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view commons/pyRepetUnit/align/hmmOutputParsing/tests/datas/OutputHmmpfamTest @ 31:0ab839023fe4
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| author | m-zytnicki |
|---|---|
| date | Tue, 30 Apr 2013 14:33:21 -0400 |
| parents | 94ab73e8a190 |
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hmmpfam - search one or more sequences against HMM database HMMER 2.3.2 (Oct 2003) Copyright (C) 1992-2003 HHMI/Washington University School of Medicine Freely distributed under the GNU General Public License (GPL) - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - HMM file: /home/choede/hmmer3/Pfam_fs Sequence file: ConsensusTestFile_aaWithoutStop.fsa - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query sequence: blumeria_Grouper_590_20:NoCat_1 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- DUF234 Archaea bacterial proteins of unknown 3.2 1.5 1 DUF1414 Protein of unknown function (DUF1414) 2.9 6.3 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- DUF234 1/1 91 108 .. 5 22 .. 3.2 1.5 DUF1414 1/1 111 119 .. 1 9 [. 2.9 6.3 Alignments of top-scoring domains: DUF234: domain 1 of 1, from 91 to 108: score 3.2, E = 1.5 *->VyPNrseIEsGnikevle<-* VyPN++ IEs ++k++++ blumeria_G 91 VYPNIEIIESSTPKPLIN 108 DUF1414: domain 1 of 1, from 111 to 119: score 2.9, E = 6.3 *->HkAPvDLSL<-* H ++DLSL blumeria_G 111 HXSSPDLSL 119 // Query sequence: blumeria_Grouper_590_20:NoCat_2 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- [no hits above thresholds] Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- [no hits above thresholds] Alignments of top-scoring domains: [no hits above thresholds] // Query sequence: blumeria_Grouper_590_20:NoCat_3 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- CPW_WPC Plasmodium falciparum domain of unknown func 1.5 7.7 1 HECT HECT-domain (ubiquitin-transferase) 0.0 9.2 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- CPW_WPC 1/1 30 37 .. 1 9 [. 1.5 7.7 HECT 1/1 55 69 .. 341 355 .] 0.0 9.2 Alignments of top-scoring domains: CPW_WPC: domain 1 of 1, from 30 to 37: score 1.5, E = 7.7 *->CerdYsisk<-* C++dYs sk blumeria_G 30 CQFDYS-SK 37 HECT: domain 1 of 1, from 55 to 69: score 0.0, E = 9.2 *->LllAIneeteGFgle<-* Ll+A+n+ + G+ ++ blumeria_G 55 LLTAVNNANTGYTQS 69 // Query sequence: blumeria_Grouper_590_20:NoCat_4 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- DUF46 Putative integral membrane protein DUF46 6.4 0.11 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- DUF46 1/1 82 91 .. 173 182 .] 6.4 0.11 Alignments of top-scoring domains: DUF46: domain 1 of 1, from 82 to 91: score 6.4, E = 0.11 *->YkLGlKdVpW<-* Y+LGlK V++ blumeria_G 82 YLLGLKGVWY 91 // Query sequence: blumeria_Grouper_590_20:NoCat_5 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- POC4 POC4 chaperone -1.7 6.3 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- POC4 1/1 121 125 .. 276 280 .] -1.7 6.3 Alignments of top-scoring domains: POC4: domain 1 of 1, from 121 to 125: score -1.7, E = 6.3 *->SGLYI<-* SGLYI blumeria_G 121 SGLYI 125 // Query sequence: blumeria_Grouper_590_20:NoCat_6 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- [no hits above thresholds] Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- [no hits above thresholds] Alignments of top-scoring domains: [no hits above thresholds] // Query sequence: blumeria_Grouper_4152_12:NoCat_1 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Peptidase_S29 Hepatitis C virus NS3 protease 4.7 1.1 1 DGOK 2-keto-3-deoxy-galactonokinase 0.5 1.3 1 TNV_CP Satellite tobacco necrosis virus coat p 0.1 7.9 1 TrbL TrbL/VirB6 plasmid conjugal transfer pr 0.8 8 1 Amino_oxidase Flavin containing amine oxidoreductase -0.6 9.1 1 DUF1301 Protein of unknown function (DUF1301) 0.4 9.9 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Amino_oxidase 1/1 27 38 .. 471 482 .] -0.6 9.1 TrbL 1/1 33 67 .. 231 285 .] 0.8 8 TNV_CP 1/1 58 80 .. 167 189 .. 0.1 7.9 DGOK 1/1 94 109 .. 283 298 .] 0.5 1.3 Peptidase_S29 1/1 113 127 .. 1 15 [. 4.7 1.1 DUF1301 1/1 148 157 .. 1 10 [. 0.4 9.9 Alignments of top-scoring domains: Amino_oxidase: domain 1 of 1, from 27 to 38: score -0.6, E = 9.1 CS HHHHHHHHHHHH *->veSGlrAAaril<-* veSG rAA +l blumeria_G 27 VESGXRAASTLL 38 TrbL: domain 1 of 1, from 33 to 67: score 0.8, E = 8 *->ksstiesfnlfvllaivllslvlilllkqipgiAqglvgavvtlgga ++st+ + +++ ++ +++++l+l++ ++iA blumeria_G 33 AASTLLI-----AVEHIVNCAAFCLALRSSASIA------------- 61 vaaalaGG<-* a+ +GG blumeria_G 62 --ASNSGG 67 TNV_CP: domain 1 of 1, from 58 to 80: score 0.1, E = 7.9 CS SSSGGGB-TTEEEEEEEES-SS- *->AdvAaSNgpgAvFvLeigdkvag<-* A++AaSN g vF+L +++ g blumeria_G 58 ASIAASNSGGCVFFLPAASSAGG 80 DGOK: domain 1 of 1, from 94 to 109: score 0.5, E = 1.3 *->VdGDeAvrAGLseiAr<-* VdG A AGL ++ r blumeria_G 94 VDGVSALFAGLTSAGR 109 Peptidase_S29: domain 1 of 1, from 113 to 127: score 4.7, E = 1.1 *->GevqvLgTaTqsflG<-* G+v++ + aT+ flG blumeria_G 113 GTVMRFSGATTVFLG 127 DUF1301: domain 1 of 1, from 148 to 157: score 0.4, E = 9.9 *->gVKvFSlSTS<-* ++vFS+STS blumeria_G 148 SARVFSFSTS 157 // Query sequence: blumeria_Grouper_4152_12:NoCat_2 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- DUF1602 Protein of unknown function (DUF1602) 5.0 0.39 1 Toxin_18 Conotoxin O-superfamily 4.2 4.4 1 ABC_transp_aux ABC-type uncharacterized transport sys 1.1 5.2 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Toxin_18 1/1 21 26 .. 50 55 .] 4.2 4.4 ABC_transp_aux 1/1 126 137 .. 276 287 .] 1.1 5.2 DUF1602 1/1 143 159 .. 23 39 .] 5.0 0.39 Alignments of top-scoring domains: Toxin_18: domain 1 of 1, from 21 to 26: score 4.2, E = 4.4 *->gfCLpr<-* +fCL+r blumeria_G 21 NFCLHR 26 ABC_transp_aux: domain 1 of 1, from 126 to 137: score 1.1, E = 5.2 *->wGvrldpdlVlD<-* wG+r+dp+l+l blumeria_G 126 WGIRWDPRLALR 137 DUF1602: domain 1 of 1, from 143 to 159: score 5.0, E = 0.39 *->kPPlSSsGalfanplrP<-* +P l + G+l + +lrP blumeria_G 143 MPKLNRRGFLASRLLRP 159 // Query sequence: blumeria_Grouper_4152_12:NoCat_3 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- zf-P11 P-11 zinc finger 3.6 1.8 1 V-ATPase_G Vacuolar (H+)-ATPase G subunit 2.4 5.3 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- zf-P11 1/1 102 122 .. 1 20 [. 3.6 1.8 V-ATPase_G 1/1 126 135 .. 1 10 [. 2.4 5.3 Alignments of top-scoring domains: zf-P11: domain 1 of 1, from 102 to 122: score 3.6, E = 1.8 *->GplnCKs..CWfkdknLveCsd<-* Gp +C+s+ CW + + L C d blumeria_G 102 GPHFCRSrxCW-NRDALLGCDD 122 V-ATPase_G: domain 1 of 1, from 126 to 135: score 2.4, E = 5.3 *->sqsqGIQqLL<-* ++s+GIQ LL blumeria_G 126 GGSGGIQDLL 135 // Query sequence: blumeria_Grouper_4152_12:NoCat_4 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- XhoI Restriction endonuclease XhoI 9.9 0.014 1 Endomucin Endomucin 0.1 6 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- XhoI 1/1 92 122 .. 172 202 .] 9.9 0.014 Endomucin 1/1 113 119 .. 261 267 .] 0.1 6 Alignments of top-scoring domains: XhoI: domain 1 of 1, from 92 to 122: score 9.9, E = 0.014 *->klvlerfytrpasllrdaqavlqGiikeprk<-* ++++ ++yt ++ +d++++ qG k+ ++ blumeria_G 92 RSSRQKKYTPSRIACSDRSGGAQGKTKSRAI 122 Endomucin: domain 1 of 1, from 113 to 119: score 0.1, E = 6 *->AQGKtKN<-* AQGKtK blumeria_G 113 AQGKTKS 119 // Query sequence: blumeria_Grouper_4152_12:NoCat_5 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- SLT Transglycosylase SLT domain 4.5 1.2 1 DUF881 Bacterial protein of unknown function 4.0 1.6 1 DUF2346 Uncharacterized conserved protein (DUF 3.2 2.8 1 DUF1798 Bacterial domain of unknown function ( 3.0 3.3 1 LBP_BPI_CETP LBP / BPI / CETP family, N-terminal do 1.8 3.8 1 Jun Jun-like transcription factor -0.7 6.5 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- DUF1798 1/1 2 19 .. 35 52 .. 3.0 3.3 DUF881 1/1 46 69 .. 214 237 .] 4.0 1.6 Jun 1/1 77 93 .. 264 284 .. -0.7 6.5 SLT 1/1 89 108 .. 1 20 [. 4.5 1.2 DUF2346 1/1 93 115 .. 63 85 .] 3.2 2.8 LBP_BPI_CETP 1/1 124 139 .. 191 209 .] 1.8 3.8 Alignments of top-scoring domains: DUF1798: domain 1 of 1, from 2 to 19: score 3.0, E = 3.3 *->KPfvdevdqllaeWkelA<-* +P+vd+vd++++++k+lA blumeria_G 2 VPEVDMVDAEVEKLKTLA 19 DUF881: domain 1 of 1, from 46 to 69: score 4.0, E = 1.6 *->VeksdditiPAydgplklrYAkPv<-* V + +it+PA++ p +r Ak++ blumeria_G 46 VAPEKRITVPALPRPAEVRPAKRA 69 Jun: domain 1 of 1, from 77 to 93: score -0.7, E = 6.5 *->qHheNPpgfqhsavgpPRlaa<-* +++eNPp+ a++pP+l a blumeria_G 77 AGAENPPL----APQPPALEA 93 SLT: domain 1 of 1, from 89 to 108: score 4.5, E = 1.2 CS HHHHHHHHHHTS-HHHHHHH *->dliikaaekygidpsllaAi<-* ++ ++a+ k+ ++p llaAi blumeria_G 89 PALEAAGRKNTHPPELLAAI 108 DUF2346: domain 1 of 1, from 93 to 115: score 3.2, E = 2.8 *->AtKRrEkhdneLlealeeeEaKk<-* A R+ h eLl+a+e eE+ blumeria_G 93 AAGRKNTHPPELLAAIEAEERRA 115 LBP_BPI_CETP: domain 1 of 1, from 124 to 139: score 1.8, E = 3.8 CS HHHHHHHCHHHH...HTTS *->lCPviessVnslNvhLstl<-* +C +++ssV++ L++l blumeria_G 124 ICSTAISSVEAA---LQPL 139 // Query sequence: blumeria_Grouper_4152_12:NoCat_6 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- DUF258 Protein of unknown function, DUF258 1.5 3.8 1 TRAP_alpha Translocon-associated protein (TRAP), alph 0.1 4.1 1 DUF1289 Protein of unknown function (DUF1289) 2.8 5.3 1 SOCS_box SOCS box 2.4 9.7 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- DUF258 1/1 50 62 .. 293 305 .] 1.5 3.8 SOCS_box 1/1 85 90 .. 1 6 [. 2.4 9.7 DUF1289 1/1 95 115 .. 36 56 .] 2.8 5.3 TRAP_alpha 1/1 106 116 .. 317 327 .] 0.1 4.1 Alignments of top-scoring domains: DUF258: domain 1 of 1, from 50 to 62: score 1.5, E = 3.8 CS -HHHHHHHHHHHH *->seeRYesYlklle<-* s++R+++Y+ l++ blumeria_G 50 SASRFQHYRDLQK 62 SOCS_box: domain 1 of 1, from 85 to 90: score 2.4, E = 9.7 *->prSLqh<-* prSLqh blumeria_G 85 PRSLQH 90 DUF1289: domain 1 of 1, from 95 to 115: score 2.8, E = 5.3 *->dERravlqllpqRlaalglkp<-* +E+ + lq+++qR +++++ + blumeria_G 95 AEKIHTLQNCLQRSKRRSAGQ 115 TRAP_alpha: domain 1 of 1, from 106 to 116: score 0.1, E = 4.1 *->kRkvKRsvGdD<-* +R +Rs+G+D blumeria_G 106 QRSKRRSAGQD 116 //