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PMC:340383 / 20540-21148 JSONTXT

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craft-sa-dev

Id Subject Object Predicate Lexical cue
T5100 468-472 NN denotes tree
T5099 455-467 JJ denotes Phylogenetic
T5098 454-608 sentence denotes Phylogenetic tree was constructed by Clustalw program (version 1.81) using UPGMA (Unweighted Pair Group Method using Arithmetic averages) algorithm [14].
T5097 453-454 . denotes .
T5096 446-453 NN denotes protein
T5095 440-445 JJ denotes known
T5094 437-439 IN denotes of
T5093 428-436 NNS denotes features
T5092 419-427 NN denotes sequence
T5091 409-418 VBG denotes searching
T5090 405-408 IN denotes for
T5089 395-399 VBD denotes were
T5088 387-393 NN denotes 3Dpssm
T5087 383-386 CC denotes and
T5086 375-381 NN denotes ExPASy
T5085 373-375 , denotes ,
T5084 360-365 NN denotes motif
T5083 366-372 NN denotes search
T5082 351-359 NN denotes sequence
T5081 349-351 , denotes ,
T5080 337-348 NN denotes ProfileScan
T5079 335-337 , denotes ,
T5078 319-325 NN denotes Search
T5077 326-334 NN denotes Launcher
T5076 315-318 NN denotes BCM
T5075 305-314 VBG denotes including
T5074 400-404 VBN denotes used
T5073 296-304 NNS denotes programs
T5072 287-295 JJ denotes Multiple
T5071 286-454 sentence denotes Multiple programs including BCM Search Launcher , ProfileScan , sequence motif search , ExPASy and 3Dpssm were used for searching sequence features of known protein.
T5070 285-286 . denotes .
T5069 266-274 NN denotes sequence
T5068 257-265 JJ denotes pairwise
T5067 253-256 CC denotes and
T5066 275-284 NN denotes alignment
T5065 245-252 NN denotes GeneDoc
T5064 240-244 IN denotes with
T5063 225-229 VBD denotes were
T5062 230-239 VBN denotes performed
T5061 205-213 NN denotes sequence
T5060 214-224 NNS denotes alignments
T5059 196-204 JJ denotes Multiple
T5058 195-286 sentence denotes Multiple sequence alignments were performed with GeneDoc and pairwise sequence alignment .
T5057 194-195 . denotes .
T5056 178-184 NN denotes blastn
T5055 174-177 CC denotes and
T5054 167-173 NN denotes blastp
T5053 165-167 , denotes ,
T5052 158-165 NN denotes tblastx
T5051 156-158 , denotes ,
T5050 185-193 NNS denotes programs
T5049 149-156 NN denotes tblastn
T5048 144-148 IN denotes with
T5047 140-143 RP denotes out
T5046 127-131 VBD denotes were
T5045 132-139 VBN denotes carried
T5044 118-126 NNS denotes searches
T5043 105-108 NN denotes DNA
T5042 101-104 CC denotes and
T5041 109-117 NN denotes homology
T5040 93-100 NN denotes Protein
T5039 92-195 sentence denotes Protein and DNA homology searches were carried out with tblastn, tblastx, blastp and blastn programs .
T5038 91-92 . denotes .
T5037 90-91 -RRB- denotes )
T5036 80-85 NNPS denotes Codes
T5035 75-79 NNP denotes Gene
T5034 86-90 NNP denotes Corp
T5033 74-75 -LRB- denotes (
T5032 63-73 NN denotes Sequencher
T5031 55-62 NN denotes program
T5030 50-54 IN denotes with
T5029 36-39 VBD denotes was
T5028 40-49 VBN denotes performed
T5027 27-35 NN denotes assembly
T5026 18-26 NN denotes Sequence
T5025 17-92 sentence denotes Sequence assembly was performed with program Sequencher (Gene Codes Corp).
T5024 9-17 NNS denotes analyses
T5023 0-8 NN denotes Sequence
T5125 607-608 . denotes .
T5124 606-607 -RRB- denotes ]
T5123 604-606 CD denotes 14
T5122 603-604 -LRB- denotes [
T5121 591-592 -RRB- denotes )
T5120 583-591 NNS denotes averages
T5119 572-582 NN denotes Arithmetic
T5118 566-571 VBG denotes using
T5117 553-558 NN denotes Group
T5116 548-552 NN denotes Pair
T5115 559-565 NN denotes Method
T5114 537-547 JJ denotes Unweighted
T5113 536-537 -LRB- denotes (
T5112 593-602 NN denotes algorithm
T5111 530-535 NN denotes UPGMA
T5110 524-529 VBG denotes using
T5109 522-523 -RRB- denotes )
T5108 518-522 CD denotes 1.81
T5107 510-517 NN denotes version
T5106 509-510 -LRB- denotes (
T5105 501-508 NN denotes program
T5104 492-500 NN denotes Clustalw
T5103 489-491 IN denotes by
T5102 473-476 VBD denotes was
T5101 477-488 VBN denotes constructed
R3049 T5023 T5024 compound Sequence,analyses
R3050 T5026 T5027 compound Sequence,assembly
R3051 T5027 T5028 nsubjpass assembly,performed
R3052 T5029 T5028 auxpass was,performed
R3053 T5030 T5028 prep with,performed
R3054 T5031 T5032 compound program,Sequencher
R3055 T5032 T5030 pobj Sequencher,with
R3056 T5033 T5034 punct (,Corp
R3057 T5034 T5032 parataxis Corp,Sequencher
R3058 T5035 T5034 compound Gene,Corp
R3059 T5036 T5034 compound Codes,Corp
R3060 T5037 T5034 punct ),Corp
R3061 T5038 T5028 punct .,performed
R3062 T5040 T5041 nmod Protein,homology
R3063 T5041 T5044 compound homology,searches
R3064 T5042 T5040 cc and,Protein
R3065 T5043 T5040 conj DNA,Protein
R3066 T5044 T5045 nsubjpass searches,carried
R3067 T5046 T5045 auxpass were,carried
R3068 T5047 T5045 prt out,carried
R3069 T5048 T5045 prep with,carried
R3070 T5049 T5050 nmod tblastn,programs
R3071 T5050 T5048 pobj programs,with
R3072 T5051 T5049 punct ", ",tblastn
R3073 T5052 T5049 conj tblastx,tblastn
R3074 T5053 T5052 punct ", ",tblastx
R3075 T5054 T5052 conj blastp,tblastx
R3076 T5055 T5054 cc and,blastp
R3077 T5056 T5054 conj blastn,blastp
R3078 T5057 T5045 punct .,carried
R3079 T5059 T5060 amod Multiple,alignments
R3080 T5060 T5062 nsubjpass alignments,performed
R3081 T5061 T5060 compound sequence,alignments
R3082 T5063 T5062 auxpass were,performed
R3083 T5064 T5062 prep with,performed
R3084 T5065 T5066 nmod GeneDoc,alignment
R3085 T5066 T5064 pobj alignment,with
R3086 T5067 T5065 cc and,GeneDoc
R3087 T5068 T5065 conj pairwise,GeneDoc
R3088 T5069 T5066 compound sequence,alignment
R3089 T5070 T5062 punct .,performed
R3090 T5072 T5073 amod Multiple,programs
R3091 T5073 T5074 nsubjpass programs,used
R3092 T5075 T5073 prep including,programs
R3093 T5076 T5077 compound BCM,Launcher
R3094 T5077 T5075 pobj Launcher,including
R3095 T5078 T5077 compound Search,Launcher
R3096 T5079 T5077 punct ", ",Launcher
R3097 T5080 T5077 conj ProfileScan,Launcher
R3098 T5081 T5080 punct ", ",ProfileScan
R3099 T5082 T5083 compound sequence,search
R3100 T5083 T5080 conj search,ProfileScan
R3101 T5084 T5083 compound motif,search
R3102 T5085 T5083 punct ", ",search
R3103 T5086 T5083 conj ExPASy,search
R3104 T5087 T5086 cc and,ExPASy
R3105 T5088 T5086 conj 3Dpssm,ExPASy
R3106 T5089 T5074 auxpass were,used
R3107 T5090 T5074 prep for,used
R3108 T5091 T5090 pcomp searching,for
R3109 T5092 T5093 compound sequence,features
R3110 T5093 T5091 dobj features,searching
R3111 T5094 T5093 prep of,features
R3112 T5095 T5096 amod known,protein
R3113 T5096 T5094 pobj protein,of
R3114 T5097 T5074 punct .,used
R3115 T5099 T5100 amod Phylogenetic,tree
R3116 T5100 T5101 nsubjpass tree,constructed
R3117 T5102 T5101 auxpass was,constructed
R3118 T5103 T5101 agent by,constructed
R3119 T5104 T5105 compound Clustalw,program
R3120 T5105 T5103 pobj program,by
R3121 T5106 T5107 punct (,version
R3122 T5107 T5105 parataxis version,program
R3123 T5108 T5107 nummod 1.81,version
R3124 T5109 T5107 punct ),version
R3125 T5110 T5101 advcl using,constructed
R3126 T5111 T5112 nmod UPGMA,algorithm
R3127 T5112 T5110 dobj algorithm,using
R3128 T5113 T5111 punct (,UPGMA
R3129 T5114 T5115 amod Unweighted,Method
R3130 T5115 T5111 appos Method,UPGMA
R3131 T5116 T5115 compound Pair,Method
R3132 T5117 T5115 compound Group,Method
R3133 T5118 T5115 acl using,Method
R3134 T5119 T5120 compound Arithmetic,averages
R3135 T5120 T5118 dobj averages,using
R3136 T5121 T5112 punct ),algorithm
R3137 T5122 T5123 punct [,14
R3138 T5123 T5101 parataxis 14,constructed
R3139 T5124 T5123 punct ],14
R3140 T5125 T5101 punct .,constructed

craft-ca-core-dev

Below, discontinuous spans are shown in the bag model. You can change it to the chain model.

Id Subject Object Predicate Lexical cue
T5009 419-436 SO:0000110 denotes sequence features
T5008 109-117 SO:0000857 denotes homology
T5007 75-79 SO:0000704 denotes Gene

2_test

Id Subject Object Predicate Lexical cue
14723793-7984417-10642199 604-606 7984417 denotes 14

craft-ca-core-ex-dev

Below, discontinuous spans are shown in the bag model. You can change it to the chain model.

Id Subject Object Predicate Lexical cue
T5022 446-453 CHEBI_PR_EXT:protein denotes protein
T5021 419-436 SO_EXT:0000110 denotes sequence features
T5020 360-365 SO_EXT:sequence_or_structure_motif denotes motif
T5019 351-359 SO_EXT:biological_sequence denotes sequence
T5018 266-274 SO_EXT:biological_sequence denotes sequence
T5017 205-213 SO_EXT:biological_sequence denotes sequence
T5016 109-117 SO:0000857 denotes homology
T5015 105-108 CHEBI_SO_EXT:DNA denotes DNA
T5014 93-100 CHEBI_PR_EXT:protein denotes Protein
T5013 75-79 SO_EXT:0000704 denotes Gene
T5012 27-35 SO_EXT:sequence_assembly_entity_or_process denotes assembly
T5011 18-26 SO_EXT:biological_sequence denotes Sequence
T5010 0-8 SO_EXT:biological_sequence denotes Sequence