# 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_206.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_206 [L=86] Description: # 219930 # 220187 # 1 # ID=1_206;partial=00;start_type=ATG;rbs_motif=AGGA/GGAG/GAGG;rbs_spacer=11-12bp;gc_cont=0.267 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 0.0094 16.0 0.6 0.011 15.8 0.6 1.1 1 Uds1 Up-regulated During Septation ------ inclusion threshold ------ 0.088 12.5 0.1 0.15 11.8 0.1 1.4 1 LapA_dom Lipopolysaccharide assembly protein A domain Domain annotation for each model (and alignments): >> Uds1 Up-regulated During Septation # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.8 0.6 1.3e-06 0.011 15 66 .. 18 69 .. 16 80 .. 0.88 Alignments for each domain: == domain 1 score: 15.8 bits; conditional E-value: 1.3e-06 Uds1 15 feiLsleeVeelkkelkaLeerlealrkkLaletklrdaarsLsrlyssskk 66 f++ +l eV +l kelk +e le l+k+L ++ da L + ++ ++ 23726_FusoPortal_Gene_206 18 FNVKTLREVTSLEKELKIANENLEELEKELDKKIMFYDAKLDLDKIRREMEA 69 78999************************99999999*****9999865554 PP >> LapA_dom Lipopolysaccharide assembly protein A domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.8 0.1 1.9e-05 0.15 23 63 .. 4 47 .. 3 48 .. 0.76 Alignments for each domain: == domain 1 score: 11.8 bits; conditional E-value: 1.9e-05 LapA_dom 23 llvafgiGallgwllslwsylr....lrrelrrlkkkikklekel 63 + ++f++ +l +wl+ + + lr l +el+ +++ +++lekel 23726_FusoPortal_Gene_206 4 ITIVFAFCILGIWLFNV-KTLRevtsLEKELKIANENLEELEKEL 47 77889999999999999.444334448899999999999999987 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (86 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 1537 (0.0919698); expected 334.2 (0.02) Passed bias filter: 775 (0.0463739); expected 334.2 (0.02) Passed Vit filter: 86 (0.005146); 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: 0.23u 0.24s 00:00:00.47 Elapsed: 00:00:00.32 # Mc/sec: 781.26 // [ok]