# 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_180.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_180 [L=471] Description: # 191961 # 193373 # -1 # ID=1_180;partial=00;start_type=ATG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.228 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- ------ inclusion threshold ------ 0.09 13.0 2.9 2.6 8.3 0.3 2.9 3 DUF1884 Domain of unknown function (DUF1884) 0.11 12.1 0.1 0.27 10.9 0.1 1.6 1 PliI Periplasmic lysozyme inhibitor of I-type lysozyme Domain annotation for each model (and alignments): >> DUF1884 Domain of unknown function (DUF1884) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -2.4 0.0 0.69 5.8e+03 29 54 .. 63 88 .. 59 91 .. 0.76 2 ? 8.3 0.3 0.00031 2.6 10 78 .. 175 245 .. 170 251 .. 0.89 3 ? 3.7 0.0 0.0086 72 38 73 .. 384 419 .. 359 425 .. 0.81 Alignments for each domain: == domain 1 score: -2.4 bits; conditional E-value: 0.69 EE-HHHHHHHHHHHHHHHT------E CS DUF1884 29 LaGkeayeflkeqvkeelggeeevse 54 G ++++flk+ + + ++++++ ++ 23726_FusoPortal_Gene_180 63 RNGTIVFNFLKKYIVNLFNKDKKSFD 88 56889999999999888887776655 PP == domain 2 score: 8.3 bits; conditional E-value: 0.00031 HHHHHHHHH.HHTT----EEEE-HHHHHHHHHHHHHHHT------EETTEE.EEE-GGGTTEEEEE-TTTT CS DUF1884 10 vieekineL.ksdGfePdivLaGkeayeflkeqvkeelggeeevsevsnlk.vkileelGeDavviDskvL 78 ie+ +eL + G++P++ L+ k ++ e+ k +++ ++++ n+k ++i+ +G++ vv+ +k L 23726_FusoPortal_Gene_180 175 FIENCNKELcNLLGINPNLSLFDKSEIDREIEKFKIQYNYYFSYFKKKNIKeIYIICAYGKEGVVAAAKDL 245 5888888984568**********************9999999999*****889*************99977 PP == domain 3 score: 3.7 bits; conditional E-value: 0.0086 HHHHHHHHHT------EETTEEEEE-GGGTTEEEEE CS DUF1884 38 lkeqvkeelggeeevsevsnlkvkileelGeDavvi 73 ke++ + +++ e ++ vs+ v++ lG+D +i 23726_FusoPortal_Gene_180 384 CKEELYKLMKESEYIFAVSSTTVYEALALGKDVGII 419 45666666899999******************8776 PP >> PliI Periplasmic lysozyme inhibitor of I-type lysozyme # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 10.9 0.1 3.2e-05 0.27 30 70 .. 75 115 .. 71 127 .. 0.86 Alignments for each domain: == domain 1 score: 10.9 bits; conditional E-value: 3.2e-05 EEEEEE--SSTTSTTSSEEEEEEEEESSEEEEEEEE-SSSS CS PliI 30 ysvrlykkaepdtdldefvaGlvlsRdGsveevkladvngd 70 y v+l++k + +d+ f +G+v+s +G e++++ d+ + 23726_FusoPortal_Gene_180 75 YIVNLFNKDKKSFDVLLFDTGRVFSYEGQKESIYMYDIIKK 115 89***********************************8554 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (471 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 880 (0.0526568); expected 334.2 (0.02) Passed bias filter: 322 (0.0192676); expected 334.2 (0.02) Passed Vit filter: 21 (0.00125658); 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): 2 [number of targets reported over threshold] # CPU time: 0.29u 0.23s 00:00:00.52 Elapsed: 00:00:00.32 # Mc/sec: 4278.79 // [ok]