# 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/UPF0020.hmm.txt # target sequence database: proteomes/Ciona_intestinalis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: UPF0020 [M=197] Accession: PF01170.17 Description: Putative RNA methylase family UPF0020 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 7e-10 38.8 0.0 1.6e-08 34.4 0.0 2.3 1 tr|F6X1E1|F6X1E1_CIOIN Uncharacterized protein OS=Ciona inte 9.3e-08 31.9 0.1 3.1e-06 26.9 0.1 2.3 1 tr|F6PXD8|F6PXD8_CIOIN Uncharacterized protein OS=Ciona inte 1.3e-07 31.4 0.4 6.5e-07 29.1 0.4 1.9 1 tr|F6WB92|F6WB92_CIOIN methyltransferase-like protein 5 isof 1.2e-05 25.0 0.3 2.9e-05 23.7 0.1 1.8 2 tr|F6WNV4|F6WNV4_CIOIN Uncharacterized protein OS=Ciona inte 0.00096 18.8 0.1 0.0023 17.5 0.1 1.6 1 tr|F6TXQ6|F6TXQ6_CIOIN Serine--pyruvate aminotransferase OS= 0.0016 18.1 0.5 0.0019 17.9 0.5 1.2 1 tr|F6ZBH2|F6ZBH2_CIOIN Uncharacterized protein OS=Ciona inte 0.0017 18.0 0.0 0.0022 17.6 0.0 1.1 1 tr|F6TU78|F6TU78_CIOIN Uncharacterized protein OS=Ciona inte Domain annotation for each sequence (and alignments): >> tr|F6X1E1|F6X1E1_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 34.4 0.0 6.6e-12 1.6e-08 3 134 .. 200 326 .. 199 337 .. 0.79 Alignments for each domain: == domain 1 score: 34.4 bits; conditional E-value: 6.6e-12 SS-SS---SS-HHHHHHHHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHH CS UPF0020 3 yRefngpapLketLAaalvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvv 89 +R+f g++++ L+ + +l g++++++ DP+ G+G++lI aa g +++ g + ++ ++++ r k +g + + + tr|F6X1E1|F6X1E1_CIOIN 200 KRKFIGNTSMDVMLSILMTNLGGINKNSVVCDPFVGTGSLLIPAAHFGGYVIGGDINYNI------IHARGRSSRKGAGWRQKDETI 280 799*************************************************77774444......445555677788999999999 PP HHHHHHHHHTT-GGGEEEEE--GGG--.STTS---EEEE------- CS UPF0020 90 qgareNaekagvgdliefsqadaakLr.lkegevdvivtnpPYGer 134 + + + + +a + + + ++ +d+i+t+pPYG+r tr|F6X1E1|F6X1E1_CIOIN 281 RHTLMEYGLRSQYLDVLLCDAACHAWNtNGKELFDAIITDPPYGIR 326 988877665544444444444444444356778***********99 PP >> tr|F6PXD8|F6PXD8_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 26.9 0.1 1.3e-09 3.1e-06 29 132 .. 82 158 .. 70 164 .. 0.91 Alignments for each domain: == domain 1 score: 26.9 bits; conditional E-value: 1.3e-09 TS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG- CS UPF0020 29 gepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvvqgareNaekagvgdliefsqadaakL 115 ++++D +CGsG+ +I a +++ ++D+d+ ++ a+ Na +gv+d+i+f + + ++ tr|F6PXD8|F6PXD8_CIOIN 82 CDVIVDAFCGSGGNAIQFAFTCEKVL--------------------------AIDIDPVKLENAKHNAAIYGVEDRIDFICGSFFDI 142 57899999999999999999999999..........................9********************************** PP -STTS---EEEE----- CS UPF0020 116 rlkegevdvivtnpPYG 132 ++ + d++ pP+G tr|F6PXD8|F6PXD8_CIOIN 143 A-PTLKADIVFLSPPWG 158 *.999***********9 PP >> tr|F6WB92|F6WB92_CIOIN methyltransferase-like protein 5 isoform X4 OS=Ciona intestinalis OX=7719 GN=LOC100184601 PE= # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 29.1 0.4 2.7e-10 6.5e-07 16 171 .. 32 173 .. 27 194 .. 0.74 Alignments for each domain: == domain 1 score: 29.1 bits; conditional E-value: 2.7e-10 HHHHHHHHTT--TTS....-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHHHHHHHHHH CS UPF0020 16 LAaalvrlagwkpge....pllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvvqgareNaek 98 LAa+l+ a+ + g+ D CG G + I llgan g+D+d+ +++ ++N e+ tr|F6WB92|F6WB92_CIOIN 32 LAACLLHTAETQFGDicgkNVCDLGCGCGILSIGSSLLGANHC-------------------------LGIDIDEDALEIFQSNCEA 93 6666666666665431111456666666666666666666666.........................7****************** PP TT-GGGEEEEE--GGG--.....STTS---EEEE----------HHHHHHHHHH..HHHHHHHH-TT..-EEEEEESSHH CS UPF0020 99 agvgdliefsqadaakLr.....lkegevdvivtnpPYGerlgskkalekLYse..flrelkrvlrgggrlvlltsenka 171 +++++ +e qad+a + + +d+++ npP+G + ++ ++e L+ + +++ + l++++ + ++++ ++ tr|F6WB92|F6WB92_CIOIN 94 YELNNVVECIQADIARFSpsrnmILAKRFDTVLMNPPFGTKSNKGIDMEFLHAAsiLASHAVYSLHKSSTRAHIVKKAND 173 *****************98877745569*************999999999997722334444455565666656555555 PP >> tr|F6WNV4|F6WNV4_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -3.1 0.0 2 4.8e+03 64 68 .. 138 146 .. 114 160 .. 0.49 2 ! 23.7 0.1 1.2e-08 2.9e-05 30 50 .. 173 193 .] 167 193 .] 0.89 Alignments for each domain: == domain 1 score: -3.1 bits; conditional E-value: 2 S....HHHH CS UPF0020 64 e....lkae 68 + k++ tr|F6WNV4|F6WNV4_CIOIN 138 KmnkfQKQK 146 322221222 PP == domain 2 score: 23.7 bits; conditional E-value: 1.2e-08 S-EEETT-TTSHHHHHHHHHH CS UPF0020 30 epllDPmCGsGtilIEaallg 50 e+ +DPmCG+G+i++E+a+ + tr|F6WNV4|F6WNV4_CIOIN 173 EVVVDPMCGTGSIPLEGAMEW 193 6789**************975 PP >> tr|F6TXQ6|F6TXQ6_CIOIN Serine--pyruvate aminotransferase OS=Ciona intestinalis OX=7719 PE=3 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.5 0.1 9.8e-07 0.0023 19 51 .. 71 103 .. 66 159 .. 0.84 Alignments for each domain: == domain 1 score: 17.5 bits; conditional E-value: 9.8e-07 HHHHHTT--TTS-EEETT-TTSHHHHHHHHHHT CS UPF0020 19 alvrlagwkpgepllDPmCGsGtilIEaallga 51 +lvrlag + ++ + Pm GsGt++IE l a tr|F6TXQ6|F6TXQ6_CIOIN 71 SLVRLAGGNVQTHTAIPMTGSGTFAIESTLTTA 103 79*************************988755 PP >> tr|F6ZBH2|F6ZBH2_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.9 0.5 7.8e-07 0.0019 51 123 .. 32 104 .. 16 138 .. 0.85 Alignments for each domain: == domain 1 score: 17.9 bits; conditional E-value: 7.8e-07 TT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS--- CS UPF0020 51 aniapgllrefvlelkaeaeeearaelklygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevd 123 ++ia g++ e v+e+k+ea+++a++ k + s+ ++ +v+++ + + + +++ +f+ ++a++L+ +++ tr|F6ZBH2|F6ZBH2_CIOIN 32 KRIAGGKYLEDVSEAKQEAKTKAHEAFKTFTSNYNKDLVKKCLKDLDNVIESKQKQFERKNAKQLEVLDADLS 104 56777778888888***************************************************95555444 PP >> tr|F6TU78|F6TU78_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.6 0.0 9.3e-07 0.0022 86 160 .. 36 115 .. 15 124 .. 0.88 Alignments for each domain: == domain 1 score: 17.6 bits; conditional E-value: 9.3e-07 HHHHHHHHHHHHHTT-GGGEEEEE--GGG--......STTS---EEEE----------HHHHHHHHHHHHHHHHHH-TT.. CS UPF0020 86 rrvvqgareNaekagvgdliefsqadaakLr......lkegevdvivtnpPYGerlgskkalekLYseflrelkrvlrggg 160 +++ + a++N + + + i ++ da+kL+ l+ ++++ i+ n P r s +++++L ++f ++k+vl++ g tr|F6TU78|F6TU78_CIOIN 36 QKYGEEANKNMTELKRHGAIVLNGVDATKLHqnlsefLP-KKFEKIIFNFPHTGRKASIRKNRELLRNFFLSAKEVLDQWG 115 56668899***********************87665333.48************************************944 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (197 nodes) Target sequences: 16678 (5370518 residues searched) Passed MSV filter: 420 (0.0251829); expected 333.6 (0.02) Passed bias filter: 313 (0.0187672); expected 333.6 (0.02) Passed Vit filter: 32 (0.0019187); expected 16.7 (0.001) Passed Fwd filter: 7 (0.000419715); expected 0.2 (1e-05) Initial search space (Z): 16678 [actual number of targets] Domain search space (domZ): 7 [number of targets reported over threshold] # CPU time: 0.10u 0.00s 00:00:00.10 Elapsed: 00:00:00.04 # Mc/sec: 26449.80 // [ok]