Params: release/cmzasha --no-stderr --filter 180 10 /home/kasiaw/Rfam_7.0/CM/RF00015.cm /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta 1 specfile /home/kasiaw/results/Tetrahymena_thermophila.fasta/RF00015_U4/RF00015_at10.filterspec Build: release Host: cs012 pid: 30808 ---time: Mon Jul 4 05:26:56 2005 ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----specfile: hmm /home/kasiaw/Rfam_7.0_filters/RF00015_Saureus_compact.hmm hmm /home/kasiaw/Rfam_7.0_filters/RF00015_Saureus_expanded.hmm 2struct-str /home/kasiaw/Rfam_7.0_filters/RF00015_Saureus_expanded.hmm 1/remember-nuc,34,l-AG-CU-_,60,l-ACGU-_,59,r-ACGU-_,94,l-ACGU-_,93,l-ACGU-_,118,l-AG-CU-_,117,r-ACGU-_ ----hmm-from-cmFileName: /home/kasiaw/Rfam_7.0/CM/RF00015.cm ----hmm-build-info: ;(default construction of HMM) Params: release/cmzasha --create-rigorous-filter 180 10 /home/kasiaw/Rfam_7.0/CM/RF00015.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: node004 pid: 14024 ;Params: release/cmzasha --create-rigorous-filter 180 10 /home/kasiaw/Rfam_7.0/CM/RF00015.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: node004 pid: 14024 ----2struct-info: only-hmm ----hmm-from-cmFileName: /home/kasiaw/Rfam_7.0/CM/RF00015.cm ----hmm-build-info: ;(default construction of HMM) Params: release/cmzasha --create-rigorous-filter 180 10 /home/kasiaw/Rfam_7.0/CM/RF00015.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: node004 pid: 14024 ;Params: release/cmzasha --create-rigorous-filter 180 10 /home/kasiaw/Rfam_7.0/CM/RF00015.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: node004 pid: 14024 ----2struct-info: only-hmm Exploded HMM has 1137 states ----hmm-from-cmFileName: /home/kasiaw/Rfam_7.0/CM/RF00015.cm ----hmm-build-info: ;(default construction of HMM) Params: release/cmzasha --create-rigorous-filter 180 10 /home/kasiaw/Rfam_7.0/CM/RF00015.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: node004 pid: 14024 ;Params: release/cmzasha --create-rigorous-filter 180 10 /home/kasiaw/Rfam_7.0/CM/RF00015.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: node004 pid: 14024 ----2struct-info: 1/remember-nuc,34,l-AG-CU-_/remember-nuc,60,l-ACGU-_/remember-nuc,59,r-ACGU-_/remember-nuc,94,l-ACGU-_/remember-nuc,93,l-ACGU-_/remember-nuc,118,l-AG-CU-_/remember-nuc,117,r-ACGU-_ ----cmFile: /home/kasiaw/Rfam_7.0/CM/RF00015.cm (global) ----CM-scanning-logic: Infernal-0.55 ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #1633,emb|8254594| 762169 bp 6 contigs ----isReversed: 0 ----hitSequence: AACCUCGCGACAGGGGCAAUAUAGCAGCAAGUGACGGUUAACUGAUGCGCUAUUAUUGCUAGUUGAAAACUACUUCAAUAAGUGGAAACGACGCUUGCGUCGGGUCCCAAUUUCUGGAAGGUCGUAUGAC ----ssRNAplot: .................((.(((((.(((................))))))))..))....((((..........))))..(((..(((((((....))))))).)))............((((..)))) ----hitGC: 0.469231 ----pairStats: 31,3,2,3 hit 0 : 336229 336358 (fwd) 92.65 bits ::::::::::.::::::<<-<<<<<-<<<________________>>>>>>>>-->>,,, 1 AuCUUUGCGC.AGGGGCaaUaucguAgccAGUGAGGcUuuaCCGAggcgcgauUAuuGCU 59 A C U GCG AGGGGCAAUAU:G:AGC:AGUGA G UU+AC+GA:GC:C:AUUAUUGCU 336229 AACCUCGCGAcAGGGGCAAUAUAGCAGCAAGUGACGGUUAACUGAUGCGCUAUUAUUGCU 336288 ,<<<<___________>>>>,,,,,<<<<<<<<<<<<<______>>>>>>>>>>->>>,, 60 AgUugAAAACUAUUCCcaAccgCCCgccaagacgacauguuauauugucggcuuuggcAA 119 A:UUGAAAACUA U CAA:+ G:++A:ACGAC: +UU+ :GUCGG: U+:CAA 336289 AGUUGAAAACUACUU-CAAUAA---GUGGAAACGACG-CUUG---CGUCGGG--UCCCAA 336338 ,,,,,,,,,,<<<<____>>>> 120 UUUUUGGAAGcccuccAaaggg 141 UUU+UGGAAG::C:++ :G:: 336339 UUUCUGGAAGGUCGUA--UGAC 336358 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #1633,emb|8254594| 762169 bp 6 contigs ----isReversed: 0 ----hitSequence: AUCCUCGCGCAGAGGGGCAUUAUAGUAGCAAGUGAAGUAUUAACUGAUGCACUAUUAUUGCUAAUUGAGAACUAUGUUCGAUAAAUUGACUUUAAGUGUAAACUUAUUGGCAUAAUUUCUGAAGGGUCUUAUGGAC ----ssRNAplot: ..................((.(((((.(((.................))))))))..))....((((...........))))..(((..((((((((....)))))))).)))............((((...)))) ----hitGC: 0.360294 ----pairStats: 31,2,2,4 hit 1 : 337644 337779 (fwd) 58.22 bits ::::::::::..::::::<<-<<<<<-<<<___________._____>>>>>>>>-->>, 1 AuCUUUGCGC..AGGGGCaaUaucguAgccAGUGAGGcUuu.aCCGAggcgcgauUAuuG 57 AUC U GCGC AGGGGCA+UAU:G+AGC:AGUGA G+ UU AC+GA:GC+C:AUUA+UG 337644 AUCCUCGCGCagAGGGGCAUUAUAGUAGCAAGUGAAGUAUUaACUGAUGCACUAUUAUUG 337703 ,,,<<<<___________>>>>,,,,,<<<<<<<<<<<<<______>>>>>>>>>>->>> 58 CUAgUugAAAACUAUUCCcaAccgCCCgccaagacgacauguuauauugucggcuuuggc 117 CUA:U:GA AACUAU C:A:+ :::+A :::A:: GU+A ::U::: ::: 337704 CUAAUUGAGAACUAUGUUCGAUAA---AUUGACUUUAAGUGUAA--ACUUAUUG--GCAU 337756 ,,,,,,,,,,,,<<<<____>>>> 118 AAUUUUUGGAAGcccuccAaaggg 141 AAUUU+UG+A G::C:++ :G:: 337757 AAUUUCUGAAGGGUCUUA-UGGAC 337779 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #1633,emb|8254594| 762169 bp 6 contigs ----isReversed: 0 ----hitSequence: AUCCUCGCGCAGAGGGGCAUUAUAGAAGCAAGUGAAGUAUUAACUGAUGCUCUAUUAUUGCUAAUUGAGAACUAUGUUCGAUAAAUUGACUUUAAGUGUAAACUUAUUGGCAUAAUUUCUGAAGGGUCUUAUGGAC ----ssRNAplot: ..................((.(((((.(((.................))))))))..))....((((...........))))..(((..((((((((....)))))))).)))............((((...)))) ----hitGC: 0.360294 ----pairStats: 31,2,2,4 hit 2 : 338505 338640 (fwd) 59.09 bits ::::::::::..::::::<<-<<<<<-<<<___________._____>>>>>>>>-->>, 1 AuCUUUGCGC..AGGGGCaaUaucguAgccAGUGAGGcUuu.aCCGAggcgcgauUAuuG 57 AUC U GCGC AGGGGCA+UAU:G:AGC:AGUGA G+ UU AC+GA:GC:C:AUUA+UG 338505 AUCCUCGCGCagAGGGGCAUUAUAGAAGCAAGUGAAGUAUUaACUGAUGCUCUAUUAUUG 338564 ,,,<<<<___________>>>>,,,,,<<<<<<<<<<<<<______>>>>>>>>>>->>> 58 CUAgUugAAAACUAUUCCcaAccgCCCgccaagacgacauguuauauugucggcuuuggc 117 CUA:U:GA AACUAU C:A:+ :::+A :::A:: GU+A ::U::: ::: 338565 CUAAUUGAGAACUAUGUUCGAUAA---AUUGACUUUAAGUGUAA--ACUUAUUG--GCAU 338617 ,,,,,,,,,,,,<<<<____>>>> 118 AAUUUUUGGAAGcccuccAaaggg 141 AAUUU+UG+A G::C:++ :G:: 338618 AAUUUCUGAAGGGUCUUA-UGGAC 338640 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #1633,emb|8254594| 762169 bp 6 contigs ----isReversed: 0 ----hitSequence: AUCCUCGCGCAGAGGGGCAUUAUGGAAGCAUGUGAAGUAUUAACUGAUGCACUAUUAUUGCUAAUUGAGAACUAUGUUCGAUAAAUUGGUAUUGAGUUUAAACUUAUUACCAUCAUUUCUGAAGAGUCUUAUGGAC ----ssRNAplot: ..................((.(((((.(((.................))))))))..))....((((...........))))..(((.((.(((((......))))))).)))............((((...)))) ----hitGC: 0.360294 ----pairStats: 31,3,4,6 hit 3 : 339192 339327 (fwd) 41.93 bits ::::::::::..::::::<<-<<<<<-<<<___________._____>>>>>>>>-->>, 1 AuCUUUGCGC..AGGGGCaaUaucguAgccAGUGAGGcUuu.aCCGAggcgcgauUAuuG 57 AUC U GCGC AGGGGCA+UAU+G AGC: GUGA G+ UU AC+GA:GC C+AUUA+UG 339192 AUCCUCGCGCagAGGGGCAUUAUGGAAGCAUGUGAAGUAUUaACUGAUGCACUAUUAUUG 339251 ,,,<<<<___________>>>>,,,,,<<<.<<<<<<<<<<______>>>>>>>>>>->> 58 CUAgUugAAAACUAUUCCcaAccgCCCgcc.aagacgacauguuauauugucggcuuugg 116 CUA:U:GA AACUAU C:A:+ ::: :+ + : A: UUA A:U : +: :: 339252 CUAAUUGAGAACUAUGUUCGAUAA---AUUgGU--AUUGAGUUUAAACUUAU---UACCA 339303 >,,,,,,,,,,,,<<<<____>>>> 117 cAAUUUUUGGAAGcccuccAaaggg 141 : AUUU+UG+A ::C:++ :G:: 339304 UCAUUUCUGAAGAGUCUUA-UGGAC 339327 ----endhit Found 4 hits. done 2.08166e+08 nucs (frac lets thru so far=0.000465325066, 2d-fracLetsThru=0.000245179). Filter report: done 2.08166e+08 nucs (frac lets thru so far=0.0378314442, 2d-fracLetsThru=0.0205118). Filter report: done 7.87523e+06 nucs (frac lets thru so far=0.0264694424, 2d-fracLetsThru=0.0256589). Filter report: done 208453 nucs (frac lets thru so far=0.464685085, 2d-fracLetsThru=0.465843). FULL: done 2.08166e+08 nucs (frac lets thru so far=0.000465325066, 2d-fracLetsThru=0.000245179). CPU time: 7328.76u 2.47s 02:02:11.23 Elapsed: 02:02:27 DONEdoneDONEdone