# hmmsearch :: search profile(s) against a sequence 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 HMM file: pfam_list/Rsm22.hmm.txt # target sequence database: proteomes/Monosiga_brevicollis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Rsm22 [M=275] Accession: PF09243.9 Description: Mitochondrial small ribosomal subunit Rsm22 Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 3.4e-16 58.4 0.0 6.2e-16 57.5 0.0 1.3 1 tr|A9UV40|A9UV40_MONBE Predicted protein OS=Monosiga brevico 0.0092 14.3 0.1 0.013 13.9 0.1 1.1 1 tr|A9VD27|A9VD27_MONBE Predicted protein OS=Monosiga brevico ------ inclusion threshold ------ 0.032 12.6 3.4 1.3 7.3 0.1 2.1 2 tr|A9UW84|A9UW84_MONBE Predicted protein OS=Monosiga brevico Domain annotation for each sequence (and alignments): >> tr|A9UV40|A9UV40_MONBE Predicted protein OS=Monosiga brevicollis OX=81824 GN=23877 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 57.5 0.0 2e-19 6.2e-16 44 185 .. 132 276 .. 119 287 .. 0.84 Alignments for each domain: == domain 1 score: 57.5 bits; conditional E-value: 2e-19 Rsm22 44 gpgtalwaaselwe.eleevlvidaseelleiskelaadapelkeaalrrsvirealeleeadLviisyvLleled.esreklvknl 128 g al ++w+ + ++ idas++++e+ laa ap+ ++++lr+ ++ ++ + e dL + +y+L e + r + ++ l tr|A9UV40|A9UV40_MONBE 132 GQREALAYLPQVWPsNQLDYHAIDASQAMHEV---LAAVAPSPEHVHLRQFRYVNLNQQERHDLTVAAYTLSEQPNlRARRTALELL 215 555566667899**88899*********9987...777778888888899999999999999************************* PP Rsm22 129 WakaskilvivEeGtpaGfrrvleaReal..kaagfhivAPCPHeaaCPlvate..dwChF 185 Wak+++++v++E+G +Gf+++l+aRe l +++ + +vAP P a l ++ +Ch tr|A9UV40|A9UV40_MONBE 216 WAKTERYMVLIEHGYHNGFQLLLQAREWLmaQEDFGTMVAPDPRRDAKGLPSPHlgFFCHL 276 *****************************766667899***99866554444433355665 PP >> tr|A9VD27|A9VD27_MONBE Predicted protein OS=Monosiga brevicollis OX=81824 GN=34649 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 13.9 0.1 4.2e-06 0.013 16 122 .. 32 137 .. 26 147 .. 0.76 Alignments for each domain: == domain 1 score: 13.9 bits; conditional E-value: 4.2e-06 Rsm22 16 yavlrrvLdelaervpdflPkslldvgegpgtalwaaselweeleevlvidaseell.eiskelaadapelkeaalrrsvirealel 101 ++l+ + +++++r d++ s+l+vg g g+ el ++++vl d s+++ ++ + a++ ++ e+ ++ i+ + +l tr|A9VD27|A9VD27_MONBE 32 LNALKEMETQINKRGLDWKQLSVLEVGCGAGVL---SLELAARVKDVLAADPSAAMIaKLKERQAKAGVTNVET--LNEAIERTEQL 113 5788999999****************9988864...4578889********99987615666555555555444..56666677777 PP Rsm22 102 eea..dLviisyvLleled.esre 122 e+a d+v+is +L+ +++ e+ tr|A9VD27|A9VD27_MONBE 114 EPAsrDIVVISLTLHHVAKvEELL 137 77777**********998866654 PP >> tr|A9UW84|A9UW84_MONBE Predicted protein OS=Monosiga brevicollis OX=81824 GN=24376 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 6.2 0.6 0.00092 2.8 57 147 .. 79 167 .. 53 188 .. 0.69 2 ? 7.3 0.1 0.00042 1.3 64 147 .. 221 303 .. 193 320 .. 0.76 Alignments for each domain: == domain 1 score: 6.2 bits; conditional E-value: 0.00092 Rsm22 57 eeleevlvidaseelleiskelaadapelkeaalrrsvirealeleeadLviisyvLleledesreklvknl.WakaskilvivEeG 142 +++++ l + a++ + ++ +l+++ +++ +++ +++ + ++ i +L+ +e++ r++ v ++ +++++il ivE tr|A9UW84|A9UW84_MONBE 79 PDTKQSLEL-AAKIIDAVNIDLVNNLTAIVDS--SCGTCSQIAQVVNMTVISIEETLNRIEPNWRNDTVYKViVQAVNDILAIVETV 162 455554444.3455566666666666666555..333445677888889999***********9999886651677788******98 PP Rsm22 143 tpaGf 147 p+ tr|A9UW84|A9UW84_MONBE 163 CPDSA 167 88755 PP == domain 2 score: 7.3 bits; conditional E-value: 0.00042 Rsm22 64 vidaseelleiskelaadapelkeaalrrsvirealeleeadLviisyvLleledesre.klvknlWakaskilvivEeGtpaGf 147 + +a ++++ is++l+a+ +++ e + s +++ + ++ +vii +L+++ ++ r+ +l +++++ +++il v + p+ tr|A9UW84|A9UW84_MONBE 221 LAEAVRDMKIISHDLIANLTTIAES--NCSTCSAIVATVDEAIVIIENTLTDIDPDWRNdQLFQAIFQGIQQILGYVTDLCPSSV 303 4577889999999999999999888..45555566777777899999******99777625788999999998877766666555 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (275 nodes) Target sequences: 9188 (5511963 residues searched) Passed MSV filter: 292 (0.0317806); expected 183.8 (0.02) Passed bias filter: 192 (0.0208968); expected 183.8 (0.02) Passed Vit filter: 15 (0.00163256); expected 9.2 (0.001) Passed Fwd filter: 3 (0.000326513); expected 0.1 (1e-05) Initial search space (Z): 9188 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.11u 0.00s 00:00:00.11 Elapsed: 00:00:00.05 # Mc/sec: 30315.80 // [ok]