Params: release/cmzasha --no-stderr --local --filter 250 20 /home/kasiaw/Rfam_7.0/CM/RF00003.cm /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta 1 specfile /home/kasiaw/results/Tetrahymena_thermophila.fasta/RF00003_U1/RF00003_250_0.01.filterspec Build: release Host: node007 pid: 26881 ---time: Mon Jul 4 05:26:54 2005 ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----specfile: heur-hmm /home/kasiaw/Rfam_7.0_filters/RF00003_heur.hmm 7.84816551 ----hmm-from-cmFileName: /home/kasiaw/Rfam_7.0/CM/RF00003.cm ----hmm-build-info: ;(default construction of HMM) Params: release/cmzasha --no-stderr --local --create-heuristic-hmm 250 /home/kasiaw/Rfam_7.0/CM/RF00003.cm 0.01 data/default.heurcreationspec /home/kasiaw/Rfam_7.0_filters Build: release Host: cs003 pid: 16282 ;Params: release/cmzasha --no-stderr --local --create-heuristic-hmm 250 /home/kasiaw/Rfam_7.0/CM/RF00003.cm 0.01 data/default.heurcreationspec /home/kasiaw/Rfam_7.0_filters Build: release Host: cs003 pid: 16282 ;Params: release/cmzasha --no-stderr --local --create-heuristic-hmm 250 /home/kasiaw/Rfam_7.0/CM/RF00003.cm 0.01 data/default.heurcreationspec /home/kasiaw/Rfam_7.0_filters Build: release Host: cs003 pid: 16282 ----2struct-info: only-hmm ----cmFile: /home/kasiaw/Rfam_7.0/CM/RF00003.cm (local) ----CM-scanning-logic: Infernal-0.55 ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #676,emb|8254650| 1231906 bp 7 contigs ----isReversed: 0 ----hitSequence: UUACUUACCUGGCUGGAGUUUGCUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCAGGUCAUUGCACAAAAGAUGUCUGUAAUACCUUAUUGUUCCCCGUGCGGGGAACCGAAACAGCACAAUUUCUGCUAGGGGAGACGUGCACUUAGUGCUGUCUCCGC ----ssRNAplot: ...........(((((((((.((((((..........)))))))))))(((......(((.((...........))..).)).....)))..((((.(((.....))))...)))..))))..............(((((..(((((.....))))).))))). ----hitGC: 0.506098 ----pairStats: 40,0,7,3 hit 0 : 330349 330512 (fwd) 95.20 bits :::::::::::((((<<<<<.<-<<<<<__________>>>>>>>>>>><<<------<< 1 AUACUUACCUGGccGggGuc.aAuggguGAUCAAGAAGgcccauggCcuagGuUaGggcc 59 UACUUACCUGGC:GG:GU: : :::::GAUCA GAAG:::::::GC:UAGG U+G GC: 330349 UUACUUACCUGGCUGGAGUUuG-CUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCA 330407 <-<<_________._>>-->.>->----->>>,.<<<<-<-<<____.__>>->>--->> 60 cucCAUUGCACUU.cGgaGg.gGgcugacCcua.uGaucgcCCCAAA.GUGGuugaAcuC 115 :+:CAUUGCAC +G:+G: : G + CCU+ U::U+: CCC G GG :GAAC:: 330408 GGUCAUUGCACAAaAGAUGUcU-GUAAUACCUUaUUGUUC-CCC--GuGCGG-GGAACCG 330462 >.,))))---------------<<<<<--<<<<<__.__>>>>>->>>>>: 116 a.ACggCAUAAUUUgUGgUAGcggGGgGcccGCGUU.CGCGCggCcCCcuc 164 A AC:GCA AAUUU UG UAG GG:G C :GC: U G:GC: C:CC C 330463 AaACAGCACAAUUUCUGCUAG-GGGAGACGUGCACUuAGUGCUGUCUCCGC 330512 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #676,emb|8254650| 1231906 bp 7 contigs ----isReversed: 0 ----hitSequence: UUACUUACCUGGCUGGAGUUAGCUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCAGGUCAUUGCACAAAAGAUGUCUGUAAUACCUUAUUGUUCCCCGUGCGGGGAACCGAAACAGCACAAUUUCUGCUAGGGGAGACGUGCACUUAGUGCUGUCUCCGC ----ssRNAplot: ...........(((((((((.((((((..........)))))))))))(((......(((.((...........))..).)).....)))..((((.(((.....))))...)))..))))..............(((((..(((((.....))))).))))). ----hitGC: 0.506098 ----pairStats: 40,0,7,3 hit 1 : 346220 346383 (fwd) 95.20 bits :::::::::::((((<<<<<.<-<<<<<__________>>>>>>>>>>><<<------<< 1 AUACUUACCUGGccGggGuc.aAuggguGAUCAAGAAGgcccauggCcuagGuUaGggcc 59 UACUUACCUGGC:GG:GU: : :::::GAUCA GAAG:::::::GC:UAGG U+G GC: 346220 UUACUUACCUGGCUGGAGUUaG-CUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCA 346278 <-<<_________._>>-->.>->----->>>,.<<<<-<-<<____.__>>->>--->> 60 cucCAUUGCACUU.cGgaGg.gGgcugacCcua.uGaucgcCCCAAA.GUGGuugaAcuC 115 :+:CAUUGCAC +G:+G: : G + CCU+ U::U+: CCC G GG :GAAC:: 346279 GGUCAUUGCACAAaAGAUGUcU-GUAAUACCUUaUUGUUC-CCC--GuGCGG-GGAACCG 346333 >.,))))---------------<<<<<--<<<<<__.__>>>>>->>>>>: 116 a.ACggCAUAAUUUgUGgUAGcggGGgGcccGCGUU.CGCGCggCcCCcuc 164 A AC:GCA AAUUU UG UAG GG:G C :GC: U G:GC: C:CC C 346334 AaACAGCACAAUUUCUGCUAG-GGGAGACGUGCACUuAGUGCUGUCUCCGC 346383 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #676,emb|8254650| 1231906 bp 7 contigs ----isReversed: 0 ----hitSequence: UUACUUACCUGGCUGGAGUUAGCUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCAGGUCAUUGCACAAAAGAUGUCUGUAAUACCUUAUUGUUCCCCGUGCGGGGAACCGAAACAGCACAAUUUCUGCUAGGGGAGACGUGCACUUAGUGCUGUCUCCGC ----ssRNAplot: ...........(((((((((.((((((..........)))))))))))(((......(((.((...........))..).)).....)))..((((.(((.....))))...)))..))))..............(((((..(((((.....))))).))))). ----hitGC: 0.506098 ----pairStats: 40,0,7,3 hit 2 : 359115 359278 (fwd) 95.20 bits :::::::::::((((<<<<<.<-<<<<<__________>>>>>>>>>>><<<------<< 1 AUACUUACCUGGccGggGuc.aAuggguGAUCAAGAAGgcccauggCcuagGuUaGggcc 59 UACUUACCUGGC:GG:GU: : :::::GAUCA GAAG:::::::GC:UAGG U+G GC: 359115 UUACUUACCUGGCUGGAGUUaG-CUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCA 359173 <-<<_________._>>-->.>->----->>>,.<<<<-<-<<____.__>>->>--->> 60 cucCAUUGCACUU.cGgaGg.gGgcugacCcua.uGaucgcCCCAAA.GUGGuugaAcuC 115 :+:CAUUGCAC +G:+G: : G + CCU+ U::U+: CCC G GG :GAAC:: 359174 GGUCAUUGCACAAaAGAUGUcU-GUAAUACCUUaUUGUUC-CCC--GuGCGG-GGAACCG 359228 >.,))))---------------<<<<<--<<<<<__.__>>>>>->>>>>: 116 a.ACggCAUAAUUUgUGgUAGcggGGgGcccGCGUU.CGCGCggCcCCcuc 164 A AC:GCA AAUUU UG UAG GG:G C :GC: U G:GC: C:CC C 359229 AaACAGCACAAUUUCUGCUAG-GGGAGACGUGCACUuAGUGCUGUCUCCGC 359278 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #676,emb|8254650| 1231906 bp 7 contigs ----isReversed: 0 ----hitSequence: UAAAUUACAAUGUUGUAGUUAGCUAUAUAUCAAAAAAUAUAGCAACUAAGGUGGAGCAAGUCAUUGUACUAAAGAUGUUUGUAAUACCUUGAUGUUCCCGCUGGGAGCAAUAACAACAAAAUUUCUGAUUGGAAAUAGUCAUUAAACUAACUGGCUAUUUC ----ssRNAplot: ...........(((((((((.((((((..........)))))))))))(((.....(((.((...........))..)).).....)))..((.(.((....)).))...)..))))...............(((((..(?????????????).))))). ----hitGC: 0.31677 ----pairStats: 36,2,1,0 hit 3 : 373766 373926 (fwd) 48.79 bits :::::::::::((((<<<<<.<-<<<<<__________>>>>>>>>>>><<<------<< 1 AUACUUACCUGGccGggGuc.aAuggguGAUCAAGAAGgcccauggCcuagGuUaGggcc 59 A UUAC G::G::G:: : ::::: AUCAA AA ::::::::C::AGG U+G GC: 373766 UAAAUUACAAUGUUGUAGUUaG-CUAUAUAUCAAAAAAUAUAGCAACUAAGG-UGGAGCA 373823 <-<<_________._>>-->>->----->>>,.<<<<-<-<<______>>->>--->>>, 60 cucCAUUGCACUU.cGgaGggGgcugacCcua.uGaucgcCCCAAAGUGGuugaAcuCaA 117 :+:CAUUG ACU +G:+G::+G + CCU+ AU : CCC UGG+:G A U+ A 373824 AGUCAUUGUACUAaAGAUGUUUGUAAUACCUUg--AUGUUCCCGC--UGGGAGCAAUA-A 373878 ))))--------------.-<<<<<--<~~~~~~>->>>>>: 118 CggCAUAAUUUgUGgUAG.cggGGgGcc*[12]*gCcCCcuc 164 C::CA AAUUU UG U+G :::::G C GC:::::C 373879 CAACAAAAUUUCUGAUUGg-AAAUAGUC*[13]*GCUAUUUC 373926 ----endhit ----fastaFile: /home/kasiaw/Tetrahymena_thermophila/Tetrahymena_thermophila.fasta ----sequence: #676,emb|8254650| 1231906 bp 7 contigs ----isReversed: 0 ----hitSequence: UUACUUACCUGGCUGGAGUUAGCUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCAGGUCAUUGCACAAAAGAUGUCUGUAAUACCUUAUUGUUCCCCGUGCGGGGAACCGAAACAGCACAAUUUCUGCUAGGGGAGACGUGCACUUAGUGCUGUCUCCGC ----ssRNAplot: ...........(((((((((.((((((..........)))))))))))(((......(((.((...........))..).)).....)))..((((.(((.....))))...)))..))))..............(((((..(((((.....))))).))))). ----hitGC: 0.506098 ----pairStats: 40,0,7,3 hit 4 : 375189 375352 (fwd) 95.20 bits :::::::::::((((<<<<<.<-<<<<<__________>>>>>>>>>>><<<------<< 1 AUACUUACCUGGccGggGuc.aAuggguGAUCAAGAAGgcccauggCcuagGuUaGggcc 59 UACUUACCUGGC:GG:GU: : :::::GAUCA GAAG:::::::GC:UAGG U+G GC: 375189 UUACUUACCUGGCUGGAGUUaG-CUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCA 375247 <-<<_________._>>-->.>->----->>>,.<<<<-<-<<____.__>>->>--->> 60 cucCAUUGCACUU.cGgaGg.gGgcugacCcua.uGaucgcCCCAAA.GUGGuugaAcuC 115 :+:CAUUGCAC +G:+G: : G + CCU+ U::U+: CCC G GG :GAAC:: 375248 GGUCAUUGCACAAaAGAUGUcU-GUAAUACCUUaUUGUUC-CCC--GuGCGG-GGAACCG 375302 >.,))))---------------<<<<<--<<<<<__.__>>>>>->>>>>: 116 a.ACggCAUAAUUUgUGgUAGcggGGgGcccGCGUU.CGCGCggCcCCcuc 164 A AC:GCA AAUUU UG UAG GG:G C :GC: U G:GC: C:CC C 375303 AaACAGCACAAUUUCUGCUAG-GGGAGACGUGCACUuAGUGCUGUCUCCGC 375352 ----endhit ----hitSequence: UUACUUACCUGGCUGGAGUUAGCUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCAGGUCAUUGCACAAAAGAUGUCUGUAAUACCUUAUUGUUCCCCGUGCGGGGAACCGAAACAGCACAAUUUCUGCUAGGGGAGACGUGCACUUAGUGCUGUCUCCGC ----ssRNAplot: ...........(((((((((.((((((..........)))))))))))(((......(((.((...........))..).)).....)))..((((.(((.....))))...)))..))))..............(((((..(((((.....))))).))))). ----hitGC: 0.506098 ----pairStats: 40,0,7,3 hit 5 : 374564 374727 (fwd) 95.20 bits :::::::::::((((<<<<<.<-<<<<<__________>>>>>>>>>>><<<------<< 1 AUACUUACCUGGccGggGuc.aAuggguGAUCAAGAAGgcccauggCcuagGuUaGggcc 59 UACUUACCUGGC:GG:GU: : :::::GAUCA GAAG:::::::GC:UAGG U+G GC: 374564 UUACUUACCUGGCUGGAGUUaG-CUAUCGAUCAUGAAGGGUAGCGGCUUAGGGUGGAGCA 374622 <-<<_________._>>-->.>->----->>>,.<<<<-<-<<____.__>>->>--->> 60 cucCAUUGCACUU.cGgaGg.gGgcugacCcua.uGaucgcCCCAAA.GUGGuugaAcuC 115 :+:CAUUGCAC +G:+G: : G + CCU+ U::U+: CCC G GG :GAAC:: 374623 GGUCAUUGCACAAaAGAUGUcU-GUAAUACCUUaUUGUUC-CCC--GuGCGG-GGAACCG 374677 >.,))))---------------<<<<<--<<<<<__.__>>>>>->>>>>: 116 a.ACggCAUAAUUUgUGgUAGcggGGgGcccGCGUU.CGCGCggCcCCcuc 164 A AC:GCA AAUUU UG UAG GG:G C :GC: U G:GC: C:CC C 374678 AaACAGCACAAUUUCUGCUAG-GGGAGACGUGCACUuAGUGCUGUCUCCGC 374727 ----endhit Found 6 hits. done 2.08166e+08 nucs (frac lets thru so far=0.0100029925, 2d-fracLetsThru=0.00765563). Filter report: done 2.08166e+08 nucs (frac lets thru so far=0.0100029925, 2d-fracLetsThru=0.00765563). FULL: done 2.08166e+08 nucs (frac lets thru so far=0.0100029925, 2d-fracLetsThru=0.00765563). CPU time: 37645.27u 11.76s 10:27:37.02 Elapsed: 10:27:42 DONEdoneDONEdone