# 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/TrmO.hmm.txt # target sequence database: proteomes/Homo_sapiens.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TrmO [M=119] Accession: PF01980.16 Description: tRNA-methyltransferase O 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.4e-41 143.6 0.0 2.3e-41 143.0 0.0 1.3 1 sp|Q9BU70|NAP1_HUMAN Nef-associated protein 1 OS=Homo sapi 4.7e-28 100.0 0.0 6.8e-28 99.5 0.0 1.2 1 tr|Q5T111|Q5T111_HUMAN Nef-associated protein 1 (Fragment) O 1.2e-27 98.7 0.0 1.5e-27 98.4 0.0 1.1 1 tr|Q5T112|Q5T112_HUMAN Nef-associated protein 1 (Fragment) O 0.003 20.0 0.2 0.0057 19.1 0.2 1.5 1 tr|Q5T114|Q5T114_HUMAN Chromosome 9 open reading frame 156, ------ inclusion threshold ------ 1.1 11.8 0.0 1.4 11.4 0.0 1.2 1 sp|Q96NR2|C2AS1_HUMAN Putative uncharacterized protein C20o Domain annotation for each sequence (and alignments): >> sp|Q9BU70|NAP1_HUMAN Nef-associated protein 1 OS=Homo sapiens GN=C9orf156 PE=1 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 143.0 0.0 1.3e-45 2.3e-41 1 119 [] 45 164 .. 45 164 .. 0.96 Alignments for each domain: == domain 1 score: 143.0 bits; conditional E-value: 1.3e-45 TS-SSGGG--.-EEEEEE-HHH....HGGGTTGGG-SEEEEEEE-TTS...-.SS--E-TT-.SS-E.EGGGS--S-SSS-EEEEEEEE CS TrmO 1 giPrqpglaeeaeaeielepey..nseealegleefshlwllfvfhenaekklkakvrpprlggnervGvfatRsphRpnpiglsvvkl 87 g+Prqp++++ ++a +++++++ n+e++l gle+fsh+w+lfvfh+n + ++kakv+pprl+g +++Gvf+tRsphRpn+igl+++kl sp|Q9BU70|NAP1_HUMAN 45 GTPRQPSICSYSRACLRIRKRIfnNPEHSLMGLEQFSHVWILFVFHKNGHLSCKAKVQPPRLNG-AKTGVFSTRSPHRPNAIGLTLAKL 132 79*****************987657899********************99999**********9.666********************* PP EEEETTEEEEES----TT-EEEEEEE--HHHH CS TrmO 88 ekvegnvlevsgvDlldgtpvlDiKPYvpyaD 119 ekveg +++sg+D+++gtpvlDiKPY++++D sp|Q9BU70|NAP1_HUMAN 133 EKVEGGAIYLSGIDMIHGTPVLDIKPYIAEYD 164 *****************************998 PP >> tr|Q5T111|Q5T111_HUMAN Nef-associated protein 1 (Fragment) OS=Homo sapiens GN=C9orf156 PE=2 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 99.5 0.0 3.8e-32 6.8e-28 1 95 [. 43 138 .. 43 142 .. 0.93 Alignments for each domain: == domain 1 score: 99.5 bits; conditional E-value: 3.8e-32 TS-SSGGG--.-EEEEEE-HHH....HGGGTTGGG-SEEEEEEE-TTS...-.SS--E-TT-.SS-E.EGGGS--S-SSS-EEEEEE CS TrmO 1 giPrqpglaeeaeaeielepey..nseealegleefshlwllfvfhenaekklkakvrpprlggnervGvfatRsphRpnpiglsvv 85 g+Prqp++++ ++a +++++++ n+e++l gle+fsh+w+lfvfh+n + ++kakv+pprl+g +++Gvf+tRsphRpn+igl+++ tr|Q5T111|Q5T111_HUMAN 43 GTPRQPSICSYSRACLRIRKRIfnNPEHSLMGLEQFSHVWILFVFHKNGHLSCKAKVQPPRLNG-AKTGVFSTRSPHRPNAIGLTLA 128 79*****************987657899********************99999**********9.666******************* PP EEEEEETTEE CS TrmO 86 klekvegnvl 95 klekvegn tr|Q5T111|Q5T111_HUMAN 129 KLEKVEGNPF 138 ******9865 PP >> tr|Q5T112|Q5T112_HUMAN Nef-associated protein 1 (Fragment) OS=Homo sapiens GN=C9orf156 PE=2 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 98.4 0.0 8.3e-32 1.5e-27 1 92 [. 44 138 .. 44 151 .. 0.90 Alignments for each domain: == domain 1 score: 98.4 bits; conditional E-value: 8.3e-32 TS-SSGGG--.-EEEEEE-HHH....HGGGTTGGG-SEEEEEEE-TTS...-.SS--E-TT-.SS-E.EGGGS--S-SSS-EEEEEE CS TrmO 1 giPrqpglaeeaeaeielepey..nseealegleefshlwllfvfhenaekklkakvrpprlggnervGvfatRsphRpnpiglsvv 85 g+Prqp++++ ++a +++++++ n+e++l gle+fsh+w+lfvfh+n + ++kakv+pprl+g +++Gvf+tRsphRpn+igl+++ tr|Q5T112|Q5T112_HUMAN 44 GTPRQPSICSYSRACLRIRKRIfnNPEHSLMGLEQFSHVWILFVFHKNGHLSCKAKVQPPRLNG-AKTGVFSTRSPHRPNAIGLTLA 129 79*****************987657899********************99999**********9.666******************* PP EEEEEE..T CS TrmO 86 klekve..g 92 klekve g tr|Q5T112|Q5T112_HUMAN 130 KLEKVEalG 138 *****9553 PP >> tr|Q5T114|Q5T114_HUMAN Chromosome 9 open reading frame 156, isoform CRA_b OS=Homo sapiens GN=C9orf156 PE=2 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 19.1 0.2 3.2e-07 0.0057 102 119 .] 1 18 [. 1 18 [. 0.94 Alignments for each domain: == domain 1 score: 19.1 bits; conditional E-value: 3.2e-07 --TT-EEEEEEE--HHHH CS TrmO 102 lldgtpvlDiKPYvpyaD 119 +++gtpvlDiKPY++++D tr|Q5T114|Q5T114_HUMAN 1 MIHGTPVLDIKPYIAEYD 18 689************999 PP >> sp|Q96NR2|C2AS1_HUMAN Putative uncharacterized protein C20orf166-AS1 OS=Homo sapiens GN=C20orf166-AS1 PE=2 SV=3 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.4 0.0 7.8e-05 1.4 67 92 .. 81 107 .. 61 115 .. 0.82 Alignments for each domain: == domain 1 score: 11.4 bits; conditional E-value: 7.8e-05 EGGGS--S-SSS-EEEEEEEEEEEE.T CS TrmO 67 GvfatRsphRpnpiglsvvklekve.g 92 G +a R+ +pnp+g+sv ++ + + g sp|Q96NR2|C2AS1_HUMAN 81 GPLAPRARRHPNPLGMSVLRMWHTRpG 107 7899***************99877643 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (119 nodes) Target sequences: 88473 (35070517 residues searched) Passed MSV filter: 1095 (0.0123767); expected 1769.5 (0.02) Passed bias filter: 1021 (0.0115402); expected 1769.5 (0.02) Passed Vit filter: 55 (0.000621659); expected 88.5 (0.001) Passed Fwd filter: 5 (5.65144e-05); expected 0.9 (1e-05) Initial search space (Z): 88473 [actual number of targets] Domain search space (domZ): 5 [number of targets reported over threshold] # CPU time: 0.34u 0.02s 00:00:00.36 Elapsed: 00:00:00.20 # Mc/sec: 20866.96 // [ok]