# hmmscan :: search sequence(s) against a profile database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query sequence file: AA/23726_FusoPortal_Gene_8.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_8 [L=310] Description: # 7553 # 8482 # -1 # ID=1_8;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.268 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 4.1e-29 101.5 15.3 4.1e-29 101.5 15.3 1.9 3 BPD_transp_1 Binding-protein-dependent transport system inne Domain annotation for each model (and alignments): >> BPD_transp_1 Binding-protein-dependent transport system inner membrane component # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -2.0 0.2 0.14 2.3e+03 163 176 .. 10 23 .. 5 33 .. 0.60 2 ? -1.9 0.1 0.13 2.2e+03 149 171 .. 90 111 .. 67 113 .. 0.50 3 ! 101.5 15.3 2.4e-33 4.1e-29 2 184 .. 113 303 .. 112 304 .. 0.99 Alignments for each domain: == domain 1 score: -2.0 bits; conditional E-value: 0.14 BPD_transp_1 163 iavlllnlvadilq 176 a+l+++++a+i+ 23726_FusoPortal_Gene_8 10 SALLVISILAFIFI 23 34444444444443 PP == domain 2 score: -1.9 bits; conditional E-value: 0.13 BPD_transp_1 149 dyseisnggvlalviavlllnlv 171 + + + +++ ++++++l++l+ 23726_FusoPortal_Gene_8 90 TFKSLY-ATFQLTIFSTFLIILI 111 344333.3333333333333333 PP == domain 3 score: 101.5 bits; conditional E-value: 2.4e-33 BPD_transp_1 2 illGilaalnrnkkldkllrpliivllslPsfvlaillvlvf.........vilsilghlilpviillllsaapyvrlirraalrs 78 +++Gil+a + + ++dk++ + ++ s+P+f+l++ l+l+f + +++ + +lp i+l++ +++ y+ +i +++l++ 23726_FusoPortal_Gene_8 113 LPIGILSAIKTGTWIDKIVISTTTIFVSMPVFWLGFSLILLFsvklnwlpvSGRGGFLNFVLPSITLSVPFIGQYIEFIKKSILEN 198 79************************************************************************************ PP BPD_transp_1 79 lpkdlveaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseisnggvlalvia 164 ++ +l e a ++G++++ i+ +++l+ a +pi++g+ ++f+++l+g++l+e ++swpG+g l++ ai++ d+++i+ + + +++ + 23726_FusoPortal_Gene_8 199 IQNNLLENAVLRGLKKRYIISNYLLKGAWIPILSGFSFTFVSILTGSILVEEIFSWPGIGFLFTKAIQAGDVPLIQ-ACIMVFGML 283 ****************************************************************************.********* PP BPD_transp_1 165 vlllnlvadilqrlldprvr 184 +++ + +++ + ++ldpr++ 23726_FusoPortal_Gene_8 284 FIIATHFMNDILKYLDPRIK 303 ******************97 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (310 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 741 (0.0443394); expected 334.2 (0.02) Passed bias filter: 331 (0.0198061); expected 334.2 (0.02) Passed Vit filter: 31 (0.00185495); expected 16.7 (0.001) Passed Fwd filter: 2 (0.000119674); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] # CPU time: 0.26u 0.23s 00:00:00.49 Elapsed: 00:00:00.32 # Mc/sec: 2816.19 // [ok]