# hmmscan :: search sequence(s) against a profile database # HMMER 3.0 (March 2010); http://hmmer.org/ # Copyright (C) 2010 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query sequence file: s03.fasta # target HMM database: /home/bow/db/hmmer/Pfam-A.hmm # output directed to file: hmmer_cases/text_hmmscan_spc_notextw.out # per-seq hits tabular output: hmmer_cases/tab_hmmscan_spc_notextw.out # per-dom hits tabular output: hmmer_cases/domtab_hmmscan_spc_notextw.out # max ASCII text line length: unlimited # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: gi|22748937|ref|NP_065801.1| [L=1204] Description: exportin-5 [Homo sapiens] 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 7.8e-34 116.6 7.8 1.1e-33 116.1 3.4 2.8 2 Xpo1 Exportin 1-like protein 0.0039 16.9 0.0 0.033 14.0 0.0 2.7 2 IBN_N Importin-beta N-terminal domain Domain annotation for each model (and alignments): >> Xpo1 Exportin 1-like protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 116.1 3.4 1.6e-37 1.1e-33 2 148 .] 110 271 .. 109 271 .. 0.98 2 ? -1.8 0.0 0.35 2.4e+03 112 139 .. 499 525 .. 496 529 .. 0.86 Alignments for each domain: == domain 1 score: 116.1 bits; conditional E-value: 1.6e-37 HHHHHHHHHHHHHHHHHHTTTTSTTHHHHHHHHHHG-HHHHHHHHHHHHHHHHHHCCS-TTTS-CCCHHHHHHHCHHHHHHHHHHHHHHHC-TT-..................HHHHHHHHHHHHHHCTTS-CHHCHCS...HHHHHCHHCCSCCCHHHHHHHH CS Xpo1 2 kflrnklaealaelflqeypnqWpsffddllsllssspsglelllriLkvlpeEiadfsrskleqerrnelkdllrsqvqkilelllqileqsvskk...............sselveatLkclsswvswidiglivnsp..llsllfqlLndpelreaAvecL 148 +++++ l+++++e++++e+p++Wp+++ +l l++++++++el++ iL++l+e++++f ++l +rr++++++l++++++i+++ll+ l+++v+k+ ++++ a+L++l+ +++w+++++i +++ ll++l+ lLn++el+ A+ecL gi|22748937|ref|NP_065801.1| 110 NHIKDALSRIVVEMIKREWPQHWPDMLIELDTLSKQGETQTELVMFILLRLAEDVVTF--QTLPPQRRRDIQQTLTQNMERIFSFLLNTLQENVNKYqqvktdtsqeskaqaNCRVGVAALNTLAGYIDWVSMSHITAENckLLEILCLLLNEQELQLGAAECL 271 89******************************************************99..79*********************************99*****************************************8889*********************8 PP == domain 2 score: -1.8 bits; conditional E-value: 0.35 HHCTTS-CHHCHCS.HHHHHCHHCCSCC CS Xpo1 112 swvswidiglivnspllsllfqlLndpe 139 s+v+w ++l+++s +++ +f+ Ln++e gi|22748937|ref|NP_065801.1| 499 SFVQWEAMTLFLES-VITQMFRTLNREE 525 899*********98.8888899998776 PP >> IBN_N Importin-beta N-terminal domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 14.0 0.0 4.8e-06 0.033 4 75 .. 36 98 .. 33 100 .. 0.87 2 ? -3.3 0.0 1.2 8e+03 57 75 .. 168 186 .. 165 187 .. 0.85 Alignments for each domain: == domain 1 score: 14.0 bits; conditional E-value: 4.8e-06 HHHHHHHSCTHHHHHHHHHHHTTTSTHHHHHHHHHHHHHHHHHSCCHHHHHHHHCS-HHHHHHHHHHHHHHH CS IBN_N 4 qLnqlekqkPgflsallqilanksldlevRqlAalyLknlItkhWkseeaqrqqqlpeeekelIrnnllnll 75 ++++++ P ++++ l+++ +k+ vR++++++L++ ++ +W+ ++ ek +++n++ +l+ gi|22748937|ref|NP_065801.1| 36 FCEEFKEKCPICVPCGLRLA-EKTQVAIVRHFGLQILEHVVKFRWN--------GMSRLEKVYLKNSVMELI 98 56788886699*********.6555899******************........999999****99999887 PP == domain 2 score: -3.3 bits; conditional E-value: 1.2 HCS-HHHHHHHHHHHHHHH CS IBN_N 57 qqlpeeekelIrnnllnll 75 q+lp++ + +I ++l + + gi|22748937|ref|NP_065801.1| 168 QTLPPQRRRDIQQTLTQNM 186 6899*******99998865 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (1204 residues) Target model(s): 13672 (2396357 nodes) Passed MSV filter: 520 (0.0380339); expected 273.4 (0.02) Passed bias filter: 319 (0.0233324); expected 273.4 (0.02) Passed Vit filter: 23 (0.00168227); expected 13.7 (0.001) Passed Fwd filter: 2 (0.000146284); expected 0.1 (1e-05) Initial search space (Z): 13672 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 1.08u 0.16s 00:00:01.24 Elapsed: 00:00:00.41 # Mc/sec: 7037.11 //