# 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/TruB_N.hmm.txt # target sequence database: proteomes/Ciona_intestinalis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TruB_N [M=149] Accession: PF01509.17 Description: TruB family pseudouridylate synthase (N terminal domain) 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 3.5e-23 82.5 0.2 5.6e-20 72.1 0.2 3.5 1 tr|F6U2M6|F6U2M6_CIOIN Uncharacterized protein OS=Ciona inte Domain annotation for each sequence (and alignments): >> tr|F6U2M6|F6U2M6_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 ! 72.1 0.2 3.4e-24 5.6e-20 1 149 [] 112 228 .. 112 228 .. 0.91 Alignments for each domain: == domain 1 score: 72.1 bits; conditional E-value: 3.4e-24 HHHTT-S-EEESS---TT-EEEEEEEEGGGGGGHHHCTTS-EEEEEEEEETEEETTSBTTS-EEE-.--TT--HHHHHHHHHHC-EE CS TruB_N 1 krllkakkvGhtGtLDplatGvLvvavgeaTklleylleadKeYeatirlgaetdteDaegeileeekveklteekleevlkkftGe 87 +r+lk++k Gh+GtLDp++tG+L+v+v++aT+l+++ ++a KeY++ +rl+ ++ + kl ++++++tG+ tr|F6U2M6|F6U2M6_CIOIN 112 RRILKVEKTGHSGTLDPKVTGCLIVCVERATRLVKSQQSAGKEYVCIVRLHGVIEN-----------------QLKLARAIETLTGA 181 89************************************************864433.................346999******** PP E---------------------------------EEEEEEEEEEEEEE..EEEEEEEESTTTTH CS TruB_N 88 ieqvppmySAvkvnGkrlyelaregeeverkkrkvtiyelelleveep..evelevecskGtYi 149 + q+pp +SAvk r+ r tiy+ +lle++ + + v+c++GtYi tr|F6U2M6|F6U2M6_CIOIN 182 LFQRPPLISAVK-----------------RQLRVRTIYQSKLLEYDMDkrLGVFWVSCEAGTYI 228 ************.................899999*******9997665578999********8 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (149 nodes) Target sequences: 16678 (5370518 residues searched) Passed MSV filter: 517 (0.0309989); expected 333.6 (0.02) Passed bias filter: 336 (0.0201463); expected 333.6 (0.02) Passed Vit filter: 22 (0.0013191); expected 16.7 (0.001) Passed Fwd filter: 1 (5.99592e-05); expected 0.2 (1e-05) Initial search space (Z): 16678 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] # CPU time: 0.08u 0.00s 00:00:00.08 Elapsed: 00:00:00.04 # Mc/sec: 20005.18 // [ok]