until'
--0.062235 pH       b'postag[:1]:N'
--0.062235 pH       b'postag[:2]:NN'
--0.063097 O        b'lemma[:2]:30'
--0.065359 Air      b'-1:postag:RB'
--0.065508 O        b'lemma:phase'
--0.071547 Agit     b'postag[:1]:N'
--0.071547 Agit     b'postag[:2]:NN'
--0.071659 O        b'+1:lemma:or'
--0.072012 O        b'+1:lemma:%'
--0.072345 Gtype    b'-1:postag:NN'
--0.075128 Gtype    b'-1:lemma:,'
--0.075128 Gtype    b'-1:postag:,'
--0.076044 Supp     b'-1:postag:NNP'
--0.076147 O        b'-1:lemma:of'
--0.082454 O        b'-1:lemma:IP'
--0.085284 Supp     b'lemma[:1]:o'
--0.086193 O        b'lemma[:2]:ce'
--0.091551 O        b'lemma[:2]:fe'
--0.091759 O        b'+1:lemma:+'
--0.095917 O        b'lemma:co2'
--0.101416 O        b'lemma:anaerobically'
--0.101520 Temp     b'hGreek'
--0.111323 O        b'lemma:37'
--0.111323 O        b'lemma[:2]:37'
--0.114466 O        b'-1:lemma:od600'
--0.114596 OD       b'postag:CD'
--0.114596 OD       b'postag[:2]:CD'
--0.117991 Air      b'+1:postag:-LRB-'
--0.119139 O        b'lemma[:2]:mg'
--0.122079 Air      b'+1:lemma:-lrb-'
--0.123263 O        b'-1:lemma:rna'
--0.128253 O        b'-1:postag:VBN'
--0.135604 O        b'+1:lemma:\xc2\xb0c'
--0.137855 Air      b'symb'
--0.144842 Supp     b'postag:CD'
--0.144842 Supp     b'postag[:2]:CD'
--0.147096 Gtype    b'+1:lemma:-rrb-'
--0.154114 Med      b'postag:NN'
--0.155465 Phase    b'postag:JJ'
--0.156939 Med      b'+1:postag:IN'
--0.159442 O        b'-1:lemma:rpob'
--0.159504 Air      b'postag:CC'
--0.159504 Air      b'postag[:2]:CC'
--0.165569 O        b'lemma:anaerobic'
--0.169530 Air      b'+1:postag:JJ'
--0.175033 Anti     b'symb'
--0.207569 Technique b'-1:lemma::'
--0.211170 O        b'-1:lemma:the'
--0.212648 Med      b'postag[:1]:C'
--0.215967 O        b'-1:lemma:grow'
--0.217662 Med      b'+1:postag:NN'
--0.222008 Technique b'postag:NN'
--0.224207 O        b'+1:lemma:-rrb-'
--0.227966 O        b'lemma[:2]:od'
--0.234046 O        b'-1:lemma:-lrb-'
--0.242892 Anti     b'+1:lemma:anti-fur'
--0.243109 O        b'lemma[:2]:me'
--0.257081 O        b'lemma:of'
--0.257081 O        b'lemma[:2]:of'
--0.276390 Phase    b'-1:postag:JJ'
--0.293682 O        b'lemma:wt'
--0.293682 O        b'lemma[:2]:wt'
--0.295413 O        b'+1:postag:IN'
--0.297541 OD       b'+1:postag:CD'
--0.307394 O        b'lemma[:2]:ae'
--0.307787 O        b'-1:lemma:ml'
--0.308022 O        b'lemma[:1]:p'
--0.312845 O        b'-1:lemma:37'
--0.316240 Temp     b'+1:lemma:to'
--0.316240 Temp     b'+1:postag:TO'
--0.318530 Phase    b'-1:lemma:at'
--0.325023 Agit     b'symb'
--0.330260 O        b'lemma:2h'
--0.330260 O        b'-1:lemma:additional'
--0.330260 O        b'lemma[:2]:2h'
--0.331312 Air      b'postag[:1]:N'
--0.331312 Air      b'postag[:2]:NN'
--0.335232 O        b'postag:VBP'
--0.345145 Phase    b'postag[:1]:J'
--0.345145 Phase    b'postag[:2]:JJ'
--0.346773 O        b'lemma[:2]:0.'
--0.347618 Air      b'-1:postag:CC'
--0.356296 O        b'-1:postag:-LRB-'
--0.358625 O        b'+1:lemma:fecl2'
--0.364284 O        b'+1:postag:-RRB-'
--0.380241 Med      b'-1:postag:CD'
--0.399176 O        b'+1:postag:VBG'
--0.399486 O        b'lemma[:2]:gl'
--0.403156 O        b'lemma:20'
--0.442379 O        b'+1:lemma:cell'
--0.447923 Technique b'-1:postag::'
--0.457780 Med      b'-1:postag:NN'
--0.460270 Supp     b'+1:postag:VBN'
--0.472546 O        b'lemma[:1]:L'
--0.491295 O        b'-1:postag:IN'
--0.492050 O        b'lemma[:2]:ri'
--0.496617 Supp     b'postag[:1]:C'
--0.506785 O        b'-1:lemma:ompr'
--0.527743 Supp     b'postag:JJ'
--0.527772 Agit     b'hUpper'
--0.527772 Agit     b'hLower'
--0.536034 Air      b'postag:NN'
--0.546321 Supp     b'postag[:1]:J'
--0.546321 Supp     b'postag[:2]:JJ'
--0.559301 Air      b'-1:lemma:or'
--0.562023 Gtype    b'lemma:delta'
--0.583547 O        b'+1:lemma:.'
--0.583547 O        b'+1:postag:.'
--0.587969 O        b'lemma:mid-log'
--0.616736 O        b'-1:lemma:cra'
--0.626025 Supp     b'lemma[:1]:c'
--0.634232 Med      b'symb'
--0.636392 Supp     b'lemma[:2]:an'
--0.643020 O        b'-1:lemma:nsrr'
--0.651532 O        b'+1:postag:NNS'
--0.679804 Gtype    b'lemma[:1]:m'
--0.686303 O        b'lemma[:1]:0'
--0.688904 O        b'+1:lemma:supplement'
--0.736464 Supp     b'-1:lemma:%'
--0.766132 O        b'+1:lemma:hour'
--0.767111 O        b'lemma:rifampicin'
--0.796135 O        b'+1:lemma:g/l'
--0.812830 O        b'-1:lemma:co2'
--0.838937 Gtype    b'lemma[:1]:c'
--0.841550 O        b'-1:lemma:dissolve'
--0.841550 O        b'+1:lemma:methanol'
--0.856382 O        b'lemma:methanol'
--0.892060 Phase    b'hUpper'
--0.892060 Phase    b'hLower'
--0.975475 O        b'+1:lemma:at'
--0.989308 O        b'lemma[:1]:A'
--1.004723 Anti     b'postag:NNP'
--1.018629 OD       b'+1:postag:NN'
--1.026001 Air      b'-1:postag:JJ'
--1.155732 O        b'-1:postag:VBG'
--1.224739 Gtype    b'lemma[:1]:a'
--1.278104 O        b'-1:postag::'
--1.599751 Supp     b'hGreek'
--1.606260 Supp     b'symb'
--1.617602 O        b'lemma[:1]:\xce\xb4'
--1.739815 OD       b'postag[:1]:-'
--1.843942 O        b'+1:lemma:in'
--1.945645 O        b'+1:lemma:2'
--1.964299 OD       b'lemma[:1]:-'
--2.043167 O        b'-1:lemma:2'
--2.316510 O        b'+1:lemma:1'
--4.221572 O        b'-1:lemma::'
--4.721306 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.2964346107181682, 'c2': 0.033092970074011845}
-best CV score:0.7978231610325259
-model size: 0.07M
-
-Flat F1: 0.8182231777447608
-             precision    recall  f1-score   support
-
-         OD      0.769     0.400     0.526        25
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.789     0.882        19
-        Air      0.763     0.763     0.763        59
-       Anti      0.875     0.778     0.824         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.810     0.833     0.821       102
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.879     0.740     0.803       127
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.854     0.794     0.818       452
-
-
-Top likely transitions:
-OD     -> OD      6.341340
-Agit   -> Agit    5.796664
-Med    -> Med     5.137165
-Temp   -> Temp    4.995762
-Anti   -> Anti    4.990782
-Gtype  -> Gtype   4.240477
-Gversion -> Gversion 4.225898
-Supp   -> Supp    4.204534
-Air    -> Air     3.999870
-Phase  -> Phase   3.766897
-Technique -> Technique 3.408533
-O      -> O       3.070414
-pH     -> pH      2.382635
-O      -> Supp    1.706269
-Gtype  -> Supp    1.701317
-Phase  -> Supp    1.187792
-Air    -> Temp    1.062230
-O      -> Gtype   1.028035
-O      -> Technique 0.914562
-Vess   -> Temp    0.909296
-Substrain -> Gtype   0.750526
-Air    -> Phase   0.620936
-Med    -> O       0.613845
-Temp   -> Agit    0.571012
-Air    -> Med     0.331698
-O      -> Anti    0.318145
-O      -> Gversion 0.070972
-Med    -> Supp    0.067887
-Technique -> Air     0.035349
-Air    -> O       0.020752
-Supp   -> O       0.013814
-Supp   -> Technique -0.037404
-Vess   -> O       -0.060438
-Gtype  -> Phase   -0.068194
-O      -> Phase   -0.091450
-OD     -> O       -0.114114
-Supp   -> Gtype   -0.122317
-Gtype  -> OD      -0.173122
-Anti   -> O       -0.230490
-Gtype  -> Med     -0.240559
-O      -> Air     -0.241130
-O      -> Temp    -0.243070
-Technique -> pH      -0.267697
-Phase  -> OD      -0.299766
-Supp   -> Med     -0.355333
-Gversion -> O       -0.394835
-OD     -> Med     -0.450024
-Gtype  -> Anti    -0.546414
-O      -> Agit    -0.704801
-Agit   -> O       -0.801535
-
-
-Top unlikely transitions:
-Temp   -> Temp    4.995762
-Anti   -> Anti    4.990782
-Gtype  -> Gtype   4.240477
-Gversion -> Gversion 4.225898
-Supp   -> Supp    4.204534
-Air    -> Air     3.999870
-Phase  -> Phase   3.766897
-Technique -> Technique 3.408533
-O      -> O       3.070414
-pH     -> pH      2.382635
-O      -> Supp    1.706269
-Gtype  -> Supp    1.701317
-Phase  -> Supp    1.187792
-Air    -> Temp    1.062230
-O      -> Gtype   1.028035
-O      -> Technique 0.914562
-Vess   -> Temp    0.909296
-Substrain -> Gtype   0.750526
-Air    -> Phase   0.620936
-Med    -> O       0.613845
-Temp   -> Agit    0.571012
-Air    -> Med     0.331698
-O      -> Anti    0.318145
-O      -> Gversion 0.070972
-Med    -> Supp    0.067887
-Technique -> Air     0.035349
-Air    -> O       0.020752
-Supp   -> O       0.013814
-Supp   -> Technique -0.037404
-Vess   -> O       -0.060438
-Gtype  -> Phase   -0.068194
-O      -> Phase   -0.091450
-OD     -> O       -0.114114
-Supp   -> Gtype   -0.122317
-Gtype  -> OD      -0.173122
-Anti   -> O       -0.230490
-Gtype  -> Med     -0.240559
-O      -> Air     -0.241130
-O      -> Temp    -0.243070
-Technique -> pH      -0.267697
-Phase  -> OD      -0.299766
-Supp   -> Med     -0.355333
-Gversion -> O       -0.394835
-OD     -> Med     -0.450024
-Gtype  -> Anti    -0.546414
-O      -> Agit    -0.704801
-Agit   -> O       -0.801535
-Gtype  -> O       -0.877514
-Substrain -> O       -0.942951
-Technique -> O       -1.070076
-
-
-Top positive:
-5.560165 Technique b'lemma[:2]:Ch'
-3.867275 O        b'lemma[:2]:re'
-3.624712 Air      b'lemma:anaerobic'
-3.330563 Phase    b'lemma:mid-log'
-3.251308 O        b'-1:lemma:tag'
-3.248997 O        b'+1:lemma:m63'
-3.228929 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.210040 O        b'lemma:1'
-3.210040 O        b'lemma[:2]:1'
-3.159131 OD       b'lemma[:2]:od'
-3.135910 Gtype    b'+1:lemma:flagtag'
-3.047581 Supp     b'+1:lemma:\xc2\xb5m'
-2.949460 Med      b'+1:lemma:0.4'
-2.916942 Air      b'lemma:aerobic'
-2.901664 Gtype    b'lemma[:1]:\xce\xb4'
-2.895390 Gtype    b'lemma:arca8myc'
-2.891054 O        b'+1:lemma:od600'
-2.884994 Gtype    b'lemma[:2]:cr'
-2.868477 Phase    b'lemma:stationary'
-2.758780 Supp     b'lemma:Iron'
-2.758780 Supp     b'lemma[:2]:Ir'
-2.751464 Supp     b'+1:lemma:1'
-2.749032 Air      b'lemma[:1]:a'
-2.739001 Air      b'-1:lemma:ChIP-Seq'
-2.637207 Supp     b'+1:lemma:2'
-2.611400 Anti     b'+1:lemma:antibody'
-2.538029 Substrain b'lemma:mg1655'
-2.532452 O        b'-1:lemma:ChIP-exo'
-2.530749 Gversion b'-1:lemma:nc'
-2.522114 O        b'lemma:rpob'
-2.497323 O        b'lemma:_'
-2.497323 O        b'lemma[:1]:_'
-2.497323 O        b'lemma[:2]:_'
-2.467576 O        b'lemma:2'
-2.467576 O        b'lemma[:2]:2'
-2.451387 Technique b'lemma[:2]:rn'
-2.450652 O        b'lemma:c-terminal'
-2.450652 O        b'+1:lemma:flag-tag'
-2.450652 O        b'lemma[:2]:c-'
-2.442475 Gtype    b'lemma[:2]:de'
-2.418091 O        b'lemma:3'
-2.418091 O        b'lemma[:2]:3'
-2.408360 OD       b'+1:lemma:stationary'
-2.385694 Temp     b'-1:lemma:sample'
-2.372903 Gtype    b'-1:lemma:rpob'
-2.354163 Gtype    b'lemma:type'
-2.354163 Gtype    b'lemma[:2]:ty'
-2.346327 O        b'lemma[:2]:ge'
-2.344928 Technique b'lemma:chipseq'
-2.307523 Gtype    b'lemma[:1]:w'
-2.303430 Med      b'lemma[:1]:L'
-2.301957 Technique b'lemma[:1]:C'
-2.289093 Supp     b'lemma:arginine'
-2.273052 O        b'-1:lemma:Aerobic'
-2.264869 Med      b'+1:lemma:2.0'
-2.254065 O        b'-1:lemma:anaerobic'
-2.249649 Gtype    b'lemma[:1]:W'
-2.162423 Anti     b'lemma[:2]:an'
-2.160242 Strain   b'lemma:k-12'
-2.160242 Strain   b'lemma[:2]:k-'
-2.144723 Supp     b'lemma:acetate'
-2.129184 Gtype    b'lemma:flag-tag'
-2.129184 Gtype    b'-1:lemma:c-terminal'
-2.111214 Air      b'lemma[:1]:A'
-2.098945 Gtype    b'lemma:nsrr'
-2.098945 Gtype    b'lemma[:2]:ns'
-2.095022 Supp     b'-1:lemma:supplement'
-2.082819 O        b'-1:lemma:fructose'
-2.076750 pH       b'lemma:ph5'
-2.076750 pH       b'+1:lemma:.5'
-2.072261 Temp     b'-1:lemma:\xcf\x8332'
-2.065755 O        b'lemma:b'
-2.065755 O        b'lemma[:2]:b'
-2.065419 Gtype    b'+1:lemma:type'
-2.051267 Air      b'lemma[:2]:an'
-2.036209 Technique b'lemma[:2]:ch'
-2.031416 O        b'+1:lemma:pq'
-2.016412 Temp     b'lemma[:1]:3'
-2.004704 Supp     b'+1:lemma:mid-log'
-1.984448 O        b'-1:lemma:0.3-0.35'
-1.967808 Supp     b'lemma[:2]:0.'
-1.947363 Supp     b'lemma:nitrate'
-1.947363 Supp     b'lemma[:2]:ni'
-1.937420 Gversion b'lemma:chip-seq'
-1.913900 Gversion b'lemma:nc'
-1.913900 Gversion b'lemma[:2]:nc'
-1.912878 O        b'lemma:0.4'
-1.907802 Strain   b'+1:lemma:substr'
-1.897924 Air      b'lemma[:2]:ae'
-1.871109 Phase    b'-1:lemma:mid-log'
-1.845125 Air      b'lemma:Aerobic'
-1.845125 Air      b'lemma[:2]:Ae'
-1.827855 Supp     b'-1:lemma:Cra'
-1.824332 Supp     b'lemma:Fe'
-1.824332 Supp     b'lemma[:2]:Fe'
-1.824175 Supp     b'lemma:pq'
-1.824175 Supp     b'lemma[:2]:pq'
-1.809404 Supp     b'+1:lemma:_'
-1.808766 OD       b'lemma[:1]:o'
-1.806302 Med      b'isUpper'
-1.798647 Gtype    b'lemma[:2]:fl'
-1.798534 Supp     b'lemma[:2]:gl'
-1.795820 O        b'lemma:Custom'
-1.795820 O        b'lemma[:2]:Cu'
-1.790374 Air      b'+1:lemma:37'
-1.790074 Gversion b'lemma[:2]:00'
-1.785485 Supp     b'lemma[:2]:fe'
-1.780403 O        b'+1:postag:RB'
-1.756454 Supp     b'lemma:iptg'
-1.735997 Supp     b'lemma[:1]:I'
-1.733781 Gtype    b'lemma:fnr8myc'
-1.728269 Gversion b'lemma:asm584v2'
-1.728269 Gversion b'lemma[:2]:as'
-1.720876 Supp     b'+1:lemma:hour'
-1.715461 Temp     b'-1:lemma:37'
-1.694020 Substrain b'lemma[:2]:mg'
-1.689985 Strain   b'lemma[:1]:k'
-1.673566 O        b'postag::'
-1.673566 O        b'postag[:1]::'
-1.673566 O        b'postag[:2]::'
-1.669711 Supp     b'lemma[:1]:2'
-1.661627 O        b'+1:postag:VBD'
-1.659863 Vess     b'lemma:flask'
-1.659863 Vess     b'-1:lemma:warm'
-1.656423 Gtype    b'lemma[:2]:ar'
-1.655250 Supp     b'lemma[:1]:1'
-1.654055 Med      b'lemma[:1]:m'
-1.646225 Med      b'lemma:MOPS'
-1.646225 Med      b'lemma[:1]:M'
-1.646225 Med      b'lemma[:2]:MO'
-1.643933 Vess     b'lemma[:2]:fl'
-1.636408 O        b'-1:lemma:medium'
-1.620415 O        b'postag[:1]:V'
-1.620415 O        b'postag[:2]:VB'
-1.611470 Supp     b'lemma:fructose'
-1.588047 Temp     b'+1:lemma:\xc2\xb0c'
-1.571785 Technique b'symb'
-1.567665 Supp     b'lemma:dpd'
-1.567665 Supp     b'lemma[:2]:dp'
-1.561904 Gtype    b'+1:lemma:_'
-1.558404 O        b'+1:lemma:grow'
-1.556080 Technique b'-1:lemma:input'
-1.531102 Gtype    b'+1:lemma::'
-1.516656 O        b'isNumber'
-1.513499 Technique b'+1:lemma:chip-exo'
-1.484457 pH       b'+1:postag:CD'
-1.479000 Gtype    b'lemma[:2]:wi'
-1.463363 O        b'+1:lemma:sparging'
-1.455056 Med      b'+1:lemma:supplement'
-1.451942 Anti     b'-1:lemma::'
-1.445199 Gtype    b'+1:postag::'
-1.418029 Gtype    b'-1:lemma:_'
-1.414884 Gtype    b'hGreek'
-1.409332 Supp     b'lemma[:2]:ac'
-1.384832 Med      b'lemma:lb'
-1.384832 Med      b'lemma[:2]:lb'
-1.381767 Gtype    b'lemma:wt'
-1.381767 Gtype    b'lemma[:2]:wt'
-1.376804 O        b'isLower'
-1.370539 O        b'-1:lemma:wt'
-1.369037 Supp     b'-1:lemma:media'
-1.368164 O        b'lemma:chip'
-1.362593 Temp     b'-1:lemma:43'
-1.357457 O        b'lemma:.'
-1.357457 O        b'postag:.'
-1.357457 O        b'postag[:1]:.'
-1.357457 O        b'postag[:2]:.'
-1.357457 O        b'lemma[:2]:.'
-1.343506 Gtype    b'-1:lemma:vector'
-1.332982 Gtype    b'lemma:pk4854'
-1.332982 Gtype    b'lemma[:2]:pk'
-1.331836 O        b'-1:lemma:antibody'
-1.322840 Gtype    b'lemma[:1]:f'
-1.319451 Gtype    b'-1:lemma:dna'
-1.319338 Med      b'+1:lemma:g/l'
-1.314272 O        b'lemma:\xcf\x8332'
-1.314272 O        b'lemma[:1]:\xcf\x83'
-1.314272 O        b'lemma[:2]:\xcf\x833'
-1.313977 Technique b'-1:lemma:chip-exo'
-1.307181 O        b'-1:lemma:mg/ml'
-1.305428 Supp     b'-1:lemma:+'
-1.296639 O        b'lemma:purr'
-1.293394 Supp     b'-1:lemma:0.2'
-1.292494 O        b'-1:lemma:l1'
-1.282743 Supp     b'lemma[:2]:fr'
-1.274232 Supp     b'lemma:rifampicin'
-1.268226 Air      b'+1:lemma:L'
-1.266974 Supp     b'lemma:nh4cl'
-1.266974 Supp     b'lemma[:2]:nh'
-1.264907 Supp     b'lemma[:2]:ri'
-1.262307 Supp     b'-1:postag:CD'
-1.260796 O        b'+1:lemma:acetate'
-1.259575 OD       b'lemma[:2]:0.'
-1.259142 Technique b'-1:lemma:_'
-1.246498 Gversion b'postag:NN'
-1.244033 Gtype    b'symb'
-1.240305 Supp     b'lemma[:2]:ip'
-1.236703 Temp     b'lemma:43'
-1.236703 Temp     b'lemma[:2]:43'
-1.228007 Gtype    b'+1:lemma:control'
-
-
-Top negative:
--0.001047 O        b'+1:lemma:0.4'
--0.001061 Supp     b'postag[:1]:C'
--0.001343 O        b'lemma[:2]:co'
--0.001801 Phase    b'+1:postag:NN'
--0.001816 Supp     b'lemma[:1]:r'
--0.003273 Supp     b'+1:lemma:-rrb-'
--0.004514 Agit     b'isUpper'
--0.005651 Supp     b'+1:postag:-RRB-'
--0.007968 O        b'lemma[:2]:0.'
--0.008508 Air      b'isUpper'
--0.008563 Supp     b'-1:postag::'
--0.008695 Air      b'postag:-RRB-'
--0.008695 Air      b'postag[:2]:-R'
--0.008695 Air      b'lemma[:2]:-r'
--0.009571 OD       b'hUpper'
--0.009571 OD       b'hLower'
--0.011349 Supp     b'hUpper'
--0.011349 Supp     b'hLower'
--0.011606 O        b'-1:postag:JJ'
--0.011683 pH       b'postag[:1]:N'
--0.011683 pH       b'postag[:2]:NN'
--0.012286 Supp     b'isNumber'
--0.014704 Air      b'lemma:-rrb-'
--0.017854 O        b'-1:lemma:control'
--0.021700 Med      b'postag:NN'
--0.024044 O        b'lemma:sample'
--0.026147 Supp     b'postag:CD'
--0.026147 Supp     b'postag[:2]:CD'
--0.028829 Air      b'-1:postag:RB'
--0.029219 Gtype    b'lemma[:1]:n'
--0.031150 Agit     b'symb'
--0.031420 O        b'-1:postag:VBN'
--0.031634 Air      b'lemma[:1]:n'
--0.032172 O        b'+1:lemma:rep1'
--0.032713 O        b'+1:postag:JJ'
--0.033674 OD       b'postag:CD'
--0.033674 OD       b'postag[:2]:CD'
--0.033755 OD       b'postag[:1]:N'
--0.033755 OD       b'postag[:2]:NN'
--0.035292 Air      b'+1:lemma:anaerobically'
--0.038458 Temp     b'postag:NN'
--0.040319 Supp     b'-1:lemma:%'
--0.041803 Temp     b'hGreek'
--0.050279 Med      b'-1:lemma:lb'
--0.052295 O        b'-1:lemma:ml'
--0.053032 O        b'+1:lemma:sample'
--0.061146 Gtype    b'lemma[:1]:m'
--0.063531 Vess     b'hUpper'
--0.063531 Vess     b'hLower'
--0.067513 Supp     b'isLower'
--0.080308 Temp     b'postag[:1]:N'
--0.080308 Temp     b'postag[:2]:NN'
--0.082384 Supp     b'isUpper'
--0.086496 Supp     b'+1:lemma:acetate'
--0.089008 O        b'lemma[:2]:30'
--0.093208 O        b'lemma[:2]:fe'
--0.093816 O        b'lemma[:1]:m'
--0.096992 O        b'lemma[:1]:d'
--0.099835 Gtype    b'+1:lemma:-rrb-'
--0.103697 O        b'lemma[:2]:od'
--0.106617 Anti     b'symb'
--0.111217 Phase    b'postag:JJ'
--0.111217 Phase    b'postag[:1]:J'
--0.111217 Phase    b'postag[:2]:JJ'
--0.115123 Gversion b'+1:postag:NN'
--0.120980 Air      b'-1:postag:-RRB-'
--0.124184 Gtype    b'lemma[:2]:rp'
--0.124385 Air      b'-1:lemma:-rrb-'
--0.134523 O        b'lemma:phase'
--0.137832 Air      b'isLower'
--0.138018 O        b'-1:postag:RB'
--0.142066 Anti     b'+1:lemma:anti-fur'
--0.154765 O        b'+1:lemma:hour'
--0.162942 O        b'lemma[:1]:n'
--0.164561 O        b'lemma:20'
--0.167133 OD       b'postag[:1]:C'
--0.167374 O        b'lemma:2h'
--0.167374 O        b'-1:lemma:additional'
--0.167374 O        b'lemma[:2]:2h'
--0.168348 OD       b'isLower'
--0.175723 O        b'-1:lemma:stir'
--0.176493 O        b'+1:lemma:0.3'
--0.176731 O        b'+1:lemma:culture'
--0.176925 O        b'-1:lemma:dna'
--0.178939 O        b'+1:lemma:delta'
--0.190332 Air      b'symb'
--0.197832 Anti     b'+1:postag:JJ'
--0.203484 Supp     b'lemma[:2]:mi'
--0.206368 Air      b'postag[:1]:N'
--0.206368 Air      b'postag[:2]:NN'
--0.207030 Gtype    b'-1:lemma:,'
--0.207030 Gtype    b'-1:postag:,'
--0.209582 O        b'-1:lemma:IP'
--0.213265 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.215249 Gtype    b'-1:lemma:mg1655'
--0.217685 O        b'lemma:fecl2'
--0.220159 O        b'+1:lemma:-rrb-'
--0.220935 Gtype    b'-1:postag:NN'
--0.227404 Technique b'postag:NN'
--0.230401 Technique b'-1:lemma::'
--0.232009 Air      b'lemma:aerobically'
--0.236029 O        b'+1:lemma:phase'
--0.238310 O        b'lemma:wt'
--0.238310 O        b'lemma[:2]:wt'
--0.243118 Temp     b'-1:postag:NN'
--0.244383 O        b'lemma[:2]:ph'
--0.246532 O        b'-1:lemma:-lrb-'
--0.249897 O        b'-1:lemma:37'
--0.254341 O        b'lemma[:1]:L'
--0.257191 Gtype    b'-1:postag:SYM'
--0.263503 O        b'lemma[:2]:di'
--0.264603 O        b'lemma[:1]:w'
--0.264928 O        b'-1:lemma:grow'
--0.265388 O        b'+1:lemma:antibody'
--0.273738 O        b'lemma[:2]:ce'
--0.277706 O        b'lemma[:1]:k'
--0.279240 O        b'lemma[:1]:4'
--0.290259 Supp     b'postag:JJ'
--0.290259 Supp     b'postag[:1]:J'
--0.290259 Supp     b'postag[:2]:JJ'
--0.292361 O        b'-1:lemma:rna'
--0.304576 Technique b'isUpper'
--0.307541 Technique b'isLower'
--0.310027 O        b'lemma[:2]:me'
--0.339328 O        b'-1:lemma:ompr'
--0.339987 O        b'-1:postag:-LRB-'
--0.345773 O        b'lemma:150'
--0.345773 O        b'-1:lemma:concentration'
--0.345773 O        b'+1:lemma:mg/ml'
--0.345773 O        b'lemma[:2]:15'
--0.347446 Med      b'-1:postag:NN'
--0.348906 Supp     b'lemma:2'
--0.348906 Supp     b'lemma[:2]:2'
--0.351429 Air      b'+1:lemma:-lrb-'
--0.352484 Air      b'+1:postag:-LRB-'
--0.353556 O        b'-1:lemma:cra'
--0.356329 Supp     b'+1:lemma:dpd'
--0.369302 Agit     b'hUpper'
--0.369302 Agit     b'hLower'
--0.381952 Technique b'-1:postag::'
--0.384746 O        b'-1:lemma:rifampicin'
--0.399014 O        b'lemma:cell'
--0.402687 O        b'+1:lemma:dissolve'
--0.409688 Gtype    b'isNumber'
--0.436191 O        b'lemma[:2]:gl'
--0.440734 O        b'+1:lemma:cell'
--0.442622 O        b'+1:postag:NNS'
--0.452887 O        b'lemma[:1]:p'
--0.455834 O        b'+1:lemma:.'
--0.455834 O        b'+1:postag:.'
--0.459545 O        b'lemma[:2]:mg'
--0.481182 Air      b'-1:postag:JJ'
--0.482835 OD       b'+1:postag:NN'
--0.494269 Air      b'postag:NN'
--0.509176 O        b'+1:postag:-RRB-'
--0.510299 Anti     b'postag:NNP'
--0.510777 Air      b'+1:postag:RB'
--0.521353 Gtype    b'lemma[:1]:g'
--0.528030 O        b'lemma:dissolve'
--0.528030 O        b'+1:lemma:methanol'
--0.544300 Med      b'-1:postag:VBN'
--0.544878 O        b'lemma:mid-log'
--0.558725 Med      b'+1:postag:NN'
--0.565193 O        b'lemma[:1]:0'
--0.574181 OD       b'+1:postag:CD'
--0.594752 Supp     b'-1:lemma:glucose'
--0.616524 O        b'-1:lemma:sample'
--0.632529 Phase    b'hUpper'
--0.632529 Phase    b'hLower'
--0.635261 Gtype    b'lemma:delta'
--0.674300 O        b'lemma:methanol'
--0.674300 O        b'-1:lemma:dissolve'
--0.705737 Med      b'-1:postag:CD'
--0.728901 O        b'+1:lemma:supplement'
--0.740907 O        b'lemma[:2]:ri'
--0.792014 Phase    b'-1:postag:NN'
--0.804108 O        b'lemma[:1]:A'
--0.910559 OD       b'isNumber'
--0.914108 O        b'+1:lemma:g/l'
--0.932717 O        b'lemma:rifampicin'
--0.954851 O        b'-1:lemma:supplement'
--0.966998 Gtype    b'lemma[:1]:a'
--0.969405 Supp     b'lemma[:1]:c'
--1.019136 O        b'lemma[:1]:\xce\xb4'
--1.110821 Med      b'symb'
--1.170611 Gversion b'isLower'
--1.220694 Gtype    b'lemma[:1]:c'
--1.221441 Gtype    b'isUpper'
--1.282188 O        b'+1:postag:VBG'
--1.331537 OD       b'postag[:1]:-'
--1.377314 Supp     b'symb'
--1.414732 Supp     b'hGreek'
--1.450462 OD       b'lemma[:1]:-'
--1.661998 O        b'-1:lemma:2'
--1.785964 O        b'+1:lemma:2'
--1.952351 O        b'-1:postag::'
--1.971208 O        b'+1:lemma:1'
--2.697878 O        b'-1:lemma::'
--2.771750 O        b'-1:postag:VBG'
--4.091719 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.27193776724339846, 'c2': 0.057295268767110843}
-best CV score:0.8163630580002407
-model size: 0.08M
-
-Flat F1: 0.8109731224696033
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.807     0.742     0.773        62
-       Anti      0.800     0.889     0.842         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.896     0.811     0.851       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.835     0.706     0.765       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.864     0.773     0.811       480
-
-
-Top likely transitions:
-OD     -> OD      6.289427
-Agit   -> Agit    6.267353
-Temp   -> Temp    5.783774
-Air    -> Air     5.351944
-Med    -> Med     5.160137
-Anti   -> Anti    4.729843
-Gversion -> Gversion 4.256435
-Gtype  -> Gtype   4.229740
-Supp   -> Supp    4.114596
-Phase  -> Phase   4.079539
-Technique -> Technique 3.363448
-O      -> O       3.125273
-pH     -> pH      2.487113
-O      -> Supp    1.331978
-Air    -> O       1.197935
-Substrain -> Gtype   0.867656
-O      -> Technique 0.848943
-Gtype  -> Supp    0.842999
-O      -> Gtype   0.806504
-Med    -> O       0.277505
-OD     -> Phase   0.274387
-Technique -> Air     0.254899
-Gtype  -> Air     0.194030
-O      -> Anti    0.155845
-Temp   -> O       0.076714
-O      -> Temp    0.055684
-O      -> Gversion 0.011422
-Phase  -> Technique -0.000422
-O      -> Med     -0.114582
-Supp   -> Technique -0.122463
-Phase  -> OD      -0.142889
-Supp   -> O       -0.146822
-O      -> Phase   -0.168062
-O      -> OD      -0.179767
-OD     -> Gtype   -0.206495
-Supp   -> Gtype   -0.284656
-Gtype  -> Med     -0.297248
-Gtype  -> OD      -0.310283
-Technique -> OD      -0.344965
-OD     -> Air     -0.364197
-Anti   -> O       -0.368065
-Technique -> pH      -0.470302
-Gversion -> O       -0.499305
-Supp   -> Med     -0.541780
-Gtype  -> Anti    -0.621750
-OD     -> O       -0.828115
-O      -> Air     -0.867377
-Med    -> Supp    -0.872960
-Gtype  -> O       -0.956730
-Substrain -> O       -1.072085
-
-
-Top unlikely transitions:
-Temp   -> Temp    5.783774
-Air    -> Air     5.351944
-Med    -> Med     5.160137
-Anti   -> Anti    4.729843
-Gversion -> Gversion 4.256435
-Gtype  -> Gtype   4.229740
-Supp   -> Supp    4.114596
-Phase  -> Phase   4.079539
-Technique -> Technique 3.363448
-O      -> O       3.125273
-pH     -> pH      2.487113
-O      -> Supp    1.331978
-Air    -> O       1.197935
-Substrain -> Gtype   0.867656
-O      -> Technique 0.848943
-Gtype  -> Supp    0.842999
-O      -> Gtype   0.806504
-Med    -> O       0.277505
-OD     -> Phase   0.274387
-Technique -> Air     0.254899
-Gtype  -> Air     0.194030
-O      -> Anti    0.155845
-Temp   -> O       0.076714
-O      -> Temp    0.055684
-O      -> Gversion 0.011422
-Phase  -> Technique -0.000422
-O      -> Med     -0.114582
-Supp   -> Technique -0.122463
-Phase  -> OD      -0.142889
-Supp   -> O       -0.146822
-O      -> Phase   -0.168062
-O      -> OD      -0.179767
-OD     -> Gtype   -0.206495
-Supp   -> Gtype   -0.284656
-Gtype  -> Med     -0.297248
-Gtype  -> OD      -0.310283
-Technique -> OD      -0.344965
-OD     -> Air     -0.364197
-Anti   -> O       -0.368065
-Technique -> pH      -0.470302
-Gversion -> O       -0.499305
-Supp   -> Med     -0.541780
-Gtype  -> Anti    -0.621750
-OD     -> O       -0.828115
-O      -> Air     -0.867377
-Med    -> Supp    -0.872960
-Gtype  -> O       -0.956730
-Substrain -> O       -1.072085
-Agit   -> O       -1.092872
-Technique -> O       -1.136884
-
-
-Top positive:
-4.371447 Technique b'lemma[:2]:Ch'
-3.412737 O        b'lemma[:2]:re'
-3.346233 Air      b'lemma:anaerobic'
-3.006455 O        b'lemma:1'
-3.006455 O        b'lemma[:2]:1'
-2.974851 Gtype    b'lemma[:1]:\xce\xb4'
-2.912775 Gtype    b'lemma:arca8myc'
-2.849140 Supp     b'+1:lemma:\xc2\xb5m'
-2.828513 Phase    b'lemma:mid-log'
-2.792393 O        b'lemma:_'
-2.792393 O        b'lemma[:1]:_'
-2.792393 O        b'lemma[:2]:_'
-2.775899 Gtype    b'-1:lemma:\xe2\x88\x86'
-2.625937 Air      b'-1:lemma:ChIP-Seq'
-2.548311 Phase    b'lemma:stationary'
-2.540916 Supp     b'+1:lemma:1'
-2.487761 Supp     b'+1:lemma:2'
-2.442931 Air      b'lemma:aerobic'
-2.440190 O        b'lemma[:2]:ge'
-2.435018 Gtype    b'lemma[:2]:fl'
-2.424212 O        b'-1:lemma:tag'
-2.408234 Supp     b'lemma:Iron'
-2.408234 Supp     b'lemma[:2]:Ir'
-2.348537 Technique b'lemma[:1]:C'
-2.317292 O        b'lemma:2'
-2.317292 O        b'lemma[:2]:2'
-2.308110 OD       b'lemma[:2]:od'
-2.302326 Gtype    b'lemma:type'
-2.302326 Gtype    b'lemma[:2]:ty'
-2.269875 Supp     b'lemma:nitrate'
-2.269875 Supp     b'lemma[:2]:ni'
-2.232923 O        b'-1:lemma:ChIP-exo'
-2.212341 Air      b'lemma[:2]:an'
-2.211030 Air      b'lemma[:2]:ae'
-2.210563 Med      b'+1:lemma:0.4'
-2.190483 O        b'lemma:3'
-2.190483 O        b'lemma[:2]:3'
-2.182751 O        b'+1:lemma:pq'
-2.164071 Anti     b'lemma[:2]:an'
-2.150488 O        b'lemma:rpob'
-2.116867 Gtype    b'lemma:flag-tag'
-2.116867 Gtype    b'-1:lemma:c-terminal'
-2.113845 Technique b'lemma:chipseq'
-2.106619 O        b'+1:lemma:od600'
-2.103057 Anti     b'+1:lemma:antibody'
-2.102593 O        b'lemma:with'
-2.082800 O        b'+1:postag:RB'
-2.080780 Supp     b'lemma:pq'
-2.080780 Supp     b'lemma[:2]:pq'
-2.074963 Technique b'lemma[:2]:rn'
-2.067178 Gtype    b'lemma[:2]:cr'
-2.064575 Med      b'lemma[:1]:L'
-2.061976 Supp     b'lemma:arginine'
-2.026279 Supp     b'-1:lemma:Cra'
-2.019223 Supp     b'lemma:fructose'
-1.992770 Gversion b'lemma:nc'
-1.992770 Gversion b'lemma[:2]:nc'
-1.980198 O        b'lemma:0.4'
-1.979285 Gtype    b'lemma[:2]:de'
-1.970609 O        b'isLower'
-1.937619 Strain   b'lemma:k-12'
-1.937619 Strain   b'lemma[:2]:k-'
-1.931122 O        b'-1:lemma:0.3-0.35'
-1.881593 Supp     b'-1:lemma:with'
-1.875598 Gtype    b'lemma:nsrr'
-1.875598 Gtype    b'lemma[:2]:ns'
-1.852069 Technique b'lemma[:2]:ch'
-1.836687 pH       b'lemma:ph5'
-1.836687 pH       b'+1:lemma:.5'
-1.832664 Gtype    b'lemma[:2]:ar'
-1.831556 Air      b'lemma[:1]:A'
-1.826833 Temp     b'lemma[:1]:3'
-1.823899 Substrain b'lemma:mg1655'
-1.820738 Gversion b'-1:lemma:nc'
-1.820497 O        b'postag::'
-1.820497 O        b'postag[:1]::'
-1.820497 O        b'postag[:2]::'
-1.813703 O        b'-1:lemma:Aerobic'
-1.796031 Gtype    b'lemma[:1]:w'
-1.792963 O        b'postag:IN'
-1.792963 O        b'postag[:1]:I'
-1.792963 O        b'postag[:2]:IN'
-1.783756 Gtype    b'lemma:wt'
-1.783756 Gtype    b'lemma[:2]:wt'
-1.779970 Gtype    b'lemma[:1]:W'
-1.766922 Air      b'lemma:Aerobic'
-1.766922 Air      b'lemma[:2]:Ae'
-1.762347 Strain   b'lemma[:1]:k'
-1.759570 Technique b'symb'
-1.750706 Gversion b'lemma[:2]:00'
-1.749953 Gtype    b'-1:lemma:_'
-1.737043 Substrain b'lemma[:2]:mg'
-1.733603 O        b'-1:lemma:anaerobic'
-1.709162 Gversion b'lemma:chip-seq'
-1.701695 Temp     b'-1:lemma:sample'
-1.688968 Gtype    b'+1:lemma:with'
-1.684459 O        b'-1:lemma:lb'
-1.661522 Supp     b'-1:postag:CC'
-1.650389 O        b'lemma:b'
-1.650389 O        b'lemma[:2]:b'
-1.646363 O        b'-1:lemma:0.3'
-1.639941 Gtype    b'+1:lemma:type'
-1.637375 Air      b'-1:lemma:co2'
-1.636378 Med      b'lemma:lb'
-1.636378 Med      b'lemma[:2]:lb'
-1.622025 Vess     b'lemma[:2]:fl'
-1.617013 O        b'-1:lemma:glucose'
-1.592815 Med      b'isUpper'
-1.589934 Supp     b'lemma:rifampicin'
-1.589786 O        b'lemma:a'
-1.589786 O        b'lemma[:2]:a'
-1.586603 O        b'+1:lemma:nacl'
-1.583003 Supp     b'lemma[:1]:I'
-1.580604 Supp     b'lemma[:2]:gl'
-1.576478 Supp     b'lemma[:2]:ri'
-1.566704 Vess     b'lemma:flask'
-1.566704 Vess     b'-1:lemma:warm'
-1.563672 O        b'-1:lemma:l1'
-1.557695 Med      b'lemma:MOPS'
-1.557695 Med      b'lemma[:1]:M'
-1.557695 Med      b'lemma[:2]:MO'
-1.555428 O        b'+1:postag:NNP'
-1.545733 Gtype    b'hGreek'
-1.540517 Supp     b'+1:lemma:_'
-1.532630 Strain   b'+1:lemma:substr'
-1.524978 Phase    b'-1:lemma:mid-log'
-1.523410 O        b'lemma:Custom'
-1.523410 O        b'lemma[:2]:Cu'
-1.506527 Supp     b'lemma[:2]:0.'
-1.493748 Med      b'+1:lemma:2.0'
-1.489084 Gtype    b'-1:lemma:rpob'
-1.468114 Technique b'lemma:ChIP-exo'
-1.462941 Vess     b'-1:postag:VBN'
-1.460306 Supp     b'-1:postag:CD'
-1.447232 Gversion b'lemma:asm584v2'
-1.442845 Gversion b'lemma[:2]:as'
-1.436821 Supp     b'lemma[:1]:n'
-1.435640 Temp     b'lemma:43'
-1.435640 Temp     b'lemma[:2]:43'
-1.430453 Gtype    b'lemma:fnr8myc'
-1.423051 Temp     b'-1:lemma:43'
-1.422224 O        b'+1:lemma:ph5'
-1.419624 Supp     b'lemma:acetate'
-1.403936 Med      b'lemma[:1]:m'
-1.397641 O        b'lemma:Cra'
-1.397641 O        b'lemma[:2]:Cr'
-1.395977 Temp     b'-1:lemma:\xcf\x8332'
-1.392367 O        b'lemma:.'
-1.392367 O        b'postag:.'
-1.392367 O        b'postag[:1]:.'
-1.392367 O        b'postag[:2]:.'
-1.392367 O        b'lemma[:2]:.'
-1.391334 Gtype    b'+1:lemma:flagtag'
-1.377069 OD       b'+1:lemma:stationary'
-1.376467 Supp     b'lemma[:1]:1'
-1.373778 Gtype    b'-1:postag:VBG'
-1.369190 pH       b'+1:postag:CD'
-1.364150 Phase    b'-1:lemma:until'
-1.356359 Air      b'+1:postag:IN'
-1.353508 Air      b'lemma[:1]:a'
-1.350471 Supp     b'lemma:no3'
-1.347435 Med      b'lemma:broth'
-1.347435 Med      b'-1:lemma:L'
-1.347435 Med      b'lemma[:2]:br'
-1.340636 Gtype    b'symb'
-1.337653 Supp     b'lemma[:1]:2'
-1.337468 OD       b'lemma[:1]:o'
-1.332813 O        b'+1:lemma:anti-fur'
-1.329231 Gtype    b'+1:lemma::'
-1.323371 Temp     b'+1:lemma:\xc2\xb0c'
-1.316239 O        b'-1:lemma:media'
-1.308580 Anti     b'-1:lemma::'
-1.308448 Technique b'-1:lemma:input'
-1.305697 Gtype    b'lemma[:1]:f'
-1.304733 O        b'lemma[:1]:r'
-1.298211 Gversion b'+1:lemma:000913'
-1.282839 Supp     b'lemma:methanol'
-1.281363 Air      b'-1:postag:CD'
-1.280599 Supp     b'lemma:Fe'
-1.280599 Supp     b'lemma[:2]:Fe'
-1.280195 O        b'lemma[:1]:C'
-1.274450 O        b'-1:lemma:type'
-1.274241 Supp     b'lemma:dpd'
-1.274241 Supp     b'lemma[:2]:dp'
-1.264726 Phase    b'lemma[:2]:st'
-1.261615 Med      b'+1:lemma:-lrb-'
-1.258563 Phase    b'lemma[:2]:mi'
-1.256496 Supp     b'lemma:of'
-1.256496 Supp     b'lemma[:2]:of'
-1.254569 Substrain b'+1:lemma:phtpg'
-1.254075 Technique b'-1:lemma:_'
-1.245791 Med      b'+1:postag:-LRB-'
-1.240716 Technique b'lemma[:1]:c'
-1.237704 Anti     b'lemma:none'
-1.235216 Supp     b'lemma[:2]:ac'
-1.234140 Gtype    b'-1:lemma:nsrr'
-1.233335 O        b'lemma:\xcf\x8332'
-1.233335 O        b'lemma[:1]:\xcf\x83'
-1.233335 O        b'lemma[:2]:\xcf\x833'
-1.229676 Air      b'-1:lemma:-'
-
-
-Top negative:
--0.051463 Temp     b'postag:JJ'
--0.054116 Air      b'postag[:1]:C'
--0.059372 Phase    b'postag[:1]:J'
--0.059372 Phase    b'postag[:2]:JJ'
--0.059941 Temp     b'postag:NN'
--0.060299 Air      b'lemma[:1]:n'
--0.060598 Temp     b'isLower'
--0.062297 O        b'+1:lemma:or'
--0.065185 Supp     b'+1:postag:VBN'
--0.065466 Air      b'lemma:and'
--0.066813 Gtype    b'-1:postag:NN'
--0.068526 O        b'lemma[:2]:ce'
--0.071041 O        b'-1:postag:JJ'
--0.071759 OD       b'lemma:-lrb-'
--0.074300 OD       b'lemma[:1]:t'
--0.074669 Supp     b'postag:CD'
--0.074669 Supp     b'postag[:2]:CD'
--0.078783 O        b'lemma[:2]:30'
--0.079591 OD       b'postag:-LRB-'
--0.079591 OD       b'postag[:2]:-L'
--0.079591 OD       b'lemma[:2]:-l'
--0.080662 O        b'lemma[:2]:an'
--0.083375 O        b'-1:postag:-RRB-'
--0.083466 O        b'lemma:150'
--0.083466 O        b'+1:lemma:mg/ml'
--0.083466 O        b'lemma[:2]:15'
--0.084358 O        b'lemma:glucose'
--0.089803 Supp     b'lemma[:1]:o'
--0.090889 Gtype    b'lemma[:1]:r'
--0.094789 OD       b'+1:postag:CD'
--0.096046 O        b'lemma:co2'
--0.096854 Supp     b'lemma:2'
--0.096854 Supp     b'lemma[:2]:2'
--0.107550 OD       b'+1:lemma:of'
--0.110054 OD       b'postag:JJ'
--0.111139 O        b'-1:lemma:rna'
--0.113070 Air      b'postag:CC'
--0.113070 Air      b'postag[:2]:CC'
--0.116092 OD       b'postag[:1]:J'
--0.116092 OD       b'postag[:2]:JJ'
--0.116551 O        b'-1:lemma:\xe2\x88\x86'
--0.119208 O        b'-1:lemma:of'
--0.120060 O        b'+1:lemma:arginine'
--0.120674 pH       b'isLower'
--0.122477 O        b'+1:lemma:300'
--0.123572 Phase    b'postag:JJ'
--0.126294 O        b'-1:lemma:iptg'
--0.129027 Gtype    b'-1:lemma:,'
--0.129027 Gtype    b'-1:postag:,'
--0.130686 Med      b'postag[:1]:C'
--0.131309 Supp     b'+1:lemma:rifampicin'
--0.137449 O        b'-1:lemma:o2'
--0.138824 O        b'-1:lemma:ml'
--0.142350 O        b'lemma[:2]:20'
--0.147695 Air      b'-1:lemma:anaerobically'
--0.147731 pH       b'postag[:1]:N'
--0.147731 pH       b'postag[:2]:NN'
--0.150331 Supp     b'hUpper'
--0.150331 Supp     b'hLower'
--0.151031 Gtype    b'-1:postag:SYM'
--0.152040 O        b'+1:lemma:rep1'
--0.154569 O        b'+1:lemma:-rrb-'
--0.155464 O        b'lemma:dissolve'
--0.163005 O        b'lemma[:1]:k'
--0.166515 Anti     b'+1:lemma:anti-fur'
--0.166530 O        b'-1:postag:VBN'
--0.168761 Vess     b'hUpper'
--0.168761 Vess     b'hLower'
--0.172221 O        b'lemma:od600'
--0.173580 O        b'+1:lemma:0.3'
--0.174879 O        b'+1:lemma:c'
--0.176207 O        b'-1:lemma:grow'
--0.180767 Supp     b'isUpper'
--0.182914 O        b'lemma:phase'
--0.183166 Air      b'isUpper'
--0.186591 O        b'-1:lemma:-lrb-'
--0.187451 O        b'-1:lemma:od600'
--0.193271 O        b'+1:lemma:phase'
--0.200473 Air      b'+1:postag:-LRB-'
--0.200591 Gtype    b'postag[:1]:V'
--0.200591 Gtype    b'postag[:2]:VB'
--0.202895 O        b'lemma[:2]:ae'
--0.203770 O        b'lemma[:1]:d'
--0.213212 Air      b'-1:postag:CC'
--0.216984 Technique b'isUpper'
--0.218975 O        b'+1:lemma:antibody'
--0.219469 OD       b'postag:CD'
--0.219469 OD       b'postag[:2]:CD'
--0.220367 Air      b'+1:lemma:-lrb-'
--0.229132 O        b'lemma[:1]:I'
--0.237062 Med      b'+1:postag:NN'
--0.244233 O        b'+1:lemma:.'
--0.244233 O        b'+1:postag:.'
--0.253501 O        b'lemma[:1]:p'
--0.255478 O        b'+1:postag:IN'
--0.268269 Air      b'+1:postag:JJ'
--0.270663 Supp     b'lemma[:2]:an'
--0.277051 O        b'+1:lemma:\xc2\xb0c'
--0.289474 Phase    b'-1:postag:JJ'
--0.290989 O        b'-1:lemma:ompr'
--0.299880 OD       b'isNumber'
--0.300487 O        b'lemma:of'
--0.300487 O        b'lemma[:2]:of'
--0.301898 O        b'lemma:wt'
--0.301898 O        b'lemma[:2]:wt'
--0.302943 O        b'lemma[:2]:0.'
--0.307135 O        b'-1:postag:IN'
--0.308105 O        b'+1:lemma:fecl2'
--0.311660 Technique b'-1:lemma::'
--0.327682 O        b'lemma:37'
--0.327682 O        b'lemma[:2]:37'
--0.327793 Supp     b'postag[:1]:C'
--0.335851 Phase    b'-1:lemma:at'
--0.337349 Supp     b'-1:lemma:%'
--0.337470 Med      b'-1:postag:CD'
--0.339976 Air      b'-1:lemma:or'
--0.355481 O        b'-1:postag:-LRB-'
--0.358486 O        b'lemma:anaerobically'
--0.362559 Technique b'postag:NN'
--0.363246 Air      b'symb'
--0.369284 Temp     b'+1:lemma:to'
--0.369284 Temp     b'+1:postag:TO'
--0.371266 O        b'+1:postag:-RRB-'
--0.373089 O        b'lemma[:2]:od'
--0.392668 Gtype    b'lemma[:1]:g'
--0.401430 O        b'lemma[:1]:L'
--0.407738 OD       b'+1:postag:NN'
--0.416254 Agit     b'symb'
--0.418662 O        b'-1:lemma:co2'
--0.425645 Med      b'+1:postag:IN'
--0.435796 Agit     b'hUpper'
--0.435796 Agit     b'hLower'
--0.441773 O        b'lemma:2h'
--0.441773 O        b'-1:lemma:additional'
--0.441773 O        b'lemma[:2]:2h'
--0.446576 Air      b'postag[:1]:N'
--0.446576 Air      b'postag[:2]:NN'
--0.451999 O        b'lemma:20'
--0.454739 Technique b'isLower'
--0.455345 Air      b'isLower'
--0.459952 Med      b'-1:postag:NN'
--0.491723 O        b'lemma[:2]:me'
--0.493797 Supp     b'postag:JJ'
--0.504237 O        b'-1:lemma:37'
--0.511772 Supp     b'postag[:1]:J'
--0.511772 Supp     b'postag[:2]:JJ'
--0.518180 Temp     b'hGreek'
--0.530228 O        b'-1:lemma:from'
--0.537664 Technique b'-1:postag::'
--0.540107 O        b'+1:lemma:cell'
--0.544422 Gtype    b'lemma[:1]:m'
--0.545010 O        b'-1:lemma:cra'
--0.547384 O        b'lemma[:1]:0'
--0.555352 O        b'lemma[:1]:A'
--0.579802 Gtype    b'lemma[:1]:c'
--0.584906 Air      b'postag:NN'
--0.624005 O        b'-1:lemma:IP'
--0.630245 O        b'-1:lemma:the'
--0.631759 O        b'+1:lemma:supplement'
--0.642073 Med      b'symb'
--0.648245 O        b'lemma[:2]:gl'
--0.651355 O        b'-1:lemma:sample'
--0.664904 Gtype    b'lemma:delta'
--0.696355 O        b'+1:postag:NNS'
--0.717210 Anti     b'postag:NNP'
--0.724215 Supp     b'lemma[:1]:c'
--0.728404 Air      b'-1:postag:JJ'
--0.738219 O        b'+1:lemma:+'
--0.750040 Gversion b'isLower'
--0.776375 O        b'+1:lemma:g/l'
--0.778177 O        b'-1:lemma:dissolve'
--0.778177 O        b'+1:lemma:methanol'
--0.796433 O        b'+1:lemma:hour'
--0.798962 Gtype    b'isNumber'
--0.864076 O        b'lemma[:2]:ri'
--0.864983 O        b'-1:lemma:nsrr'
--0.897796 Gtype    b'isUpper'
--0.915145 Phase    b'hUpper'
--0.915145 Phase    b'hLower'
--0.971040 O        b'lemma:mid-log'
--0.973820 O        b'lemma:rifampicin'
--0.985135 O        b'lemma[:1]:\xce\xb4'
--0.989912 Supp     b'symb'
--1.024646 O        b'-1:lemma:rpob'
--1.027096 O        b'lemma:methanol'
--1.040232 O        b'+1:postag:VBG'
--1.074775 Gtype    b'lemma[:2]:rp'
--1.135014 O        b'+1:lemma:at'
--1.242720 O        b'-1:postag:VBG'
--1.254198 O        b'+1:lemma:in'
--1.381811 Gtype    b'lemma[:1]:a'
--1.431865 Supp     b'hGreek'
--1.551257 O        b'-1:postag::'
--1.707232 O        b'-1:lemma:2'
--1.771113 OD       b'postag[:1]:-'
--1.831476 O        b'+1:lemma:2'
--1.836996 OD       b'lemma[:1]:-'
--2.234728 O        b'+1:lemma:1'
--3.071950 O        b'-1:lemma::'
--3.880058 O        b'-1:lemma:_'
-

@@ -24,9 +24,9 @@ echo
 echo
 echo "Filter all paragraphs with tags..."
 echo "Add sentence-end-tag PGCGROWTHCONDITIONS..."
-grep -E "<[^<]*>"  * | grep -E  '!'| cut -f2 -d'='|sort|uniq|awk '{ print $_" PGCGROWTHCONDITIONS"; }'  > /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt
+grep -E "<[^<]*>"  * | grep -E  '!'| cut -f2-5 -d'='|sort|uniq|awk '{ print $_" PGCGROWTHCONDITIONS"; }'  > /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt
 echo
-echo "Number of total tag sentences: "$(wc /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt -l);
+echo "Number of total tag sentences: "$(wc /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt -l);
 echo
 echo
-echo "Saving file: /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt";
+echo "Saving file: /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt";

@@ -4,7 +4,7 @@ echo "==============================Run CoreNLP=================================
 echo
 echo
 
-input="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt";
+input="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt";
 output="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/output/";
 echo "input file: "$input;
 echo

@@ -35,7 +35,11 @@
  ArgR_<Supp>Arginine</Supp>_2 PGCGROWTHCONDITIONS
  ArgR_<Supp>NH4Cl</Supp>_1 PGCGROWTHCONDITIONS
  ArgR_<Supp>NH4Cl</Supp>_2 PGCGROWTHCONDITIONS
- At <OD>OD450  PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 0 min after induction PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 10 min after induction PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 20 min after induction PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 2.5 min after induction PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 5 min after induction PGCGROWTHCONDITIONS
  A total of six samples were analyzed. oxyR-8myc, soxR-8myc, and soxS-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS
  A total of two samples were analyzed. ompR-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at <Phase>mid-log pahse</Phase> for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS
  carbon source: <Supp>acetate</Supp> PGCGROWTHCONDITIONS
@@ -112,8 +116,8 @@
  E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS
  E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS
  E. coli K-12 MG1655 WT and ΔompR were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at mid-log pahse for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT, GadE-8-myc, GadW-8-myc, and GadX-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> (<OD>OD600  PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT, gadE, gadW and gadX mutant cells were grown to mid-log phase (OD600  PGCGROWTHCONDITIONS
+ E. coli K-12 MG1655 WT, GadE-8-myc, GadW-8-myc, and GadX-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> (<OD>OD600 = 0.3</OD>) <Air>aerobically</Air> (<Agit>250 rpm</Agit>) at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp> at <pH>pH 5.5</pH>. PGCGROWTHCONDITIONS
+ E. coli K-12 MG1655 WT, gadE, gadW and gadX mutant cells were grown to mid-log phase (OD600 = 0.3) <Air>aerobically</Air> (<Agit>250 rpm</Agit>) at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp> at <pH>pH 5.5</pH>. PGCGROWTHCONDITIONS
  E. coli K-12 MG1655 WT, ΔoxyR, ΔsoxR, and ΔsoxS were grown to mid-log phase <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS
  E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med>. PGCGROWTHCONDITIONS
  E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med> supplemented with <Supp>100ug/L adenine</Supp>. PGCGROWTHCONDITIONS
@@ -203,7 +207,7 @@
  growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>1 µM FeSO4</Supp> PGCGROWTHCONDITIONS
  growth phase: <Phase>exponential</Phase> PGCGROWTHCONDITIONS
  growth phase: <Phase>mid-log</Phase> PGCGROWTHCONDITIONS
- growth phase: <Phase>mid-log phase</Phase> (<OD>OD600  PGCGROWTHCONDITIONS
+ growth phase: <Phase>mid-log phase</Phase> (<OD>OD600 = 0.3</OD>) PGCGROWTHCONDITIONS
  growth phase: <Phase>stationary</Phase> PGCGROWTHCONDITIONS
  <Gtype>∆fnr</Gtype> - <Air>Anaeroibc</Air> PGCGROWTHCONDITIONS
  <Gtype>∆fnr</Gtype> ChIP DNA from <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS

- agent: <Supp>DPD and rifampicin</Supp> PGCGROWTHCONDITIONS
- agent: <Supp>DPD</Supp> PGCGROWTHCONDITIONS
- agent: <Supp>Fe and rifampicin</Supp> PGCGROWTHCONDITIONS
- agent: <Supp>Fe</Supp> PGCGROWTHCONDITIONS
- <Air>Aerobic</Air> cultures PGCGROWTHCONDITIONS
- <Air>Anaerobic</Air> cultures PGCGROWTHCONDITIONS
- All sequencing reads were mapped to E. coli MG1655 reference genome (<Gversion>NC_000913</Gversion>) using CLC Genomics Workbench5 with the length fraction of 0.9 and the similarity of 0.99. PGCGROWTHCONDITIONS
- antibody: <Anti>9E10 Myc tag</Anti> antibody PGCGROWTHCONDITIONS
- antibody: <Anti>Affinity Purified FNR antibody</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>anti-FLAG mAb</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>Pre-cleared FNR antibody</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>Pre-cleared H-NS polyclonal antibody</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>Pre-cleared IHF polyclonal antibody</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>RNA Polymerase ß monoclonal antibody</Anti> from NeoClone (W0002) PGCGROWTHCONDITIONS
- At <OD>OD450  PGCGROWTHCONDITIONS
- A total of six samples were analyzed. oxyR-8myc, soxR-8myc, and soxS-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS
- A total of two samples were analyzed. ompR-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at <Phase>mid-log pahse</Phase> for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS
- carbon source: <Supp>acetate</Supp> PGCGROWTHCONDITIONS
- carbon source: <Supp>fructose</Supp> PGCGROWTHCONDITIONS
- carbon source: <Supp>glucose</Supp> PGCGROWTHCONDITIONS
- Cells were grown aerobically (70% N2, 25% O2, and 5% CO2) or <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>). PGCGROWTHCONDITIONS
- Cells were grown aerobically (70% N2, 25% O2, and 5% CO2) or <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>) in <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp>. PGCGROWTHCONDITIONS
- Cells were grown aerobically (70% N2, 25% O2, and 5% CO2) or anaerobically (95% N2 and 5% CO2) until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>). PGCGROWTHCONDITIONS
- Cells were grown <Air>aerobically (25% O2, 70% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.35</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
- Cells were grown <Air>aerobically (70% N2, 25% O2, and 5% CO2)</Air> or anaerobically (95% N2 and 5% CO2) until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>). PGCGROWTHCONDITIONS
- Cells were grown <Air>aerobically (70% N2, 25% O2, and 5% CO2)</Air> or anaerobically (95% N2 and 5% CO2) until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>) in <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp>. PGCGROWTHCONDITIONS
- Cells were grown <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.3</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
- Cells were grown at <Temp>37 °C</Temp> to an <OD>OD600 of about 0.15</OD> in 100 ml <Med>LB</Med> (+ <Supp>0.2% glucose</Supp>). PGCGROWTHCONDITIONS
- Cells were grown at <Temp>37 °C</Temp> to an <OD>OD600 of about 0.15</OD> in 50 ml <Med>LB</Med> (+ <Supp>0.2% glucose</Supp>) before crosslinking. PGCGROWTHCONDITIONS
- Cells were grown in 65 ml LB medium at 30 °C to an <OD>OD600 of about 0.3</OD>. Subsequently 30 ml of culture were transformed to a pre warmed <Vess>flask</Vess> at <Temp>43 °C (see heat sample)</Temp> and the remainder kept at <Temp>30 °C</Temp>. PGCGROWTHCONDITIONS
- Cells were grown in 65 ml LB medium at 30 °C to an <OD>OD600 of about 0.3</OD>. Subsequently 30 ml of culture were transformed to a pre warmed <Vess>flask</Vess> at <Temp>43 °C</Temp> and the remainder kept at <Temp>30 °C (see control sample)</Temp>. PGCGROWTHCONDITIONS
- Cells were grown in <Med>LB media</Med> with <Supp>1mM IPTG</Supp> at <Temp>37 °C</Temp> with shaking for <Supp>2 hours</Supp> PGCGROWTHCONDITIONS
- Cells were grown with <Supp>16 µM IPTG and 300 µL Cm20</Supp> <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.3</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
- Cells were grown with <Supp>4 µM IPTG and 300 µL Cm20</Supp> <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.3</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
- Cells were grown with <Supp>8 µM IPTG and 300 µL Cm20</Supp> <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.3</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
- chip antibody: <Anti>9E10 Myc tag</Anti> antibody PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-myc</Anti> PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-myc</Anti> (Santa Cruz Biotech, sc-28207) PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-RpoB</Anti> (Neoclone, WP002) PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-rpoB</Anti> (Santa Cruz Biotech, sc-56766) PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-RpoS</Anti> (neoclone, WP009) PGCGROWTHCONDITIONS
- chip antibody: <Anti>none</Anti> PGCGROWTHCONDITIONS
- chip antibody: <Anti>RNA polymerase subunit β</Anti> PGCGROWTHCONDITIONS
- chip antibody: <Anti>SeqA</Anti> PGCGROWTHCONDITIONS
- chip antibody: <Anti>σ32</Anti> PGCGROWTHCONDITIONS
- chip antibody: Custom <Anti>anti-Fur polyclonal antibody</Anti> PGCGROWTHCONDITIONS
- ChIP-exo reads were aligned to the <Gversion>NC_000913</Gversion> genome reference sequence using using bowtie v1.0.0 with parameters  -S PGCGROWTHCONDITIONS
- ChIP-exo reads were aligned to the <Gversion>NC_000913 </Gversion>genome reference sequence using using bowtie v1.0.0 with parameters  -S PGCGROWTHCONDITIONS
- culture condition: <Air>Aerobic</Air> cultures PGCGROWTHCONDITIONS
- culture condition: <Air>Anaerobic</Air> cultures PGCGROWTHCONDITIONS
- cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% acetate</Supp> PGCGROWTHCONDITIONS
- cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% fructose</Supp> PGCGROWTHCONDITIONS
- cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp> PGCGROWTHCONDITIONS
- Cultures grown in <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp> PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 cra-8myc tagged strains was grown to mid-log phase <Air>aerobically</Air> at <Temp>37°C</Temp> in M9 minimal media supplemented with 0.2% glucose, fructose and acetate. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT and Fur-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional <Supp>2h</Supp>. For the rifampicin-treated cultures, the rifampicin dissolved in methanol was added to a final concentration of 150 mg/mL at mid-log phase and stirred for 20 min. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT and Fur-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional <Supp>2h</Supp>. For the rifampicin-treated cultures, the <Supp>rifampicin dissolved in methanol</Supp> was added to a final concentration of <Supp>150 mg/mL</Supp> at mid-log phase and stirred for <Supp>20 min</Supp>. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT and Fur-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional <Supp>2h</Supp>. For the rifampicin-treated cultures, the rifampicin dissolved in methanol was added to a final concentration of 150 mg/mL at mid-log phase and stirred for 20 min. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT and Fur-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional <Supp>2h</Supp>. For the rifampicin-treated cultures, the <Supp>rifampicin dissolved in methanol</Supp> was added to a final concentration of <Supp>150 mg/mL</Supp> at mid-log phase and stirred for <Supp>20 min</Supp>. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT, and Δcra were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>, fructose and acetate. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT, and Δcra were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2%</Supp> glucose, fructose and acetate. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT and ΔompR were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at mid-log pahse for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT, GadE-8-myc, GadW-8-myc, and GadX-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> (<OD>OD600  PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT, gadE, gadW and gadX mutant cells were grown to mid-log phase (OD600  PGCGROWTHCONDITIONS
- E. coli K-12 MG1655 WT, ΔoxyR, ΔsoxR, and ΔsoxS were grown to mid-log phase <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS
- E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med>. PGCGROWTHCONDITIONS
- E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med> supplemented with <Supp>100ug/L adenine</Supp>. PGCGROWTHCONDITIONS
- Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp>. PGCGROWTHCONDITIONS
- Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp>.  PGCGROWTHCONDITIONS
- Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp>.   PGCGROWTHCONDITIONS
- Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp> and <Supp>nitrate</Supp>.  PGCGROWTHCONDITIONS
- Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp> and <Supp>nitrate</Supp>.   PGCGROWTHCONDITIONS
- Escherichia coli MG1655 K-12 <Gtype>dFNR (PK4854)</Gtype> PGCGROWTHCONDITIONS
- Escherichia coli MG1655 K-12 WT and ∆fnr were grown to <Phase>mid-log phase </Phase>(<OD>O.D.600nm 0.3</OD>) <Air>anerobically (95% N2, 5% CO2)</Air> at <Temp>37°C </Temp>in <Med>MOPS</Med> +<Supp>0.2% glucose</Supp> media (Ref). PGCGROWTHCONDITIONS
- Genome_build: Escherichia coli MG1655 K-12 genome version <Gversion>U00096.2</Gversion> PGCGROWTHCONDITIONS
- Genome_build: <Gversion>ASM584v2</Gversion> PGCGROWTHCONDITIONS
- Genome_build: <Gversion>NC_000913.2</Gversion> PGCGROWTHCONDITIONS
- Genome_build: <Gversion>NC_000913</Gversion> PGCGROWTHCONDITIONS
- Genome_build: <Gversion>U00096.2</Gversion> (GenBank) PGCGROWTHCONDITIONS
- genotype: delta-<Gtype>cra Knock-out strain</Gtype> PGCGROWTHCONDITIONS
- genotype: delta-<Gtype>crp Knock-out strain</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>ArgR-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>gadE-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>gadW-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>gadX-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>Lrp-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>ompR-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>ompR deletion mutant</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>PurR-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>TrpR-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>wildtype</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>Wildtype</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>ΔseqA</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>Combined input</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>cra-8myc-tagged</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta_cra</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-gadE</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-gadW</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-gadX</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-oxyR</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-soxR</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-soxS</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>{delta}tonB, {delta}feoA, {delta}zupT K12</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>fur-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>lacking the small RNA RyhB</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>lacking the transcription factor Fur and the small RNA RyhB</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>lacking the transcription factor Fur</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>oxyR-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>soxR-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>soxS-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>wild type</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>Wild-type</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>Δfur</Gtype> PGCGROWTHCONDITIONS
- genoype: <Gtype>dFNR</Gtype> PGCGROWTHCONDITIONS
- genoype: <Gtype>Wild-Type</Gtype> PGCGROWTHCONDITIONS
- growth condition: <Air>Aerobic</Air> PGCGROWTHCONDITIONS
- growth condition: <Air>anaerobic</Air> PGCGROWTHCONDITIONS
- growth condition: <Air>Anaerobic</Air> PGCGROWTHCONDITIONS
- growth condition: <Supp>16 µM IPTG</Supp> PGCGROWTHCONDITIONS
- growth condition: <Supp>4 µM IPTG</Supp> PGCGROWTHCONDITIONS
- growth condition: <Supp>8 µM IPTG</Supp> PGCGROWTHCONDITIONS
- growth condition: <Supp>Adenine</Supp> PGCGROWTHCONDITIONS
- growth condition: <Supp>glucose</Supp> PGCGROWTHCONDITIONS
- growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp> PGCGROWTHCONDITIONS
- growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>1 µM FeSO4</Supp> PGCGROWTHCONDITIONS
- growth phase: <Phase>exponential</Phase> PGCGROWTHCONDITIONS
- growth phase: <Phase>mid-log</Phase> PGCGROWTHCONDITIONS
- growth phase: <Phase>mid-log phase</Phase> (<OD>OD600  PGCGROWTHCONDITIONS
- growth phase: <Phase>stationary</Phase> PGCGROWTHCONDITIONS
- <Gtype>∆fnr</Gtype> ChIP DNA from <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS
- <Gversion>ChIP-Seq</Gversion> PGCGROWTHCONDITIONS
- ip antibody: <Anti>affinity purified anti-Fur antibody</Anti> PGCGROWTHCONDITIONS
- library strategy: <Technique>ChIP-exo</Technique> PGCGROWTHCONDITIONS
- medium: <Med>LB</Med> PGCGROWTHCONDITIONS
- medium: <Med>M63</Med> PGCGROWTHCONDITIONS
- <Med>M9 minimal complete media</Med>, cultures grown <Air>aerobically</Air> at <Temp>30 degrees C</Temp> in a <Agit>gyratory water bath shaking at 240 rpm</Agit> PGCGROWTHCONDITIONS
- <Name>ArgR_Arginine_1</Name> PGCGROWTHCONDITIONS
- <Name>ArgR_Arginine_2</Name> PGCGROWTHCONDITIONS
- <Name>ArgR_NH4Cl_1</Name> PGCGROWTHCONDITIONS
- <Name>ArgR_NH4Cl_2</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadE pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadE pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadW pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadW pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadX pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadX pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo RpoS pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo RpoS pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>Cra acetate 1</Name> PGCGROWTHCONDITIONS
- <Name>Cra acetate 2</Name> PGCGROWTHCONDITIONS
- <Name>Cra fructose 1</Name> PGCGROWTHCONDITIONS
- <Name>Cra fructose 2</Name> PGCGROWTHCONDITIONS
- <Name>Cra glucose 1</Name> PGCGROWTHCONDITIONS
- <Name>Cra glucose 2</Name> PGCGROWTHCONDITIONS
- <Name>Crosslink</Name> PGCGROWTHCONDITIONS
- <Name>CsiR_ChIPSeq</Name> PGCGROWTHCONDITIONS
- <Name>CsiR_RNASeq</Name> PGCGROWTHCONDITIONS
- <Name>EC18n122 RpoH 10 min Time course 4</Name> PGCGROWTHCONDITIONS
- <Name>EC18n167 RpoH 0 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n168 RpoH 2.5 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n169 RpoH 5 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n170 RpoH 10 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n171 RpoH 20 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n177 RpoH 0 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n178 RpoH 2.5 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n179 RpoH 5 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n180 RpoH 10 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n181 RpoH 20 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n182 RpoH 0 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>EC18n183 RpoH 2.5 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>EC18n184 RpoH 5 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>EC18n185 RpoH 10 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>EC18n186 RpoH 20 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>Ecoli_dFNR_rep1_anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>Ecoli_dFNR_rep2_anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>Ecoli_wild-type_rep1_anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>Ecoli_wild-type_rep2_anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>Escherichia coli str. K-12 substr. MG1655</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - Affinity Purified - A</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - Affinity Purified - B</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - A</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - B</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - C</Name> PGCGROWTHCONDITIONS
- <Name>∆fnr - Anaeroibc</Name> PGCGROWTHCONDITIONS
- <Name>FNR - ∆hns∆stpA A</Name> PGCGROWTHCONDITIONS
- <Name>FNR - ∆hns∆stpA B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Anaerobic [IP vs nput]</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Aerobic C</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic C</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic, Iron Deficient A</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic, Iron Deficient B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur ∆ryhB Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>∆fur ∆ryhB Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur ∆ryhB Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>∆fur ∆ryhB Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Fur with DPD 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>Fur with DPD 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>Fur with Fe 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>Fur with Fe 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>HNS - Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>HNS - Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>HNS - Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>HNS - Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>IHF - Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>IHF - Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Input ChIP-Seq</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B1 TEX neg L2 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B1 TEX pos L2 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX neg L2 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX pos L2 HS2</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_Leu_1</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_Leu_2</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_Leu_3</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_NH4Cl_1</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_NH4Cl_2</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_NH4Cl_3</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>Nac_ChIPSeq</Name> PGCGROWTHCONDITIONS
- <Name>Nac_RNASeq</Name> PGCGROWTHCONDITIONS
- <Name>NsrR_Flagtag_rep1</Name> PGCGROWTHCONDITIONS
- <Name>NsrR_Flagtag_rep2</Name> PGCGROWTHCONDITIONS
- <Name>NsrR_Flagtag_rep3</Name> PGCGROWTHCONDITIONS
- <Name>NtrC_ChIPSeq</Name> PGCGROWTHCONDITIONS
- <Name>OmpR_ChIPSeq</Name> PGCGROWTHCONDITIONS
- <Name>OmpR NaCl 1</Name> PGCGROWTHCONDITIONS
- <Name>OmpR NaCl 2</Name> PGCGROWTHCONDITIONS
- <Name>OxyR PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>OxyR PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>pT7_ChIPSeq_1</Name> PGCGROWTHCONDITIONS
- <Name>pT7_ChIPSeq_2</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - A - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - A - 4 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - A - 8 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - B - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - B - 4 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - B - 8 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - C - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>PurR_Adenine_1</Name> PGCGROWTHCONDITIONS
- <Name>PurR_Adenine_2</Name> PGCGROWTHCONDITIONS
- <Name>PurR_glucose_1</Name> PGCGROWTHCONDITIONS
- <Name>PurR_glucose_2</Name> PGCGROWTHCONDITIONS
- <Name>RNAP old rep1</Name> PGCGROWTHCONDITIONS
- <Name>RNAP old rep2</Name> PGCGROWTHCONDITIONS
- <Name>RpoB ∆cra 1</Name> PGCGROWTHCONDITIONS
- <Name>RpoB ∆cra 2</Name> PGCGROWTHCONDITIONS
- <Name>RpoB ∆crp 1</Name> PGCGROWTHCONDITIONS
- <Name>RpoB ∆crp 2</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with DPD 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with DPD 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with DPD and rifampicin 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with DPD and rifampicin 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with Fe 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with Fe 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with Fe and rifampicin 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with Fe and rifampicin 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB WT 1</Name> PGCGROWTHCONDITIONS
- <Name>RpoB WT 2</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (0 min)</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (10 min)</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (20 min)</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (2.5 min)</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (5 min)</Name> PGCGROWTHCONDITIONS
- <Name>∆ryhB Aerobic</Name> PGCGROWTHCONDITIONS
- <Name>∆ryhB Anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>SeqA new deltaSeqA</Name> PGCGROWTHCONDITIONS
- <Name>SeqA new rep1</Name> PGCGROWTHCONDITIONS
- <Name>SeqA new rep2</Name> PGCGROWTHCONDITIONS
- <Name>SeqA old deltaSeqA</Name> PGCGROWTHCONDITIONS
- <Name>SeqA old rep1</Name> PGCGROWTHCONDITIONS
- <Name>SeqA old rep2</Name> PGCGROWTHCONDITIONS
- <Name>SoxR PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>SoxR PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>SoxS PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>SoxS PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>ß - Aerobic - A</Name> PGCGROWTHCONDITIONS
- <Name>ß - Aerobic - B</Name> PGCGROWTHCONDITIONS
- <Name>ß - Anaerobic - A</Name> PGCGROWTHCONDITIONS
- <Name>ß - Anaerobic - B</Name> PGCGROWTHCONDITIONS
- <Name>TrpR_glucose</Name> PGCGROWTHCONDITIONS
- <Name>TrpR_Trp</Name> PGCGROWTHCONDITIONS
- <Name>Wild-type Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>Wild-type Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Wild-type Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>Wild-type Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (0 min)</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (10 min)</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (20 min)</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (2.5 min)</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (5 min)</Name> PGCGROWTHCONDITIONS
- <Name>WT acetate 1</Name> PGCGROWTHCONDITIONS
- <Name>WT acetate 2</Name> PGCGROWTHCONDITIONS
- <Name>WT_ChIPSeq_1</Name> PGCGROWTHCONDITIONS
- <Name>WT_ChIPSeq_2</Name> PGCGROWTHCONDITIONS
- <Name>WT fructose 1</Name> PGCGROWTHCONDITIONS
- <Name>WT fructose 2</Name> PGCGROWTHCONDITIONS
- <Name>WT glucose 1</Name> PGCGROWTHCONDITIONS
- <Name>WT glucose 2</Name> PGCGROWTHCONDITIONS
- <Name>WT NaCl 1</Name> PGCGROWTHCONDITIONS
- <Name>WT NaCl 2</Name> PGCGROWTHCONDITIONS
- <Name>WT pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>WT pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>WT PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>WT PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>WT_RNASeq</Name> PGCGROWTHCONDITIONS
- <Name>WT with DPD 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>WT with DPD 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>WT with Fe 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>WT with Fe 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>Δcra acetate 1</Name> PGCGROWTHCONDITIONS
- <Name>Δcra acetate 2</Name> PGCGROWTHCONDITIONS
- <Name>Δcra fructose 1</Name> PGCGROWTHCONDITIONS
- <Name>Δcra fructose 2</Name> PGCGROWTHCONDITIONS
- <Name>Δcra glucose 1</Name> PGCGROWTHCONDITIONS
- <Name>Δcra glucose 2</Name> PGCGROWTHCONDITIONS
- <Name>Δfur with DPD 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>Δfur with DPD 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>Δfur with Fe 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>Δfur with Fe 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadE pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadE pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadW pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadW pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadX pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadX pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔompR NaCl 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔompR NaCl 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔoxyR PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔoxyR PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔsoxR PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔsoxR PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔsoxS PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔsoxS PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>σ32 30°C rep1</Name> PGCGROWTHCONDITIONS
- <Name>σ32 30°C rep2</Name> PGCGROWTHCONDITIONS
- <Name>σ32 30°C short RNase</Name> PGCGROWTHCONDITIONS
- <Name>σ32 43°C rep1</Name> PGCGROWTHCONDITIONS
- <Name>σ32 43°C rep2</Name> PGCGROWTHCONDITIONS
- <Name>σ32 43°C short RNase</Name> PGCGROWTHCONDITIONS
- <Name>σ32 ChIP DNA, control</Name> PGCGROWTHCONDITIONS
- <Name>σ32 ChIP DNA, heat</Name> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli K-12</Orgn> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli</Orgn> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli</Orgn> str. <Strain>K-12</Strain> substr. <Substrain>MG1655star</Substrain> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli</Orgn> str. <Strain>K-12</Strain> substr. <Substrain>MG1655</Substrain> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli str. K-12 substr. MG1655</Orgn> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli str. K-12 substr. MG1655star</Orgn> PGCGROWTHCONDITIONS
- Resulting reads were aligned to the published E. coli K-12 MG1655 genome (<Gversion>U00096.2</Gversion>) using the software package SOAP (Li et al, 2009), allowing no more than two mismatches (Supplemental File).  Reads aligning to repeated elements in the genome (e.g. rRNA) were removed from analysis.  For reads that had no mapping locations for the first 36 bp, the 3-30 bp subsequences were used in the subsequent mapping to the reference genome.  Reads that had unique mapping locations and did not match annotated rRNA genes were used for further analysis.  For each gene, the tag density was estimated as the number of aligned sequencing tags divided by gene size in kb.  Per-gene tag density was normalized using quantile normalization (Supplemental Files).  The tag density data were analyzed for statistically significant differential expression using BaySeq (Hardcastle &amp; Kelly, 2010) with a FDR of 0.01, and genes were organized into operons using data from EcoCyc (Keseler et al, 2011). PGCGROWTHCONDITIONS
- Sequenced reads were mapped onto <Gversion>NC_000913</Gversion> reference genome sequence using bowtie v1.0.0 with parameters -X 1000 -n 2 -3 3 -S PGCGROWTHCONDITIONS
- Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the <Phase>mid-log</Phase> cultures followed by formaldehyde to 1% final and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 3500 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. Cell pellets (from initial 250 mL of culture) were thawed and resuspended in 250 μL of IP buffer (100 mM Tris pH 8, 300 mM NaCl, 1% TritonX-100) and sonicated using a microtip sonicator set at 10% output for 20 second intervals with periods of cooling in between. Cells were then treated for one hour at 4 °C with RNase A (2 ng/ml), micrococcal nuclease (50 units), 20 μM CaCl2,1.2 mM KCl, 0.3 mM NaCl, 6 mM sucrose, and 10 μM DTT. EDTA was added to 10 mM to stop the micrococcal nuclease and the samples were spun down to remove cell debris. The lysate was then precleared through incubation with a 50/50 slurry of sepharose protein A beads in IP buffer for 2-3 hours at 4 °C. The beads were removed by centrifugation and antibody was added to the pre-cleared lysate for an overnight incubation. The next day, 30 μl of a 50/50 slurry of sepharose protein A beads in IP buffer was added to the lysate to capture antibody-protein-DNA complex for one hour at 4 °C. Beads were then washed once with 1 ml of LiCl wash buffer (100 mM Tris pH 8, 250 mM LiCl, 2% TritonX-100), twice with 600 mM NaCl wash buffer (100 mM Tris pH 8, 600 mM NaCl, 2% TritonX-100), twice with 300 mM NaCl wash buffer (100 mM Tris pH 8, 300 mM NaCl, 2% TritonX-100), and twice with TE. Elution buffer (50 mM Tris pH 8, 10 mM EDTA, 1% SDS) was added after the final wash step, and beads were incubated at 65 °C for 30 minutes to remove the crosslinked protein-DNA complexes from the beads. After centrifugation to remove the beads, the samples were incubated overnight at 65 °C to reverse the protein-DNA formaldehyde crosslinks. DNA was purified using Qiagen’s PCR Purification kit and eluted to a final volume of 50 μl with EB. PGCGROWTHCONDITIONS
- strain: <Gtype>∆hns/∆stpA</Gtype> PGCGROWTHCONDITIONS
- strain: <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS
- strain: <Gtype>PK8263</Gtype> PGCGROWTHCONDITIONS
- strain: MG1655 K-12 <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
- strain: <Orgn>K-12 MG1655</Orgn> PGCGROWTHCONDITIONS
- strain: <Orgn>MG1655</Orgn> PGCGROWTHCONDITIONS
- strain: <Strain>K-12</Strain> PGCGROWTHCONDITIONS
- <Substrain>MG1655</Substrain> <Gtype>PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)</Gtype> PGCGROWTHCONDITIONS
- <Substrain>MG1655</Substrain> <Gtype>PhtpG::lacZ delta lacX74/ptrc99A (control vector)</Gtype> PGCGROWTHCONDITIONS
- <Supp>acetate</Supp> PGCGROWTHCONDITIONS
- <Supp>Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)</Supp> was added to the <Phase>mid-log</Phase> cultures followed by formaldehyde to 1% final, and aerobic or anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with aerobic or anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 3500 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
- <Technique>ChIP-Seq</Technique> PGCGROWTHCONDITIONS
- <Technique>RNA-Seq</Technique> PGCGROWTHCONDITIONS
- The cultured cells were inoculated with 1:100 dilution into 50 mL of the fresh M9 medium containing 2 g/L glucose in either the presence or <Supp>absence of 1 g/L arginine</Supp> and continued to culture at 37°C until reaching an appropriate cell density (OD600 ≈ 0.5). PGCGROWTHCONDITIONS
- The cultured cells were inoculated with 1:100 dilution into 50 mL of the fresh <Med>M9 medium</Med> containing <Supp>2 g/L glucose</Supp> in either the <Supp>presence or absence of 1 g/L arginine</Supp> and continued to culture at <Temp>37°C</Temp> until reaching an appropriate cell density (<OD>OD600 ≈ 0.5</OD>). PGCGROWTHCONDITIONS
- To harvest total RNA samples, overnight cultures of <Gtype>wild type</Gtype> MG1655 grown in LB at 37˚C were diluted back 1:500 in either fresh LB or M63 minimal glucose medium and allowed to grow until the cultures reached an OD600 of ~ 0.4 and 2.0 for cultures grown in LB and an OD600 of ~0.4 for cultures grown in M63. For samples grown to OD600 of ~0.4 a total volume of 25 ml of cells were harvested and combined with 5 ml of stop solution (95% Ethanol, 5% acid phenol). For samples grown to <OD>OD600 of 2.0</OD> a total volume of 5 ml of cells were harvested and combined with 1 ml of stop solution. PGCGROWTHCONDITIONS
- To harvest total RNA samples, overnight cultures of <Gtype>wild type</Gtype> MG1655 grown in LB at 37˚C were diluted back 1:500 in either fresh LB or M63 minimal glucose medium and allowed to grow until the cultures reached an OD600 of ~ 0.4 and 2.0 for cultures grown in LB and an OD600 of ~0.4 for cultures grown in M63. For samples grown to <OD>OD600 of ~0.4</OD> a total volume of 25 ml of cells were harvested and combined with 5 ml of stop solution (95% Ethanol, 5% acid phenol). For samples grown to OD600 of 2.0 a total volume of 5 ml of cells were harvested and combined with 1 ml of stop solution. PGCGROWTHCONDITIONS
- To harvest total RNA samples, overnight cultures of <Gtype>wild type</Gtype> MG1655 grown in LB at 37˚C were diluted back 1:500 in either fresh LB or <Med>M63 minimal glucose</Med> medium and allowed to grow until the cultures reached an OD600 of ~ 0.4 and 2.0 for cultures grown in LB and an <OD>OD600 of ~0.4</OD> for cultures grown in M63. For samples grown to OD600 of ~0.4 a total volume of 25 ml of cells were harvested and combined with 5 ml of stop solution (95% Ethanol, 5% acid phenol). For samples grown to OD600 of 2.0 a total volume of 5 ml of cells were harvested and combined with 1 ml of stop solution. PGCGROWTHCONDITIONS
- treated with: <Supp>250 uM of paraquat</Supp> at <Phase>mid-log pahse</Phase> for <Supp>20 min</Supp> PGCGROWTHCONDITIONS
- treated with: <Supp>250 uM of paraquat</Supp> at <Phase>mid-log phase</Phase> for <Supp>20 min</Supp> PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented without <Supp>10 mM leucine</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented without <Supp>20 mg/L tryptophan</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented with <Supp>10 mM leucine</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented with <Supp>20 mg/L tryptophan</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal W2 medium</Med> supplemented with <Supp>1g/L arginine</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal W2 medium</Med> supplemented with <Supp>2g/L glutamine</Supp>. PGCGROWTHCONDITIONS

@@ -863,15 +863,131 @@
 100	At	at	IN	_	_	_
 101	<OD>	<od>	NN	_	_	_
 102	OD450	od450	NN	_	_	_
-103	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-104	A	a	NN	_	_	_
-105	total	total	NN	_	_	_
-106	of	of	IN	_	_	_
-107	six	six	CD	_	_	_
-108	samples	sample	NNS	_	_	_
-109	were	be	VBD	_	_	_
-110	analyzed	analyze	VBN	_	_	_
-111	.	.	.	_	_	_
+103	=	=	JJ	_	_	_
+104	0.3	0.3	CD	_	_	_
+105	</OD>	</od>	NN	_	_	_
+106	,	,	,	_	_	_
+107	cultures	culture	NNS	_	_	_
+108	induced	induce	VBN	_	_	_
+109	with	with	IN	_	_	_
+110	<Supp>	<supp>	NN	_	_	_
+111	1	1	CD	_	_	_
+112	mM	mm	NN	_	_	_
+113	IPTG	iptg	NN	_	_	_
+114	</Supp>	</supp>	NN	_	_	_
+115	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBD	_	_	_
+3	0	0	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+8	At	at	IN	_	_	_
+9	<OD>	<od>	NN	_	_	_
+10	OD450	od450	NN	_	_	_
+11	=	=	JJ	_	_	_
+12	0.3	0.3	CD	_	_	_
+13	</OD>	</od>	NN	_	_	_
+14	,	,	,	_	_	_
+15	cultures	culture	NNS	_	_	_
+16	induced	induce	VBN	_	_	_
+17	with	with	IN	_	_	_
+18	<Supp>	<supp>	NN	_	_	_
+19	1	1	CD	_	_	_
+20	mM	mm	NN	_	_	_
+21	IPTG	iptg	NN	_	_	_
+22	</Supp>	</supp>	NN	_	_	_
+23	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBD	_	_	_
+3	10	10	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+8	At	at	IN	_	_	_
+9	<OD>	<od>	NN	_	_	_
+10	OD450	od450	NN	_	_	_
+11	=	=	JJ	_	_	_
+12	0.3	0.3	CD	_	_	_
+13	</OD>	</od>	NN	_	_	_
+14	,	,	,	_	_	_
+15	cultures	culture	NNS	_	_	_
+16	induced	induce	VBN	_	_	_
+17	with	with	IN	_	_	_
+18	<Supp>	<supp>	NN	_	_	_
+19	1	1	CD	_	_	_
+20	mM	mm	NN	_	_	_
+21	IPTG	iptg	NN	_	_	_
+22	</Supp>	</supp>	NN	_	_	_
+23	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBN	_	_	_
+3	20	20	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+8	At	at	IN	_	_	_
+9	<OD>	<od>	NN	_	_	_
+10	OD450	od450	NN	_	_	_
+11	=	=	JJ	_	_	_
+12	0.3	0.3	CD	_	_	_
+13	</OD>	</od>	NN	_	_	_
+14	,	,	,	_	_	_
+15	cultures	culture	NNS	_	_	_
+16	induced	induce	VBN	_	_	_
+17	with	with	IN	_	_	_
+18	<Supp>	<supp>	NN	_	_	_
+19	1	1	CD	_	_	_
+20	mM	mm	NN	_	_	_
+21	IPTG	iptg	NN	_	_	_
+22	</Supp>	</supp>	NN	_	_	_
+23	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBN	_	_	_
+3	2.5	2.5	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+8	At	at	IN	_	_	_
+9	<OD>	<od>	NN	_	_	_
+10	OD450	od450	NN	_	_	_
+11	=	=	JJ	_	_	_
+12	0.3	0.3	CD	_	_	_
+13	</OD>	</od>	NN	_	_	_
+14	,	,	,	_	_	_
+15	cultures	culture	NNS	_	_	_
+16	induced	induce	VBN	_	_	_
+17	with	with	IN	_	_	_
+18	<Supp>	<supp>	NN	_	_	_
+19	1	1	CD	_	_	_
+20	mM	mm	NN	_	_	_
+21	IPTG	iptg	NN	_	_	_
+22	</Supp>	</supp>	NN	_	_	_
+23	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBN	_	_	_
+3	5	5	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+8	A	a	NN	_	_	_
+9	total	total	NN	_	_	_
+10	of	of	IN	_	_	_
+11	six	six	CD	_	_	_
+12	samples	sample	NNS	_	_	_
+13	were	be	VBD	_	_	_
+14	analyzed	analyze	VBN	_	_	_
+15	.	.	.	_	_	_
 
 1	oxyR-8myc	oxyr-8myc	NN	_	_	_
 2	,	,	,	_	_	_
@@ -3594,67 +3710,142 @@
 23	-LRB-	-lrb-	-LRB-	_	_	_
 24	<OD>	<od>	NN	_	_	_
 25	OD600	od600	NN	_	_	_
-26	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-27	E.	e.	FW	_	_	_
-28	coli	coli	FW	_	_	_
-29	K-12	k-12	NN	_	_	_
-30	MG1655	mg1655	NN	_	_	_
-31	WT	wt	NN	_	_	_
-32	,	,	,	_	_	_
-33	gadE	gade	NN	_	_	_
-34	,	,	,	_	_	_
-35	gadW	gadw	NN	_	_	_
-36	and	and	CC	_	_	_
-37	gadX	gadx	NN	_	_	_
-38	mutant	mutant	JJ	_	_	_
-39	cells	cell	NNS	_	_	_
-40	were	be	VBD	_	_	_
-41	grown	grow	VBN	_	_	_
-42	to	to	TO	_	_	_
-43	mid-log	mid-log	JJ	_	_	_
-44	phase	phase	NN	_	_	_
-45	-LRB-	-lrb-	-LRB-	_	_	_
-46	OD600	od600	NN	_	_	_
-47	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-48	E.	e.	FW	_	_	_
-49	coli	coli	FW	_	_	_
-50	K-12	k-12	NN	_	_	_
-51	MG1655	mg1655	NN	_	_	_
-52	WT	wt	NN	_	_	_
-53	,	,	,	_	_	_
-54	ΔoxyR	δoxyr	NN	_	_	_
-55	,	,	,	_	_	_
-56	ΔsoxR	δsoxr	NN	_	_	_
-57	,	,	,	_	_	_
-58	and	and	CC	_	_	_
-59	ΔsoxS	δsoxs	NN	_	_	_
-60	were	be	VBD	_	_	_
-61	grown	grow	VBN	_	_	_
-62	to	to	TO	_	_	_
-63	mid-log	mid-log	JJ	_	_	_
-64	phase	phase	NN	_	_	_
-65	<Air>	<air>	NN	_	_	_
-66	aerobically	aerobically	RB	_	_	_
-67	</Air>	</air>	NN	_	_	_
-68	at	at	IN	_	_	_
-69	<Temp>	<temp>	NN	_	_	_
-70	37	37	CD	_	_	_
-71	°C	°c	NN	_	_	_
-72	</Temp>	</temp>	NN	_	_	_
-73	in	in	IN	_	_	_
-74	<Med>	<med>	NN	_	_	_
-75	M9	m9	NN	_	_	_
-76	minimal	minimal	JJ	_	_	_
-77	media	media	NNS	_	_	_
-78	</Med>	</med>	NN	_	_	_
-79	supplemented	supplement	VBN	_	_	_
-80	with	with	IN	_	_	_
-81	<Supp>	<supp>	NN	_	_	_
-82	0.2	0.2	CD	_	_	_
-83	%	%	NN	_	_	_
-84	glucose	glucose	NN	_	_	_
-85	</Supp>	</supp>	NN	_	_	_
-86	.	.	.	_	_	_
+26	=	=	JJ	_	_	_
+27	0.3	0.3	CD	_	_	_
+28	</OD>	</od>	NN	_	_	_
+29	-RRB-	-rrb-	-RRB-	_	_	_
+30	<Air>	<air>	NN	_	_	_
+31	aerobically	aerobically	RB	_	_	_
+32	</Air>	</air>	NN	_	_	_
+33	-LRB-	-lrb-	-LRB-	_	_	_
+34	<Agit>	<agit>	NN	_	_	_
+35	250	250	CD	_	_	_
+36	rpm	rpm	NN	_	_	_
+37	</Agit>	</agit>	NN	_	_	_
+38	-RRB-	-rrb-	-RRB-	_	_	_
+39	at	at	IN	_	_	_
+40	<Temp>	<temp>	NN	_	_	_
+41	37	37	CD	_	_	_
+42	°C	°c	NN	_	_	_
+43	</Temp>	</temp>	NN	_	_	_
+44	in	in	IN	_	_	_
+45	<Med>	<med>	NN	_	_	_
+46	M9	m9	NN	_	_	_
+47	minimal	minimal	JJ	_	_	_
+48	media	media	NNS	_	_	_
+49	</Med>	</med>	NN	_	_	_
+50	supplemented	supplement	VBN	_	_	_
+51	with	with	IN	_	_	_
+52	<Supp>	<supp>	NN	_	_	_
+53	0.2	0.2	CD	_	_	_
+54	%	%	NN	_	_	_
+55	glucose	glucose	NN	_	_	_
+56	</Supp>	</supp>	NN	_	_	_
+57	at	at	IN	_	_	_
+58	<pH>	<pH>	NNP	_	_	_
+59	pH	ph	NN	_	_	_
+60	5.5	5.5	CD	_	_	_
+61	</pH>	</ph>	NN	_	_	_
+62	.	.	.	_	_	_
+
+1	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+2	E.	E.	NNP	_	_	_
+3	coli	coli	NN	_	_	_
+4	K-12	k-12	NN	_	_	_
+5	MG1655	mg1655	NN	_	_	_
+6	WT	wt	NN	_	_	_
+7	,	,	,	_	_	_
+8	gadE	gade	NN	_	_	_
+9	,	,	,	_	_	_
+10	gadW	gadw	NN	_	_	_
+11	and	and	CC	_	_	_
+12	gadX	gadx	NN	_	_	_
+13	mutant	mutant	JJ	_	_	_
+14	cells	cell	NNS	_	_	_
+15	were	be	VBD	_	_	_
+16	grown	grow	VBN	_	_	_
+17	to	to	TO	_	_	_
+18	mid-log	mid-log	JJ	_	_	_
+19	phase	phase	NN	_	_	_
+20	-LRB-	-lrb-	-LRB-	_	_	_
+21	OD600	od600	NN	_	_	_
+22	=	=	JJ	_	_	_
+23	0.3	0.3	CD	_	_	_
+24	-RRB-	-rrb-	-RRB-	_	_	_
+25	<Air>	<air>	NN	_	_	_
+26	aerobically	aerobically	RB	_	_	_
+27	</Air>	</air>	NN	_	_	_
+28	-LRB-	-lrb-	-LRB-	_	_	_
+29	<Agit>	<agit>	NN	_	_	_
+30	250	250	CD	_	_	_
+31	rpm	rpm	NN	_	_	_
+32	</Agit>	</agit>	NN	_	_	_
+33	-RRB-	-rrb-	-RRB-	_	_	_
+34	at	at	IN	_	_	_
+35	<Temp>	<temp>	NN	_	_	_
+36	37	37	CD	_	_	_
+37	°C	°c	NN	_	_	_
+38	</Temp>	</temp>	NN	_	_	_
+39	in	in	IN	_	_	_
+40	<Med>	<med>	NN	_	_	_
+41	M9	m9	NN	_	_	_
+42	minimal	minimal	JJ	_	_	_
+43	media	media	NNS	_	_	_
+44	</Med>	</med>	NN	_	_	_
+45	supplemented	supplement	VBN	_	_	_
+46	with	with	IN	_	_	_
+47	<Supp>	<supp>	NN	_	_	_
+48	0.2	0.2	CD	_	_	_
+49	%	%	NN	_	_	_
+50	glucose	glucose	NN	_	_	_
+51	</Supp>	</supp>	NN	_	_	_
+52	at	at	IN	_	_	_
+53	<pH>	<pH>	NNP	_	_	_
+54	pH	ph	NN	_	_	_
+55	5.5	5.5	CD	_	_	_
+56	</pH>	</ph>	NN	_	_	_
+57	.	.	.	_	_	_
+
+1	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+2	E.	E.	NNP	_	_	_
+3	coli	coli	NN	_	_	_
+4	K-12	k-12	NN	_	_	_
+5	MG1655	mg1655	NN	_	_	_
+6	WT	wt	NN	_	_	_
+7	,	,	,	_	_	_
+8	ΔoxyR	δoxyr	NN	_	_	_
+9	,	,	,	_	_	_
+10	ΔsoxR	δsoxr	NN	_	_	_
+11	,	,	,	_	_	_
+12	and	and	CC	_	_	_
+13	ΔsoxS	δsoxs	NN	_	_	_
+14	were	be	VBD	_	_	_
+15	grown	grow	VBN	_	_	_
+16	to	to	TO	_	_	_
+17	mid-log	mid-log	JJ	_	_	_
+18	phase	phase	NN	_	_	_
+19	<Air>	<air>	NN	_	_	_
+20	aerobically	aerobically	RB	_	_	_
+21	</Air>	</air>	NN	_	_	_
+22	at	at	IN	_	_	_
+23	<Temp>	<temp>	NN	_	_	_
+24	37	37	CD	_	_	_
+25	°C	°c	NN	_	_	_
+26	</Temp>	</temp>	NN	_	_	_
+27	in	in	IN	_	_	_
+28	<Med>	<med>	NN	_	_	_
+29	M9	m9	NN	_	_	_
+30	minimal	minimal	JJ	_	_	_
+31	media	media	NNS	_	_	_
+32	</Med>	</med>	NN	_	_	_
+33	supplemented	supplement	VBN	_	_	_
+34	with	with	IN	_	_	_
+35	<Supp>	<supp>	NN	_	_	_
+36	0.2	0.2	CD	_	_	_
+37	%	%	NN	_	_	_
+38	glucose	glucose	NN	_	_	_
+39	</Supp>	</supp>	NN	_	_	_
+40	.	.	.	_	_	_
 
 1	Then	then	RB	_	_	_
 2	cells	cell	NNS	_	_	_
@@ -4688,1189 +4879,1193 @@
 706	-LRB-	-lrb-	-LRB-	_	_	_
 707	<OD>	<od>	NN	_	_	_
 708	OD600	od600	NN	_	_	_
-709	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-710	growth	growth	NN	_	_	_
-711	phase	phase	NN	_	_	_
-712	:	:	:	_	_	_
-713	<Phase>	<phase>	NN	_	_	_
-714	stationary	stationary	JJ	_	_	_
-715	</Phase>	</phase>	NN	_	_	_
-716	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-717	<Gtype>	<gtype>	NN	_	_	_
-718	∆	∆	CD	_	_	_
-719	fnr	fnr	NN	_	_	_
-720	</Gtype>	</gtype>	NN	_	_	_
-721	-	-	:	_	_	_
-722	<Air>	<air>	NN	_	_	_
-723	Anaeroibc	anaeroibc	NN	_	_	_
-724	</Air>	</air>	NN	_	_	_
-725	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-726	<Gtype>	<gtype>	NN	_	_	_
-727	∆	∆	CD	_	_	_
-728	fnr	fnr	NN	_	_	_
-729	</Gtype>	</gtype>	NN	_	_	_
-730	ChIP	chip	NN	_	_	_
-731	DNA	dna	NN	_	_	_
-732	from	from	IN	_	_	_
-733	<Gtype>	<gtype>	NN	_	_	_
-734	PK4854	pk4854	NN	_	_	_
-735	</Gtype>	</gtype>	NN	_	_	_
-736	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+709	=	=	JJ	_	_	_
+710	0.3	0.3	CD	_	_	_
+711	</OD>	</od>	NN	_	_	_
+712	-RRB-	-rrb-	-RRB-	_	_	_
+713	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+714	growth	growth	NN	_	_	_
+715	phase	phase	NN	_	_	_
+716	:	:	:	_	_	_
+717	<Phase>	<phase>	NN	_	_	_
+718	stationary	stationary	JJ	_	_	_
+719	</Phase>	</phase>	NN	_	_	_
+720	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+721	<Gtype>	<gtype>	NN	_	_	_
+722	∆	∆	CD	_	_	_
+723	fnr	fnr	NN	_	_	_
+724	</Gtype>	</gtype>	NN	_	_	_
+725	-	-	:	_	_	_
+726	<Air>	<air>	NN	_	_	_
+727	Anaeroibc	anaeroibc	NN	_	_	_
+728	</Air>	</air>	NN	_	_	_
+729	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+730	<Gtype>	<gtype>	NN	_	_	_
+731	∆	∆	CD	_	_	_
+732	fnr	fnr	NN	_	_	_
+733	</Gtype>	</gtype>	NN	_	_	_
+734	ChIP	chip	NN	_	_	_
+735	DNA	dna	NN	_	_	_
+736	from	from	IN	_	_	_
 737	<Gtype>	<gtype>	NN	_	_	_
-738	∆	∆	CD	_	_	_
-739	fur	fur	NN	_	_	_
-740	</Gtype>	</gtype>	NN	_	_	_
-741	<Air>	<air>	NN	_	_	_
-742	Aerobic	aerobic	JJ	_	_	_
-743	</Air>	</air>	NN	_	_	_
-744	A	a	DT	_	_	_
-745	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-746	<Gtype>	<gtype>	NN	_	_	_
-747	∆	∆	CD	_	_	_
-748	fur	fur	NN	_	_	_
-749	</Gtype>	</gtype>	NN	_	_	_
-750	<Air>	<air>	NN	_	_	_
-751	Aerobic	aerobic	JJ	_	_	_
-752	</Air>	</air>	NN	_	_	_
-753	B	b	NN	_	_	_
-754	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-755	<Gtype>	<gtype>	NN	_	_	_
-756	∆	∆	CD	_	_	_
-757	fur	fur	NN	_	_	_
-758	</Gtype>	</gtype>	NN	_	_	_
-759	<Air>	<air>	NN	_	_	_
-760	Anaerobic	anaerobic	JJ	_	_	_
-761	</Air>	</air>	NN	_	_	_
-762	A	a	DT	_	_	_
-763	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-764	<Gtype>	<gtype>	NN	_	_	_
-765	∆	∆	CD	_	_	_
-766	fur	fur	NN	_	_	_
-767	</Gtype>	</gtype>	NN	_	_	_
-768	<Air>	<air>	NN	_	_	_
-769	Anaerobic	anaerobic	JJ	_	_	_
-770	</Air>	</air>	NN	_	_	_
-771	B	b	NN	_	_	_
-772	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-773	<Gtype>	<gtype>	NN	_	_	_
-774	∆	∆	CD	_	_	_
-775	fur	fur	NN	_	_	_
-776	</Gtype>	</gtype>	NN	_	_	_
-777	<Air>	<air>	NN	_	_	_
-778	Anaerobic	anaerobic	JJ	_	_	_
-779	</Air>	</air>	NN	_	_	_
-780	-LSB-	-lsb-	-LRB-	_	_	_
-781	IP	IP	NNP	_	_	_
-782	vs	vs	CC	_	_	_
-783	nput	nput	NN	_	_	_
-784	-RSB-	-rsb-	-RRB-	_	_	_
-785	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-786	<Gtype>	<gtype>	NN	_	_	_
-787	∆	∆	CD	_	_	_
-788	fur	fur	NN	_	_	_
-789	∆	∆	CD	_	_	_
-790	ryhB	ryhb	NN	_	_	_
-791	</Gtype>	</gtype>	NN	_	_	_
-792	<Air>	<air>	NN	_	_	_
-793	Aerobic	aerobic	JJ	_	_	_
-794	</Air>	</air>	NN	_	_	_
-795	A	a	DT	_	_	_
-796	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-797	<Gtype>	<gtype>	NN	_	_	_
-798	∆	∆	CD	_	_	_
-799	fur	fur	NN	_	_	_
-800	∆	∆	CD	_	_	_
-801	ryhB	ryhb	NN	_	_	_
-802	</Gtype>	</gtype>	NN	_	_	_
-803	<Air>	<air>	NN	_	_	_
-804	Aerobic	aerobic	JJ	_	_	_
-805	</Air>	</air>	NN	_	_	_
-806	B	b	NN	_	_	_
-807	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-808	<Gtype>	<gtype>	NN	_	_	_
-809	∆	∆	CD	_	_	_
-810	fur	fur	NN	_	_	_
-811	∆	∆	CD	_	_	_
-812	ryhB	ryhb	NN	_	_	_
-813	</Gtype>	</gtype>	NN	_	_	_
-814	<Air>	<air>	NN	_	_	_
-815	Anaerobic	anaerobic	JJ	_	_	_
-816	</Air>	</air>	NN	_	_	_
-817	A	a	DT	_	_	_
-818	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-819	<Gtype>	<gtype>	NN	_	_	_
-820	∆	∆	CD	_	_	_
-821	fur	fur	NN	_	_	_
-822	∆	∆	CD	_	_	_
-823	ryhB	ryhb	NN	_	_	_
-824	</Gtype>	</gtype>	NN	_	_	_
-825	<Air>	<air>	NN	_	_	_
-826	Anaerobic	anaerobic	JJ	_	_	_
-827	</Air>	</air>	NN	_	_	_
-828	B	b	NN	_	_	_
-829	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-830	<Gtype>	<gtype>	NN	_	_	_
-831	NsrR	nsrr	NN	_	_	_
-832	_	_	CD	_	_	_
-833	Flagtag	flagtag	NN	_	_	_
-834	</Gtype>	</gtype>	NN	_	_	_
-835	_	_	CD	_	_	_
-836	rep1	rep1	NN	_	_	_
-837	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-838	<Gtype>	<gtype>	NN	_	_	_
-839	NsrR	nsrr	NN	_	_	_
-840	_	_	CD	_	_	_
-841	Flagtag	flagtag	NN	_	_	_
-842	</Gtype>	</gtype>	NN	_	_	_
-843	_	_	CD	_	_	_
-844	rep2	rep2	NN	_	_	_
-845	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-846	<Gtype>	<gtype>	NN	_	_	_
-847	NsrR	nsrr	NN	_	_	_
-848	_	_	CD	_	_	_
-849	Flagtag	flagtag	NN	_	_	_
-850	</Gtype>	</gtype>	NN	_	_	_
-851	_	_	CD	_	_	_
-852	rep3	rep3	NN	_	_	_
-853	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-854	<Gtype>	<gtype>	NN	_	_	_
-855	Ptac	ptac	NN	_	_	_
-856	:	:	:	_	_	_
-857	:	:	:	_	_	_
-858	fnr	fnr	NN	_	_	_
-859	</Gtype>	</gtype>	NN	_	_	_
-860	-	-	:	_	_	_
-861	A	a	NN	_	_	_
-862	-	-	:	_	_	_
-863	<Supp>	<supp>	NN	_	_	_
-864	16	16	CD	_	_	_
-865	µM	µm	NN	_	_	_
-866	IPTG	iptg	NN	_	_	_
-867	</Supp>	</supp>	NN	_	_	_
-868	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-869	<Gtype>	<gtype>	NN	_	_	_
-870	Ptac	ptac	NN	_	_	_
-871	:	:	:	_	_	_
-872	:	:	:	_	_	_
-873	fnr	fnr	NN	_	_	_
-874	</Gtype>	</gtype>	NN	_	_	_
-875	-	-	:	_	_	_
-876	A	a	NN	_	_	_
-877	-	-	:	_	_	_
-878	<Supp>	<supp>	NN	_	_	_
-879	4	4	CD	_	_	_
-880	µM	µm	NN	_	_	_
-881	IPTG	iptg	NN	_	_	_
-882	</Supp>	</supp>	NN	_	_	_
-883	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-884	<Gtype>	<gtype>	NN	_	_	_
-885	Ptac	ptac	NN	_	_	_
-886	:	:	:	_	_	_
-887	:	:	:	_	_	_
-888	fnr	fnr	NN	_	_	_
-889	</Gtype>	</gtype>	NN	_	_	_
-890	-	-	:	_	_	_
-891	A	a	NN	_	_	_
-892	-	-	:	_	_	_
-893	<Supp>	<supp>	NN	_	_	_
-894	8	8	CD	_	_	_
-895	µM	µm	NN	_	_	_
-896	IPTG	iptg	NN	_	_	_
-897	</Supp>	</supp>	NN	_	_	_
-898	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-899	<Gtype>	<gtype>	NN	_	_	_
-900	Ptac	ptac	NN	_	_	_
-901	:	:	:	_	_	_
-902	:	:	:	_	_	_
-903	fnr	fnr	NN	_	_	_
-904	</Gtype>	</gtype>	NN	_	_	_
-905	-	-	:	_	_	_
-906	B	b	NN	_	_	_
-907	-	-	:	_	_	_
-908	<Supp>	<supp>	NN	_	_	_
-909	16	16	CD	_	_	_
-910	µM	µm	NN	_	_	_
-911	IPTG	iptg	NN	_	_	_
-912	</Supp>	</supp>	NN	_	_	_
-913	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-914	<Gtype>	<gtype>	NN	_	_	_
-915	Ptac	ptac	NN	_	_	_
-916	:	:	:	_	_	_
-917	:	:	:	_	_	_
-918	fnr	fnr	NN	_	_	_
-919	</Gtype>	</gtype>	NN	_	_	_
-920	-	-	:	_	_	_
-921	B	b	NN	_	_	_
-922	-	-	:	_	_	_
-923	<Supp>	<supp>	NN	_	_	_
-924	4	4	CD	_	_	_
-925	µM	µm	NN	_	_	_
-926	IPTG	iptg	NN	_	_	_
-927	</Supp>	</supp>	NN	_	_	_
-928	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-929	<Gtype>	<gtype>	NN	_	_	_
-930	Ptac	ptac	NN	_	_	_
-931	:	:	:	_	_	_
-932	:	:	:	_	_	_
-933	fnr	fnr	NN	_	_	_
-934	</Gtype>	</gtype>	NN	_	_	_
-935	-	-	:	_	_	_
-936	B	b	NN	_	_	_
-937	-	-	:	_	_	_
-938	<Supp>	<supp>	NN	_	_	_
-939	8	8	CD	_	_	_
-940	µM	µm	NN	_	_	_
-941	IPTG	iptg	NN	_	_	_
-942	</Supp>	</supp>	NN	_	_	_
-943	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-944	<Gtype>	<gtype>	NN	_	_	_
-945	Ptac	ptac	NN	_	_	_
-946	:	:	:	_	_	_
-947	:	:	:	_	_	_
-948	fnr	fnr	NN	_	_	_
-949	</Gtype>	</gtype>	NN	_	_	_
-950	-	-	:	_	_	_
-951	C	c	NN	_	_	_
-952	-	-	:	_	_	_
-953	<Supp>	<supp>	NN	_	_	_
-954	16	16	CD	_	_	_
-955	µM	µm	NN	_	_	_
-956	IPTG	iptg	NN	_	_	_
-957	</Supp>	</supp>	NN	_	_	_
-958	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-959	<Gtype>	<gtype>	NN	_	_	_
-960	∆	∆	CD	_	_	_
-961	ryhB	ryhb	NN	_	_	_
-962	</Gtype>	</gtype>	NN	_	_	_
-963	<Air>	<air>	NN	_	_	_
-964	Aerobic	aerobic	JJ	_	_	_
-965	</Air>	</air>	NN	_	_	_
-966	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-967	<Gtype>	<gtype>	NN	_	_	_
-968	∆	∆	CD	_	_	_
-969	ryhB	ryhb	NN	_	_	_
-970	</Gtype>	</gtype>	NN	_	_	_
-971	<Air>	<air>	NN	_	_	_
-972	Anaerobic	anaerobic	JJ	_	_	_
-973	</Air>	</air>	NN	_	_	_
-974	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-975	<Gtype>	<gtype>	NN	_	_	_
-976	Wild-type	wild-type	JJ	_	_	_
-977	</Gtype>	</gtype>	NN	_	_	_
-978	<Air>	<air>	NN	_	_	_
-979	Aerobic	aerobic	JJ	_	_	_
-980	</Air>	</air>	NN	_	_	_
-981	A	a	DT	_	_	_
-982	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-983	<Gtype>	<gtype>	NN	_	_	_
-984	Wild-type	wild-type	JJ	_	_	_
-985	</Gtype>	</gtype>	NN	_	_	_
-986	<Air>	<air>	NN	_	_	_
-987	Aerobic	aerobic	JJ	_	_	_
-988	</Air>	</air>	NN	_	_	_
-989	B	b	NN	_	_	_
-990	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-991	<Gtype>	<gtype>	NN	_	_	_
-992	Wild-type	wild-type	JJ	_	_	_
-993	</Gtype>	</gtype>	NN	_	_	_
-994	<Air>	<air>	NN	_	_	_
-995	Anaerobic	anaerobic	JJ	_	_	_
-996	</Air>	</air>	NN	_	_	_
-997	A	a	DT	_	_	_
-998	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-999	<Gtype>	<gtype>	NN	_	_	_
-1000	Wild-type	wild-type	JJ	_	_	_
-1001	</Gtype>	</gtype>	NN	_	_	_
-1002	<Air>	<air>	NN	_	_	_
-1003	Anaerobic	anaerobic	JJ	_	_	_
-1004	</Air>	</air>	NN	_	_	_
-1005	B	b	NN	_	_	_
-1006	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1007	<Gtype>	<gtype>	NN	_	_	_
-1008	Wild	Wild	NNP	_	_	_
-1009	type	type	NN	_	_	_
-1010	</Gtype>	</gtype>	NN	_	_	_
-1011	control	control	NN	_	_	_
-1012	-LRB-	-lrb-	-LRB-	_	_	_
-1013	0	0	CD	_	_	_
-1014	min	min	NN	_	_	_
-1015	-RRB-	-rrb-	-RRB-	_	_	_
-1016	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1017	<Gtype>	<gtype>	NN	_	_	_
-1018	Wild	Wild	NNP	_	_	_
-1019	type	type	NN	_	_	_
-1020	</Gtype>	</gtype>	NN	_	_	_
-1021	control	control	NN	_	_	_
-1022	-LRB-	-lrb-	-LRB-	_	_	_
-1023	10	10	CD	_	_	_
-1024	min	min	NN	_	_	_
-1025	-RRB-	-rrb-	-RRB-	_	_	_
-1026	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1027	<Gtype>	<gtype>	NN	_	_	_
-1028	Wild	Wild	NNP	_	_	_
-1029	type	type	NN	_	_	_
-1030	</Gtype>	</gtype>	NN	_	_	_
-1031	control	control	NN	_	_	_
-1032	-LRB-	-lrb-	-LRB-	_	_	_
-1033	20	20	CD	_	_	_
-1034	min	min	NN	_	_	_
-1035	-RRB-	-rrb-	-RRB-	_	_	_
-1036	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1037	<Gtype>	<gtype>	NN	_	_	_
-1038	Wild	Wild	NNP	_	_	_
-1039	type	type	NN	_	_	_
-1040	</Gtype>	</gtype>	NN	_	_	_
-1041	control	control	NN	_	_	_
-1042	-LRB-	-lrb-	-LRB-	_	_	_
-1043	2.5	2.5	CD	_	_	_
-1044	min	min	NN	_	_	_
-1045	-RRB-	-rrb-	-RRB-	_	_	_
-1046	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1047	<Gtype>	<gtype>	NN	_	_	_
-1048	Wild	Wild	NNP	_	_	_
-1049	type	type	NN	_	_	_
-1050	</Gtype>	</gtype>	NN	_	_	_
-1051	control	control	NN	_	_	_
-1052	-LRB-	-lrb-	-LRB-	_	_	_
-1053	5	5	CD	_	_	_
-1054	min	min	NN	_	_	_
-1055	-RRB-	-rrb-	-RRB-	_	_	_
-1056	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1057	<Gtype>	<gtype>	NN	_	_	_
-1058	WT	wt	JJ	_	_	_
-1059	</Gtype>	</gtype>	NN	_	_	_
-1060	<pH>	<ph>	NN	_	_	_
-1061	pH5	ph5	NN	_	_	_
-1062	.5	.5	CD	_	_	_
-1063	</pH>	</ph>	NN	_	_	_
-1064	1	1	CD	_	_	_
-1065	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1066	<Gtype>	<gtype>	NN	_	_	_
-1067	WT	wt	JJ	_	_	_
-1068	</Gtype>	</gtype>	NN	_	_	_
-1069	<pH>	<ph>	NN	_	_	_
-1070	pH5	ph5	NN	_	_	_
-1071	.5	.5	CD	_	_	_
-1072	</pH>	</ph>	NN	_	_	_
-1073	2	2	CD	_	_	_
-1074	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1075	<Gtype>	<gtype>	NN	_	_	_
-1076	WT	wt	JJ	_	_	_
-1077	</Gtype>	</gtype>	NN	_	_	_
-1078	<Supp>	<supp>	NN	_	_	_
-1079	acetate	acetate	NN	_	_	_
-1080	</Supp>	</supp>	NN	_	_	_
-1081	1	1	CD	_	_	_
-1082	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1083	<Gtype>	<gtype>	NN	_	_	_
-1084	WT	wt	JJ	_	_	_
-1085	</Gtype>	</gtype>	NN	_	_	_
-1086	<Supp>	<supp>	NN	_	_	_
-1087	acetate	acetate	NN	_	_	_
-1088	</Supp>	</supp>	NN	_	_	_
-1089	2	2	CD	_	_	_
-1090	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1091	<Gtype>	<gtype>	NN	_	_	_
-1092	WT	wt	JJ	_	_	_
-1093	</Gtype>	</gtype>	NN	_	_	_
-1094	<Supp>	<supp>	NN	_	_	_
-1095	fructose	fructose	NN	_	_	_
-1096	</Supp>	</supp>	NN	_	_	_
-1097	1	1	CD	_	_	_
-1098	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1099	<Gtype>	<gtype>	NN	_	_	_
-1100	WT	wt	JJ	_	_	_
-1101	</Gtype>	</gtype>	NN	_	_	_
-1102	<Supp>	<supp>	NN	_	_	_
-1103	fructose	fructose	NN	_	_	_
-1104	</Supp>	</supp>	NN	_	_	_
-1105	2	2	CD	_	_	_
-1106	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1107	<Gtype>	<gtype>	NN	_	_	_
-1108	WT	wt	JJ	_	_	_
-1109	</Gtype>	</gtype>	NN	_	_	_
-1110	<Supp>	<supp>	NN	_	_	_
-1111	glucose	glucose	NN	_	_	_
-1112	</Supp>	</supp>	NN	_	_	_
-1113	1	1	CD	_	_	_
-1114	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1115	<Gtype>	<gtype>	NN	_	_	_
-1116	WT	wt	JJ	_	_	_
-1117	</Gtype>	</gtype>	NN	_	_	_
-1118	<Supp>	<supp>	NN	_	_	_
-1119	glucose	glucose	NN	_	_	_
-1120	</Supp>	</supp>	NN	_	_	_
-1121	2	2	CD	_	_	_
-1122	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1123	<Gtype>	<gtype>	NN	_	_	_
-1124	WT	wt	JJ	_	_	_
-1125	</Gtype>	</gtype>	NN	_	_	_
-1126	<Supp>	<supp>	NN	_	_	_
-1127	NaCl	nacl	NN	_	_	_
-1128	</Supp>	</supp>	NN	_	_	_
-1129	1	1	CD	_	_	_
-1130	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1131	<Gtype>	<gtype>	NN	_	_	_
-1132	WT	wt	JJ	_	_	_
-1133	</Gtype>	</gtype>	NN	_	_	_
-1134	<Supp>	<supp>	NN	_	_	_
-1135	NaCl	nacl	NN	_	_	_
-1136	</Supp>	</supp>	NN	_	_	_
-1137	2	2	CD	_	_	_
-1138	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1139	<Gtype>	<gtype>	NN	_	_	_
-1140	WT	wt	JJ	_	_	_
-1141	</Gtype>	</gtype>	NN	_	_	_
-1142	<Supp>	<supp>	NN	_	_	_
-1143	PQ	pq	NN	_	_	_
-1144	</Supp>	</supp>	NN	_	_	_
-1145	1	1	CD	_	_	_
-1146	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1147	<Gtype>	<gtype>	NN	_	_	_
-1148	WT	wt	JJ	_	_	_
-1149	</Gtype>	</gtype>	NN	_	_	_
-1150	<Supp>	<supp>	NN	_	_	_
-1151	PQ	pq	NN	_	_	_
-1152	</Supp>	</supp>	NN	_	_	_
-1153	2	2	CD	_	_	_
-1154	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1155	<Gtype>	<gtype>	NN	_	_	_
-1156	WT	wt	JJ	_	_	_
-1157	</Gtype>	</gtype>	NN	_	_	_
-1158	_	_	NN	_	_	_
-1159	<Technique>	<technique>	NN	_	_	_
-1160	ChIPSeq	chipseq	NN	_	_	_
-1161	</Technique>	</technique>	NN	_	_	_
+738	PK4854	pk4854	NN	_	_	_
+739	</Gtype>	</gtype>	NN	_	_	_
+740	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+741	<Gtype>	<gtype>	NN	_	_	_
+742	∆	∆	CD	_	_	_
+743	fur	fur	NN	_	_	_
+744	</Gtype>	</gtype>	NN	_	_	_
+745	<Air>	<air>	NN	_	_	_
+746	Aerobic	aerobic	JJ	_	_	_
+747	</Air>	</air>	NN	_	_	_
+748	A	a	DT	_	_	_
+749	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+750	<Gtype>	<gtype>	NN	_	_	_
+751	∆	∆	CD	_	_	_
+752	fur	fur	NN	_	_	_
+753	</Gtype>	</gtype>	NN	_	_	_
+754	<Air>	<air>	NN	_	_	_
+755	Aerobic	aerobic	JJ	_	_	_
+756	</Air>	</air>	NN	_	_	_
+757	B	b	NN	_	_	_
+758	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+759	<Gtype>	<gtype>	NN	_	_	_
+760	∆	∆	CD	_	_	_
+761	fur	fur	NN	_	_	_
+762	</Gtype>	</gtype>	NN	_	_	_
+763	<Air>	<air>	NN	_	_	_
+764	Anaerobic	anaerobic	JJ	_	_	_
+765	</Air>	</air>	NN	_	_	_
+766	A	a	DT	_	_	_
+767	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+768	<Gtype>	<gtype>	NN	_	_	_
+769	∆	∆	CD	_	_	_
+770	fur	fur	NN	_	_	_
+771	</Gtype>	</gtype>	NN	_	_	_
+772	<Air>	<air>	NN	_	_	_
+773	Anaerobic	anaerobic	JJ	_	_	_
+774	</Air>	</air>	NN	_	_	_
+775	B	b	NN	_	_	_
+776	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+777	<Gtype>	<gtype>	NN	_	_	_
+778	∆	∆	CD	_	_	_
+779	fur	fur	NN	_	_	_
+780	</Gtype>	</gtype>	NN	_	_	_
+781	<Air>	<air>	NN	_	_	_
+782	Anaerobic	anaerobic	JJ	_	_	_
+783	</Air>	</air>	NN	_	_	_
+784	-LSB-	-lsb-	-LRB-	_	_	_
+785	IP	IP	NNP	_	_	_
+786	vs	vs	CC	_	_	_
+787	nput	nput	NN	_	_	_
+788	-RSB-	-rsb-	-RRB-	_	_	_
+789	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+790	<Gtype>	<gtype>	NN	_	_	_
+791	∆	∆	CD	_	_	_
+792	fur	fur	NN	_	_	_
+793	∆	∆	CD	_	_	_
+794	ryhB	ryhb	NN	_	_	_
+795	</Gtype>	</gtype>	NN	_	_	_
+796	<Air>	<air>	NN	_	_	_
+797	Aerobic	aerobic	JJ	_	_	_
+798	</Air>	</air>	NN	_	_	_
+799	A	a	DT	_	_	_
+800	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+801	<Gtype>	<gtype>	NN	_	_	_
+802	∆	∆	CD	_	_	_
+803	fur	fur	NN	_	_	_
+804	∆	∆	CD	_	_	_
+805	ryhB	ryhb	NN	_	_	_
+806	</Gtype>	</gtype>	NN	_	_	_
+807	<Air>	<air>	NN	_	_	_
+808	Aerobic	aerobic	JJ	_	_	_
+809	</Air>	</air>	NN	_	_	_
+810	B	b	NN	_	_	_
+811	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+812	<Gtype>	<gtype>	NN	_	_	_
+813	∆	∆	CD	_	_	_
+814	fur	fur	NN	_	_	_
+815	∆	∆	CD	_	_	_
+816	ryhB	ryhb	NN	_	_	_
+817	</Gtype>	</gtype>	NN	_	_	_
+818	<Air>	<air>	NN	_	_	_
+819	Anaerobic	anaerobic	JJ	_	_	_
+820	</Air>	</air>	NN	_	_	_
+821	A	a	DT	_	_	_
+822	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+823	<Gtype>	<gtype>	NN	_	_	_
+824	∆	∆	CD	_	_	_
+825	fur	fur	NN	_	_	_
+826	∆	∆	CD	_	_	_
+827	ryhB	ryhb	NN	_	_	_
+828	</Gtype>	</gtype>	NN	_	_	_
+829	<Air>	<air>	NN	_	_	_
+830	Anaerobic	anaerobic	JJ	_	_	_
+831	</Air>	</air>	NN	_	_	_
+832	B	b	NN	_	_	_
+833	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+834	<Gtype>	<gtype>	NN	_	_	_
+835	NsrR	nsrr	NN	_	_	_
+836	_	_	CD	_	_	_
+837	Flagtag	flagtag	NN	_	_	_
+838	</Gtype>	</gtype>	NN	_	_	_
+839	_	_	CD	_	_	_
+840	rep1	rep1	NN	_	_	_
+841	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+842	<Gtype>	<gtype>	NN	_	_	_
+843	NsrR	nsrr	NN	_	_	_
+844	_	_	CD	_	_	_
+845	Flagtag	flagtag	NN	_	_	_
+846	</Gtype>	</gtype>	NN	_	_	_
+847	_	_	CD	_	_	_
+848	rep2	rep2	NN	_	_	_
+849	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+850	<Gtype>	<gtype>	NN	_	_	_
+851	NsrR	nsrr	NN	_	_	_
+852	_	_	CD	_	_	_
+853	Flagtag	flagtag	NN	_	_	_
+854	</Gtype>	</gtype>	NN	_	_	_
+855	_	_	CD	_	_	_
+856	rep3	rep3	NN	_	_	_
+857	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+858	<Gtype>	<gtype>	NN	_	_	_
+859	Ptac	ptac	NN	_	_	_
+860	:	:	:	_	_	_
+861	:	:	:	_	_	_
+862	fnr	fnr	NN	_	_	_
+863	</Gtype>	</gtype>	NN	_	_	_
+864	-	-	:	_	_	_
+865	A	a	NN	_	_	_
+866	-	-	:	_	_	_
+867	<Supp>	<supp>	NN	_	_	_
+868	16	16	CD	_	_	_
+869	µM	µm	NN	_	_	_
+870	IPTG	iptg	NN	_	_	_
+871	</Supp>	</supp>	NN	_	_	_
+872	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+873	<Gtype>	<gtype>	NN	_	_	_
+874	Ptac	ptac	NN	_	_	_
+875	:	:	:	_	_	_
+876	:	:	:	_	_	_
+877	fnr	fnr	NN	_	_	_
+878	</Gtype>	</gtype>	NN	_	_	_
+879	-	-	:	_	_	_
+880	A	a	NN	_	_	_
+881	-	-	:	_	_	_
+882	<Supp>	<supp>	NN	_	_	_
+883	4	4	CD	_	_	_
+884	µM	µm	NN	_	_	_
+885	IPTG	iptg	NN	_	_	_
+886	</Supp>	</supp>	NN	_	_	_
+887	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+888	<Gtype>	<gtype>	NN	_	_	_
+889	Ptac	ptac	NN	_	_	_
+890	:	:	:	_	_	_
+891	:	:	:	_	_	_
+892	fnr	fnr	NN	_	_	_
+893	</Gtype>	</gtype>	NN	_	_	_
+894	-	-	:	_	_	_
+895	A	a	NN	_	_	_
+896	-	-	:	_	_	_
+897	<Supp>	<supp>	NN	_	_	_
+898	8	8	CD	_	_	_
+899	µM	µm	NN	_	_	_
+900	IPTG	iptg	NN	_	_	_
+901	</Supp>	</supp>	NN	_	_	_
+902	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+903	<Gtype>	<gtype>	NN	_	_	_
+904	Ptac	ptac	NN	_	_	_
+905	:	:	:	_	_	_
+906	:	:	:	_	_	_
+907	fnr	fnr	NN	_	_	_
+908	</Gtype>	</gtype>	NN	_	_	_
+909	-	-	:	_	_	_
+910	B	b	NN	_	_	_
+911	-	-	:	_	_	_
+912	<Supp>	<supp>	NN	_	_	_
+913	16	16	CD	_	_	_
+914	µM	µm	NN	_	_	_
+915	IPTG	iptg	NN	_	_	_
+916	</Supp>	</supp>	NN	_	_	_
+917	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+918	<Gtype>	<gtype>	NN	_	_	_
+919	Ptac	ptac	NN	_	_	_
+920	:	:	:	_	_	_
+921	:	:	:	_	_	_
+922	fnr	fnr	NN	_	_	_
+923	</Gtype>	</gtype>	NN	_	_	_
+924	-	-	:	_	_	_
+925	B	b	NN	_	_	_
+926	-	-	:	_	_	_
+927	<Supp>	<supp>	NN	_	_	_
+928	4	4	CD	_	_	_
+929	µM	µm	NN	_	_	_
+930	IPTG	iptg	NN	_	_	_
+931	</Supp>	</supp>	NN	_	_	_
+932	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+933	<Gtype>	<gtype>	NN	_	_	_
+934	Ptac	ptac	NN	_	_	_
+935	:	:	:	_	_	_
+936	:	:	:	_	_	_
+937	fnr	fnr	NN	_	_	_
+938	</Gtype>	</gtype>	NN	_	_	_
+939	-	-	:	_	_	_
+940	B	b	NN	_	_	_
+941	-	-	:	_	_	_
+942	<Supp>	<supp>	NN	_	_	_
+943	8	8	CD	_	_	_
+944	µM	µm	NN	_	_	_
+945	IPTG	iptg	NN	_	_	_
+946	</Supp>	</supp>	NN	_	_	_
+947	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+948	<Gtype>	<gtype>	NN	_	_	_
+949	Ptac	ptac	NN	_	_	_
+950	:	:	:	_	_	_
+951	:	:	:	_	_	_
+952	fnr	fnr	NN	_	_	_
+953	</Gtype>	</gtype>	NN	_	_	_
+954	-	-	:	_	_	_
+955	C	c	NN	_	_	_
+956	-	-	:	_	_	_
+957	<Supp>	<supp>	NN	_	_	_
+958	16	16	CD	_	_	_
+959	µM	µm	NN	_	_	_
+960	IPTG	iptg	NN	_	_	_
+961	</Supp>	</supp>	NN	_	_	_
+962	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+963	<Gtype>	<gtype>	NN	_	_	_
+964	∆	∆	CD	_	_	_
+965	ryhB	ryhb	NN	_	_	_
+966	</Gtype>	</gtype>	NN	_	_	_
+967	<Air>	<air>	NN	_	_	_
+968	Aerobic	aerobic	JJ	_	_	_
+969	</Air>	</air>	NN	_	_	_
+970	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+971	<Gtype>	<gtype>	NN	_	_	_
+972	∆	∆	CD	_	_	_
+973	ryhB	ryhb	NN	_	_	_
+974	</Gtype>	</gtype>	NN	_	_	_
+975	<Air>	<air>	NN	_	_	_
+976	Anaerobic	anaerobic	JJ	_	_	_
+977	</Air>	</air>	NN	_	_	_
+978	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+979	<Gtype>	<gtype>	NN	_	_	_
+980	Wild-type	wild-type	JJ	_	_	_
+981	</Gtype>	</gtype>	NN	_	_	_
+982	<Air>	<air>	NN	_	_	_
+983	Aerobic	aerobic	JJ	_	_	_
+984	</Air>	</air>	NN	_	_	_
+985	A	a	DT	_	_	_
+986	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+987	<Gtype>	<gtype>	NN	_	_	_
+988	Wild-type	wild-type	JJ	_	_	_
+989	</Gtype>	</gtype>	NN	_	_	_
+990	<Air>	<air>	NN	_	_	_
+991	Aerobic	aerobic	JJ	_	_	_
+992	</Air>	</air>	NN	_	_	_
+993	B	b	NN	_	_	_
+994	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+995	<Gtype>	<gtype>	NN	_	_	_
+996	Wild-type	wild-type	JJ	_	_	_
+997	</Gtype>	</gtype>	NN	_	_	_
+998	<Air>	<air>	NN	_	_	_
+999	Anaerobic	anaerobic	JJ	_	_	_
+1000	</Air>	</air>	NN	_	_	_
+1001	A	a	DT	_	_	_
+1002	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1003	<Gtype>	<gtype>	NN	_	_	_
+1004	Wild-type	wild-type	JJ	_	_	_
+1005	</Gtype>	</gtype>	NN	_	_	_
+1006	<Air>	<air>	NN	_	_	_
+1007	Anaerobic	anaerobic	JJ	_	_	_
+1008	</Air>	</air>	NN	_	_	_
+1009	B	b	NN	_	_	_
+1010	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1011	<Gtype>	<gtype>	NN	_	_	_
+1012	Wild	Wild	NNP	_	_	_
+1013	type	type	NN	_	_	_
+1014	</Gtype>	</gtype>	NN	_	_	_
+1015	control	control	NN	_	_	_
+1016	-LRB-	-lrb-	-LRB-	_	_	_
+1017	0	0	CD	_	_	_
+1018	min	min	NN	_	_	_
+1019	-RRB-	-rrb-	-RRB-	_	_	_
+1020	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1021	<Gtype>	<gtype>	NN	_	_	_
+1022	Wild	Wild	NNP	_	_	_
+1023	type	type	NN	_	_	_
+1024	</Gtype>	</gtype>	NN	_	_	_
+1025	control	control	NN	_	_	_
+1026	-LRB-	-lrb-	-LRB-	_	_	_
+1027	10	10	CD	_	_	_
+1028	min	min	NN	_	_	_
+1029	-RRB-	-rrb-	-RRB-	_	_	_
+1030	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1031	<Gtype>	<gtype>	NN	_	_	_
+1032	Wild	Wild	NNP	_	_	_
+1033	type	type	NN	_	_	_
+1034	</Gtype>	</gtype>	NN	_	_	_
+1035	control	control	NN	_	_	_
+1036	-LRB-	-lrb-	-LRB-	_	_	_
+1037	20	20	CD	_	_	_
+1038	min	min	NN	_	_	_
+1039	-RRB-	-rrb-	-RRB-	_	_	_
+1040	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1041	<Gtype>	<gtype>	NN	_	_	_
+1042	Wild	Wild	NNP	_	_	_
+1043	type	type	NN	_	_	_
+1044	</Gtype>	</gtype>	NN	_	_	_
+1045	control	control	NN	_	_	_
+1046	-LRB-	-lrb-	-LRB-	_	_	_
+1047	2.5	2.5	CD	_	_	_
+1048	min	min	NN	_	_	_
+1049	-RRB-	-rrb-	-RRB-	_	_	_
+1050	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1051	<Gtype>	<gtype>	NN	_	_	_
+1052	Wild	Wild	NNP	_	_	_
+1053	type	type	NN	_	_	_
+1054	</Gtype>	</gtype>	NN	_	_	_
+1055	control	control	NN	_	_	_
+1056	-LRB-	-lrb-	-LRB-	_	_	_
+1057	5	5	CD	_	_	_
+1058	min	min	NN	_	_	_
+1059	-RRB-	-rrb-	-RRB-	_	_	_
+1060	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1061	<Gtype>	<gtype>	NN	_	_	_
+1062	WT	wt	JJ	_	_	_
+1063	</Gtype>	</gtype>	NN	_	_	_
+1064	<pH>	<ph>	NN	_	_	_
+1065	pH5	ph5	NN	_	_	_
+1066	.5	.5	CD	_	_	_
+1067	</pH>	</ph>	NN	_	_	_
+1068	1	1	CD	_	_	_
+1069	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1070	<Gtype>	<gtype>	NN	_	_	_
+1071	WT	wt	JJ	_	_	_
+1072	</Gtype>	</gtype>	NN	_	_	_
+1073	<pH>	<ph>	NN	_	_	_
+1074	pH5	ph5	NN	_	_	_
+1075	.5	.5	CD	_	_	_
+1076	</pH>	</ph>	NN	_	_	_
+1077	2	2	CD	_	_	_
+1078	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1079	<Gtype>	<gtype>	NN	_	_	_
+1080	WT	wt	JJ	_	_	_
+1081	</Gtype>	</gtype>	NN	_	_	_
+1082	<Supp>	<supp>	NN	_	_	_
+1083	acetate	acetate	NN	_	_	_
+1084	</Supp>	</supp>	NN	_	_	_
+1085	1	1	CD	_	_	_
+1086	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1087	<Gtype>	<gtype>	NN	_	_	_
+1088	WT	wt	JJ	_	_	_
+1089	</Gtype>	</gtype>	NN	_	_	_
+1090	<Supp>	<supp>	NN	_	_	_
+1091	acetate	acetate	NN	_	_	_
+1092	</Supp>	</supp>	NN	_	_	_
+1093	2	2	CD	_	_	_
+1094	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1095	<Gtype>	<gtype>	NN	_	_	_
+1096	WT	wt	JJ	_	_	_
+1097	</Gtype>	</gtype>	NN	_	_	_
+1098	<Supp>	<supp>	NN	_	_	_
+1099	fructose	fructose	NN	_	_	_
+1100	</Supp>	</supp>	NN	_	_	_
+1101	1	1	CD	_	_	_
+1102	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1103	<Gtype>	<gtype>	NN	_	_	_
+1104	WT	wt	JJ	_	_	_
+1105	</Gtype>	</gtype>	NN	_	_	_
+1106	<Supp>	<supp>	NN	_	_	_
+1107	fructose	fructose	NN	_	_	_
+1108	</Supp>	</supp>	NN	_	_	_
+1109	2	2	CD	_	_	_
+1110	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1111	<Gtype>	<gtype>	NN	_	_	_
+1112	WT	wt	JJ	_	_	_
+1113	</Gtype>	</gtype>	NN	_	_	_
+1114	<Supp>	<supp>	NN	_	_	_
+1115	glucose	glucose	NN	_	_	_
+1116	</Supp>	</supp>	NN	_	_	_
+1117	1	1	CD	_	_	_
+1118	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1119	<Gtype>	<gtype>	NN	_	_	_
+1120	WT	wt	JJ	_	_	_
+1121	</Gtype>	</gtype>	NN	_	_	_
+1122	<Supp>	<supp>	NN	_	_	_
+1123	glucose	glucose	NN	_	_	_
+1124	</Supp>	</supp>	NN	_	_	_
+1125	2	2	CD	_	_	_
+1126	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1127	<Gtype>	<gtype>	NN	_	_	_
+1128	WT	wt	JJ	_	_	_
+1129	</Gtype>	</gtype>	NN	_	_	_
+1130	<Supp>	<supp>	NN	_	_	_
+1131	NaCl	nacl	NN	_	_	_
+1132	</Supp>	</supp>	NN	_	_	_
+1133	1	1	CD	_	_	_
+1134	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1135	<Gtype>	<gtype>	NN	_	_	_
+1136	WT	wt	JJ	_	_	_
+1137	</Gtype>	</gtype>	NN	_	_	_
+1138	<Supp>	<supp>	NN	_	_	_
+1139	NaCl	nacl	NN	_	_	_
+1140	</Supp>	</supp>	NN	_	_	_
+1141	2	2	CD	_	_	_
+1142	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1143	<Gtype>	<gtype>	NN	_	_	_
+1144	WT	wt	JJ	_	_	_
+1145	</Gtype>	</gtype>	NN	_	_	_
+1146	<Supp>	<supp>	NN	_	_	_
+1147	PQ	pq	NN	_	_	_
+1148	</Supp>	</supp>	NN	_	_	_
+1149	1	1	CD	_	_	_
+1150	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1151	<Gtype>	<gtype>	NN	_	_	_
+1152	WT	wt	JJ	_	_	_
+1153	</Gtype>	</gtype>	NN	_	_	_
+1154	<Supp>	<supp>	NN	_	_	_
+1155	PQ	pq	NN	_	_	_
+1156	</Supp>	</supp>	NN	_	_	_
+1157	2	2	CD	_	_	_
+1158	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1159	<Gtype>	<gtype>	NN	_	_	_
+1160	WT	wt	JJ	_	_	_
+1161	</Gtype>	</gtype>	NN	_	_	_
 1162	_	_	NN	_	_	_
-1163	1	1	CD	_	_	_
-1164	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1165	<Gtype>	<gtype>	NN	_	_	_
-1166	WT	wt	JJ	_	_	_
-1167	</Gtype>	</gtype>	NN	_	_	_
-1168	_	_	NN	_	_	_
-1169	<Technique>	<technique>	NN	_	_	_
-1170	ChIPSeq	chipseq	NN	_	_	_
-1171	</Technique>	</technique>	NN	_	_	_
+1163	<Technique>	<technique>	NN	_	_	_
+1164	ChIPSeq	chipseq	NN	_	_	_
+1165	</Technique>	</technique>	NN	_	_	_
+1166	_	_	NN	_	_	_
+1167	1	1	CD	_	_	_
+1168	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1169	<Gtype>	<gtype>	NN	_	_	_
+1170	WT	wt	JJ	_	_	_
+1171	</Gtype>	</gtype>	NN	_	_	_
 1172	_	_	NN	_	_	_
-1173	2	2	CD	_	_	_
-1174	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1175	<Gtype>	<gtype>	NN	_	_	_
-1176	WT	wt	JJ	_	_	_
-1177	</Gtype>	</gtype>	NN	_	_	_
-1178	_	_	NN	_	_	_
-1179	<Technique>	<technique>	NN	_	_	_
-1180	RNASeq	rnaseq	NN	_	_	_
-1181	</Technique>	</technique>	NN	_	_	_
-1182	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1183	<Gtype>	<gtype>	NN	_	_	_
-1184	WT	wt	JJ	_	_	_
-1185	</Gtype>	</gtype>	NN	_	_	_
-1186	with	with	IN	_	_	_
-1187	<Supp>	<supp>	NN	_	_	_
-1188	DPD	dpd	NN	_	_	_
-1189	</Supp>	</supp>	NN	_	_	_
-1190	1	1	CD	_	_	_
-1191	<Technique>	<technique>	NN	_	_	_
-1192	-LRB-	-lrb-	-LRB-	_	_	_
-1193	RNA-seq	rna-seq	NN	_	_	_
-1194	-RRB-	-rrb-	-RRB-	_	_	_
-1195	</Technique>	</technique>	NN	_	_	_
-1196	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1197	<Gtype>	<gtype>	NN	_	_	_
-1198	WT	wt	JJ	_	_	_
-1199	</Gtype>	</gtype>	NN	_	_	_
-1200	with	with	IN	_	_	_
-1201	<Supp>	<supp>	NN	_	_	_
-1202	DPD	dpd	NN	_	_	_
-1203	</Supp>	</supp>	NN	_	_	_
-1204	2	2	CD	_	_	_
-1205	<Technique>	<technique>	NN	_	_	_
-1206	-LRB-	-lrb-	-LRB-	_	_	_
-1207	RNA-seq	rna-seq	NN	_	_	_
-1208	-RRB-	-rrb-	-RRB-	_	_	_
-1209	</Technique>	</technique>	NN	_	_	_
-1210	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1211	<Gtype>	<gtype>	NN	_	_	_
-1212	WT	wt	JJ	_	_	_
-1213	</Gtype>	</gtype>	NN	_	_	_
-1214	with	with	IN	_	_	_
-1215	<Supp>	<supp>	NN	_	_	_
-1216	Fe	Fe	NNP	_	_	_
-1217	</Supp>	</Supp>	NNP	_	_	_
-1218	1	1	CD	_	_	_
-1219	<Technique>	<technique>	NN	_	_	_
-1220	-LRB-	-lrb-	-LRB-	_	_	_
-1221	RNA-seq	rna-seq	NN	_	_	_
-1222	-RRB-	-rrb-	-RRB-	_	_	_
-1223	</Technique>	</technique>	NN	_	_	_
-1224	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1225	<Gtype>	<gtype>	NN	_	_	_
-1226	WT	wt	JJ	_	_	_
-1227	</Gtype>	</gtype>	NN	_	_	_
-1228	with	with	IN	_	_	_
-1229	<Supp>	<supp>	NN	_	_	_
-1230	Fe	Fe	NNP	_	_	_
-1231	</Supp>	</Supp>	NNP	_	_	_
-1232	2	2	CD	_	_	_
-1233	<Technique>	<technique>	NN	_	_	_
-1234	-LRB-	-lrb-	-LRB-	_	_	_
-1235	RNA-seq	rna-seq	NN	_	_	_
-1236	-RRB-	-rrb-	-RRB-	_	_	_
-1237	</Technique>	</technique>	NN	_	_	_
-1238	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1239	<Gtype>	<gtype>	NN	_	_	_
-1240	Δcra	δcra	NN	_	_	_
-1241	</Gtype>	</gtype>	NN	_	_	_
-1242	<Supp>	<supp>	NN	_	_	_
-1243	acetate	acetate	NN	_	_	_
-1244	</Supp>	</supp>	NN	_	_	_
-1245	1	1	CD	_	_	_
-1246	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1247	<Gtype>	<gtype>	NN	_	_	_
-1248	Δcra	δcra	NN	_	_	_
-1249	</Gtype>	</gtype>	NN	_	_	_
-1250	<Supp>	<supp>	NN	_	_	_
-1251	acetate	acetate	NN	_	_	_
-1252	</Supp>	</supp>	NN	_	_	_
-1253	2	2	CD	_	_	_
-1254	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1255	<Gtype>	<gtype>	NN	_	_	_
-1256	Δcra	δcra	NN	_	_	_
-1257	</Gtype>	</gtype>	NN	_	_	_
-1258	<Supp>	<supp>	NN	_	_	_
-1259	fructose	fructose	NN	_	_	_
-1260	</Supp>	</supp>	NN	_	_	_
-1261	1	1	CD	_	_	_
-1262	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1263	<Gtype>	<gtype>	NN	_	_	_
-1264	Δcra	δcra	NN	_	_	_
-1265	</Gtype>	</gtype>	NN	_	_	_
-1266	<Supp>	<supp>	NN	_	_	_
-1267	fructose	fructose	NN	_	_	_
-1268	</Supp>	</supp>	NN	_	_	_
-1269	2	2	CD	_	_	_
-1270	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1271	<Gtype>	<gtype>	NN	_	_	_
-1272	Δcra	δcra	NN	_	_	_
-1273	</Gtype>	</gtype>	NN	_	_	_
-1274	<Supp>	<supp>	NN	_	_	_
-1275	glucose	glucose	NN	_	_	_
-1276	</Supp>	</supp>	NN	_	_	_
-1277	1	1	CD	_	_	_
-1278	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1279	<Gtype>	<gtype>	NN	_	_	_
-1280	Δcra	δcra	NN	_	_	_
-1281	</Gtype>	</gtype>	NN	_	_	_
-1282	<Supp>	<supp>	NN	_	_	_
-1283	glucose	glucose	NN	_	_	_
-1284	</Supp>	</supp>	NN	_	_	_
-1285	2	2	CD	_	_	_
-1286	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1287	<Gtype>	<gtype>	NN	_	_	_
-1288	Δfur	δfur	NN	_	_	_
-1289	</Gtype>	</gtype>	NN	_	_	_
-1290	with	with	IN	_	_	_
-1291	<Supp>	<supp>	NN	_	_	_
-1292	DPD	dpd	NN	_	_	_
-1293	</Supp>	</supp>	NN	_	_	_
-1294	1	1	CD	_	_	_
-1295	<Technique>	<technique>	NN	_	_	_
-1296	-LRB-	-lrb-	-LRB-	_	_	_
-1297	RNA-seq	rna-seq	NN	_	_	_
-1298	-RRB-	-rrb-	-RRB-	_	_	_
-1299	</Technique>	</technique>	NN	_	_	_
-1300	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1301	<Gtype>	<gtype>	NN	_	_	_
-1302	Δfur	δfur	NN	_	_	_
-1303	</Gtype>	</gtype>	NN	_	_	_
-1304	with	with	IN	_	_	_
-1305	<Supp>	<supp>	NN	_	_	_
-1306	DPD	dpd	NN	_	_	_
-1307	</Supp>	</supp>	NN	_	_	_
-1308	2	2	CD	_	_	_
-1309	<Technique>	<technique>	NN	_	_	_
-1310	-LRB-	-lrb-	-LRB-	_	_	_
-1311	RNA-seq	rna-seq	NN	_	_	_
-1312	-RRB-	-rrb-	-RRB-	_	_	_
-1313	</Technique>	</technique>	NN	_	_	_
-1314	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1315	<Gtype>	<gtype>	NN	_	_	_
-1316	Δfur	δfur	NN	_	_	_
-1317	</Gtype>	</gtype>	NN	_	_	_
-1318	with	with	IN	_	_	_
-1319	<Supp>	<supp>	NN	_	_	_
-1320	Fe	Fe	NNP	_	_	_
-1321	</Supp>	</Supp>	NNP	_	_	_
-1322	1	1	CD	_	_	_
-1323	<Technique>	<technique>	NN	_	_	_
-1324	-LRB-	-lrb-	-LRB-	_	_	_
-1325	RNA-seq	rna-seq	NN	_	_	_
-1326	-RRB-	-rrb-	-RRB-	_	_	_
-1327	</Technique>	</technique>	NN	_	_	_
-1328	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1329	<Gtype>	<gtype>	NN	_	_	_
-1330	Δfur	δfur	NN	_	_	_
-1331	</Gtype>	</gtype>	NN	_	_	_
-1332	with	with	IN	_	_	_
-1333	<Supp>	<supp>	NN	_	_	_
-1334	Fe	Fe	NNP	_	_	_
-1335	</Supp>	</Supp>	NNP	_	_	_
-1336	2	2	CD	_	_	_
-1337	<Technique>	<technique>	NN	_	_	_
-1338	-LRB-	-lrb-	-LRB-	_	_	_
-1339	RNA-seq	rna-seq	NN	_	_	_
-1340	-RRB-	-rrb-	-RRB-	_	_	_
-1341	</Technique>	</technique>	NN	_	_	_
-1342	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1343	<Gtype>	<gtype>	NN	_	_	_
-1344	ΔgadE	δgade	NN	_	_	_
-1345	</Gtype>	</gtype>	NN	_	_	_
-1346	<pH>	<ph>	NN	_	_	_
-1347	pH5	ph5	NN	_	_	_
-1348	.5	.5	CD	_	_	_
-1349	</pH>	</ph>	NN	_	_	_
-1350	1	1	CD	_	_	_
-1351	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1352	<Gtype>	<gtype>	NN	_	_	_
-1353	ΔgadE	δgade	NN	_	_	_
-1354	</Gtype>	</gtype>	NN	_	_	_
-1355	<pH>	<ph>	NN	_	_	_
-1356	pH5	ph5	NN	_	_	_
-1357	.5	.5	CD	_	_	_
-1358	</pH>	</ph>	NN	_	_	_
-1359	2	2	CD	_	_	_
-1360	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1361	<Gtype>	<gtype>	NN	_	_	_
-1362	ΔgadW	δgadw	NN	_	_	_
-1363	</Gtype>	</gtype>	NN	_	_	_
-1364	<pH>	<ph>	NN	_	_	_
-1365	pH5	ph5	NN	_	_	_
-1366	.5	.5	CD	_	_	_
-1367	</pH>	</ph>	NN	_	_	_
-1368	1	1	CD	_	_	_
-1369	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1370	<Gtype>	<gtype>	NN	_	_	_
-1371	ΔgadW	δgadw	NN	_	_	_
-1372	</Gtype>	</gtype>	NN	_	_	_
-1373	<pH>	<ph>	NN	_	_	_
-1374	pH5	ph5	NN	_	_	_
-1375	.5	.5	CD	_	_	_
-1376	</pH>	</ph>	NN	_	_	_
-1377	2	2	CD	_	_	_
-1378	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1379	<Gtype>	<gtype>	NN	_	_	_
-1380	ΔgadX	δgadx	NN	_	_	_
-1381	</Gtype>	</gtype>	NN	_	_	_
-1382	<pH>	<ph>	NN	_	_	_
-1383	pH5	ph5	NN	_	_	_
-1384	.5	.5	CD	_	_	_
-1385	</pH>	</ph>	NN	_	_	_
-1386	1	1	CD	_	_	_
-1387	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1388	<Gtype>	<gtype>	NN	_	_	_
-1389	ΔgadX	δgadx	NN	_	_	_
-1390	</Gtype>	</gtype>	NN	_	_	_
-1391	<pH>	<ph>	NN	_	_	_
-1392	pH5	ph5	NN	_	_	_
-1393	.5	.5	CD	_	_	_
-1394	</pH>	</ph>	NN	_	_	_
-1395	2	2	CD	_	_	_
-1396	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1397	<Gtype>	<gtype>	NN	_	_	_
-1398	ΔompR	δompr	NN	_	_	_
-1399	</Gtype>	</gtype>	NN	_	_	_
-1400	<Supp>	<supp>	NN	_	_	_
-1401	NaCl	nacl	NN	_	_	_
-1402	</Supp>	</supp>	NN	_	_	_
-1403	1	1	CD	_	_	_
-1404	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1405	<Gtype>	<gtype>	NN	_	_	_
-1406	ΔompR	δompr	NN	_	_	_
-1407	</Gtype>	</gtype>	NN	_	_	_
-1408	<Supp>	<supp>	NN	_	_	_
-1409	NaCl	nacl	NN	_	_	_
-1410	</Supp>	</supp>	NN	_	_	_
-1411	2	2	CD	_	_	_
-1412	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1413	<Gtype>	<gtype>	NN	_	_	_
-1414	ΔoxyR	δoxyr	NN	_	_	_
-1415	</Gtype>	</gtype>	NN	_	_	_
-1416	<Supp>	<supp>	NN	_	_	_
-1417	PQ	pq	NN	_	_	_
-1418	</Supp>	</supp>	NN	_	_	_
-1419	1	1	CD	_	_	_
-1420	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1421	<Gtype>	<gtype>	NN	_	_	_
-1422	ΔoxyR	δoxyr	NN	_	_	_
-1423	</Gtype>	</gtype>	NN	_	_	_
-1424	<Supp>	<supp>	NN	_	_	_
-1425	PQ	pq	NN	_	_	_
-1426	</Supp>	</supp>	NN	_	_	_
-1427	2	2	CD	_	_	_
-1428	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1429	<Gtype>	<gtype>	NN	_	_	_
-1430	ΔsoxR	δsoxr	NN	_	_	_
-1431	</Gtype>	</gtype>	NN	_	_	_
-1432	<Supp>	<supp>	NN	_	_	_
-1433	PQ	pq	NN	_	_	_
-1434	</Supp>	</supp>	NN	_	_	_
-1435	1	1	CD	_	_	_
-1436	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1437	<Gtype>	<gtype>	NN	_	_	_
-1438	ΔsoxR	δsoxr	NN	_	_	_
-1439	</Gtype>	</gtype>	NN	_	_	_
-1440	<Supp>	<supp>	NN	_	_	_
-1441	PQ	pq	NN	_	_	_
-1442	</Supp>	</supp>	NN	_	_	_
-1443	2	2	CD	_	_	_
-1444	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1445	<Gtype>	<gtype>	NN	_	_	_
-1446	ΔsoxS	δsoxs	NN	_	_	_
-1447	</Gtype>	</gtype>	NN	_	_	_
-1448	<Supp>	<supp>	NN	_	_	_
-1449	PQ	pq	NN	_	_	_
-1450	</Supp>	</supp>	NN	_	_	_
-1451	1	1	CD	_	_	_
-1452	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1453	<Gtype>	<gtype>	NN	_	_	_
-1454	ΔsoxS	δsoxs	NN	_	_	_
-1455	</Gtype>	</gtype>	NN	_	_	_
-1456	<Supp>	<supp>	NN	_	_	_
-1457	PQ	pq	NN	_	_	_
-1458	</Supp>	</supp>	NN	_	_	_
-1459	2	2	CD	_	_	_
-1460	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1461	<Gversion>	<gversion>	NN	_	_	_
-1462	ChIP-Seq	chip-seq	NN	_	_	_
-1463	</Gversion>	</gversion>	NN	_	_	_
+1173	<Technique>	<technique>	NN	_	_	_
+1174	ChIPSeq	chipseq	NN	_	_	_
+1175	</Technique>	</technique>	NN	_	_	_
+1176	_	_	NN	_	_	_
+1177	2	2	CD	_	_	_
+1178	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1179	<Gtype>	<gtype>	NN	_	_	_
+1180	WT	wt	JJ	_	_	_
+1181	</Gtype>	</gtype>	NN	_	_	_
+1182	_	_	NN	_	_	_
+1183	<Technique>	<technique>	NN	_	_	_
+1184	RNASeq	rnaseq	NN	_	_	_
+1185	</Technique>	</technique>	NN	_	_	_
+1186	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1187	<Gtype>	<gtype>	NN	_	_	_
+1188	WT	wt	JJ	_	_	_
+1189	</Gtype>	</gtype>	NN	_	_	_
+1190	with	with	IN	_	_	_
+1191	<Supp>	<supp>	NN	_	_	_
+1192	DPD	dpd	NN	_	_	_
+1193	</Supp>	</supp>	NN	_	_	_
+1194	1	1	CD	_	_	_
+1195	<Technique>	<technique>	NN	_	_	_
+1196	-LRB-	-lrb-	-LRB-	_	_	_
+1197	RNA-seq	rna-seq	NN	_	_	_
+1198	-RRB-	-rrb-	-RRB-	_	_	_
+1199	</Technique>	</technique>	NN	_	_	_
+1200	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1201	<Gtype>	<gtype>	NN	_	_	_
+1202	WT	wt	JJ	_	_	_
+1203	</Gtype>	</gtype>	NN	_	_	_
+1204	with	with	IN	_	_	_
+1205	<Supp>	<supp>	NN	_	_	_
+1206	DPD	dpd	NN	_	_	_
+1207	</Supp>	</supp>	NN	_	_	_
+1208	2	2	CD	_	_	_
+1209	<Technique>	<technique>	NN	_	_	_
+1210	-LRB-	-lrb-	-LRB-	_	_	_
+1211	RNA-seq	rna-seq	NN	_	_	_
+1212	-RRB-	-rrb-	-RRB-	_	_	_
+1213	</Technique>	</technique>	NN	_	_	_
+1214	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1215	<Gtype>	<gtype>	NN	_	_	_
+1216	WT	wt	JJ	_	_	_
+1217	</Gtype>	</gtype>	NN	_	_	_
+1218	with	with	IN	_	_	_
+1219	<Supp>	<supp>	NN	_	_	_
+1220	Fe	Fe	NNP	_	_	_
+1221	</Supp>	</Supp>	NNP	_	_	_
+1222	1	1	CD	_	_	_
+1223	<Technique>	<technique>	NN	_	_	_
+1224	-LRB-	-lrb-	-LRB-	_	_	_
+1225	RNA-seq	rna-seq	NN	_	_	_
+1226	-RRB-	-rrb-	-RRB-	_	_	_
+1227	</Technique>	</technique>	NN	_	_	_
+1228	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1229	<Gtype>	<gtype>	NN	_	_	_
+1230	WT	wt	JJ	_	_	_
+1231	</Gtype>	</gtype>	NN	_	_	_
+1232	with	with	IN	_	_	_
+1233	<Supp>	<supp>	NN	_	_	_
+1234	Fe	Fe	NNP	_	_	_
+1235	</Supp>	</Supp>	NNP	_	_	_
+1236	2	2	CD	_	_	_
+1237	<Technique>	<technique>	NN	_	_	_
+1238	-LRB-	-lrb-	-LRB-	_	_	_
+1239	RNA-seq	rna-seq	NN	_	_	_
+1240	-RRB-	-rrb-	-RRB-	_	_	_
+1241	</Technique>	</technique>	NN	_	_	_
+1242	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1243	<Gtype>	<gtype>	NN	_	_	_
+1244	Δcra	δcra	NN	_	_	_
+1245	</Gtype>	</gtype>	NN	_	_	_
+1246	<Supp>	<supp>	NN	_	_	_
+1247	acetate	acetate	NN	_	_	_
+1248	</Supp>	</supp>	NN	_	_	_
+1249	1	1	CD	_	_	_
+1250	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1251	<Gtype>	<gtype>	NN	_	_	_
+1252	Δcra	δcra	NN	_	_	_
+1253	</Gtype>	</gtype>	NN	_	_	_
+1254	<Supp>	<supp>	NN	_	_	_
+1255	acetate	acetate	NN	_	_	_
+1256	</Supp>	</supp>	NN	_	_	_
+1257	2	2	CD	_	_	_
+1258	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1259	<Gtype>	<gtype>	NN	_	_	_
+1260	Δcra	δcra	NN	_	_	_
+1261	</Gtype>	</gtype>	NN	_	_	_
+1262	<Supp>	<supp>	NN	_	_	_
+1263	fructose	fructose	NN	_	_	_
+1264	</Supp>	</supp>	NN	_	_	_
+1265	1	1	CD	_	_	_
+1266	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1267	<Gtype>	<gtype>	NN	_	_	_
+1268	Δcra	δcra	NN	_	_	_
+1269	</Gtype>	</gtype>	NN	_	_	_
+1270	<Supp>	<supp>	NN	_	_	_
+1271	fructose	fructose	NN	_	_	_
+1272	</Supp>	</supp>	NN	_	_	_
+1273	2	2	CD	_	_	_
+1274	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1275	<Gtype>	<gtype>	NN	_	_	_
+1276	Δcra	δcra	NN	_	_	_
+1277	</Gtype>	</gtype>	NN	_	_	_
+1278	<Supp>	<supp>	NN	_	_	_
+1279	glucose	glucose	NN	_	_	_
+1280	</Supp>	</supp>	NN	_	_	_
+1281	1	1	CD	_	_	_
+1282	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1283	<Gtype>	<gtype>	NN	_	_	_
+1284	Δcra	δcra	NN	_	_	_
+1285	</Gtype>	</gtype>	NN	_	_	_
+1286	<Supp>	<supp>	NN	_	_	_
+1287	glucose	glucose	NN	_	_	_
+1288	</Supp>	</supp>	NN	_	_	_
+1289	2	2	CD	_	_	_
+1290	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1291	<Gtype>	<gtype>	NN	_	_	_
+1292	Δfur	δfur	NN	_	_	_
+1293	</Gtype>	</gtype>	NN	_	_	_
+1294	with	with	IN	_	_	_
+1295	<Supp>	<supp>	NN	_	_	_
+1296	DPD	dpd	NN	_	_	_
+1297	</Supp>	</supp>	NN	_	_	_
+1298	1	1	CD	_	_	_
+1299	<Technique>	<technique>	NN	_	_	_
+1300	-LRB-	-lrb-	-LRB-	_	_	_
+1301	RNA-seq	rna-seq	NN	_	_	_
+1302	-RRB-	-rrb-	-RRB-	_	_	_
+1303	</Technique>	</technique>	NN	_	_	_
+1304	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1305	<Gtype>	<gtype>	NN	_	_	_
+1306	Δfur	δfur	NN	_	_	_
+1307	</Gtype>	</gtype>	NN	_	_	_
+1308	with	with	IN	_	_	_
+1309	<Supp>	<supp>	NN	_	_	_
+1310	DPD	dpd	NN	_	_	_
+1311	</Supp>	</supp>	NN	_	_	_
+1312	2	2	CD	_	_	_
+1313	<Technique>	<technique>	NN	_	_	_
+1314	-LRB-	-lrb-	-LRB-	_	_	_
+1315	RNA-seq	rna-seq	NN	_	_	_
+1316	-RRB-	-rrb-	-RRB-	_	_	_
+1317	</Technique>	</technique>	NN	_	_	_
+1318	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1319	<Gtype>	<gtype>	NN	_	_	_
+1320	Δfur	δfur	NN	_	_	_
+1321	</Gtype>	</gtype>	NN	_	_	_
+1322	with	with	IN	_	_	_
+1323	<Supp>	<supp>	NN	_	_	_
+1324	Fe	Fe	NNP	_	_	_
+1325	</Supp>	</Supp>	NNP	_	_	_
+1326	1	1	CD	_	_	_
+1327	<Technique>	<technique>	NN	_	_	_
+1328	-LRB-	-lrb-	-LRB-	_	_	_
+1329	RNA-seq	rna-seq	NN	_	_	_
+1330	-RRB-	-rrb-	-RRB-	_	_	_
+1331	</Technique>	</technique>	NN	_	_	_
+1332	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1333	<Gtype>	<gtype>	NN	_	_	_
+1334	Δfur	δfur	NN	_	_	_
+1335	</Gtype>	</gtype>	NN	_	_	_
+1336	with	with	IN	_	_	_
+1337	<Supp>	<supp>	NN	_	_	_
+1338	Fe	Fe	NNP	_	_	_
+1339	</Supp>	</Supp>	NNP	_	_	_
+1340	2	2	CD	_	_	_
+1341	<Technique>	<technique>	NN	_	_	_
+1342	-LRB-	-lrb-	-LRB-	_	_	_
+1343	RNA-seq	rna-seq	NN	_	_	_
+1344	-RRB-	-rrb-	-RRB-	_	_	_
+1345	</Technique>	</technique>	NN	_	_	_
+1346	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1347	<Gtype>	<gtype>	NN	_	_	_
+1348	ΔgadE	δgade	NN	_	_	_
+1349	</Gtype>	</gtype>	NN	_	_	_
+1350	<pH>	<ph>	NN	_	_	_
+1351	pH5	ph5	NN	_	_	_
+1352	.5	.5	CD	_	_	_
+1353	</pH>	</ph>	NN	_	_	_
+1354	1	1	CD	_	_	_
+1355	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1356	<Gtype>	<gtype>	NN	_	_	_
+1357	ΔgadE	δgade	NN	_	_	_
+1358	</Gtype>	</gtype>	NN	_	_	_
+1359	<pH>	<ph>	NN	_	_	_
+1360	pH5	ph5	NN	_	_	_
+1361	.5	.5	CD	_	_	_
+1362	</pH>	</ph>	NN	_	_	_
+1363	2	2	CD	_	_	_
+1364	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1365	<Gtype>	<gtype>	NN	_	_	_
+1366	ΔgadW	δgadw	NN	_	_	_
+1367	</Gtype>	</gtype>	NN	_	_	_
+1368	<pH>	<ph>	NN	_	_	_
+1369	pH5	ph5	NN	_	_	_
+1370	.5	.5	CD	_	_	_
+1371	</pH>	</ph>	NN	_	_	_
+1372	1	1	CD	_	_	_
+1373	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1374	<Gtype>	<gtype>	NN	_	_	_
+1375	ΔgadW	δgadw	NN	_	_	_
+1376	</Gtype>	</gtype>	NN	_	_	_
+1377	<pH>	<ph>	NN	_	_	_
+1378	pH5	ph5	NN	_	_	_
+1379	.5	.5	CD	_	_	_
+1380	</pH>	</ph>	NN	_	_	_
+1381	2	2	CD	_	_	_
+1382	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1383	<Gtype>	<gtype>	NN	_	_	_
+1384	ΔgadX	δgadx	NN	_	_	_
+1385	</Gtype>	</gtype>	NN	_	_	_
+1386	<pH>	<ph>	NN	_	_	_
+1387	pH5	ph5	NN	_	_	_
+1388	.5	.5	CD	_	_	_
+1389	</pH>	</ph>	NN	_	_	_
+1390	1	1	CD	_	_	_
+1391	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1392	<Gtype>	<gtype>	NN	_	_	_
+1393	ΔgadX	δgadx	NN	_	_	_
+1394	</Gtype>	</gtype>	NN	_	_	_
+1395	<pH>	<ph>	NN	_	_	_
+1396	pH5	ph5	NN	_	_	_
+1397	.5	.5	CD	_	_	_
+1398	</pH>	</ph>	NN	_	_	_
+1399	2	2	CD	_	_	_
+1400	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1401	<Gtype>	<gtype>	NN	_	_	_
+1402	ΔompR	δompr	NN	_	_	_
+1403	</Gtype>	</gtype>	NN	_	_	_
+1404	<Supp>	<supp>	NN	_	_	_
+1405	NaCl	nacl	NN	_	_	_
+1406	</Supp>	</supp>	NN	_	_	_
+1407	1	1	CD	_	_	_
+1408	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1409	<Gtype>	<gtype>	NN	_	_	_
+1410	ΔompR	δompr	NN	_	_	_
+1411	</Gtype>	</gtype>	NN	_	_	_
+1412	<Supp>	<supp>	NN	_	_	_
+1413	NaCl	nacl	NN	_	_	_
+1414	</Supp>	</supp>	NN	_	_	_
+1415	2	2	CD	_	_	_
+1416	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1417	<Gtype>	<gtype>	NN	_	_	_
+1418	ΔoxyR	δoxyr	NN	_	_	_
+1419	</Gtype>	</gtype>	NN	_	_	_
+1420	<Supp>	<supp>	NN	_	_	_
+1421	PQ	pq	NN	_	_	_
+1422	</Supp>	</supp>	NN	_	_	_
+1423	1	1	CD	_	_	_
+1424	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1425	<Gtype>	<gtype>	NN	_	_	_
+1426	ΔoxyR	δoxyr	NN	_	_	_
+1427	</Gtype>	</gtype>	NN	_	_	_
+1428	<Supp>	<supp>	NN	_	_	_
+1429	PQ	pq	NN	_	_	_
+1430	</Supp>	</supp>	NN	_	_	_
+1431	2	2	CD	_	_	_
+1432	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1433	<Gtype>	<gtype>	NN	_	_	_
+1434	ΔsoxR	δsoxr	NN	_	_	_
+1435	</Gtype>	</gtype>	NN	_	_	_
+1436	<Supp>	<supp>	NN	_	_	_
+1437	PQ	pq	NN	_	_	_
+1438	</Supp>	</supp>	NN	_	_	_
+1439	1	1	CD	_	_	_
+1440	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1441	<Gtype>	<gtype>	NN	_	_	_
+1442	ΔsoxR	δsoxr	NN	_	_	_
+1443	</Gtype>	</gtype>	NN	_	_	_
+1444	<Supp>	<supp>	NN	_	_	_
+1445	PQ	pq	NN	_	_	_
+1446	</Supp>	</supp>	NN	_	_	_
+1447	2	2	CD	_	_	_
+1448	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1449	<Gtype>	<gtype>	NN	_	_	_
+1450	ΔsoxS	δsoxs	NN	_	_	_
+1451	</Gtype>	</gtype>	NN	_	_	_
+1452	<Supp>	<supp>	NN	_	_	_
+1453	PQ	pq	NN	_	_	_
+1454	</Supp>	</supp>	NN	_	_	_
+1455	1	1	CD	_	_	_
+1456	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1457	<Gtype>	<gtype>	NN	_	_	_
+1458	ΔsoxS	δsoxs	NN	_	_	_
+1459	</Gtype>	</gtype>	NN	_	_	_
+1460	<Supp>	<supp>	NN	_	_	_
+1461	PQ	pq	NN	_	_	_
+1462	</Supp>	</supp>	NN	_	_	_
+1463	2	2	CD	_	_	_
 1464	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1465	HNS	hns	SYM	_	_	_
-1466	-	-	:	_	_	_
-1467	<Air>	<air>	NN	_	_	_
-1468	Aerobic	aerobic	JJ	_	_	_
-1469	</Air>	</air>	NN	_	_	_
-1470	A	a	DT	_	_	_
-1471	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
-1472	HNS	hns	SYM	_	_	_
-1473	-	-	:	_	_	_
-1474	<Air>	<air>	NN	_	_	_
-1475	Aerobic	aerobic	JJ	_	_	_
-1476	</Air>	</air>	NN	_	_	_
-1477	B	b	NN	_	_	_
-1478	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1479	HNS	hns	SYM	_	_	_
-1480	-	-	:	_	_	_
-1481	<Air>	<air>	NN	_	_	_
-1482	Anaerobic	anaerobic	JJ	_	_	_
-1483	</Air>	</air>	NN	_	_	_
-1484	A	a	DT	_	_	_
-1485	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
-1486	HNS	hns	SYM	_	_	_
-1487	-	-	:	_	_	_
-1488	<Air>	<air>	NN	_	_	_
-1489	Anaerobic	anaerobic	JJ	_	_	_
-1490	</Air>	</air>	NN	_	_	_
-1491	B	b	NN	_	_	_
-1492	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1493	IHF	ihf	SYM	_	_	_
-1494	-	-	:	_	_	_
-1495	<Air>	<air>	NN	_	_	_
-1496	Anaerobic	anaerobic	JJ	_	_	_
-1497	</Air>	</air>	NN	_	_	_
-1498	A	a	DT	_	_	_
-1499	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
-1500	IHF	ihf	SYM	_	_	_
-1501	-	-	:	_	_	_
-1502	<Air>	<air>	NN	_	_	_
-1503	Anaerobic	anaerobic	JJ	_	_	_
-1504	</Air>	</air>	NN	_	_	_
-1505	B	b	NN	_	_	_
-1506	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1507	Input	input	NN	_	_	_
-1508	<Technique>	<technique>	NN	_	_	_
-1509	ChIP-Seq	chip-seq	NN	_	_	_
-1510	</Technique>	</technique>	NN	_	_	_
-1511	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1512	ip	ip	NN	_	_	_
-1513	antibody	antibody	NN	_	_	_
-1514	:	:	:	_	_	_
-1515	<Anti>	<anti>	NN	_	_	_
-1516	affinity	affinity	NN	_	_	_
-1517	purified	purify	VBN	_	_	_
-1518	anti-Fur	anti-fur	JJ	_	_	_
-1519	antibody	antibody	NN	_	_	_
-1520	</Anti>	</anti>	NN	_	_	_
-1521	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1522	library	library	NN	_	_	_
-1523	strategy	strategy	NN	_	_	_
-1524	:	:	:	_	_	_
-1525	<Technique>	<technique>	NN	_	_	_
-1526	ChIP-exo	ChIP-exo	NNP	_	_	_
-1527	</Technique>	</Technique>	NNP	_	_	_
-1528	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1529	Lrp	Lrp	NNP	_	_	_
-1530	_	_	SYM	_	_	_
-1531	<Supp>	<Supp>	NNP	_	_	_
-1532	Leu	Leu	NNP	_	_	_
-1533	</Supp>	</Supp>	NNP	_	_	_
+1465	<Gversion>	<gversion>	NN	_	_	_
+1466	ChIP-Seq	chip-seq	NN	_	_	_
+1467	</Gversion>	</gversion>	NN	_	_	_
+1468	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1469	HNS	hns	SYM	_	_	_
+1470	-	-	:	_	_	_
+1471	<Air>	<air>	NN	_	_	_
+1472	Aerobic	aerobic	JJ	_	_	_
+1473	</Air>	</air>	NN	_	_	_
+1474	A	a	DT	_	_	_
+1475	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
+1476	HNS	hns	SYM	_	_	_
+1477	-	-	:	_	_	_
+1478	<Air>	<air>	NN	_	_	_
+1479	Aerobic	aerobic	JJ	_	_	_
+1480	</Air>	</air>	NN	_	_	_
+1481	B	b	NN	_	_	_
+1482	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1483	HNS	hns	SYM	_	_	_
+1484	-	-	:	_	_	_
+1485	<Air>	<air>	NN	_	_	_
+1486	Anaerobic	anaerobic	JJ	_	_	_
+1487	</Air>	</air>	NN	_	_	_
+1488	A	a	DT	_	_	_
+1489	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
+1490	HNS	hns	SYM	_	_	_
+1491	-	-	:	_	_	_
+1492	<Air>	<air>	NN	_	_	_
+1493	Anaerobic	anaerobic	JJ	_	_	_
+1494	</Air>	</air>	NN	_	_	_
+1495	B	b	NN	_	_	_
+1496	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1497	IHF	ihf	SYM	_	_	_
+1498	-	-	:	_	_	_
+1499	<Air>	<air>	NN	_	_	_
+1500	Anaerobic	anaerobic	JJ	_	_	_
+1501	</Air>	</air>	NN	_	_	_
+1502	A	a	DT	_	_	_
+1503	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
+1504	IHF	ihf	SYM	_	_	_
+1505	-	-	:	_	_	_
+1506	<Air>	<air>	NN	_	_	_
+1507	Anaerobic	anaerobic	JJ	_	_	_
+1508	</Air>	</air>	NN	_	_	_
+1509	B	b	NN	_	_	_
+1510	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1511	Input	input	NN	_	_	_
+1512	<Technique>	<technique>	NN	_	_	_
+1513	ChIP-Seq	chip-seq	NN	_	_	_
+1514	</Technique>	</technique>	NN	_	_	_
+1515	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1516	ip	ip	NN	_	_	_
+1517	antibody	antibody	NN	_	_	_
+1518	:	:	:	_	_	_
+1519	<Anti>	<anti>	NN	_	_	_
+1520	affinity	affinity	NN	_	_	_
+1521	purified	purify	VBN	_	_	_
+1522	anti-Fur	anti-fur	JJ	_	_	_
+1523	antibody	antibody	NN	_	_	_
+1524	</Anti>	</anti>	NN	_	_	_
+1525	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1526	library	library	NN	_	_	_
+1527	strategy	strategy	NN	_	_	_
+1528	:	:	:	_	_	_
+1529	<Technique>	<technique>	NN	_	_	_
+1530	ChIP-exo	ChIP-exo	NNP	_	_	_
+1531	</Technique>	</Technique>	NNP	_	_	_
+1532	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1533	Lrp	Lrp	NNP	_	_	_
 1534	_	_	SYM	_	_	_
-1535	1	1	CD	_	_	_
-1536	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1537	Lrp	Lrp	NNP	_	_	_
+1535	<Supp>	<Supp>	NNP	_	_	_
+1536	Leu	Leu	NNP	_	_	_
+1537	</Supp>	</Supp>	NNP	_	_	_
 1538	_	_	SYM	_	_	_
-1539	<Supp>	<Supp>	NNP	_	_	_
-1540	Leu	Leu	NNP	_	_	_
-1541	</Supp>	</Supp>	NNP	_	_	_
-1542	_	_	NN	_	_	_
-1543	2	2	CD	_	_	_
-1544	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1545	Lrp	Lrp	NNP	_	_	_
-1546	_	_	SYM	_	_	_
-1547	<Supp>	<Supp>	NNP	_	_	_
-1548	Leu	Leu	NNP	_	_	_
-1549	</Supp>	</Supp>	NNP	_	_	_
+1539	1	1	CD	_	_	_
+1540	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1541	Lrp	Lrp	NNP	_	_	_
+1542	_	_	SYM	_	_	_
+1543	<Supp>	<Supp>	NNP	_	_	_
+1544	Leu	Leu	NNP	_	_	_
+1545	</Supp>	</Supp>	NNP	_	_	_
+1546	_	_	NN	_	_	_
+1547	2	2	CD	_	_	_
+1548	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1549	Lrp	Lrp	NNP	_	_	_
 1550	_	_	SYM	_	_	_
-1551	3	3	CD	_	_	_
-1552	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1553	Lrp	Lrp	NNP	_	_	_
+1551	<Supp>	<Supp>	NNP	_	_	_
+1552	Leu	Leu	NNP	_	_	_
+1553	</Supp>	</Supp>	NNP	_	_	_
 1554	_	_	SYM	_	_	_
-1555	<Supp>	<supp>	NN	_	_	_
-1556	NH4Cl	nh4cl	NN	_	_	_
-1557	</Supp>	</supp>	NN	_	_	_
-1558	_	_	NN	_	_	_
-1559	1	1	CD	_	_	_
-1560	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1561	Lrp	Lrp	NNP	_	_	_
-1562	_	_	SYM	_	_	_
-1563	<Supp>	<supp>	NN	_	_	_
-1564	NH4Cl	nh4cl	NN	_	_	_
-1565	</Supp>	</supp>	NN	_	_	_
-1566	_	_	NN	_	_	_
-1567	2	2	CD	_	_	_
-1568	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
-1569	Lrp	lrp	NN	_	_	_
-1570	_	_	CD	_	_	_
-1571	<Supp>	<supp>	NN	_	_	_
-1572	NH4Cl	nh4cl	NN	_	_	_
-1573	</Supp>	</supp>	NN	_	_	_
+1555	3	3	CD	_	_	_
+1556	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1557	Lrp	Lrp	NNP	_	_	_
+1558	_	_	SYM	_	_	_
+1559	<Supp>	<supp>	NN	_	_	_
+1560	NH4Cl	nh4cl	NN	_	_	_
+1561	</Supp>	</supp>	NN	_	_	_
+1562	_	_	NN	_	_	_
+1563	1	1	CD	_	_	_
+1564	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1565	Lrp	Lrp	NNP	_	_	_
+1566	_	_	SYM	_	_	_
+1567	<Supp>	<supp>	NN	_	_	_
+1568	NH4Cl	nh4cl	NN	_	_	_
+1569	</Supp>	</supp>	NN	_	_	_
+1570	_	_	NN	_	_	_
+1571	2	2	CD	_	_	_
+1572	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+1573	Lrp	lrp	NN	_	_	_
 1574	_	_	CD	_	_	_
-1575	3	3	CD	_	_	_
-1576	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1577	medium	medium	NN	_	_	_
-1578	:	:	:	_	_	_
-1579	<Med>	<Med>	NNP	_	_	_
-1580	LB	LB	NNP	_	_	_
-1581	</Med>	</Med>	NNP	_	_	_
-1582	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1583	medium	medium	NN	_	_	_
-1584	:	:	:	_	_	_
-1585	<Med>	<med>	NN	_	_	_
-1586	M63	m63	NN	_	_	_
-1587	</Med>	</med>	NN	_	_	_
-1588	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1575	<Supp>	<supp>	NN	_	_	_
+1576	NH4Cl	nh4cl	NN	_	_	_
+1577	</Supp>	</supp>	NN	_	_	_
+1578	_	_	CD	_	_	_
+1579	3	3	CD	_	_	_
+1580	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1581	medium	medium	NN	_	_	_
+1582	:	:	:	_	_	_
+1583	<Med>	<Med>	NNP	_	_	_
+1584	LB	LB	NNP	_	_	_
+1585	</Med>	</Med>	NNP	_	_	_
+1586	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1587	medium	medium	NN	_	_	_
+1588	:	:	:	_	_	_
 1589	<Med>	<med>	NN	_	_	_
-1590	LB	lb	NN	_	_	_
+1590	M63	m63	NN	_	_	_
 1591	</Med>	</med>	NN	_	_	_
-1592	0.4	0.4	CD	_	_	_
-1593	B1	b1	NN	_	_	_
-1594	TEX	tex	NN	_	_	_
-1595	neg	neg	NN	_	_	_
-1596	L1	l1	NN	_	_	_
-1597	GA	ga	NN	_	_	_
-1598	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1599	<Med>	<med>	NN	_	_	_
-1600	LB	lb	NN	_	_	_
-1601	</Med>	</med>	NN	_	_	_
-1602	0.4	0.4	CD	_	_	_
-1603	B1	b1	NN	_	_	_
-1604	TEX	TEX	NNP	_	_	_
-1605	pos	po	VBZ	_	_	_
-1606	L1	l1	NN	_	_	_
-1607	GA	ga	NN	_	_	_
-1608	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1609	<Med>	<med>	NN	_	_	_
-1610	LB	lb	NN	_	_	_
-1611	</Med>	</med>	NN	_	_	_
-1612	0.4	0.4	CD	_	_	_
-1613	B2	b2	NN	_	_	_
-1614	TEX	TEX	NNP	_	_	_
-1615	neg	neg	NNP	_	_	_
-1616	L1	l1	NN	_	_	_
-1617	HS1	hs1	NN	_	_	_
-1618	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1619	<Med>	<med>	NN	_	_	_
-1620	LB	lb	NN	_	_	_
-1621	</Med>	</med>	NN	_	_	_
-1622	0.4	0.4	CD	_	_	_
-1623	B2	b2	NN	_	_	_
-1624	TEX	TEX	NNP	_	_	_
-1625	neg	neg	NNP	_	_	_
-1626	L1	l1	NN	_	_	_
-1627	HS2	hs2	NN	_	_	_
-1628	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1629	<Med>	<med>	NN	_	_	_
-1630	LB	lb	NN	_	_	_
-1631	</Med>	</med>	NN	_	_	_
-1632	0.4	0.4	CD	_	_	_
-1633	B2	b2	NN	_	_	_
-1634	TEX	TEX	NNP	_	_	_
-1635	pos	po	VBZ	_	_	_
-1636	L1	l1	NN	_	_	_
-1637	HS1	hs1	NN	_	_	_
-1638	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1639	<Med>	<med>	NN	_	_	_
-1640	LB	lb	NN	_	_	_
-1641	</Med>	</med>	NN	_	_	_
-1642	0.4	0.4	CD	_	_	_
-1643	B2	b2	NN	_	_	_
-1644	TEX	TEX	NNP	_	_	_
-1645	pos	po	VBZ	_	_	_
-1646	L1	l1	NN	_	_	_
-1647	HS2	hs2	NN	_	_	_
-1648	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1649	<Med>	<med>	NN	_	_	_
-1650	LB	lb	NN	_	_	_
-1651	</Med>	</med>	NN	_	_	_
-1652	2.0	2.0	CD	_	_	_
-1653	B1	b1	NN	_	_	_
-1654	TEX	tex	NN	_	_	_
-1655	neg	neg	NN	_	_	_
-1656	L1	l1	NN	_	_	_
-1657	GA	ga	NN	_	_	_
-1658	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1659	<Med>	<med>	NN	_	_	_
-1660	LB	lb	NN	_	_	_
-1661	</Med>	</med>	NN	_	_	_
-1662	2.0	2.0	CD	_	_	_
-1663	B1	b1	NN	_	_	_
-1664	TEX	TEX	NNP	_	_	_
-1665	neg	neg	NNP	_	_	_
-1666	L2	l2	NN	_	_	_
-1667	HS2	hs2	NN	_	_	_
-1668	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1669	<Med>	<med>	NN	_	_	_
-1670	LB	lb	NN	_	_	_
-1671	</Med>	</med>	NN	_	_	_
-1672	2.0	2.0	CD	_	_	_
-1673	B1	b1	NN	_	_	_
-1674	TEX	TEX	NNP	_	_	_
-1675	pos	po	VBZ	_	_	_
-1676	L1	l1	NN	_	_	_
-1677	GA	ga	NN	_	_	_
-1678	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1679	<Med>	<med>	NN	_	_	_
-1680	LB	lb	NN	_	_	_
-1681	</Med>	</med>	NN	_	_	_
-1682	2.0	2.0	CD	_	_	_
-1683	B1	b1	NN	_	_	_
-1684	TEX	TEX	NNP	_	_	_
-1685	pos	po	VBZ	_	_	_
-1686	L2	l2	NN	_	_	_
-1687	HS2	hs2	NN	_	_	_
-1688	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1689	<Med>	<med>	NN	_	_	_
-1690	LB	lb	NN	_	_	_
-1691	</Med>	</med>	NN	_	_	_
-1692	2.0	2.0	CD	_	_	_
-1693	B2	b2	NN	_	_	_
-1694	TEX	TEX	NNP	_	_	_
-1695	neg	neg	NNP	_	_	_
-1696	L1	l1	NN	_	_	_
-1697	HS1	hs1	NN	_	_	_
-1698	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1699	<Med>	<med>	NN	_	_	_
-1700	LB	lb	NN	_	_	_
-1701	</Med>	</med>	NN	_	_	_
-1702	2.0	2.0	CD	_	_	_
-1703	B2	b2	NN	_	_	_
-1704	TEX	TEX	NNP	_	_	_
-1705	neg	neg	NNP	_	_	_
-1706	L1	l1	NN	_	_	_
-1707	HS2	hs2	NN	_	_	_
-1708	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1709	<Med>	<med>	NN	_	_	_
-1710	LB	lb	NN	_	_	_
-1711	</Med>	</med>	NN	_	_	_
-1712	2.0	2.0	CD	_	_	_
-1713	B2	b2	NN	_	_	_
-1714	TEX	TEX	NNP	_	_	_
-1715	neg	neg	NNP	_	_	_
-1716	L2	l2	NN	_	_	_
-1717	HS2	hs2	NN	_	_	_
-1718	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1719	<Med>	<med>	NN	_	_	_
-1720	LB	lb	NN	_	_	_
-1721	</Med>	</med>	NN	_	_	_
-1722	2.0	2.0	CD	_	_	_
-1723	B2	b2	NN	_	_	_
-1724	TEX	TEX	NNP	_	_	_
-1725	pos	po	VBZ	_	_	_
-1726	L1	l1	NN	_	_	_
-1727	HS1	hs1	NN	_	_	_
-1728	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1729	<Med>	<med>	NN	_	_	_
-1730	LB	lb	NN	_	_	_
-1731	</Med>	</med>	NN	_	_	_
-1732	2.0	2.0	CD	_	_	_
-1733	B2	b2	NN	_	_	_
-1734	TEX	TEX	NNP	_	_	_
-1735	pos	po	VBZ	_	_	_
-1736	L1	l1	NN	_	_	_
-1737	HS2	hs2	NN	_	_	_
-1738	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1739	<Med>	<med>	NN	_	_	_
-1740	LB	lb	NN	_	_	_
-1741	</Med>	</med>	NN	_	_	_
-1742	2.0	2.0	CD	_	_	_
-1743	B2	b2	NN	_	_	_
-1744	TEX	TEX	NNP	_	_	_
-1745	pos	po	VBZ	_	_	_
-1746	L2	l2	NN	_	_	_
-1747	HS2	hs2	NN	_	_	_
-1748	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1749	<Med>	<med>	NN	_	_	_
-1750	M63	m63	NN	_	_	_
-1751	</Med>	</med>	NN	_	_	_
-1752	0.4	0.4	CD	_	_	_
-1753	B1	b1	NN	_	_	_
-1754	TEX	tex	NN	_	_	_
-1755	neg	neg	NN	_	_	_
-1756	L1	l1	NN	_	_	_
-1757	GA	ga	NN	_	_	_
-1758	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1759	<Med>	<med>	NN	_	_	_
-1760	M63	m63	NN	_	_	_
-1761	</Med>	</med>	NN	_	_	_
-1762	0.4	0.4	CD	_	_	_
-1763	B1	b1	NN	_	_	_
-1764	TEX	TEX	NNP	_	_	_
-1765	pos	po	VBZ	_	_	_
-1766	L1	l1	NN	_	_	_
-1767	GA	ga	NN	_	_	_
-1768	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1769	<Med>	<med>	NN	_	_	_
-1770	M63	m63	NN	_	_	_
-1771	</Med>	</med>	NN	_	_	_
-1772	0.4	0.4	CD	_	_	_
-1773	B2	b2	NN	_	_	_
-1774	TEX	TEX	NNP	_	_	_
-1775	neg	neg	NNP	_	_	_
-1776	L1	l1	NN	_	_	_
-1777	HS1	hs1	NN	_	_	_
-1778	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1779	<Med>	<med>	NN	_	_	_
-1780	M63	m63	NN	_	_	_
-1781	</Med>	</med>	NN	_	_	_
-1782	0.4	0.4	CD	_	_	_
-1783	B2	b2	NN	_	_	_
-1784	TEX	TEX	NNP	_	_	_
-1785	neg	neg	NNP	_	_	_
-1786	L1	l1	NN	_	_	_
-1787	HS2	hs2	NN	_	_	_
-1788	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1789	<Med>	<med>	NN	_	_	_
-1790	M63	m63	NN	_	_	_
-1791	</Med>	</med>	NN	_	_	_
-1792	0.4	0.4	CD	_	_	_
-1793	B2	b2	NN	_	_	_
-1794	TEX	TEX	NNP	_	_	_
-1795	pos	po	VBZ	_	_	_
-1796	L1	l1	NN	_	_	_
-1797	HS1	hs1	NN	_	_	_
-1798	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1799	<Med>	<med>	NN	_	_	_
-1800	M63	m63	NN	_	_	_
-1801	</Med>	</med>	NN	_	_	_
-1802	0.4	0.4	CD	_	_	_
-1803	B2	b2	NN	_	_	_
-1804	TEX	TEX	NNP	_	_	_
-1805	pos	po	VBZ	_	_	_
-1806	L1	l1	NN	_	_	_
-1807	HS2	hs2	NN	_	_	_
-1808	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1809	<Med>	<med>	NN	_	_	_
-1810	M9	m9	NN	_	_	_
-1811	minimal	minimal	JJ	_	_	_
-1812	complete	complete	JJ	_	_	_
-1813	media	media	NNS	_	_	_
-1814	</Med>	</med>	NN	_	_	_
-1815	,	,	,	_	_	_
-1816	cultures	culture	NNS	_	_	_
-1817	grown	grow	VBN	_	_	_
-1818	<Air>	<air>	NN	_	_	_
-1819	aerobically	aerobically	RB	_	_	_
-1820	</Air>	</Air>	NNP	_	_	_
-1821	at	at	IN	_	_	_
-1822	<Temp>	<Temp>	NNP	_	_	_
-1823	30	30	CD	_	_	_
-1824	degrees	degree	NNS	_	_	_
-1825	C	c	NN	_	_	_
-1826	</Temp>	</temp>	NN	_	_	_
-1827	in	in	IN	_	_	_
-1828	a	a	DT	_	_	_
-1829	<Agit>	<agit>	NN	_	_	_
-1830	gyratory	gyratory	JJ	_	_	_
-1831	water	water	NN	_	_	_
-1832	bath	bath	NN	_	_	_
-1833	shaking	shake	VBG	_	_	_
-1834	at	at	IN	_	_	_
-1835	240	240	CD	_	_	_
-1836	rpm	rpm	NN	_	_	_
-1837	</Agit>	</agit>	NN	_	_	_
-1838	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1839	Nac	Nac	NNP	_	_	_
-1840	_	_	NNP	_	_	_
-1841	<Technique>	<Technique>	NNP	_	_	_
-1842	ChIPSeq	ChIPSeq	NNP	_	_	_
-1843	</Technique>	</Technique>	NNP	_	_	_
-1844	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1845	Nac	Nac	NNP	_	_	_
-1846	_	_	SYM	_	_	_
-1847	<Technique>	<technique>	NN	_	_	_
-1848	RNASeq	rnaseq	NN	_	_	_
-1849	</Technique>	</technique>	NN	_	_	_
-1850	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1851	NtrC	ntrc	NN	_	_	_
-1852	_	_	CD	_	_	_
-1853	<Technique>	<technique>	NN	_	_	_
-1854	ChIPSeq	chipseq	NN	_	_	_
-1855	</Technique>	</technique>	NN	_	_	_
-1856	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1857	OmpR	ompr	NN	_	_	_
-1858	<Supp>	<supp>	NN	_	_	_
-1859	NaCl	nacl	NN	_	_	_
-1860	</Supp>	</supp>	NN	_	_	_
-1861	1	1	CD	_	_	_
-1862	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1863	OmpR	ompr	NN	_	_	_
-1864	<Supp>	<supp>	NN	_	_	_
-1865	NaCl	nacl	NN	_	_	_
-1866	</Supp>	</supp>	NN	_	_	_
-1867	2	2	CD	_	_	_
-1868	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1869	OmpR	ompr	NN	_	_	_
-1870	_	_	CD	_	_	_
-1871	<Technique>	<technique>	NN	_	_	_
-1872	ChIPSeq	chipseq	NN	_	_	_
-1873	</Technique>	</technique>	NN	_	_	_
-1874	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1875	<Orgn>	<orgn>	NN	_	_	_
-1876	Escherichia	escherichia	FW	_	_	_
-1877	coli	coli	FW	_	_	_
-1878	K-12	k-12	NN	_	_	_
-1879	</Orgn>	</orgn>	NN	_	_	_
-1880	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1881	<Orgn>	<orgn>	NN	_	_	_
-1882	Escherichia	escherichia	FW	_	_	_
-1883	coli	coli	FW	_	_	_
-1884	</Orgn>	</orgn>	NN	_	_	_
-1885	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1886	<Orgn>	<orgn>	NN	_	_	_
-1887	Escherichia	escherichia	FW	_	_	_
-1888	coli	coli	FW	_	_	_
-1889	</Orgn>	</orgn>	NN	_	_	_
-1890	str	str	NN	_	_	_
-1891	.	.	.	_	_	_
+1592	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1593	<Med>	<med>	NN	_	_	_
+1594	LB	lb	NN	_	_	_
+1595	</Med>	</med>	NN	_	_	_
+1596	0.4	0.4	CD	_	_	_
+1597	B1	b1	NN	_	_	_
+1598	TEX	tex	NN	_	_	_
+1599	neg	neg	NN	_	_	_
+1600	L1	l1	NN	_	_	_
+1601	GA	ga	NN	_	_	_
+1602	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1603	<Med>	<med>	NN	_	_	_
+1604	LB	lb	NN	_	_	_
+1605	</Med>	</med>	NN	_	_	_
+1606	0.4	0.4	CD	_	_	_
+1607	B1	b1	NN	_	_	_
+1608	TEX	TEX	NNP	_	_	_
+1609	pos	po	VBZ	_	_	_
+1610	L1	l1	NN	_	_	_
+1611	GA	ga	NN	_	_	_
+1612	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1613	<Med>	<med>	NN	_	_	_
+1614	LB	lb	NN	_	_	_
+1615	</Med>	</med>	NN	_	_	_
+1616	0.4	0.4	CD	_	_	_
+1617	B2	b2	NN	_	_	_
+1618	TEX	TEX	NNP	_	_	_
+1619	neg	neg	NNP	_	_	_
+1620	L1	l1	NN	_	_	_
+1621	HS1	hs1	NN	_	_	_
+1622	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1623	<Med>	<med>	NN	_	_	_
+1624	LB	lb	NN	_	_	_
+1625	</Med>	</med>	NN	_	_	_
+1626	0.4	0.4	CD	_	_	_
+1627	B2	b2	NN	_	_	_
+1628	TEX	TEX	NNP	_	_	_
+1629	neg	neg	NNP	_	_	_
+1630	L1	l1	NN	_	_	_
+1631	HS2	hs2	NN	_	_	_
+1632	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1633	<Med>	<med>	NN	_	_	_
+1634	LB	lb	NN	_	_	_
+1635	</Med>	</med>	NN	_	_	_
+1636	0.4	0.4	CD	_	_	_
+1637	B2	b2	NN	_	_	_
+1638	TEX	TEX	NNP	_	_	_
+1639	pos	po	VBZ	_	_	_
+1640	L1	l1	NN	_	_	_
+1641	HS1	hs1	NN	_	_	_
+1642	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1643	<Med>	<med>	NN	_	_	_
+1644	LB	lb	NN	_	_	_
+1645	</Med>	</med>	NN	_	_	_
+1646	0.4	0.4	CD	_	_	_
+1647	B2	b2	NN	_	_	_
+1648	TEX	TEX	NNP	_	_	_
+1649	pos	po	VBZ	_	_	_
+1650	L1	l1	NN	_	_	_
+1651	HS2	hs2	NN	_	_	_
+1652	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1653	<Med>	<med>	NN	_	_	_
+1654	LB	lb	NN	_	_	_
+1655	</Med>	</med>	NN	_	_	_
+1656	2.0	2.0	CD	_	_	_
+1657	B1	b1	NN	_	_	_
+1658	TEX	tex	NN	_	_	_
+1659	neg	neg	NN	_	_	_
+1660	L1	l1	NN	_	_	_
+1661	GA	ga	NN	_	_	_
+1662	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1663	<Med>	<med>	NN	_	_	_
+1664	LB	lb	NN	_	_	_
+1665	</Med>	</med>	NN	_	_	_
+1666	2.0	2.0	CD	_	_	_
+1667	B1	b1	NN	_	_	_
+1668	TEX	TEX	NNP	_	_	_
+1669	neg	neg	NNP	_	_	_
+1670	L2	l2	NN	_	_	_
+1671	HS2	hs2	NN	_	_	_
+1672	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1673	<Med>	<med>	NN	_	_	_
+1674	LB	lb	NN	_	_	_
+1675	</Med>	</med>	NN	_	_	_
+1676	2.0	2.0	CD	_	_	_
+1677	B1	b1	NN	_	_	_
+1678	TEX	TEX	NNP	_	_	_
+1679	pos	po	VBZ	_	_	_
+1680	L1	l1	NN	_	_	_
+1681	GA	ga	NN	_	_	_
+1682	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1683	<Med>	<med>	NN	_	_	_
+1684	LB	lb	NN	_	_	_
+1685	</Med>	</med>	NN	_	_	_
+1686	2.0	2.0	CD	_	_	_
+1687	B1	b1	NN	_	_	_
+1688	TEX	TEX	NNP	_	_	_
+1689	pos	po	VBZ	_	_	_
+1690	L2	l2	NN	_	_	_
+1691	HS2	hs2	NN	_	_	_
+1692	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1693	<Med>	<med>	NN	_	_	_
+1694	LB	lb	NN	_	_	_
+1695	</Med>	</med>	NN	_	_	_
+1696	2.0	2.0	CD	_	_	_
+1697	B2	b2	NN	_	_	_
+1698	TEX	TEX	NNP	_	_	_
+1699	neg	neg	NNP	_	_	_
+1700	L1	l1	NN	_	_	_
+1701	HS1	hs1	NN	_	_	_
+1702	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1703	<Med>	<med>	NN	_	_	_
+1704	LB	lb	NN	_	_	_
+1705	</Med>	</med>	NN	_	_	_
+1706	2.0	2.0	CD	_	_	_
+1707	B2	b2	NN	_	_	_
+1708	TEX	TEX	NNP	_	_	_
+1709	neg	neg	NNP	_	_	_
+1710	L1	l1	NN	_	_	_
+1711	HS2	hs2	NN	_	_	_
+1712	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1713	<Med>	<med>	NN	_	_	_
+1714	LB	lb	NN	_	_	_
+1715	</Med>	</med>	NN	_	_	_
+1716	2.0	2.0	CD	_	_	_
+1717	B2	b2	NN	_	_	_
+1718	TEX	TEX	NNP	_	_	_
+1719	neg	neg	NNP	_	_	_
+1720	L2	l2	NN	_	_	_
+1721	HS2	hs2	NN	_	_	_
+1722	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1723	<Med>	<med>	NN	_	_	_
+1724	LB	lb	NN	_	_	_
+1725	</Med>	</med>	NN	_	_	_
+1726	2.0	2.0	CD	_	_	_
+1727	B2	b2	NN	_	_	_
+1728	TEX	TEX	NNP	_	_	_
+1729	pos	po	VBZ	_	_	_
+1730	L1	l1	NN	_	_	_
+1731	HS1	hs1	NN	_	_	_
+1732	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1733	<Med>	<med>	NN	_	_	_
+1734	LB	lb	NN	_	_	_
+1735	</Med>	</med>	NN	_	_	_
+1736	2.0	2.0	CD	_	_	_
+1737	B2	b2	NN	_	_	_
+1738	TEX	TEX	NNP	_	_	_
+1739	pos	po	VBZ	_	_	_
+1740	L1	l1	NN	_	_	_
+1741	HS2	hs2	NN	_	_	_
+1742	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1743	<Med>	<med>	NN	_	_	_
+1744	LB	lb	NN	_	_	_
+1745	</Med>	</med>	NN	_	_	_
+1746	2.0	2.0	CD	_	_	_
+1747	B2	b2	NN	_	_	_
+1748	TEX	TEX	NNP	_	_	_
+1749	pos	po	VBZ	_	_	_
+1750	L2	l2	NN	_	_	_
+1751	HS2	hs2	NN	_	_	_
+1752	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1753	<Med>	<med>	NN	_	_	_
+1754	M63	m63	NN	_	_	_
+1755	</Med>	</med>	NN	_	_	_
+1756	0.4	0.4	CD	_	_	_
+1757	B1	b1	NN	_	_	_
+1758	TEX	tex	NN	_	_	_
+1759	neg	neg	NN	_	_	_
+1760	L1	l1	NN	_	_	_
+1761	GA	ga	NN	_	_	_
+1762	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1763	<Med>	<med>	NN	_	_	_
+1764	M63	m63	NN	_	_	_
+1765	</Med>	</med>	NN	_	_	_
+1766	0.4	0.4	CD	_	_	_
+1767	B1	b1	NN	_	_	_
+1768	TEX	TEX	NNP	_	_	_
+1769	pos	po	VBZ	_	_	_
+1770	L1	l1	NN	_	_	_
+1771	GA	ga	NN	_	_	_
+1772	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1773	<Med>	<med>	NN	_	_	_
+1774	M63	m63	NN	_	_	_
+1775	</Med>	</med>	NN	_	_	_
+1776	0.4	0.4	CD	_	_	_
+1777	B2	b2	NN	_	_	_
+1778	TEX	TEX	NNP	_	_	_
+1779	neg	neg	NNP	_	_	_
+1780	L1	l1	NN	_	_	_
+1781	HS1	hs1	NN	_	_	_
+1782	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1783	<Med>	<med>	NN	_	_	_
+1784	M63	m63	NN	_	_	_
+1785	</Med>	</med>	NN	_	_	_
+1786	0.4	0.4	CD	_	_	_
+1787	B2	b2	NN	_	_	_
+1788	TEX	TEX	NNP	_	_	_
+1789	neg	neg	NNP	_	_	_
+1790	L1	l1	NN	_	_	_
+1791	HS2	hs2	NN	_	_	_
+1792	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1793	<Med>	<med>	NN	_	_	_
+1794	M63	m63	NN	_	_	_
+1795	</Med>	</med>	NN	_	_	_
+1796	0.4	0.4	CD	_	_	_
+1797	B2	b2	NN	_	_	_
+1798	TEX	TEX	NNP	_	_	_
+1799	pos	po	VBZ	_	_	_
+1800	L1	l1	NN	_	_	_
+1801	HS1	hs1	NN	_	_	_
+1802	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1803	<Med>	<med>	NN	_	_	_
+1804	M63	m63	NN	_	_	_
+1805	</Med>	</med>	NN	_	_	_
+1806	0.4	0.4	CD	_	_	_
+1807	B2	b2	NN	_	_	_
+1808	TEX	TEX	NNP	_	_	_
+1809	pos	po	VBZ	_	_	_
+1810	L1	l1	NN	_	_	_
+1811	HS2	hs2	NN	_	_	_
+1812	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1813	<Med>	<med>	NN	_	_	_
+1814	M9	m9	NN	_	_	_
+1815	minimal	minimal	JJ	_	_	_
+1816	complete	complete	JJ	_	_	_
+1817	media	media	NNS	_	_	_
+1818	</Med>	</med>	NN	_	_	_
+1819	,	,	,	_	_	_
+1820	cultures	culture	NNS	_	_	_
+1821	grown	grow	VBN	_	_	_
+1822	<Air>	<air>	NN	_	_	_
+1823	aerobically	aerobically	RB	_	_	_
+1824	</Air>	</Air>	NNP	_	_	_
+1825	at	at	IN	_	_	_
+1826	<Temp>	<Temp>	NNP	_	_	_
+1827	30	30	CD	_	_	_
+1828	degrees	degree	NNS	_	_	_
+1829	C	c	NN	_	_	_
+1830	</Temp>	</temp>	NN	_	_	_
+1831	in	in	IN	_	_	_
+1832	a	a	DT	_	_	_
+1833	<Agit>	<agit>	NN	_	_	_
+1834	gyratory	gyratory	JJ	_	_	_
+1835	water	water	NN	_	_	_
+1836	bath	bath	NN	_	_	_
+1837	shaking	shake	VBG	_	_	_
+1838	at	at	IN	_	_	_
+1839	240	240	CD	_	_	_
+1840	rpm	rpm	NN	_	_	_
+1841	</Agit>	</agit>	NN	_	_	_
+1842	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1843	Nac	Nac	NNP	_	_	_
+1844	_	_	NNP	_	_	_
+1845	<Technique>	<Technique>	NNP	_	_	_
+1846	ChIPSeq	ChIPSeq	NNP	_	_	_
+1847	</Technique>	</Technique>	NNP	_	_	_
+1848	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1849	Nac	Nac	NNP	_	_	_
+1850	_	_	SYM	_	_	_
+1851	<Technique>	<technique>	NN	_	_	_
+1852	RNASeq	rnaseq	NN	_	_	_
+1853	</Technique>	</technique>	NN	_	_	_
+1854	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1855	NtrC	ntrc	NN	_	_	_
+1856	_	_	CD	_	_	_
+1857	<Technique>	<technique>	NN	_	_	_
+1858	ChIPSeq	chipseq	NN	_	_	_
+1859	</Technique>	</technique>	NN	_	_	_
+1860	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1861	OmpR	ompr	NN	_	_	_
+1862	<Supp>	<supp>	NN	_	_	_
+1863	NaCl	nacl	NN	_	_	_
+1864	</Supp>	</supp>	NN	_	_	_
+1865	1	1	CD	_	_	_
+1866	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1867	OmpR	ompr	NN	_	_	_
+1868	<Supp>	<supp>	NN	_	_	_
+1869	NaCl	nacl	NN	_	_	_
+1870	</Supp>	</supp>	NN	_	_	_
+1871	2	2	CD	_	_	_
+1872	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1873	OmpR	ompr	NN	_	_	_
+1874	_	_	CD	_	_	_
+1875	<Technique>	<technique>	NN	_	_	_
+1876	ChIPSeq	chipseq	NN	_	_	_
+1877	</Technique>	</technique>	NN	_	_	_
+1878	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1879	<Orgn>	<orgn>	NN	_	_	_
+1880	Escherichia	escherichia	FW	_	_	_
+1881	coli	coli	FW	_	_	_
+1882	K-12	k-12	NN	_	_	_
+1883	</Orgn>	</orgn>	NN	_	_	_
+1884	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1885	<Orgn>	<orgn>	NN	_	_	_
+1886	Escherichia	escherichia	FW	_	_	_
+1887	coli	coli	FW	_	_	_
+1888	</Orgn>	</orgn>	NN	_	_	_
+1889	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1890	<Orgn>	<orgn>	NN	_	_	_
+1891	Escherichia	escherichia	FW	_	_	_
+1892	coli	coli	FW	_	_	_
+1893	</Orgn>	</orgn>	NN	_	_	_
+1894	str	str	NN	_	_	_
+1895	.	.	.	_	_	_
 
 1	<Strain>	<strain>	NN	_	_	_
 2	K-12	k-12	NN	_	_	_