Params: release/cmzasha --no-stderr --filter 350 58 /home/kasiaw/Rfam_7.0/CM/RF00017.cm /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta 1 specfile /home/kasiaw/results/Tetrahymena_thermophila.fasta/RF00017_SRP_euk_arch/RF00017_at58.filterspec Build: release Host: cs014 pid: 8099 ---time: Mon Jul 4 05:26:55 2005 ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----specfile: 2struct-str /home/kasiaw/Rfam_7.0_filters/RF00017_Bordetella_expanded.hmm 1/sub,10,44/sub,180,48/sub,223,43 2struct-str /home/kasiaw/Rfam_7.0_filters/RF00017_Bordetella_expanded.hmm 1/sub,10,44/sub,171,93/sub,219,64 2struct-str /home/kasiaw/Rfam_7.0_filters/RF00017_Bordetella_expanded.hmm 1/sub,10,44/sub,167,110/sub,215,84 ----hmm-from-cmFileName: /home/kasiaw/Rfam_7.0/CM/RF00017.cm ----hmm-build-info: ;(default construction of HMM) Params: release/cmzasha --create-rigorous-filter 350 58 /home/kasiaw/Rfam_7.0/CM/RF00017.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: cs009 pid: 26263 ;Params: release/cmzasha --create-rigorous-filter 350 58 /home/kasiaw/Rfam_7.0/CM/RF00017.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: cs009 pid: 26263 ----2struct-info: 1/sub,10,44/sub,180,48/sub,223,43 ----hmm-from-cmFileName: /home/kasiaw/Rfam_7.0/CM/RF00017.cm ----hmm-build-info: ;(default construction of HMM) Params: release/cmzasha --create-rigorous-filter 350 58 /home/kasiaw/Rfam_7.0/CM/RF00017.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: cs009 pid: 26263 ;Params: release/cmzasha --create-rigorous-filter 350 58 /home/kasiaw/Rfam_7.0/CM/RF00017.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: cs009 pid: 26263 ----2struct-info: 1/sub,10,44/sub,171,93/sub,219,64 ----hmm-from-cmFileName: /home/kasiaw/Rfam_7.0/CM/RF00017.cm ----hmm-build-info: ;(default construction of HMM) Params: release/cmzasha --create-rigorous-filter 350 58 /home/kasiaw/Rfam_7.0/CM/RF00017.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: cs009 pid: 26263 ;Params: release/cmzasha --create-rigorous-filter 350 58 /home/kasiaw/Rfam_7.0/CM/RF00017.cm /home/kasiaw/Rfam_7.0_filters data/default.filtercreationspec Build: release Host: cs009 pid: 26263 ----2struct-info: 1/sub,10,44/sub,167,110/sub,215,84 ----cmFile: /home/kasiaw/Rfam_7.0/CM/RF00017.cm (global) ----CM-scanning-logic: Infernal-0.55 ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #847,emb|8254688| 757561 bp 3 contigs ----isReversed: 0 ----hitSequence: GCCAGGGUAGCAAUACCUGUGUCUAUAUGUGGCAUAAACAAUGUAGGUUGUGAUAGAUAGGAUAUGAGAGUUUGAUGAGACAGUUUGCUAAGAGUGUGCCCGCUCCAAACAAUGAGUUGCUAUGGUGGUAACCUAGUAAUAGGACUCCACCAGGGCAUUAAAGAGCUAAGGAAACGCCUCAGGCUGGCAACAGAACAGGGAAAACUUGCCGCUUGUUGUGGUGGAAGGAUAACAUACUCAUUAACUGUCAAACUAAUCGUUCUACUAUCAAAGCCAGACAUUGCUUUU ----ssRNAplot: (((..(((......))).....(((..)))))).((((((((.((..((.(((.............((.((...((((......((.....((((((..((..(((..((((((((.((((((((((((((((((....))))))))))))))))))........(((((......(((..(.(((....)))..).)))....)))))..))))))))...))).)).....))))))..))....)))).......)).))....)))))..))...)))))))). ----hitGC: 0.434028 ----pairStats: 86,3,9,11 hit 0 : 155342 155629 (fwd) 80.50 bits (((.,<<<<__________>>>>,,,,,<<<____>>>)))----((((((((---((-- 1 GCC.GGGcgguguGGCGugcgCCUGUAACCCgaGcGGGGGCcgAAgccugguGgGAguGg 59 GCC GGG: +GC + :CCUGU :: :: GGC A::: :: :G : GG 155342 GCCaGGGU-----AGCAAU-ACCUGUGUCUA-UA-UGUGGC---AUAAACAAUG--UAGG 155388 ((-(((((--.......----((-((----((((------((------((((((--((-- 60 cuGggucggc.......cccgcggggucggcccuggggguaugcUuGaaggcccGCcCcu 112 :UG U::+ + G:G ::U G::::G GU: GCU+ A+:G: :GCCC + 155389 UUG--UGAUAgauaggaUAUGAGAGUUU-GAUGAGACAGUUUGCUA-AGAGUGUGCCCGC 155444 (((--((((((((,<<<<<<<<<<<<<<<<<<____>>>>>>>>>>>>>>>>>>,,.,,, 113 uCcaAGcccggaGUuggcgggguggccccgccGgAGggcggggccaccccgccuCU.AAA 171 UCCAA:C::::AGU+G::::GGUGG:::C:::G A+:::G:::CCACC::::C+ U AA+ 155445 UCCAAACAAUGAGUUGCUAUGGUGGUAACCUAGUAAUAGGACUCCACCAGGGCAUUaAAG 155504 ,,<<<<<------<<<--<-<<<____>>>-->->>>---->>>>>,,))))))))---) 172 GugggggGaACCGcGucAGGCccGgAAggGAGCAgCgaaaAccccccgCuccgggCGGUg 231 ::GGAA+CGC:UCAGGC::G AA::GA CAG:GAAAAC:: CGCU::::G:GGUG 155505 AGCUAAGGAAACGCCUCAGGCUGGCAACAGAACAGGGAAAACUUGCCGCUUGUUGUGGUG 155564 ))-))---.-))))))----))------))))-------))-))---.-)))))--))-- 232 GagGgAUa.CgggccgGGAgaucaaaccagggccucuGGccucgagG.ccgaccacaguc 289 GA+GGAUA C: :C:+ A : ++ ::::+CU+ ::UC:A ::A A: C 155565 GAAGGAUAaCAUACUC--AUUAA--CUGUCAAACUAAUCGUUCUAC-uAUCA----AAGC 155615 ))---)))))))): 290 aaGACCaccaggcU 303 :GAC: :: :::U 155616 CAGACAUUGCUUUU 155629 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #1622,emb|8254737| 250189 bp 3 contigs ----isReversed: 1 ----hitSequence: GCCAGGGCAGCAAUGCCUGUGACUUCGGUGGCAUAUACAGUGUAGGAGAGAAUAGUCAGGGUAUGAGAGUUUGAUGAGACAGUUUGCUAAGAGUGUGCCCGCUCCAAACAAUGAGUUGCUAUGGUGGUAACCUAGUAAUAGGACUCCACCAGGGCAUUAAAGAGCUGAGGAAACGCCUCAGGCUGGCAACAGAACAGGGAAAACUCGCCGCUUGUUGUGGUGGAAGGAUAACAUACUCAUUAACUGUCAAGCUAAUCGCUCUGCUAUUCUAGUCUGACACUGCUUU ----ssRNAplot: ((((.........)))).....(((..)))....((((((((.((..((.(((((..........((.((....(((......((.....((((((..((..(((..((((((((.((((((((((((((((((....))))))))))))))))))........(((((......(((..(.(((....)))..).)))....)))))..))))))))...))).)).....))))))..))......)))....)).))...)))))..))..)).)))))))). ----hitGC: 0.479021 ----pairStats: 86,4,9,16 hit 1 : 177398 177113 (rev) 88.06 bits (((,<<<<__________>>>>,,,,,<<<____>>>)))----((((((((---((--( 1 GCCGGGcgguguGGCGugcgCCUGUAACCCgaGcGGGGGCcgAAgccugguGgGAguGgc 60 G C:G G++GC :G CUGU AC:: +G ::GG++ :+ ::GUG ::G 72792 ----GCCAGGGCAGCA-AUGCCUGUGACUU-CG-GUGGCA---UAUACAGUGU--AGGAG 72839 (-(((((--....----((-((----((((------((------((((((--((--(((- 61 uGggucggc....cccgcggggucggcccuggggguaugcUuGaaggcccGCcCcuuCca 116 G::U:G+C + G:G G U G+ +:G GU: GCU+ A+:G: :GCCC +UCCA 72840 AGAAUAGUCagggUAUGAGAGUUU-GAUGAGACAGUUUGCUA-AGAGUGUGCCCGCUCCA 72897 -((((((((,<<<<<<<<<<<<<<<<<<____>>>>>>>>>>>>>>>>>>,,.,,,,,<< 117 AGcccggaGUuggcgggguggccccgccGgAGggcggggccaccccgccuCU.AAAGugg 175 A:C::::AGU+G::::GGUGG:::C:::G A+:::G:::CCACC::::C+ U AA+ 72898 AACAAUGAGUUGCUAUGGUGGUAACCUAGUAAUAGGACUCCACCAGGGCAUUaAAGAGCU 72957 <<<------<<<--<-<<<____>>>-->->>>---->>>>>,,))))))))---)))-) 176 gggGaACCGcGucAGGCccGgAAggGAGCAgCgaaaAccccccgCuccgggCGGUgGagG 235 G:GGAA+CGC:UCAGGC::G AA::GA CAG:GAAAAC:C CGCU::::G:GGUGGA+G 72958 GAGGAAACGCCUCAGGCUGGCAACAGAACAGGGAAAACUCGCCGCUUGUUGUGGUGGAAG 73017 )---.-))))))----))------))))-------))-))----)))))--))--))--- 236 gAUa.CgggccgGGAgaucaaaccagggccucuGGccucgagGccgaccacagucaaGAC 294 GAUA C: :C:+ A : +C:+ CU C+C:++ +C:A::++ UC:: 73018 GAUAaCAUACUC--AUUAACUGUCAAG----CUAAUCGCUCU-GCUAUUCUAGUCUG--A 73068 )))))))): 295 CaccaggcU 303 CAC:: +:U 73069 CACUGCUUU 73077 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #1622,emb|8254737| 250189 bp 3 contigs ----isReversed: 1 ----hitSequence: GCCAGGGCAGCAAUGCCUGUGACUUAGGUGGCAUAUACAGUGUAGGGUAAAAUAGUCAGGGUAUGAGAGUUUGAUGAGACAGUUUGCUAAGAGUGUGCCCGCUCCAAACAAUGAGUUGCUAUGGUGGUAACCUAGUAAUAGGACUCCACCAGGGCAUUAAAGAGCUGAGGAAACGCCUCAGGCUGGCAACAGAACAGGGAAAACUCGCCGCUUGUUGUGGUGGAAGGAUAACAUACUCAUUAACUGUCAAGCUAAUCGCUCUGCUAUUCUGCUCAGACACUGCUUU ----ssRNAplot: ((((.........)))).....(((..)))....((((((((.((..(((((.............((.((...((((......((.....((((((..((..(((..((((((((.((((((((((((((((((....))))))))))))))))))........(((((......(((..(.(((....)))..).)))....)))))..))))))))...))).)).....))))))..))....)))).......)).))....)))))..))..)))))))). ----hitGC: 0.475524 ----pairStats: 86,5,9,13 hit 2 : 176688 176403 (rev) 87.96 bits (((,<<<<__________>>>>,,,,,<<<____>>>)))----((((((((---((--( 1 GCCGGGcgguguGGCGugcgCCUGUAACCCgaGcGGGGGCcgAAgccugguGgGAguGgc 60 G C:G G++GC :G CUGU AC:: AG ::GG++ :+ ::GUG +:GG 73502 ----GCCAGGGCAGCA-AUGCCUGUGACUU-AG-GUGGCA---UAUACAGUGU--AGGGU 73549 (-(((((--.......----((-((----((((------((------((((((--((--( 61 uGggucggc.......cccgcggggucggcccuggggguaugcUuGaaggcccGCcCcuu 113 : ::+ + G:G G:U G::::G GU: GCU+ A+:G: :GCCC +U 73550 A---AAAUAgucagggUAUGAGAGUUU-GAUGAGACAGUUUGCUA-AGAGUGUGCCCGCU 73604 ((--((((((((,<<<<<<<<<<<<<<<<<<____>>>>>>>>>>>>>>>>>>,,.,,,, 114 CcaAGcccggaGUuggcgggguggccccgccGgAGggcggggccaccccgccuCU.AAAG 172 CCAA:C::::AGU+G::::GGUGG:::C:::G A+:::G:::CCACC::::C+ U AA+ 73605 CCAAACAAUGAGUUGCUAUGGUGGUAACCUAGUAAUAGGACUCCACCAGGGCAUUaAAGA 73664 ,<<<<<------<<<--<-<<<____>>>-->->>>---->>>>>,,))))))))---)) 173 ugggggGaACCGcGucAGGCccGgAAggGAGCAgCgaaaAccccccgCuccgggCGGUgG 232 G:GGAA+CGC:UCAGGC::G AA::GA CAG:GAAAAC:C CGCU::::G:GGUGG 73665 GCUGAGGAAACGCCUCAGGCUGGCAACAGAACAGGGAAAACUCGCCGCUUGUUGUGGUGG 73724 )-))---.-))))))----))------))))-------))-))---.-)))))--))--) 233 agGgAUa.CgggccgGGAgaucaaaccagggccucuGGccucgagG.ccgaccacaguca 290 A+GGAUA C: :C:+ A : ++ :::: CU+ :CUC: :: : +: 73725 AAGGAUAaCAUACUC--AUUAA--CUGUCAAGCUAAUCGCUCUGC-uAUUC----UGCUC 73775 )---)))))))): 291 aGACCaccaggcU 303 +G CAC:: +:U 73776 AG-ACACUGCUUU 73787 ----endhit Found 3 hits. done 2.08166e+08 nucs (frac lets thru so far=6.81186128e-06, 2d-fracLetsThru=4.31129e-06). Filter report: done 2.08166e+08 nucs (frac lets thru so far=6.82146898e-06, 2d-fracLetsThru=4.32093e-06). Filter report: done 1420 nucs (frac lets thru so far=0.999295775, 2d-fracLetsThru=0.998885). Filter report: done 1419 nucs (frac lets thru so far=0.999295278, 2d-fracLetsThru=0.998883). FULL: done 2.08166e+08 nucs (frac lets thru so far=6.81186128e-06, 2d-fracLetsThru=4.31129e-06). CPU time: 141721.43u 30.30s 39:22:31.72 Elapsed: 39:27:47 DONEdoneDONEdone