Params: ./cmzasha --no-stderr --filter 200 40 Rfam/cm/RF00168.cm @/projects/bio/zasha/seqs/embl_release76/hum.list 1 hmm data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 2struct-str data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 1/remember-nuc,56,l-ACGU-_,54,l-AG_-CU,93,l-ACU-G_,92,l-CGU-A-_,110,r-AG-CU-_,109,l-ACU-G_,125,l-ACG-U-_,124,r-AC-GU-_ 2struct-str data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 1/sub,86,40 2struct-str data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 1/sub,100,65 2struct-str data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 1/sub,118,70/sub,100,65 Build: release Host: tricycle.cs.washington.edu pid: 17853 ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu Exploded HMM has 1409 states ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/remember-nuc,56,l-ACGU-_/remember-nuc,54,l-AG_-CU/remember-nuc,93,l-ACU-G_/remember-nuc,92,l-CGU-A-_/remember-nuc,110,r-AG-CU-_/remember-nuc,109,l-ACU-G_/remember-nuc,125,l-ACG-U-_/remember-nuc,124,r-AC-GU-_ ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/sub,86,40 ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/sub,100,65 ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/sub,118,70/sub,100,65 ----cmFile: Rfam/cm/RF00168.cm (global) ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum04.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum05.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum06.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum07.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum08.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum09.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum10.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum11.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum12.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum13.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum14.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum15.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum16.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum17.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum18.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum19.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum20.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum21.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum22.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum23.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum24.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum25.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl_release76/hum26.dat.fasta.gz Found 0 hits. done 7.99988e+09 nucs (frac lets thru so far=0.000188758, 2d-fracLetsThru=9.87798e-05). Filter report: done 7.99988e+09 nucs (frac lets thru so far=0.276746, 2d-fracLetsThru=0.18161). Filter report: done 2.21394e+09 nucs (frac lets thru so far=0.318407, 2d-fracLetsThru=0.278316). Filter report: done 7.04932e+08 nucs (frac lets thru so far=0.190364, 2d-fracLetsThru=0.178693). Filter report: done 1.34194e+08 nucs (frac lets thru so far=0.19398, 2d-fracLetsThru=0.187931). Filter report: done 2.60309e+07 nucs (frac lets thru so far=0.0580098, 2d-fracLetsThru=0.0581947). done 7.99988e+09 nucs (frac lets thru so far=0.000188758, 2d-fracLetsThru=9.87798e-05). CPU time: 903646.46u 334.90s 251:06:21.35 Elapsed: 251:07:51 Params: ./cmzasha --no-stderr --filter 200 40 Rfam/cm/RF00168.cm @RF00168_nonhuman_full_embl.list 1 hmm data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 2struct-str data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 1/remember-nuc,56,l-ACGU-_,54,l-AG_-CU,93,l-ACU-G_,92,l-CGU-A-_,110,r-AG-CU-_,109,l-ACU-G_,125,l-ACG-U-_,124,r-AC-GU-_ 2struct-str data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 1/sub,86,40 2struct-str data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 1/sub,100,65 2struct-str data/TryAllCm_5.0/RF00168_forwardinf_hmmtype1_Saureus_0MM.bin 1/sub,118,70/sub,100,65 Build: release Host: xmen.cs.washington.edu pid: 2738 ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu Exploded HMM has 1409 states ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/remember-nuc,56,l-ACGU-_/remember-nuc,54,l-AG_-CU/remember-nuc,93,l-ACU-G_/remember-nuc,92,l-CGU-A-_/remember-nuc,110,r-AG-CU-_/remember-nuc,109,l-ACU-G_/remember-nuc,125,l-ACG-U-_/remember-nuc,124,r-AC-GU-_ ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/sub,86,40 ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/sub,100,65 ----hmm-from-cmFileName: Rfam/cm/RF00168.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00168.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/sub,118,70/sub,100,65 ----cmFile: Rfam/cm/RF00168.cm (global) ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #16415,sp|AC078832.7|AC078832 Staphylococcus aureus clone sabac-135, complete sequence. ----isReversed: 1 ----hitSequence: AAUUGAGUUAGAGGUUGCAUGUUUAAUUAGUAACUUGUCAGAAGUAUUUAUGGUACAUAAGUUGAACAAGUGAAAGGUAAAGAUGCCGAAAUAGAUAUAAACCAUAAAUUAUAUCUAUUGGGACAGUUUUCGAAUAGGAACUGUACUGUCACAGAAUGUGAUGUGCUACCUUAUAU hit 0 : 19455 19280 (rev) 110.81 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_........___________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG........agGuuaAcuaC 51 AAUUGAG:UAGAGG+ GC:+ ::U:AU AGUAACU::U:+G A G+UA UA 25447 AAUUGAGUUAGAGGUuGCAUGUUUAAUUAGUAACUUGUCAGaaguauuuAUGGUACAUAA 25506 ____>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>> 52 aAUGagaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcU 109 + UG :A::AGUGAAAGG:A:: +:GCCGAA::A:AUA:AA: C A :UU:UAU:U::U 25507 GUUG-AACAAGUGAAAGGUAAAGAUGCCGAAAUAGAUAUAAAcCAUAaAUUAUAUCUAUU 25565 <<<<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,))))))::: 110 GGgcuugcauu.GAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuugg 167 GGG:::G:::: GAAU ::::C:::ACUG:CACA ++ UGUG: G GCUA:CUU + 25566 GGGACAGUUUUcGAAUa-GGAACUGUACUGUCACA--GAA--UGUGAUGUGCUACCUUAU 25620 :: 168 ua 169 + 25621 AU 25622 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #17930,sp|AE001799.1|AE001799 Thermotoga maritima section 111 of 136 of the complete genome. ----isReversed: 1 ----hitSequence: GACCCGACGGAGGCGCGCCCGAGAUGAGUAGGCUGUCCCAUCAGGGGAGGAAUCGGGGACGGCUGAAAGGCGAGGGCGCCGAAGGGUGCAGAGUUCCUCCCGCUCUGCAUGCCUGGGGGUAUGGGGAAUACCCAUACCACUGUCACGGAGGUCUCUCCGUGGAGAGCCGAUCGGGUC hit 1 : 20444 20268 (rev) 102.70 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________..>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG..aga 58 A+ : ::GAGGCGCG:::: +AUGAGUA:::+:UC: A + ++ AAU :GA 581 GACCCGA-CGGAGGCGCGCCCGAGAUGAGUAGGCUGUCCCAUCAGGGGAGGAAUCggGGA 639 >>>>>------>>>>>>>>>,,,<<<<<<<<<<<<...____..>>>>>>>>>>>><<<< 59 auaguGAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA..cuuuuauuugcUGGgc 113 :+:::GAAAGG+ ::::CGCCGAAG: ::::A:AG CUC CU:U::::+:CUGGG: 640 CGGCUGAAAGGCGAGGGCGCCGAAGG-GUGCAGAGuucCUCCcgCUCUGCAUGCCUGGGG 698 <<<<<<<____._>>>>>>>>>>>,<<<<<<<..___.>>>>>>>,,,,))))))::::: 114 uugcauuGAAU.aaaugcaagaCUGUCAcaga..UuU.ucugUGGAGaGCUAccuuggua 169 :U:::::GAAU :::::A::ACUGUCAC:GA U U UC:GUGGAGAGC::+: +GGU 699 GUAUGGGGAAUa-CCCAUACCACUGUCACGGAggUCUcUCCGUGGAGAGCCGAUCGGGUC 757 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #18900,sp|AE004127.1|AE004127 Vibrio cholerae chromosome I, section 35 of 251 of the complete chromosome. ----isReversed: 1 ----hitSequence: UCUAGCAGAAGAGGAGCACUGCCCAGGCAGAUGUUUUGUGGAGCCUCAACUCCAAUACAGAACAUUCAGGGGGAGUAGUGCCGAGGUGAAUCAAAGUUGUGGCUUUGGUUUAUCGGUUGAACGGGCUGAAUCCCUUCAACUGUCAUCAGCUCGAAUCUGAUGAAGAGCUUCUGAGGGA hit 2 : 7715 7538 (rev) 90.34 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<_...._______________. 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaAUG. 55 U G::G:AGAGG+GC::U:::CA G A::U:UU::G + U AACU+CAAU 6152 UCUAGCAGAAGAGGAGCACUGCCCA--GGCAGAUGUUUUGuggaGCCUCAACUCCAAUAc 6209 >>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>><<<< 56 agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcUGGgc 113 ::AA:A:: A GGG:::A::GCCGA::::AA :AAAG + CUUU: UU::::GG:: 6210 AGAACAUUCAGGGGGAGUAGUGCCGAGGUGAAUCAAAGuUGUGgCUUUGGUUUAUCGGUU 6269 <<<<<<<.._____>>>>>>>>>>>,<<<<<<<...___.>>>>>>>,,,,))))))::: 114 uugcauu..GAAUaaaugcaagaCUGUCAcaga...UuU.ucugUGGAGaGCUAccuugg 167 :::C::: GAAU ::: :::::CUG:CA:::: ++ ::::UG:AGAGCU:C:: GG 6270 GAACGGGcuGAAU-CCC-UUCAACUGUCAUCAGcucGAAuCUGAUGAAGAGCUUCUGAGG 6327 :: 168 ua 169 +A 6328 GA 6329 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #18966,sp|AE004193.1|AE004193 Vibrio cholerae chromosome I, section 101 of 251 of the complete chromosome. ----isReversed: 0 ----hitSequence: UUUCGCCGUAGAGGAGCGGUUACGAAAAGUAUCCACAGUUGGGGUGAUGCCAAUGAAUUGUGGAAAAAGGCGUUGCCGCCGAAGUCAACUUGCCCAUCAACGCAGUUGGCUGGGGUUACAUUCAAUAGGUGUAACACUGCCAUAGUCUAUAUUGUUGUUAAACUAUGGAGCGCUACUGUAGGG hit 3 : 5679 5861 (fwd) 124.58 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 U G::GUAGAGG+GCG:+ A:+A+ AGUA+C:A::+: +GG+U+A+++CAAUG :+:: 5679 UUUCGCCGUAGAGGAGCGGUUACGAAAAGUAUCCACAGUUGGGGUGAUGCCAAUGaAUUG 5738 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>><<<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcUGGgcuugc 117 U:G+ AAAGG+:U +:CGCCGAAG::AA::+:: UCA :: ::UU::CUGGG:UU:C 5739 UGGAAAAAGGCGUUGCCGCCGAAGUCAACUUGCCcAUCAaCGC-AGUUGGCUGGGGUUAC 5797 <<<____._>>>>>>>>>>>,<<<<<<<.___...........>>>>>>>,,,,)))))) 118 auuGAAU.aaaugcaagaCUGUCAcaga.UuU...........ucugUGGAGaGCUAccu 164 A:: AAU ::UG:AA:ACUG:CA:AG: U+U :CU:UG:AG+GCUAC:: 5798 AUUCAAUa-GGUGUAACACUGCCAUAGUcUAUauuguuguuaaACUAUGGAGCGCUACUG 5856 ::::: 165 uggua 169 U G+ 5857 UAGGG 5861 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #19134,sp|AE004361.1|AE004361 Vibrio cholerae chromosome II, section 18 of 93 of the complete chromosome. ----isReversed: 1 ----hitSequence: CCUUUAAGUAGAGGCGCGCUGUUCAUGAGUCGCCAGUCGUAGGUUGACCCCGAUGAUGACUGGUUAAAGGGUACAGCGCCGAAGUGAUCGUUGCGUCAUCAACGUUCGCUGGGCCAGCAUUGAACAAAUGCCGGACUGCCAUAGUGUGUUGUCUAUGGAGCGCUACCUUGAAG hit 4 : 7554 7382 (rev) 134.63 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 UU+A:GUAGAGGCGCG:U::+CAUGAGU :C:A:UC: AGGUU+AC +C+AUG :GA: 3038 CCUUUAAGUAGAGGCGCGCUGUUCAUGAGUCGCCAGUCGUAGGUUGACCCCGAUGaUGAC 3097 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugcau 119 U:G: AAAGGG+::A:CGCCGAAG::A+::::: +UCA :::::+U::CUGGGC: GCAU 3098 UGGUUAAAGGGUACAGCGCCGAAGUGAUCGUUGCGUCAUCAACGUUCGCUGGGCCAGCAU 3157 <____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::::: 120 uGAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuuggua 169 UGAA AAUGC :GACUG:CA:AG+ U U +CU:UG:AG+GCUAC:UUG + 3158 UGAACa-AAUGCCGGACUGCCAUAGUgUGUugUCUAUGGAGCGCUACCUUGAAG 3210 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20399,sp|AE005635.1|AE005635 Escherichia coli O157:H7 EDL933 genome, contig 3 of 3, section 254 of 290. ----isReversed: 1 ----hitSequence: CAGGCCAGAAGAGGCGCGUUGCCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUACAGGGGCUGAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 5 : 3229 3033 (rev) 63.19 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 A ::G:AGAGGCGCG+U:::CA AGUA ::U:UU+G +G + A+U+C UG A 6551 CAGGCCAGAAGAGGCGCGUUGCCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 6606 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG:::A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 6607 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 6665 <<<<<<<<<.._____>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu..GAAUaaaugcaagaCUGUCAcaga....UuU.................. 147 ::+:::::: GAAU :::::: :::UGUCAC::: UU 6666 CUACAGGGGcuGAAU-CCCCUG-GGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 6723 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 6724 aaGUGGUGGAGCACUUCUGGGUGA 6747 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20887,sp|AE006126.1|AE006126 Pasteurella multocida PM70 section 93 of 204 of the complete genome. ----isReversed: 1 ----hitSequence: UACUUGUGUAGAGGAGCGAUCACUAUAAGUAUUUUUUCUGAGUGGAUAACGAAGAGGAAAAAGGAAAGGAGUGACCGCCGAAAUCAAUUGAAAGUCAUUUUGAUUGGUUGGUGGCGUAUUCGAAAGGAACGUCAUUGUCAUAGUCUUUUUUAAACUAUGGAGCGCUACUGGUUGG hit 6 : 222 48 (rev) 132.49 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 A+U+ GUAGAGG+GCG U:A::AU AGUA :U:UUC: + GU +A++AC+A G :GAA 12414 UACUUGUGUAGAGGAGCGAUCACUAUAAGUAUUUUUUCU-GAGUGGAUAACGAAGaGGAA 12472 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugcau 119 :A: GAAAGG::U:A CGCCGAA:::AAU+:AA:+UCA:UU:+AUU:::UG::: :G: : 12473 AAAGGAAAGGAGUGACCGCCGAAAUCAAUUGAAAGUCAUUUUGAUUGGUUGGUGGCGUAU 12532 <._____>>>>>>>>>>>,<<<<<<<.___.....>>>>>>>,,,,))))))::::: 120 u.GAAUaaaugcaagaCUGUCAcaga.UuU.....ucugUGGAGaGCUAccuuggua 169 : GAA :: :C: :::UGUCA:AG: UUU :CU:UGGAG+GCUAC ++++ 12533 UcGAAA-GGAACGUCAUUGUCAUAGUcUUUuuuaaACUAUGGAGCGCUACUGGUUGG 12588 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21208,sp|AE006448.1|AE006448 Lactococcus lactis subsp. lactis IL1403 section 210 of 218 of the complete genome. ----isReversed: 0 ----hitSequence: CACAUCGAUAGAGGUCGCAACUGAUAUGAAUCUACGCCGAGUUGGAGCACAACAAAGACGCGUAUUUAGAGGAGGAGAGGUUGCCGAAAGAAUUUUGUUGCUCAGCAAGGUUCUUGGGCUAGUGAGAAAAACUCACUAGACUGUCGCAAAUGGUUAAUAACCAUGCGGAGGGCUAUUCGUUCA hit 7 : 6071 6253 (fwd) 49.70 bits :::::((((((,,,,.<<<<<<<<<----..---..<<<<<<<<________________ 1 aauugaggUAGAGGc.GCgauaaucAuGA..GUA..acuauucgGagGuuaAcuaCaAUG 55 A+ + ::UAGAGG+ GC:A: : :AUGA UA : A:U GAG AAC+A +A G 6071 CACAUCGAUAGAGGUcGCAACUGAUAUGAauCUAcgCCGAGUUGGAGCACAACAAAGACG 6130 .>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<< 56 .agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcu 114 A:U : AGG: : :U:GCCGAA::AA :::+:+ :+::: UU::UGGGCU 6131 cGUAUUUAGAGGAGGAGAGGUUGCCGAAAGAAUUUUGUUGCUCAGCAAGGUUCUUGGGCU 6190 <<<<<<____._>>>>>>>>>>>,<<<<<<<..___......>>>>>>>,,,,)))))): 115 ugcauuGAAU.aaaugcaagaCUGUCAcaga..UuU......ucugUGGAGaGCUAccuu 165 :G:::: AA ::::C:AGACUGUC:CA UU UG:GGAG GCUA:: + 6191 AGUGAGAAAAa-CUCACUAGACUGUCGCAAAugGUUaauaacCAUGCGGAGGGCUAUUCG 6249 :::: 166 ggua 169 ++ A 6250 UUCA 6253 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22320,sp|AE007576.1|AE007576 Clostridium acetobutylicum ATCC824 section 64 of 356 of the complete genome. ----isReversed: 0 ----hitSequence: ACCUUUUGUAGAGGUGCUUUAAGUCAAGAGUAACCGUUUGGAGUUGGCAAACUUAGAUGAACGGUAAAAGGGGCUUUUAGCCGAAGCAUUUAGAUUGGCAGAUUUAUUUGCUGGCUUUUCAUACAACAUAUGAAUGGCUGUCACUUUAUUAGUUAGUUAUUAGGUAAGUGGAGCGCUACAAGGUAC hit 8 : 1562 1747 (fwd) 115.71 bits :::::((((((,,,,<<<<<<<<<.-------<<<<<<<<________________.>>> 1 aauugaggUAGAGGcGCgauaauc.AuGAGUAacuauucgGagGuuaAcuaCaAUG.aga 58 A +U+ :GUAGAGG+GC:+ AA:: A+GAGUAAC::UU::GAG U + +AC G ::A 1562 ACCUUUUGUAGAGGUGCUUUAAGUcAAGAGUAACCGUUUGGAGUUGGCAAACUUAGaUGA 1621 >>>>>------.>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<< 59 auaguGAAAGG.gauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugc 117 A::GU AAAGG ::UU +:GCCGAAGCA +UA:A::++CA::U:UA+ UGCUGG:: U:C 1622 ACGGUAAAAGGgGCUUUUAGCCGAAGCAUUUAGAUUGGCAGAUUUAUUUGCUGGCUUUUC 1681 <<<____._>>>>>>>>>>>,<<<<<<<.___.............>>>>>>>,,,,)))) 118 auuGAAU.aaaugcaagaCUGUCAcaga.UuU.............ucugUGGAGaGCUAc 162 AU: AA :AUG:A ::CUGUCAC::+ UU+ +::GUGGAG+GCUAC 1682 AUACAACa-UAUGAAUGGCUGUCACUUUaUUAguuaguuauuaggUAAGUGGAGCGCUAC 1740 ))::::: 163 cuuggua 169 : +G++ 1741 AAGGUAC 1747 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22587,sp|AE007843.1|AE007843 Clostridium acetobutylicum ATCC824 section 331 of 356 of the complete genome. ----isReversed: 1 ----hitSequence: AACUGAGGUAGAGGCGCAAAAUUUAAGAGUAGAACUGUGGAGACAAGCACUAUGAAGCAGUUUAAAAGGAAAUUUUGCCGAAGCGUAUAGCUAAUGCUUUAAUGCUGUACUGCUGGGUUUGUAUAAAAUAUGUGCAAAACUGUCACAAAGUAUAAUUGUGGAGAACUAUCAUUGGU hit 9 : 1920 1745 (rev) 130.62 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 AA+UG:G:UAGAGGCGC:A:A:U:A+GAGUA::::U::G + G AA+ AC AUG A::A 10332 AACUGAGGUAGAGGCGCAAAAUUUAAGAGUAGAACUGUG-GAGACAAGCACUAUGaAGCA 10390 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<....____..>>>>>>>>>>>><<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaag....cUCA..cuuuuauuugcUGGgc 113 :::: AAAGG:A:U:U:GCCGAAGC: ::+A:: CU + ::U+:: :GCUGGG: 10391 GUUUAAAAGGAAAUUUUGCCGAAGCG-UAUAGCUaaugCUUUaaUGCUGUACUGCUGGGU 10449 <<<<<<<____._>>>>>>>>>>>,<<<<<<<.___.>>>>>>>,,,,))))))::::: 114 uugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU.ucugUGGAGaGCUAccuuggua 169 UUG:A:: AAU ::U:CAA:ACUGUCACA: U+U :UGUGGAGA CUA:C:U+G+ 10450 UUGUAUAAAAUa-UGUGCAAAACUGUCACAAAgUAUaAUUGUGGAGAACUAUCAUUGGU 10507 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22600,sp|AE007856.1|AE007856 Clostridium acetobutylicum ATCC824 section 344 of 356 of the complete genome. ----isReversed: 0 ----hitSequence: ACCUAGGGUAAAGGUGCUGUAGUUAUUAUUAUUUAUUCUUAGCUGGCAAGCUUUGAGGGAUAAAGAAAGGAAUUGCAGCCGAAGAAGGAUUUCCGGCAGGAACUUUUUCUGGUUUUGUAUAAAAUAUAUGCAGAACUGUCACUAUUCUUUUAUAGUGGAGAGCUACAAGGUGC hit 10 : 5090 5262 (fwd) 115.74 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 A +U+::GUA:AGG+GC::+A:U:AU A UA+:UAU C: AG U + + C UG :G A 5090 ACCUAGGGUAAAGGUGCUGUAGUUAUUAUUAUUUAUUCUUAGCUGGCAAGCUUUGaGGGA 5149 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugcau 119 UA:+GAAAGG:A:U+::GCCGAAG:A::: ::::++CA:::: :::U:CUGG:: UG:AU 5150 UAAAGAAAGGAAUUGCAGCCGAAGAAGGAUUUCCGGCAGGAACUUUUUCUGGUUUUGUAU 5209 <____._>>>>>>>>>>>,<<<<<<<..___.>>>>>>>,,,,))))))::::: 120 uGAAU.aaaugcaagaCUGUCAcaga..UuU.ucugUGGAGaGCUAccuuggua 169 : AAU :AU:CA ::CUGUCAC::: UUU :::GUGGAGAG:UAC::+G++ 5210 AAAAUa-UAUGCAGAACUGUCACUAUucUUUuAUAGUGGAGAGCUACAAGGUGC 5262 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #25197,sp|AE010489.1|AE010489 Fusobacterium nucleatum subsp. nucleatum ATCC 25586, section 31 of 197 of the complete genome. ----isReversed: 1 ----hitSequence: AUAAAAAAUAGAGGUGCAUAUAUGUAGGUAGUGUGAAAAUGUUAAGGUAUAAGCCACCAAUGUUUCACAUGAAGGGCAUAGUUGCCGAAAGAAAGUUAAUUGCUUAUGAUUAAUUUUCUUGGUCAAUGUCAACAAGCAUUGACUGUCAUAUUCUUUUGAAUAUGGAGAGCUAUUUAUAGU hit 11 : 2647 2468 (rev) 83.21 bits :::::((((((,,,,<<<<<<<<<.-------<<<<<<<<________________.... 1 aauugaggUAGAGGcGCgauaauc.AuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 A +A::UAGAGG+GC:+ :AU+ A GUA:: ::::: A GUUAA++ A G 7773 AUAAAAAAUAGAGGUGCAUAUAUGuA--GGUAGUGUGAAA-AUGUUAAGGUAUAAGccac 7829 .....>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____..>>>>>>>>> 56 .....agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA..cuuuuauuu 106 ::::: ::GAA GG+AU: +:GCCGAA::AAA:::AA: CU A :UU:::UUU 7830 caaugUUUCACAUGAAGGGCAUAGUUGCCGAAAGAAAGUUAAUugCUUAugAUUAAUUUU 7889 >>><<<<<<<<<<<____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,)))) 107 gcUGGgcuugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAc 162 ::UGG: :::::: AA A:::::: :CUGUCA:A:: UUU ::U:UGGAGAGCUA: 7890 CUUGGU-CAAUGU-CAACa-AGCAUUG-ACUGUCAUAUUcUUUugAAUAUGGAGAGCUAU 7945 ))::::: 163 cuuggua 169 :U + + 7946 UUAUAGU 7952 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27528,sp|AE013039.1|AE013039 Thermoanaerobacter tengcongensis strain MB4T, section 66 of 244 of the complete genome. ----isReversed: 0 ----hitSequence: CGCAUAAAUAGAGGAGCUGCCAAGCAUGUAUUUGGCGAGGUGUUAAGGAGAAGAACCUCCAAUACUCGCUGAAGAAGGUUUGGCUGCCGAAAGGGUGAGCUUGUUCUUGAGCUCAUCCUUGGUGGUAAACACAAAGUUUACCACUGUCAUGGGACCUCCCAUGAAGCGCUAUUUAUGCA hit 12 : 9145 9323 (fwd) 74.65 bits :::::((((((,,,,<<<<<<<<<.-------<<<<<<<<_.........._________ 1 aauugaggUAGAGGcGCgauaauc.AuGAGUAacuauucgG..........agGuuaAcu 49 ++ +A::UAGAGG+GC :::A: AU GUA+: ::: :G + + A CU 9145 CGCAUAAAUAGAGGAGCUGCCAAGcAU--GUAUUUGGCGAGguguuaaggaGAAGAACCU 9202 ______.>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>> 50 aCaAUG.agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuu 106 +CAAU : ::: :+GAA GG :U::: GCCGAA::::::A:::: UC+ ::::U:::: 9203 CCAAUAcUCGCUGAAGAA-GGUUUGGCUGCCGAAAGGGUGAGCUUgUUCUuGAGCUCAUC 9261 >>><<<<<<<<<<<._____>>>>>>>>>>>,<<<<<<<.___>>>>>>>,,,,)))))) 107 gcUGGgcuugcauu.GAAUaaaugcaagaCUGUCAcaga.UuUucugUGGAGaGCUAccu 164 ::UGG:::U::A: AA :U::A:::CUG:CA::G: U:C::UG:AG+GCUA::U 9262 CUUGGUGGUAAAC-aCAAA--GUUUACCACUGUCAUGGGaCCUCCCAUGAAGCGCUAUUU 9318 ::::: 165 uggua 169 +G A 9319 AUGCA 9323 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27638,sp|AE013149.1|AE013149 Thermoanaerobacter tengcongensis strain MB4T, section 176 of 244 of the complete genome. ----isReversed: 0 ----hitSequence: AGGUGAGGUAGAGGCGCGGGUCAUCAAGAGUAACAUGCCAGAGGUGUUAAGGGCCGAUGAAGGUGUGUGAAAGGGGUGCCCGCCGAAGCGCGUAAACUUCCUUAAGGUUUACGCAGCUGGGCCUAUGCCGAACAGGUAUAGGACUGUCACUGAAGGCUCCCCAGGCCUUCAGUGGAGAGCUAUCUCGCUA hit 13 : 9167 9356 (fwd) 113.52 bits :::::((((((,,,,<<<<<<<<<.-------<<<<<<<<_..._______________. 1 aauugaggUAGAGGcGCgauaauc.AuGAGUAacuauucgG...agGuuaAcuaCaAUG. 55 A+ UGAG:UAGAGGCGCG::+::: A+GAGUAAC:+::C+G G U A +++C+AUG 9167 AGGUGAGGUAGAGGCGCGGGUCAUcAAGAGUAACAUGCCAGaggUGUUAAGGGCCGAUGa 9226 >>>>>>>>------.>>>>>>>>>,,,<<<<<<<<<<<<...____..>>>>>>>>>>>> 56 agaauaguGAAAGG.gauuaucGCCGAAgcaaauaaaag...cUCA..cuuuuauuugcU 109 +G::+:GUGAAAGG ::: ::CGCCGAAGC ::::AAA: CU A :UUU::::+GCU 9227 AGGUGUGUGAAAGGgGUG-CCCGCCGAAGC-GCGUAAACuucCUUAagGUUUACGCAGCU 9284 <<<<<<<<<<<____._>>>>>>>>>>>,<<<<<<<..___..........>>>>>>>,, 110 GGgcuugcauuGAAU.aaaugcaagaCUGUCAcaga..UuU..........ucugUGGAG 156 GGGC:U:::::GAA :::::A:GACUGUCAC:GA U UC:GUGGAG 9285 GGGCCUAUGCCGAACa-GGUAUAGGACUGUCACUGAagGCUccccaggccuUCAGUGGAG 9343 ,,))))))::::: 157 aGCUAccuuggua 169 AGCUA:CU G UA 9344 AGCUAUCUCGCUA 9356 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29771,sp|AE015427.1|AE015427 Shigella flexneri 2a str. 301 section 390 of 412 of the complete genome. ----isReversed: 0 ----hitSequence: CAGGCCAGAAGAGGCGCGUUGCCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUACAGGGGCUGAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 14 : 2664 2860 (fwd) 63.19 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 A ::G:AGAGGCGCG+U:::CA AGUA ::U:UU+G +G + A+U+C UG A 2664 CAGGCCAGAAGAGGCGCGUUGCCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 2719 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG:::A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 2720 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 2778 <<<<<<<<<.._____>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu..GAAUaaaugcaagaCUGUCAcaga....UuU.................. 147 ::+:::::: GAAU :::::: :::UGUCAC::: UU 2779 CUACAGGGGcuGAAU-CCCCUG-GGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 2836 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 2837 aaGUGGUGGAGCACUUCUGGGUGA 2860 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29887,sp|AE015545.1|AE015545 Shewanella oneidensis MR-1 section 94 of 457 of the complete genome. ----isReversed: 0 ----hitSequence: CCUUUAAGUAGAGGCGCGCUGCCUAUGACUACUUGUGCGGAGGGUGAUGCCGCAGAUGUACAAGGAAAGGAGUCAGCGCCGAAGUAGCCAGGUCAUCAAACCGAGCUGCUGGUUUUGCAUCAAAUAGGUGCAAGACUGCCAUAGUCAUCCACUAUGGAGCGCUACCUGAAGG hit 15 : 1265 1436 (fwd) 127.31 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 UU+A:GUAGAGGCGCG:U::::AUGA UA::U:U:C:GAGG+U+A+++C+ G :G:A 1265 CCUUUAAGUAGAGGCGCGCUGCCUAUGACUACUUGUGCGGAGGGUGAUGCCGCAGaUGUA 1324 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugcau 119 :A::GAAAGG::::A:CGCCGAAG:A::: ::: UCA ::: :::U:CUGG::UUGCA: 1325 CAAGGAAAGGAGUCAGCGCCGAAGUAGCCAGGUCAUCAAACCGAGCUGCUGGUUUUGCAU 1384 <____._>>>>>>>>>>>,<<<<<<<.___.>>>>>>>,,,,))))))::::: 120 uGAAU.aaaugcaagaCUGUCAcaga.UuU.ucugUGGAGaGCUAccuuggua 169 : AAU ::UGCAA::CUG:CA:AG: U :CU:UG:AG+GCUAC:U+ + 1385 CAAAUa-GGUGCAAGACUGCCAUAGUcAUCcACUAUGGAGCGCUACCUGAAGG 1436 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30171,sp|AE015829.1|AE015829 Shewanella oneidensis MR-1 section 378 of 457 of the complete genome. ----isReversed: 1 ----hitSequence: AGGAACAGAAGAGGAGCGUUAACUAGGUAGUCAAUCAGAGGAGCACAAACUCCAGCGAUGAUUGAUGAGGGAGAUUAGCGCCGAGGCAUAGAUGUGGUUGCUGCAUGUUUAUGUCGGUCGCUUAGGCUGAAUCCUAACGAUUGUCACCUGUAAUUGGUGGAGAGCUUCUGGUGAC hit 16 : 4454 4280 (rev) 88.23 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<_...._______________. 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaAUG. 55 A+ +::G:AGAGG+GCG UAA::A GUA:::A:UC:G + AACU+CA G 6158 AGGAACAGAAGAGGAGCGUUAACUA--GGUAGUCAAUCAGaggaGCACAAACUCCAGCGa 6215 >>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>><<< 56 agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUGGg 112 :GA:U:::GA G ::UUA CGCCGA::CA+A:A ::G +C+ C:: U:U+UG::G:: 6216 UGAUUGAUGAGGGAGAUUAGCGCCGAGGCAUAGAUGUGguUGCUgCAUGUUUAUGUCGGU 6275 <<<<<<<<.._____>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,))))))::::: 113 cuugcauu..GAAUaaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuuggua 169 C:::+A:: GAAU ::U :::G::UGUCAC: :U++: :GUGGAGAGCU:C::++G+ 6276 CGCUUAGGcuGAAU-CCU-AACGAUUGUCACCUGUAAUUGGUGGAGAGCUUCUGGUGAC 6332 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30274,sp|AE015937.1|AE015937 Clostridium tetani E88, section 2 of 10 of the complete genome. ----isReversed: 0 ----hitSequence: UAGAAAGGUAGAGGCGCGGUAUUUAAUAGUAUCUGUACAGAUAAAAGCAAGAUGAUGUACAGUGAAAGGAAAUAUCGCCGAAGCAUGCAGUUAAAGCUUUGAUACUGUAUGACUGGUCUUAUUUAAAAUAUGAAUAAGAUUGUCACAAAAUGAAUUUGUGGAGAGCUAUCAUUCAA hit 17 : 285886 286061 (fwd) 129.00 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 A +:G:UAGAGGCGCG:UA:U:A+ AGUA CU:U:C: + AA+ A +AUG :G:A 285886 UAGAAAGGUAGAGGCGCGGUAUUUAAUAGUAUCUGUACA-GAUAAAAGCAAGAUGaUGUA 285944 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<....____..>>>>>>>>>>>><<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaag....cUCA..cuuuuauuugcUGGgc 113 :AG GAAAGG:A:UA:CGCCGAAG A:::A:: CU + ::U:::U+ CUG::C 285945 CAGUGAAAGGAAAUAUCGCCGAAGC-AUGCAGUUaaagCUUUgaUACUGUAUGACUGGUC 286003 <<<<<<<____._>>>>>>>>>>>,<<<<<<<.___.>>>>>>>,,,,))))))::::: 114 uugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU.ucugUGGAGaGCUAccuuggua 169 UU::::: AAU :::::AAG::UGUCACA:A U + U:UGUGGAGAGCUA:C:U+ +A 286004 UUAUUUAAAAUa-UGAAUAAGAUUGUCACAAAaUGAaUUUGUGGAGAGCUAUCAUUCAA 286061 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30281,sp|AE015944.1|AE015944 Clostridium tetani E88, section 9 of 10 of the complete genome. ----isReversed: 1 ----hitSequence: ACCCAGGGUAGAGGAGCUAUAAUUAAGAGUACUUAUCUUAAACUGCCAAGUAAUGAUAGAUAGGAAAAGGAAUUAUAGCCGAAGAAAAUAGGGUGGUAAUCUAUUUUCUGGCUUUGCAUAAAAUAUGUGUAAAGCUGUCACUUUAAAAAGUGUUGAGCUACAGAGGUC hit 18 : 195870 195703 (rev) 98.23 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<____________.____.>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaC.aAUG.aga 58 A + + :GUAGAGG+GC:AUAAU:A+GAGUA: UAU:: A U+ C+A AAUG :: 104336 ACCCAGGGUAGAGGAGCUAUAAUUAAGAGUACUUAUCUU-AAACUGCCAAGuAAUGaUAG 104394 >>>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<< 59 auaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugca 118 AUA : AAAGG:AUUAU:GCCGAAG:AAAUA:: :++ A: ::UAUUU:CUGG::UU:CA 104395 AUAGGAAAAGGAAUUAUAGCCGAAGAAAAUAGGGUGGUAA-UCUAUUUUCUGGCUUUGCA 104453 <<____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,))))))::::: 119 uuGAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuuggua 169 :: AAU ::UG:AA::CUG CAC::: ++:::GUG GAGCUAC: GGU 104454 UAAAAUa-UGUGUAAAGCUGUCACUUU-AAAAAGUGUUGAGCUACAGAGGUC 104503 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30286,sp|AE016747.1|AE016747 Staphylococcus epidermidis ATCC 12228, section 4 of 9 of the complete genome. ----isReversed: 0 ----hitSequence: AGAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAACUUUAGAUAAUUUGUCUGCUAACAAUUAUAGAGUUAAAAGGGUGAGAUGCCGAAAUGAUUCAUAAUAGCAGUUAUGAAUCGUUGGACUUAAUGGUUAAGAGCUAUAAGUUUGUCAUUAUUAUUAAAUAAUGGAGUGCAUCACUUGUA hit 19 : 182196 182375 (fwd) 109.58 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<_......______________ 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgG......agGuuaAcuaCaAU 54 A+ U+::G: GAGGCGC:+:+++CAUGAGUAA::: U:G G U+ ++ACAAU 182196 AGAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAACUUUAG-auaauuUGUCUGCUAACAAU 182254 _>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>><<< 55 GagaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcUGGg 112 A:A :::U AAAGGG+++:+:GCCGAA:::A:U:A:A: +CA :U:U:A:U:::UG: 182255 UAUAGAGUUAAAAGGGUGAGAUGCCGAAAUGAUUCAUAAuAGCAgUUAUGAAUCGUUGGA 182314 <<<<.<<<<____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::: 113 cuug.cauuGAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuugg 167 CUU: :::: AA :::::AAG :UGUCA:::: UU ::::UGGAG GC :C::U+G 182315 CUUAaUGGUUAAGa-GCUAUAAGUUUGUCAUUAUuAUUaaAUAAUGGAGUGCAUCACUUG 182373 :: 168 ua 169 UA 182374 UA 182375 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30287,sp|AE016748.1|AE016748 Staphylococcus epidermidis ATCC 12228, section 5 of 9 of the complete genome. ----isReversed: 1 ----hitSequence: AAUAGAGUUAGAGGUUGCAUUAUUAAUGACUAACUUAUCAGAAGUCGUAUGGGACAUGUGUUGAAUAAGUGAAAGGUAAUAAUGCCGAAAUGAUGUUAUUUCCAUAAAUUAGCAUUGUUGGGACAACUUUCGAAUAGAAGUUGUACUGUCACUUUAUGUGAUGUGCUACCUUAUAU hit 20 : 182015 181840 (rev) 106.77 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 AAU GAG:UAGAGG+ GC:+UA:U:AUGA UAACU::U: GA GU + U +A 118015 AAUAGAGUUAGAGGUuGCAUUAUUAAUGACUAACUUAUCAGAAGUCGUAUGGGACAugug 118074 ..>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>>< 56 ..agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUG 110 :A::AGUGAAAGG:A:UA+:GCCGAA:::A::+:A : C A : U:+::U:::UG 118075 uuGAAUAAGUGAAAGGUAAUAAUGCCGAAAUGAUGUUAUUucCAUAaAUUAGCAUUGUUG 118134 <<<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,)))))):::: 111 Ggcuugcauu.GAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuuggu 168 GG::::C:U: GAAU :A:G::::ACUG:CAC UU+ GUG: G GCUA:CUU ++ 118135 GGACAACUUUcGAAUa-GAAGUUGUACUGUCACU--UUA--UGUGAUGUGCUACCUUAUA 118189 : 169 a 169 118190 U 118190 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30307,sp|AE016770.1|AE016770 Escherichia coli CFT073 section 16 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: CAGGCCAGAAGAGGCGCGUUGCCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUACAGGGGCUAAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 21 : 235405 235209 (rev) 62.61 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 A ::G:AGAGGCGCG+U:::CA AGUA ::U:UU+G +G + A+U+C UG A 69338 CAGGCCAGAAGAGGCGCGUUGCCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 69393 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG:::A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 69394 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 69452 <<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu.GAAU.aaaugcaagaCUGUCAcaga....UuU.................. 147 ::+:::::: AA :::::: :::UGUCAC::: UU 69453 CUACAGGGGcUAAAu-CCCCUG-GGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 69510 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 69511 aaGUGGUGGAGCACUUCUGGGUGA 69534 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30335,sp|AE016801.1|AE016801 Vibrio vulnificus CMCP6 chromosome I section 5 of 11 of the complete sequence. ----isReversed: 1 ----hitSequence: UUUUGCAGAAGAGGAGCACUGCCCAGGCAGAUGUUUUGUGGAGCCGCAACUCCAACACAGAACAUUCAGGGGGAGUAGUGCCGAGGUAGAUCAAAAUUGCAGGAUUUGAUCUGUCGGUUGACUUGGGUUGAGUCCCAUCAACUGUCAUCAGCUCAGCCUGAUGAAGAGCUUCUGAGAUG hit 22 : 201083 200905 (rev) 86.57 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<_...._______________. 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaAUG. 55 UUG::G:AGAGG+GC::U:::CA G A::U:UU::G + + AACU+CAA 99087 UUUUGCAGAAGAGGAGCACUGCCCA--GGCAGAUGUUUUGuggaGCCGCAACUCCAACAc 99144 >>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>><<< 56 agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUGGg 112 ::AA:A:: A GGG:::A::GCCGA:::A:AU:AAA: +CA :UUU:AU:U:::GG: 99145 AGAACAUUCAGGGGGAGUAGUGCCGAGGUAGAUCAAAAuUGCAggAUUUGAUCUGUCGGU 99204 <<<<<<<<...____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,)))))): 113 cuugcauu...GAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuu 165 :::++::: GA U ::: ::::CUG:CA:::: U + ::::UG:AGAGCU:C:: 99205 UGACUUGGguuGAGUc-CCA--UCAACUGUCAUCAGcUCAgcCUGAUGAAGAGCUUCUGA 99261 :::: 166 ggua 169 G U 99262 GAUG 99265 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30340,sp|AE016806.1|AE016806 Vibrio vulnificus CMCP6 chromosome I section 10 of 11 of the complete sequence. ----isReversed: 1 ----hitSequence: UAUCGACGUAGAGGCGCAAUGGUAAAGAGUAACUAUUAUUGGGGUGAUGCCAAUGAAUAAUAGUGAAAGGUAUCCAUUGCCGAAGUGAAUUGCAUAUCAAAGCAGUUUGCUGGGGUUGCAUCCGAAAGGAACAACACUGCCAUAGUAUUUAAUGUAUAACUAUGGAGCGCUACUGUAGGU hit 23 : 278821 278642 (rev) 131.84 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 AU G+:GUAGAGGCGC:AU::U:A+GAGUAACUAUU:: +GG+U+A+++CAAUG ::AA 25670 UAUCGACGUAGAGGCGCAAUGGUAAAGAGUAACUAUUAUUGGGGUGAUGCCAAUGaAUAA 25729 >>>>------>>>.>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<< 60 uaguGAAAGGgau.uaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugca 118 UAGUGAAAGG:A: :AU:GCCGAAG::AA ::: : UCA: ::: UU::CUGGG:UUG: 25730 UAGUGAAAGGUAUcCAUUGCCGAAGUGAAUUGCAUAUCAAAGCAGUUUGCUGGGGUUGCA 25789 <<._____>>>>>>>>>>>,<<<<<<<.___........>>>>>>>,,,,)))))):::: 119 uu.GAAUaaaugcaagaCUGUCAcaga.UuU........ucugUGGAGaGCUAccuuggu 168 :: GAA :: :CAA:ACUG:CA:AG: UUU :CU:UG:AG+GCUAC:+U G+ 25790 UCcGAAA-GGAACAACACUGCCAUAGUaUUUaauguauaACUAUGGAGCGCUACUGUAGG 25848 : 169 a 169 25849 U 25849 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30416,sp|AE016947.1|AE016947 Enterococcus faecalis V583, section 1 of 11 of the complete genome. ----isReversed: 1 ----hitSequence: AAAAGAGGUAGAGGUCGCGGUUUUUAUUACGCUUGUGGAGUGAGAGGACACUGGGAAGCAAGUUUAGGAUCAAUCGCCGAAAUGCAUAACGGAGCCUCUUCUGUUGUGUGUUGGGACGUAAGUUAAGAGCUUGCGGACUGUCUUAGUAGUGAUGCUAAGUUGUGCUAUGUUUCGU hit 24 : 224792 224618 (rev) 55.13 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________...> 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG...a 56 AA GA :UAGAGG+ GCG:U: +:A UA: ::U::GGAG + +A++ACA UG A 101643 AAAAGAGGUAGAGGUcGCGGUUUUUA---UUACGCUUGUGGAGUGAGAGGACACUGggaA 101699 >>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><<< 57 gaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGGg 112 ::A:: : A GG:+ :A:CGCCGAA::::A AA: G CUC+ C :UU U::::UGGG 101700 GCAAGUUUA--GGAUCAAUCGCCGAAAUGCAUAACGGagcCUCUuCUGUUGUGUGUUGGG 101757 <<<<<<<<____._>>>>>>>>>>>,<<<<<<<..___.>>>>>>>,,,,)))))):::: 113 cuugcauuGAAU.aaaugcaagaCUGUCAcaga..UuU.ucugUGGAGaGCUAccuuggu 168 :: :A:: AA ::U: :: ACUG C :AG U + CU: G G GCUA: UU+ + 101758 ACGUAAGUUAAGa-GCUUGCGGACUGUCUUAGUagUGAuGCUAAGUUGUGCUAUGUUUCG 101816 : 169 a 169 101817 U 101817 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30449,sp|AE016989.1|AE016989 Shigella flexneri 2a str. 2457T section 12 of 16 of the complete genome. ----isReversed: 1 ----hitSequence: CAGGCCAGAAGAGGCGCGUUGCCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUACAGGGGCUGAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 25 : 208694 208498 (rev) 63.19 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 A ::G:AGAGGCGCG+U:::CA AGUA ::U:UU+G +G + A+U+C UG A 83804 CAGGCCAGAAGAGGCGCGUUGCCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 83859 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG:::A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 83860 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 83918 <<<<<<<<<.._____>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu..GAAUaaaugcaagaCUGUCAcaga....UuU.................. 147 ::+:::::: GAAU :::::: :::UGUCAC::: UU 83919 CUACAGGGGcuGAAU-CCCCUG-GGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 83976 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 83977 aaGUGGUGGAGCACUUCUGGGUGA 84000 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30460,sp|AE017000.1|AE017000 Bacillus cereus ATCC 14579 section 3 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: CGGUGAGGUAGAGGUUGCAAUCAUUAAGAGUAUCAUUUCAGGAGAUGUAGUGGCAUUGAUGAAGGAAUGAGAAAGGAAUGGUUGCCGAAGUAAGUCGUGUCCACCAUGCACGCUUGCUGGGUCUGCAUUUAAUAAGUGCAGAACUGUCACAAACGUUUCGUUUGUGGAGAGCUAUCGAGAGG hit 26 : 234265 234084 (rev) 119.14 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_.._______________.. 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG..agGuuaAcuaCaAUG.. 55 + UG+G:UAGAGG+ GC:A+:AU:A+GAGUA+C::U C+G + +UA ++ CA UG 67025 CGGUGAGGUAGAGGUuGCAAUCAUUAAGAGUAUCAUUUCAGgaGAUGUAGUGGCAUUGau 67084 ..>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>>< 56 ..agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUG 110 +G A::G+GAAAGG:AU:+U:GCCGAAG:AA ::::: CA ::::: UU:CUG 67085 gaAGGAAUGAGAAAGGAAUGGUUGCCGAAGUAAGUCGUGUccACCAuGCACGC-UUGCUG 67143 <<<<<<<<<<____._>>>>>>>>>>>,<<<<<<<..___..>>>>>>>,,,,)))))): 111 GgcuugcauuGAAU.aaaugcaagaCUGUCAcaga..UuU..ucugUGGAGaGCUAccuu 165 GG::UGCA:U AAU A:UGCA::ACUGUCACA:A UUU U:UGUGGAGAGCUA:C+ 67144 GGUCUGCAUUUAAUa-AGUGCAGAACUGUCACAAAcgUUUcgUUUGUGGAGAGCUAUCGA 67202 :::: 166 ggua 169 G + 67203 GAGG 67206 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30462,sp|AE017002.1|AE017002 Bacillus cereus ATCC 14579 section 5 of 18 of the complete genome. ----isReversed: 0 ----hitSequence: CUCAAAGGUAGAGGCCGCGAUAGGAAAGAGUAAGCUAUGGGAGAUUUAAUGGAAUCUGUGAUCAUAGGUUGAAAGGGACUAUUGCCGAAAUAUAAGAAUAACCAUCUUAUUCAUAUAUUGGGACUGCAUUGAAUAAAUGUAGUACUGUCAUAAGAUUUAUUUUAUGGAGAGCUAUUUGGAGA hit 27 : 166090 166271 (fwd) 100.04 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 + +A::UAGAGGC GC AUA A+GAGUAA :::U :GAG UU A U AAU 166090 CUCAAAGGUAGAGGCcGCGAUAGGAAAGAGUAAGCUAUGGGAGAUUUAAUGGAAUCugug 166149 .>>>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>>< 56 .agaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUG 110 : A::: U GAAAGG UAU GCCGAA::A+A :AA:: C + ::UU: U+U::UG 166150 aUCAUAGGUuGAAAGGGACUAUUGCCGAAAUAUAAGAAUAaCCAUcuUAUUCAUAUAUUG 166209 <<<<<<<<<<____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,)))))):: 111 GgcuugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuug 166 GG::U:CAUUGAAU AAUG:A::ACUGUCA:A:: UUU ::U:UGGAGAGCUA::U+G 166210 GGACUGCAUUGAAUa-AAUGUAGUACUGUCAUAAGaUUUauUUUAUGGAGAGCUAUUUGG 166268 ::: 167 gua 169 +A 166269 AGA 166271 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30463,sp|AE017003.1|AE017003 Bacillus cereus ATCC 14579 section 6 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: ACGUGAGAUAGAGGUUGCGAUACUUAUGAGUAUUCUAAUGGAGACACAGAGAUGUCUAUGAACUUAGAUGAAAGGAAGUAUUGCCGAAAUUGAUAAAUUUCUCUGCAUUUAUCAAUUGGGGCUGUUUUCGAAUAGAAACAGAACUGUCAUAUGUACAGACGUGUACGUAUGAAGAGCUAUCUACAAA hit 28 : 180245 180059 (rev) 112.27 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_...._______________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaAUG 55 A UGAG:UAGAGG+ GC AUA:U:AUGAGUA ::::: GG A + +A++ C AUG 167212 ACGUGAGAUAGAGGUuGCGAUACUUAUGAGUAUUCUAAUGGagacACAGAGAUGUCUAUG 167271 .>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>><<< 56 .agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcUGGg 112 A ::::: GAAAGG:A:UAU GCCGAA:: :AUAAA: CUC+ :UUUAU: ::UGGG 167272 aACUUAGAUGAAAGGAAGUAUUGCCGAAAUUGAUAAAUUuCUCUgCAUUUAUCAAUUGGG 167331 <<<<<<<<.____._>>>>>>>>>>>,<<<<<<<.___........>>>>>>>,,,,))) 113 cuugcauu.GAAU.aaaugcaagaCUGUCAcaga.UuU........ucugUGGAGaGCUA 161 :UG::U: GAAU :A::CA: ACUG:CA:A : + : U:UG:AGAGCUA 167332 GCUGUUUUcGAAUa-GAAACAGAACUGUCAUAUGuACAgacguguaCGUAUGAAGAGCUA 167390 )))::::: 162 ccuuggua 169 :CU +A 167391 UCUACAAA 167398 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30467,sp|AE017007.1|AE017007 Bacillus cereus ATCC 14579 section 10 of 18 of the complete genome. ----isReversed: 0 ----hitSequence: CGAUGAGGUAGAGGUUGCGACUUUUAAGAGUACGACGGACGAGACACAGAGAAUGUCACCGACUCCGUUUGAAAGGAAAAGUUGCCGAAGUUUAUAUUUCUUCUCUGGAAAUAUGAGCUGGGGCUGUCUCCGAAAGGAACAGAACUGUCACGUUUACAAAAUUACCGUGUAAACGUGGGGUGCUAUCUUAACG hit 29 : 287994 288186 (fwd) 83.86 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 + UGAG:UAGAGG+ GC A:::U:A+GAGUA: :::::: + G A +A AAUG 287994 CGAUGAGGUAGAGGUuGCGACUUUUAAGAGUACGACGGAC-GAGACACAGAGAAUGucac 288052 ...>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>> 56 ...agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcU 109 :::::: :GAAAGG:A:::U GCCGAAG: AUA:::: CUC+ ::::UAU :CU 288053 cgaCUCCGUUUGAAAGGAAAAGUUGCCGAAGUUUAUAUUUCuuCUCUgGAAAUAUGAGCU 288112 <<<<<<<<<<<._____>>>>>>>>>>>,<<<<<<<.___.............>>>>>>> 110 GGgcuugcauu.GAAUaaaugcaagaCUGUCAcaga.UuU.............ucugUGG 154 GGG :UG:::: GAA ::::CA: ACUGUCAC::: + :::GUGG 288113 GGGGCUGUCUCcGAAA-GGAACAGAACUGUCACGUUuACAaaauuaccguguaAACGUGG 288171 ,,,,))))))::::: 155 AGaGCUAccuuggua 169 G GCUA:CUU 288172 GGUGCUAUCUUAACG 288186 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30478,sp|AE017026.1|AE017026 Bacillus anthracis str. Ames section 3 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: CGGUGAGGUAGAGGUUGCAGUCAUUAAGAGUAUCAUUUCUGGAGAUGUAGUGGCAUUGAUGAAGGAAUGAGAAAGGAAUGAUUGCCGAAGUAAGUUGUGUCCACCAUGCACACUUGCUGGGUCUGCAUUUAAUAAGUGCAGAACUGUCACAAACGUUUCGUUUGUGGAGAGCUAUCGAGAGG hit 30 : 274819 274638 (rev) 120.67 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_.._______________.. 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG..agGuuaAcuaCaAUG.. 55 + UG+G:UAGAGG+ GC::U:AU:A+GAGUA+C::U C:G + +UA ++ CA UG 15396 CGGUGAGGUAGAGGUuGCAGUCAUUAAGAGUAUCAUUUCUGgaGAUGUAGUGGCAUUGau 15455 ..>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>>< 56 ..agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUG 110 :G A::G+GAAAGG:AU:A::GCCGAAG:AA:U :::: CA :::: A:UU:CUG 15456 gaAGGAAUGAGAAAGGAAUGAUUGCCGAAGUAAGUUGUGUccACCAuGCAC-ACUUGCUG 15514 <<<<<<<<<<____._>>>>>>>>>>>,<<<<<<<..___..>>>>>>>,,,,)))))): 111 GgcuugcauuGAAU.aaaugcaagaCUGUCAcaga..UuU..ucugUGGAGaGCUAccuu 165 GG::UGCA:U AAU A:UGCA::ACUGUCACA:A UUU U:UGUGGAGAGCUA:C+ 15515 GGUCUGCAUUUAAUa-AGUGCAGAACUGUCACAAAcgUUUcgUUUGUGGAGAGCUAUCGA 15573 :::: 166 ggua 169 G + 15574 GAGG 15577 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30480,sp|AE017028.1|AE017028 Bacillus anthracis str. Ames section 5 of 18 of the complete genome. ----isReversed: 0 ----hitSequence: CUCAAAGGUAGAGGCCGCGAUAGGAAAGAGUAAGCUAUGGGAGAUUUAAUGGAAUCUGUGAUCAUAGGUUGAAAGGGACUAUUGCCGAAAUAUAAGAAUAACCAUCUUAUUCAUAUAUUGGGACUGCAUUGAAUAAAUGUAGUACUGUCAUAAGAUUUAUUUUAUGGAGAGCUAUUUGGAGA hit 31 : 200117 200298 (fwd) 100.04 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 + +A::UAGAGGC GC AUA A+GAGUAA :::U :GAG UU A U AAU 200117 CUCAAAGGUAGAGGCcGCGAUAGGAAAGAGUAAGCUAUGGGAGAUUUAAUGGAAUCugug 200176 .>>>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>>< 56 .agaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUG 110 : A::: U GAAAGG UAU GCCGAA::A+A :AA:: C + ::UU: U+U::UG 200177 aUCAUAGGUuGAAAGGGACUAUUGCCGAAAUAUAAGAAUAaCCAUcuUAUUCAUAUAUUG 200236 <<<<<<<<<<____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,)))))):: 111 GgcuugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuug 166 GG::U:CAUUGAAU AAUG:A::ACUGUCA:A:: UUU ::U:UGGAGAGCUA::U+G 200237 GGACUGCAUUGAAUa-AAUGUAGUACUGUCAUAAGaUUUauUUUAUGGAGAGCUAUUUGG 200295 ::: 167 gua 169 +A 200296 AGA 200298 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30481,sp|AE017029.1|AE017029 Bacillus anthracis str. Ames section 6 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: ACGUGAGAUAGAGGUUGCGAUACUUAUGAGUAUUCUAAUGGAGACACAGAGAGGUCCAUGAAAUUAGAUGAAAGGAAGUAUUGCCGAAAUCGAUAUAUUUCUCUGUAUGUAUCGAUUGGGGCUGUUUUCGAAUAGAAACAGAACUGUCAUAUGUACAGACAUGUACGUAUGAAGAGCUAUCUACAAA hit 32 : 246029 245843 (rev) 111.94 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_...._______________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaAUG 55 A UGAG:UAGAGG+ GC AUA:U:AUGAGUA ::::::GG A + +A++ C AUG 44497 ACGUGAGAUAGAGGUuGCGAUACUUAUGAGUAUUCUAAUGGagacACAGAGAGGUCCAUG 44556 .>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>><<< 56 .agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcUGGg 112 A:::::: GAAAGG:A:UAU GCCGAA::::AUA A: CUC+ :U UAU::::UGGG 44557 aAAUUAGAUGAAAGGAAGUAUUGCCGAAAUCGAUAUAUUuCUCUgUAUGUAUCGAUUGGG 44616 <<<<<<<<.____._>>>>>>>>>>>,<<<<<<<.___........>>>>>>>,,,,))) 113 cuugcauu.GAAU.aaaugcaagaCUGUCAcaga.UuU........ucugUGGAGaGCUA 161 :UG::U: GAAU :A::CA: ACUG:CA:A : + : U:UG:AGAGCUA 44617 GCUGUUUUcGAAUa-GAAACAGAACUGUCAUAUGuACAgacauguaCGUAUGAAGAGCUA 44675 )))::::: 162 ccuuggua 169 :CU +A 44676 UCUACAAA 44683 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30485,sp|AE017033.1|AE017033 Bacillus anthracis str. Ames section 10 of 18 of the complete genome. ----isReversed: 0 ----hitSequence: CGAUGAGGUAGAGGUUGCGACUUUUAAGAGUAAAACGGACGAGAUACAGAGAAUGUCUAAGACUCCGUUUGAAAGGAAAAGUUGCCGAAGUUUAUAUUUCUUCUCUGGAAAUAUGAGCUGGGGCUGUGUCUGAAAGGAACAGAACUGUCACGUUUACAAAAUUACCGUGUAAACGUGGGGUGCUAUCUUAACG hit 33 : 217118 217310 (fwd) 91.60 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 + UGAG:UAGAGG+ GC A:::U:A+GAGUAA::::::: + G UA +A AAUG 217118 CGAUGAGGUAGAGGUuGCGACUUUUAAGAGUAAAACGGAC-GAGAUACAGAGAAUGucua 217176 ...>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>> 56 ...agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcU 109 :::::::UGAAAGG:A:::U GCCGAAG: AUA:::: CUC+ ::::UAU :CU 217177 agaCUCCGUUUGAAAGGAAAAGUUGCCGAAGUUUAUAUUUCuuCUCUgGAAAUAUGAGCU 217236 <<<<<<<<<<<._____>>>>>>>>>>>,<<<<<<<.___.............>>>>>>> 110 GGgcuugcauu.GAAUaaaugcaagaCUGUCAcaga.UuU.............ucugUGG 154 GGG :UG: :: GAA :: :CA: ACUGUCAC::: + :::GUGG 217237 GGGGCUGUGUCuGAAA-GGAACAGAACUGUCACGUUuACAaaauuaccguguaAACGUGG 217295 ,,,,))))))::::: 155 AGaGCUAccuuggua 169 G GCUA:CUU 217296 GGUGCUAUCUUAACG 217310 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30503,sp|AE017154.1|AE017154 Haemophilus ducreyi strain 35000HP section 4 of 6 of the complete genome. ----isReversed: 0 ----hitSequence: ACAAAUUGUAGAGGUGCAAAUCCGAUAAGUAUUUCUUCUGAGUGGAAAGCGAUGAAGGGGAAGGAAAGGCGUAUUUGCCGAAAUCAAUUAAGCGUCAUCUUAGUUGGUUGGGGUCGUUGCCGAAAGGGACGACACUGUCGUAAUUCAAUAUUACGGAGUGCUACUAUUAGG hit 34 : 86844 87014 (fwd) 104.81 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 A + GUAGAGG+GC:A::::+AU AGUA :U: C: + GU +A + C+AUG :G 86844 ACAAAUUGUAGAGGUGCAAAUCCGAUAAGUAUUUCUUCU-GAGUGGAAAGCGAUGaAGGG 86902 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugcau 119 :A: GAAAGG+::::U:GCCGAA:::AA :AA: +UCA :UU: UU:::UGGG:U:G: 86903 GAAGGAAAGGCGUAUUUGCCGAAAUCAAUUAAGCGUCAUCUUAGUUGGUUGGGGUCGUUG 86962 <._____>>>>>>>>>>>,<<<<<<<.___.>>>>>>>,,,,))))))::::: 120 u.GAAUaaaugcaagaCUGUCAcaga.UuU.ucugUGGAGaGCUAccuuggua 169 : GAA : :C:A:ACUGUC::A:: ++ ::U::GGAG GCUAC U+ + 86963 CcGAAA-GGGACGACACUGUCGUAAUuCAAuAUUACGGAGUGCUACUAUUAGG 87014 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #9665,sp|AF269374.1|AF269374 Staphylococcus epidermidis strain SR1 clone step.1002g10 genomic sequence. ----isReversed: 1 ----hitSequence: AAUAGAGUUAGAGGUUGCAUUAUUAAUGACUAACUUAUCAGAAGUCGUAUGGGACAUGUGUUGAAUAAGUGAAAGGUAAUAAUGCCGAAAUGAUGUUAUUUCCAUAAAUUAGCAUUGUUGGGACAACUUUCGAAUAGAAGUUGUACUGUCACUUUAUGUGAUGUGCUACCUUAUAU hit 35 : 1074 899 (rev) 106.77 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 AAU GAG:UAGAGG+ GC:+UA:U:AUGA UAACU::U: GA GU + U +A 1929 AAUAGAGUUAGAGGUuGCAUUAUUAAUGACUAACUUAUCAGAAGUCGUAUGGGACAugug 1988 ..>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>>< 56 ..agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUG 110 :A::AGUGAAAGG:A:UA+:GCCGAA:::A::+:A : C A : U:+::U:::UG 1989 uuGAAUAAGUGAAAGGUAAUAAUGCCGAAAUGAUGUUAUUucCAUAaAUUAGCAUUGUUG 2048 <<<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,)))))):::: 111 Ggcuugcauu.GAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuuggu 168 GG::::C:U: GAAU :A:G::::ACUG:CAC UU+ GUG: G GCUA:CUU ++ 2049 GGACAACUUUcGAAUa-GAAGUUGUACUGUCACU--UUA--UGUGAUGUGCUACCUUAUA 2103 : 169 a 169 2104 U 2104 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #9827,sp|AF269536.1|AF269536 Staphylococcus epidermidis strain SR1 clone step.1008f05 genomic sequence. ----isReversed: 1 ----hitSequence: AAUAGAGUUAGAGGUUGCAUUAUUAAUGACUAACUUAUCAGAAGUCGUAUGGGACAUGUGUUGAAUAAGUGAAAGGUAAUAAUGCCGAAAUGAUGUUAUUUCCAUAAAUUAGCAUUGUGAAGUUGGUUGAACAAUAAAAACAUCACAACCACGAAUGCUUUCUUCAAUAUUUAUUUGAAUU hit 36 : 680 500 (rev) 41.17 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 AAU GA: UA AGG+ GC:+UA:U:AUGA UAACU::U: GA GU + U +A 2676 AAUAGAGUUAGAGGUuGCAUUAUUAAUGACUAACUUAUCAGAAGUCGUAUGGGACAugug 2735 ..>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>>< 56 ..agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUG 110 :A::AGUGAAAGG:A:UA+:GCCGA :::A::+:A : C A : U:+::U::: : 2736 uuGAAUAAGUGAAAGGUAAUAAUGCCGAAAUGAUGUUAUUucCAUAaAUUAGCAUUGUGA 2795 <<<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<.___>>>>>>>,,,,))))))::: 111 Ggcuugcauu.GAAU.aaaugcaagaCUGUCAcaga.UuUucugUGGAGaGCUAccuugg 167 :G :G:: AAU ::C: A:: : A ::A UU:: U :A A UA :U+ 2796 AGUUGGUUGAaCAAUa-AAAACAUCACAACCACGAAuGCUUUCUUCAAUAUUUAUUUGAA 2854 :: 168 ua 169 U 2855 UU 2856 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #10597,sp|AF270308.1|AF270308 Staphylococcus epidermidis strain SR1 clone step.4001a10a genomic sequence. ----isReversed: 0 ----hitSequence: AAUAGAGUUAGAGGUUGCAUUAUUAAUGACUAACUUAUCAGAAGUCGUAUGGGACAUGUGUUGAAUAAGUGAAAGGUAAUAAUGCCGAAAUGAUGUUAUUUCCAUAAAUUAGCAUUGUUGGGACAACUUUCGAAUAGAAGUUGUACUGUCACUUUAUGUGAUGUGCUACCUUAUAU hit 37 : 2156 2331 (fwd) 106.77 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 AAU GAG:UAGAGG+ GC:+UA:U:AUGA UAACU::U: GA GU + U +A 2156 AAUAGAGUUAGAGGUuGCAUUAUUAAUGACUAACUUAUCAGAAGUCGUAUGGGACAugug 2215 ..>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>>< 56 ..agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUG 110 :A::AGUGAAAGG:A:UA+:GCCGAA:::A::+:A : C A : U:+::U:::UG 2216 uuGAAUAAGUGAAAGGUAAUAAUGCCGAAAUGAUGUUAUUucCAUAaAUUAGCAUUGUUG 2275 <<<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,)))))):::: 111 Ggcuugcauu.GAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuuggu 168 GG::::C:U: GAAU :A:G::::ACUG:CAC UU+ GUG: G GCUA:CUU ++ 2276 GGACAACUUUcGAAUa-GAAGUUGUACUGUCACU--UUA--UGUGAUGUGCUACCUUAUA 2330 : 169 a 169 2331 U 2331 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #15278,sp|AF306669.1|AF306669 Staphylococcus aureus strain 8325-4 dap operon, complete sequence. ----isReversed: 0 ----hitSequence: AUAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAAGUUUAGAUUACUGUCUGCUAACAGCUAAAUUUGAAAGGGUGCGAUGCCGAAGCAAUUAUAAUAGCAGUUAUAAUUUGUUGGACUUUUUGGUUAAGAGCUGAGAGUUUGUCAUUAUUUAAAAAUAAUGGAGUGCAUCACUUGUA hit 38 : 1019 1194 (fwd) 102.11 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________..>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG..aga 58 A U+::G: GAGGCGC:+: ++CAUGAGUAA: :UU: U+ CU C A :A 1019 AUAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAAGUUUAGAUUACUGUCUGCUAACagCUA 1078 >>>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>.>>>><<<<<<<< 59 auaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauu.ugcUGGgcuugc 117 A: :UGAAAGGG++ :+:GCCGAA:CAA:UA:AA: +CA:UU:UA:U UG:UG: CU :: 1079 AAUUUGAAAGGGUGCGAUGCCGAAGCAAUUAUAAUAGCAGUUAUAAUuUGUUGGACUUUU 1138 <<<.____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::::: 118 auu.GAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuuggua 169 : AA : :: AG :UGUCA:::: U++ ::::UGGAG GC :C::U+GUA 1139 UGGuUAAGa-GCUGAGAGUUUGUCAUUAUuUAAaaAUAAUGGAGUGCAUCACUUGUA 1194 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #410,sp|AL591976.1|AL591976 Listeria monocytogenes strain EGD, complete genome, segment 4/12 ----isReversed: 1 ----hitSequence: UGGUGAGGUAGAGGUUGCGAGAUGCACUAGUAAUUUUUUCGAGGCGAAACAAAGACGCCGACGACAAAGAAUGAACAGGUUGAUCGCCGAAGUGACUAUUUUCUCUUUGUUUAGAAAUAGUUGUUGGGACAGUUUCCUAAAGGGGCUGGACUGCUAUAAGAAUUUGUCGAAAUUUCUUAUAGGUGUGCUAUCUGACAA hit 39 : 186683 186486 (rev) 60.46 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_.......____________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG.......agGuuaAcuaCa 52 + UGAG:UAGAGG+ GCGA :CA AGUAA:U+UU::G A +AC++C+ 63368 UGGUGAGGUAGAGGUuGCGAGAUGCACUAGUAAUUUUUUCGaggcgaaACAAAGACGCCG 63427 ___.>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<......____.>>>>>>> 53 AUG.agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag......cUCA.cuuuuau 104 A G ::AA+A:UGAA GG: UCGCCGAA:::A:UA:::: +U + ::::UA: 63428 ACGaCAAAGAAUGAACAGGUUGAUCGCCGAAGUGACUAUUUUcucuuuGUUUaGAAAUAG 63487 >>>>><<<<<<<<<<<._____>>>>>>>>>>>,<<<<<<<..___..........>>>> 105 uugcUGGgcuugcauu.GAAUaaaugcaagaCUGUCAcaga..UuU..........ucug 151 U:::UGGG ::G: :: AA :: :C:: ACUG::A:A:: UUU ::U: 63488 UUGUUGGGACAGUUUCcUAAA-GGGGCUGGACUGCUAUAAGaaUUUgucgaaauuuCUUA 63546 >>>.,,,,))))))::::: 152 UGG.AGaGCUAccuuggua 169 U:: G GCUA:CU+ +A 63547 UAGgUGUGCUAUCUGACAA 63565 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #422,sp|AL596166.1|AL596166 Listeria innocua Clip11262 complete genome, segment 4/12 ----isReversed: 1 ----hitSequence: UGGUGAGGUAGAGGUUGCGAGAUGCACUAGUAAUUUUUUCGAGGCGAAACAAAGACGCCAAUGACAAAAAACGAACAGGUUAAUCGCCGAAGUGACUAUUUUUUCUUUGUAUCGAAAUAGUUGUUGGGACAGUUUCCUAAAGGAGCUGGACUGCUAUAAGAAUUUGUCGAAAUUUCUUAUAGGUGUGCUAUCUGACAA hit 40 : 112469 112272 (rev) 65.23 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_.......____________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG.......agGuuaAcuaCa 52 + UGAG:UAGAGG+ GCGA + :CA AGUA :U:UU::G A +AC++CA 147582 UGGUGAGGUAGAGGUuGCGAGAUGCACUAGUAAUUUUUUCGaggcgaaACAAAGACGCCA 147641 ___.>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.....>>>>>>> 53 AUG.agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.....cuuuuau 104 AUG ::AA:A: GAA GG: + UCGCCGAA:::A:UA:::: CU + ::::UA: 147642 AUGaCAAAAAACGAACAGGUUAAUCGCCGAAGUGACUAUUUUuuCUUUguaucGAAAUAG 147701 >>>>><<<<<<<<<<<._____>>>>>>>>>>>,<<<<<<<..___..........>>>> 105 uugcUGGgcuugcauu.GAAUaaaugcaagaCUGUCAcaga..UuU..........ucug 151 U:::UGGG ::G:::: AA ::::C:: ACUG::A:A:: UUU ::U: 147702 UUGUUGGGACAGUUUCcUAAA-GGAGCUGGACUGCUAUAAGaaUUUgucgaaauuuCUUA 147760 >>>.,,,,))))))::::: 152 UGG.AGaGCUAccuuggua 169 U:: G GCUA:CU+ +A 147761 UAGgUGUGCUAUCUGACAA 147779 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #483,sp|AL935254.1|AL935254 Lactobacillus plantarum strain WCFS1 complete genome; segment 3/11 ----isReversed: 0 ----hitSequence: AUCGAAAGAAGAGGAUGCGGUUAACAAUAGUAGCCGGCUGGAAGUGGGUCACCACUUAUGAAGGUCAGUGAACGGGGCAACCGCCGAAAUCGAUGGAUCAGUGACCGAUUCAUCCGUUGGGCCUUGGUUGAAUAAAUCAUGGACUGUCGCAGCUAGAAUAGUUGCGGGGCGCUAUCGACGAU hit 41 : 261916 262097 (fwd) 67.20 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_...._______________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaAUG 55 A + ++:: AGAGG+ GCG:U: CA+ AGUA:C ::::GG +GGU A C++ AUG 261916 AUCGAAAGAAGAGGAuGCGGUUAACAAUAGUAGCCGGCUGGaaguGGGUCACCACUUAUG 261975 .>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>><< 56 .agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUGG 111 A:::: G:GAA GGG :A:CGCCGAA:: :AU::A:: +U A ::U::AU: ::UGG 261976 aAGGUCAGUGAACGGGGCAACCGCCGAAAUCGAUGGAUCaGUGAccGAUUCAUCCGUUGG 262035 <<<<<<<<<____._>>>>>>>>>>>,<<<<<<<..___..>>>>>>>,,,,)))))):: 112 gcuugcauuGAAU.aaaugcaagaCUGUCAcaga..UuU..ucugUGGAGaGCUAccuug 166 GC: :::UUGAAU AA::: :GACUGUC:CA : ++ : UG:GG G+GCU ::+ 262036 GCCUUGGUUGAAUa-AAUCAUGGACUGUCGCAGCuaGAAuaGUUGCGGGGCGCUAUCGAC 262094 ::: 167 gua 169 G+ 262095 GAU 262097 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #931,sp|AP001512.1|AP001512 Bacillus halodurans genomic DNA, section 6/14. ----isReversed: 0 ----hitSequence: GGAUGAGGUAGAGGUGCAAUGCGAAUCAGUACCCACUUGGAGUUUGAUGGAACUAGGAAGAGUGGGGAAAGGUCAAUUUGCCGAAGUGAAUGUAUGUCCAUCCCAUACGUUUGCUGGGUCGUUUUUGAAUAAAAAACGAACUGCCGCUGACUGUUAGCGGAGAGCUAUCUGCCAA hit 42 : 119931 120105 (fwd) 98.26 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________...>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG...ag 57 + UGAG:UAGAGG+GC:A : ::AU AGUA:C:A:U:GGAG UU+A++ A U A: 119931 GGAUGAGGUAGAGGUGCAAUGCGAAUCAGUACCCACUUGGAGUUUGAUGGAACUAggaAG 119990 >>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>><<<<< 58 aauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUGGgcu 114 A:U:G:GAAAGG:: : U:GCCGAAG::AA ::A:G C + C:U:: UU::CUGGG:: 119991 AGUGGGGAAAGGUCAAUUUGCCGAAGUGAAUGUAUGuCCAUccCAUACGUUUGCUGGGUC 120050 <<<<<<____._>>>>>>>>>>>,<<<<<<<.___>>>>>>>,,,,))))))::::: 115 ugcauuGAAU.aaaugcaagaCUGUCAcaga.UuUucugUGGAGaGCUAccuuggua 169 ::::UUGAAU AA::::::ACUG:C:C:GA U UU :G:G:AGAGCUA:CU+ +A 120051 GUUUUUGAAUa-AAAAACGAACUGCCGCUGAcUGUU-AGCGGAGAGCUAUCUGCCAA 120105 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #932,sp|AP001513.1|AP001513 Bacillus halodurans genomic DNA, section 7/14. ----isReversed: 1 ----hitSequence: AGUGAGGAUAGAGGUGCAAAAACCAAGAGUACACAAUUGGAGGAGAAUGAGAUCCGUUGAGAAUUGUGGAAAGGGGAAUUUGCCGAAGCUGGAAGAAUCUCAUGUUCUGAAGGCUGGUUCUGUAUUAAAUAAAUACAGAACUGUCAUAUAGCGGAUGUUGCUAUAUGGAGGGCUAUCUCACGC hit 43 : 19957 19775 (rev) 124.39 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________..... 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG..... 55 A+U + G:UAGAGG+GC:A:++:CA+GAGUA:::A:U: GAGG AA++A A 272594 AGUGAGGAUAGAGGUGCAAAAACCAAGAGUACACAAUUGGAGGAGAAUGAGAUCCguuga 272653 >>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<____.>>>>>>>>>>>><<<<< 56 agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCA.cuuuuauuugcUGGgcu 114 :A:U:::GAAAGGG:++:U:GCCGAAGC :: A:AA:CUCA :UU:U :: GCUGG::: 272654 GAAUUGUGGAAAGGGGAAUUUGCCGAAGCUGGAAGAAUCUCAuGUUCUGAAGGCUGGUUC 272713 <<<<<<____._>>>>>>>>>>>,<<<<<<<...___.....>>>>>>>,,,,)))))): 115 ugcauuGAAU.aaaugcaagaCUGUCAcaga...UuU.....ucugUGGAGaGCUAccuu 165 UG:AUU AAU AAU:CA:::CUGUCA:A:A +U U:U:UGGAG GCUA:C 272714 UGUAUUAAAUa-AAUACAGAACUGUCAUAUAgcgGAUguugcUAUAUGGAGGGCUAUCUC 272772 :::: 166 ggua 169 + 272773 ACGC 272776 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #936,sp|AP001517.1|AP001517 Bacillus halodurans genomic DNA, section 11/14. ----isReversed: 1 ----hitSequence: AGUGAUGGUAGAGGUGCGAAAACCAAGAGUACACAGUCUGAGAGAAAUGAGAAUCGUUGACGACUGUUGGAAAGGGGGAUUCGCCGAAGUGCAGAUCGGGGCUCAUUCCCAUUUGCGCUGGACCUAUGUUGAAUAAGCAUAGGGCUGUCACAACACUAGCCCCAACUAGUGCUGUGGAGAACUAUCUCACGU hit 44 : 215539 215348 (rev) 121.13 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________..... 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG..... 55 A+U + G:UAGAGG+GCGA:++:CA+GAGUA:::A:UC GAG + AA++A AAU 78712 AGUGAUGGUAGAGGUGCGAAAACCAAGAGUACACAGUCUGAGAGAAAUGAGAAUCguuga 78771 >>>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<..____..>>>>>>>>>>>>< 56 agaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA..cuuuuauuugcUG 110 GA:U::: GAAAGGG:++:UCGCCGAAG:::A:A:::G CUCA C:::U:U:::CUG 78772 CGACUGUUgGAAAGGGGGAUUCGCCGAAGUGCAGAUCGGggCUCAuuCCCAUUUGCGCUG 78831 <<<<<<<<<<____._>>>>>>>>>>>,<<<<<<<.___............>>>>>>>,, 111 GgcuugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU............ucugUGGAG 156 G C:U::::UGAAU A::::A:G CUGUCACA : U+ : UGUGGAG 78832 GACCUAUGUUGAAUa-AGCAUAGGGCUGUCACAACaCUAgccccaacuaguGCUGUGGAG 78890 ,,))))))::::: 157 aGCUAccuuggua 169 A CUA:C + 78891 AACUAUCUCACGU 78903 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #937,sp|AP001518.1|AP001518 Bacillus halodurans genomic DNA, section 12/14. ----isReversed: 1 ----hitSequence: AGAUGGGGUAGAGGAGCGGGUUUUAAGAGUAAGCGCUUGGAGGAUGACAACGAGGAUAAGCGCCGAAAGGAAAACUCGCCGAAGCGGAAGAUGAGUCAAGCGUCUUCUUGCUGGGGUUGCAUUGAAUAAAUGUAACACUGUCACAGCAGAUUGCUGUGGAGAACUACUAACGUU hit 45 : 272531 272358 (rev) 137.02 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 A+ UG::GUAGAGG+GCG::::U:A+GAGUA ::::U::GAGG U+AC+AC+A G ::A: 30720 AGAUGGGGUAGAGGAGCGGGUUUUAAGAGUAAGCGCUUGGAGGAUGACAACGAGGaUAAG 30779 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>><<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUGGgcuug 116 ::: GAAAGG:A::::CGCCGAAGC: ::A:A+G +UCA C+U:U::U:GCUGGG:UU: 30780 CGCCGAAAGGAAAACUCGCCGAAGCG-GAAGAUGaGUCAagCGUCUUCUUGCUGGGGUUG 30838 <<<<____._>>>>>>>>>>>,<<<<<<<.___.>>>>>>>,,,,))))))::::: 117 cauuGAAU.aaaugcaagaCUGUCAcaga.UuU.ucugUGGAGaGCUAccuuggua 169 CAUUGAAU AAUG:AA:ACUGUCACAG: +U :CUGUGGAGA CUAC:: GU 30839 CAUUGAAUa-AAUGUAACACUGUCACAGCaGAUuGCUGUGGAGAACUACUAACGUU 30893 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #964,sp|AP002568.1|AP002568 Escherichia coli O157:H7 DNA, complete genome, section 19/20. ----isReversed: 1 ----hitSequence: CAGGCCAGAAGAGGCGCGUUGCCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUACAGGGGCUGAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 46 : 229 33 (rev) 63.19 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 A ::G:AGAGGCGCG+U:::CA AGUA ::U:UU+G +G + A+U+C UG A 242956 CAGGCCAGAAGAGGCGCGUUGCCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 243011 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG:::A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 243012 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 243070 <<<<<<<<<.._____>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu..GAAUaaaugcaagaCUGUCAcaga....UuU.................. 147 ::+:::::: GAAU :::::: :::UGUCAC::: UU 243071 CUACAGGGGcuGAAU-CCCCUG-GGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 243128 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 243129 aaGUGGUGGAGCACUUCUGGGUGA 243152 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #995,sp|AP003133.2|AP003133 Staphylococcus aureus subsp. aureus N315 genomic DNA, complete genome, section 5/10. ----isReversed: 0 ----hitSequence: AUAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAAGUUUAGAUUACUGUCUGCUAACAGCUGAAUUUGAAAGGGUGCGAUGCCGAAGCGAUUAUAAUAGCAGUUAUAAUUUGUUGGACUUUUUGGUUAAGAGCUGAGAGUUUGUCAUUAUUUAAAAAUAAUGGAGUGCAUCACUUGUA hit 47 : 203486 203661 (fwd) 98.71 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________..>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG..aga 58 A U+::G: GAGGCGC:+: ++CAUGAGUAA: :U : U+ CU C A : 203486 AUAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAAGUUUAGAUUACUGUCUGCUAACagCUG 203545 >>>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>.>>>><<<<<<<< 59 auaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauu.ugcUGGgcuugc 117 A: :UGAAAGGG++ :+:GCCGAA:C:A:UA:AA: +CA:UU:UA:U :G:UG: CU :: 203546 AAUUUGAAAGGGUGCGAUGCCGAAGCGAUUAUAAUAGCAGUUAUAAUuUGUUGGACUUUU 203605 <<<.____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::::: 118 auu.GAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuuggua 169 : AA : :: AG :UGUCA:::: U++ ::::UGGAG GC :C::U+GUA 203606 UGGuUAAGa-GCUGAGAGUUUGUCAUUAUuUAAaaAUAAUGGAGUGCAUCACUUGUA 203661 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #996,sp|AP003134.2|AP003134 Staphylococcus aureus subsp. aureus N315 genomic DNA, complete genome, section 6/10. ----isReversed: 1 ----hitSequence: AAUUGAGUUAGAGGUUGCAUGUUUAAUUAGUAACUUGUCAGAAGUAUUUAUGGUACAUAAGUUGAACAAGUGAAAGGUAAAGAUGCCGAAAUAGAUAUAAACCAUAAAUUAUAUCUAUUGGGACAGUUUUCGAAUAGGAACUGUACUGUCACAGAAUGUGAUGUGCUACCUUAUAU hit 48 : 214217 214042 (rev) 110.81 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_........___________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG........agGuuaAcuaC 51 AAUUGAG:UAGAGG+ GC:+ ::U:AU AGUAACU::U:+G A G+UA UA 87334 AAUUGAGUUAGAGGUuGCAUGUUUAAUUAGUAACUUGUCAGaaguauuuAUGGUACAUAA 87393 ____>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>> 52 aAUGagaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcU 109 + UG :A::AGUGAAAGG:A:: +:GCCGAA::A:AUA:AA: C A :UU:UAU:U::U 87394 GUUG-AACAAGUGAAAGGUAAAGAUGCCGAAAUAGAUAUAAAcCAUAaAUUAUAUCUAUU 87452 <<<<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,))))))::: 110 GGgcuugcauu.GAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuugg 167 GGG:::G:::: GAAU ::::C:::ACUG:CACA ++ UGUG: G GCUA:CUU + 87453 GGGACAGUUUUcGAAUa-GGAACUGUACUGUCACA--GAA--UGUGAUGUGCUACCUUAU 87507 :: 168 ua 169 + 87508 AU 87509 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1004,sp|AP003187.2|AP003187 Clostridium perfringens str. 13 DNA, complete genome, section 3/10. ----isReversed: 0 ----hitSequence: GACCAAAGUAGAGGUGCCGUAAUUAAGAGUAGUCAUAAGUAGCUGACAAGUGUUUUAUGUAUGAUGAAAGGGAUUAUGGCCGAAGAGAUAUUAAUGGUGAUUAAUAUUUCUGGGUAUAUGUAUAAUAUGCAUAUAACUGUCACUUUGAAAAAAGUGGAGUGCUACAAGGUAC hit 49 : 139222 139393 (fwd) 123.64 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________..... 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG..... 55 A+ +: GUAGAGG+GC::UAAU:A+GAGUA:::AU::: G U+AC+A UG 139222 GACCAAAGUAGAGGUGCCGUAAUUAAGAGUAGUCAUAAG-UAGCUGACAAG--UGuuuua 139278 >>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<< 56 agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuu 115 :::AU:::GAAAGG:AUUA::GCCGAAG::A::::AA:++ :UU::::U::CUGGG::U 139279 UGUAUGAUGAAAGGGAUUAUGGCCGAAGAGAUAUUAAUGGUGAUUAAUAUUUCUGGGUAU 139338 <<<<<____._>>>>>>>>>>>,<<<<<<<.___>>>>>>>,,,,))))))::::: 116 gcauuGAAU.aaaugcaagaCUGUCAcaga.UuUucugUGGAGaGCUAccuuggua 169 ::::: AAU :::::A::ACUGUCAC::: ++:::GUGGAG GCUAC :+G++ 139339 AUGUAUAAUa-UGCAUAUAACUGUCACUUUgAAAAAAGUGGAGUGCUACAAGGUAC 139393 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1006,sp|AP003189.2|AP003189 Clostridium perfringens str. 13 DNA, complete genome, section 5/10. ----isReversed: 1 ----hitSequence: AACUGAGAUAGAGGCGCGAUGAUUAAUAGUAUCUUUGCAGAGGUAAGCACAUUGAAGCAAAGUGAAAGGAUGAAUCGCCGAAACCAUUAGAAGAGGCUUUAAUUCUAUUAGGUUGGGGUUGCAUAGAAUAUAUGUAACACUGUCACAAAUUAUUUUGUGGUGUGCUAUCAUGAAA hit 50 : 159236 159062 (rev) 138.99 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 AA+UG:G:UAGAGGCGCGAU:++:A+ AGUA CU:U:C+ + G+UAA+ ACA UG +G:A 138815 AACUGAGAUAGAGGCGCGAUGAUUAAUAGUAUCUUUGCA-GAGGUAAGCACAUUGaAGCA 138873 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____...>>>>>>>>.>>>><<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA...cuuuuauu.ugcUGGgcu 114 :AG GAAAGG:++:AUCGCCGAA:C:A+UA:AA ++C+ UU:UA+U :G:UGGG:U 138874 AAGUGAAAGGAUGAAUCGCCGAAACCAUUAGAAGaGGCUuuaAUUCUAUUaGGUUGGGGU 138933 <<<<<<____._>>>>>>>>>>>,<<<<<<<.___>>>>>>>,,,,))))))::::: 115 ugcauuGAAU.aaaugcaagaCUGUCAcaga.UuUucugUGGAGaGCUAccuuggua 169 U:CAU:GAAU :AUG:AA:ACUGUCACA:A U+UU:UGUGG G GCUA:C:UG +A 138934 UGCAUAGAAUa-UAUGUAACACUGUCACAAAuUAUUUUGUGGUGUGCUAUCAUGAAA 138989 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1011,sp|AP003194.2|AP003194 Clostridium perfringens str. 13 DNA, complete genome, section 10/10. ----isReversed: 1 ----hitSequence: AAAAGAGGUAGAGGCGCGAGAAUCAAGAUUACUAAAAUGGAGUUAAGUAGCGUAGAAGUUUUAGGAAAGGGAUUAUCGCCGAAGUUUUUGGCUAAUACUUUAAGGCUAAAUGCUGGGGUUGUAUAGAAUAUAUACAACACUGUCACAAAAUGUGGAGAGCUAUCAUCUUA hit 51 : 187997 187828 (rev) 128.08 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 AA G:G:UAGAGGCGCGA AAUCA+GA UA:::A:::GGAG U A ++ C+ G A::: 135934 AAAAGAGGUAGAGGCGCGAGAAUCAAGAUUACUAAAAUGGAGUUAAGUAGCGUAGaAGUU 135993 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGGgcuu 115 U:::GAAAGGGAUU UCGCCGAAG: +:U ::+: CU + :+:: A:+ :CUGGG:UU 135994 UUAGGAAAGGGAUUAUCGCCGAAGUUUUUGGCUAauaCUUUaAGGCUAAAUGCUGGGGUU 136053 <<<<<____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,))))))::::: 116 gcauuGAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuuggua 169 G:AU:GAAU :AU:CAA:ACUGUCACA ++ UGUGGAGAGCUA:C:U +UA 136054 GUAUAGAAUa-UAUACAACACUGUCACA--AAA--UGUGGAGAGCUAUCAUCUUA 136103 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1016,sp|AP003362.2|AP003362 Staphylococcus aureus subsp. aureus Mu50 genomic DNA, complete sequence, section 5/9. ----isReversed: 0 ----hitSequence: AUAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAAGUUUAGAUUACUGUCUGCUAACAGCUGAAUUUGAAAGGGUGCGAUGCCGAAGCGAUUAUAAUAGCAGUUAUAAUUUGUUGGACUUUUUGGUUAAGAGCUGAGAGUUUGUCAUUAUUUAAAAAUAAUGGAGUGCAUCACUUGUA hit 52 : 86735 86910 (fwd) 98.71 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________..>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG..aga 58 A U+::G: GAGGCGC:+: ++CAUGAGUAA: :U : U+ CU C A : 86735 AUAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAAGUUUAGAUUACUGUCUGCUAACagCUG 86794 >>>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>.>>>><<<<<<<< 59 auaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauu.ugcUGGgcuugc 117 A: :UGAAAGGG++ :+:GCCGAA:C:A:UA:AA: +CA:UU:UA:U :G:UG: CU :: 86795 AAUUUGAAAGGGUGCGAUGCCGAAGCGAUUAUAAUAGCAGUUAUAAUuUGUUGGACUUUU 86854 <<<.____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::::: 118 auu.GAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuuggua 169 : AA : :: AG :UGUCA:::: U++ ::::UGGAG GC :C::U+GUA 86855 UGGuUAAGa-GCUGAGAGUUUGUCAUUAUuUAAaaAUAAUGGAGUGCAUCACUUGUA 86910 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1017,sp|AP003363.2|AP003363 Staphylococcus aureus subsp. aureus Mu50 genomic DNA, complete sequence, section 6/9. ----isReversed: 1 ----hitSequence: AAUUGAGUUAGAGGUUGCAUGUUUAAUUAGUAACUUGUCAGAAGUAUUUAUGGUACAUAAGUUGAACAAGUGAAAGGUAAAGAUGCCGAAAUAGAUAUAAACCAUAAAUUAUAUCUAUUGGGACAGUUUUCGAAUAGGAACUGUACUGUCACAGAAUGUGAUGUGCUACCUUAUAU hit 53 : 54377 54202 (rev) 110.81 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_........___________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG........agGuuaAcuaC 51 AAUUGAG:UAGAGG+ GC:+ ::U:AU AGUAACU::U:+G A G+UA UA 288224 AAUUGAGUUAGAGGUuGCAUGUUUAAUUAGUAACUUGUCAGaaguauuuAUGGUACAUAA 288283 ____>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>> 52 aAUGagaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcU 109 + UG :A::AGUGAAAGG:A:: +:GCCGAA::A:AUA:AA: C A :UU:UAU:U::U 288284 GUUG-AACAAGUGAAAGGUAAAGAUGCCGAAAUAGAUAUAAAcCAUAaAUUAUAUCUAUU 288342 <<<<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,))))))::: 110 GGgcuugcauu.GAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuugg 167 GGG:::G:::: GAAU ::::C:::ACUG:CACA ++ UGUG: G GCUA:CUU + 288343 GGGACAGUUUUcGAAUa-GGAACUGUACUGUCACA--GAA--UGUGAUGUGCUACCUUAU 288397 :: 168 ua 169 + 288398 AU 288399 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1060,sp|AP004598.1|AP004598 Oceanobacillus iheyensis HTE831 genomic DNA, section 6/13. ----isReversed: 0 ----hitSequence: GUUUUGGAUAGAGGUGCGGAGACCAUCAGUAUAUACGCGGAAGGGAAAUGAGCCCUAGUGAAGCGUAUGGAAAGGGGAAUCUGCCGAAGCGAGUGAAAUACUCAUUCAUUAACUCGUUGGUGCUGCUAUUGAACAAAUAACAGUGCUGUCAUAUAGGAGACUAUAUGGAGGGCUAUCGAGCUG hit 54 : 253855 254037 (fwd) 102.28 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<_...._____________.__ 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaA.UG 55 UU+ G:UAGAGG+GC :::+:CAU AGUA :UA::CGG + U+A+ +C A UG 253855 GUUUUGGAUAGAGGUGCGGAGACCAUCAGUAUAUACGCGGaaggGAAAUGAGCCCUAgUG 253914 .>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>><< 56 .agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUGG 111 AG::UA: GAAAGGG:+::: GCCGAA:C:A:U AA CUCA UU A:U:G:UGG 253915 aAGCGUAUGGAAAGGGGAAUCUGCCGAAGCGAGUGAAAUaCUCAuuCAUUAACUCGUUGG 253974 <<<<<.<<<<____._>>>>.>>>>>>>,<<<<<<<..___.>>>>>>>,,,,)))))): 112 gcuug.cauuGAAU.aaaug.caagaCUGUCAcaga..UuU.ucugUGGAGaGCUAccuu 165 : :UG :AUUGAA AAU: CA: :CUGUCA:A:A + U:U:UGGAG GCUA:C 253975 UGCUGcUAUUGAACa-AAUAaCAGUGCUGUCAUAUAggAGAcUAUAUGGAGGGCUAUCGA 254033 :::: 166 ggua 169 G U 254034 GCUG 254037 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1063,sp|AP004601.1|AP004601 Oceanobacillus iheyensis HTE831 genomic DNA, section 9/13. ----isReversed: 1 ----hitSequence: CGGUGAGGUAGAGGAGCAUACAACAUUAGUAAUCGACAAGAGGAUGACAACGAUGAUAGUUGGUGGAAGGGUUGUUUGCCGAAGCAUAAUAAGGGUCAGACUUAUUAUUGCUGGUACAUCUUUGAAUAAAAGAUGCACUGUCAUGCAAAAUUAAGUGCAUGGAGAACUACUGAUCGA hit 55 : 22341 22165 (rev) 132.61 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 + UG+:GUAGAGG+GC:+::A:CAU AGUAA ::::::GAGG U+AC+AC+AUG :::: 277510 CGGUGAGGUAGAGGAGCAUACAACAUUAGUAAUCGACAAGAGGAUGACAACGAUGaUAGU 277569 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>><<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUGGgcuug 116 :: UG AAGGG:U::+:GCCGAAGCA ::A:AAG +UCA CUU:U::UUGCUGG::::: 277570 UGGUGGAAGGGUUGUUUGCCGAAGCA-UAAUAAGgGUCAgaCUUAUUAUUGCUGGUACAU 277628 <<<<____._>>>>>>>>>>>,<<<<<<<.___....>>>>>>>,,,,))))))::::: 117 cauuGAAU.aaaugcaagaCUGUCAcaga.UuU....ucugUGGAGaGCUAccuuggua 169 C:UUGAAU AA:G:::::CUGUCA:::A +U U:::UGGAGA CUAC:+ + +A 277629 CUUUGAAUa-AAAGAUGCACUGUCAUGCAaAAUuaagUGCAUGGAGAACUACUGAUCGA 277686 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1072,sp|AP004826.1|AP004826 Staphylococcus aureus subsp. aureus MW2 DNA, complete genome, strain:MW2, section 5/10. ----isReversed: 0 ----hitSequence: AUAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAAGUUUAGAUUACUGUCUGCUAACAGCUAAAUUUGAAAGGGUGCGAUGCCGAAGCGAUUAUAAUAGCAGUUAUAAUUUGUUGGACUUUUUGGUUAAGAGCUGAGAGUUUGUCAUUAUUUAAAAAUAAUGGAGUGCAUCACUUGUA hit 56 : 205532 205707 (fwd) 101.92 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________..>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG..aga 58 A U+::G: GAGGCGC:+: ++CAUGAGUAA: :UU: U+ CU C A :A 205532 AUAUUUUGAUGAGGCGCAUCAAUCAUGAGUAAAGUUUAGAUUACUGUCUGCUAACagCUA 205591 >>>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>.>>>><<<<<<<< 59 auaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauu.ugcUGGgcuugc 117 A: :UGAAAGGG++ :+:GCCGAA:C:A:UA:AA: +CA:UU:UA:U :G:UG: CU :: 205592 AAUUUGAAAGGGUGCGAUGCCGAAGCGAUUAUAAUAGCAGUUAUAAUuUGUUGGACUUUU 205651 <<<.____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::::: 118 auu.GAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuuggua 169 : AA : :: AG :UGUCA:::: U++ ::::UGGAG GC :C::U+GUA 205652 UGGuUAAGa-GCUGAGAGUUUGUCAUUAUuUAAaaAUAAUGGAGUGCAUCACUUGUA 205707 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1073,sp|AP004827.1|AP004827 Staphylococcus aureus subsp. aureus MW2 DNA, complete genome, strain:MW2, section 6/10. ----isReversed: 1 ----hitSequence: AAUUGAGUUAGAGGUUGCAUGUUUAAUUAGUAACUUGUCAGAAGUAUUUAUGGUACAUAAGUUGAACAAGUGAAAGGUAAAGAUGCCGAAAUAGAUAUAAACCAUAAAUUAUAUCUAUUGGGACAGUUUUCGAAUAGGAACUGUACUGUCACAGAAUGUGAUGUGCUACCUUAUAU hit 57 : 261938 261763 (rev) 110.81 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<_........___________ 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgG........agGuuaAcuaC 51 AAUUGAG:UAGAGG+ GC:+ ::U:AU AGUAACU::U:+G A G+UA UA 71813 AAUUGAGUUAGAGGUuGCAUGUUUAAUUAGUAACUUGUCAGaaguauuuAUGGUACAUAA 71872 ____>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____.>>>>>>>>>>>> 52 aAUGagaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA.cuuuuauuugcU 109 + UG :A::AGUGAAAGG:A:: +:GCCGAA::A:AUA:AA: C A :UU:UAU:U::U 71873 GUUG-AACAAGUGAAAGGUAAAGAUGCCGAAAUAGAUAUAAAcCAUAaAUUAUAUCUAUU 71931 <<<<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<___>>>>>>>,,,,))))))::: 110 GGgcuugcauu.GAAU.aaaugcaagaCUGUCAcagaUuUucugUGGAGaGCUAccuugg 167 GGG:::G:::: GAAU ::::C:::ACUG:CACA ++ UGUG: G GCUA:CUU + 71932 GGGACAGUUUUcGAAUa-GGAACUGUACUGUCACA--GAA--UGUGAUGUGCUACCUUAU 71986 :: 168 ua 169 + 71987 AU 71988 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1112,sp|AP005076.1|AP005076 Vibrio parahaemolyticus DNA, chromosome 1, complete sequence, 4/11. ----isReversed: 0 ----hitSequence: UGUUGCCGUAGAGGCGCAGUCUCGAAGAGUAGCUAUUAUUGGGGUGAUGCCAAUGAAUAAUAGUGGAAGGCGAAGAUUGCCGAAGUAAGUCGUAUAUCAAAACGCCUUGCUGGGGUUGUAUCUGAAAGGAACAACACUGCCAUAGUAUAUUUACAUUAAACUAUGGAGCGCUACUGUAGGG hit 58 : 290738 290918 (fwd) 129.43 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 +UUG::GUAGAGGCGC::U:::+A+GAGUA:CUAUU:: +GG+U+A+++CAAUG ::AA 290738 UGUUGCCGUAGAGGCGCAGUCUCGAAGAGUAGCUAUUAUUGGGGUGAUGCCAAUGaAUAA 290797 >>>>------>>>.>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<< 60 uaguGAAAGGgau.uaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugca 118 UAG:G AAGG+:: :A::GCCGAAG:AA: ::: : UCA: ::: :UU:CUGGG:UUG: 290798 UAGUGGAAGGCGAaGAUUGCCGAAGUAAGUCGUAUAUCAAAACGCCUUGCUGGGGUUGUA 290857 <<._____>>>>>>>>>>>,<<<<<<<.___.........>>>>>>>,,,,))))))::: 119 uu.GAAUaaaugcaagaCUGUCAcaga.UuU.........ucugUGGAGaGCUAccuugg 167 :: GAA :: :CAA:ACUG:CA:AG: U+U :CU:UG:AG+GCUAC::U G 290858 UCuGAAA-GGAACAACACUGCCAUAGUaUAUuuacauuaaACUAUGGAGCGCUACUGUAG 290916 :: 168 ua 169 + 290917 GG 290918 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1118,sp|AP005082.1|AP005082 Vibrio parahaemolyticus DNA, chromosome 1, complete sequence, 10/11. ----isReversed: 0 ----hitSequence: UUAUGUAGAAGAGGAGCACUGCCCAGGCAGAUGAUUUGUGGAACCGCAAUUCCAAUACCAAUCAUUCAGGGGGAGUAGUGCCGAGGUAAGUCAAAAUUGCAGGGUUUGGCUUGUCGGUUGACUUGGGUUGAGUCCCAUCAACUGUCAUCAGCACCGUCUGAUGAAGAGCUUCUGAGGGU hit 59 : 169934 170112 (fwd) 73.28 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<_...._______________. 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaAUG. 55 UG :G:AGAGG+GC::U:::CA G A::U::U: G A + AA+U+CAAU 169934 UUAUGUAGAAGAGGAGCACUGCCCA--GGCAGAUGAUUUGuggaACCGCAAUUCCAAUAc 169991 >>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<.____..>>>>>>>>>>>><<< 56 agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag.cUCA..cuuuuauuugcUGGg 112 :A::A:: A GGG:::A::GCCGA:::AA: :AAA +CA UUU: :UU:::GG: 169992 CAAUCAUUCAGGGGGAGUAGUGCCGAGGUAAGUCAAAAuUGCAggGUUUGGCUUGUCGGU 170051 <<<<<<<<...____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,)))))): 113 cuugcauu...GAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuu 165 :::++::: GA U ::: ::::CUG:CA:::: ::::UG:AGAGCU:C: 170052 UGACUUGGguuGAGUc-CCA--UCAACUGUCAUCAGcACCguCUGAUGAAGAGCUUCUGA 170108 :::: 166 ggua 169 GG+ 170109 GGGU 170112 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #39774,sp|AJ223978.1|BS43KBDNA Bacillus subtilis 42.7kB DNA fragment from yvsA to yvqA. ----isReversed: 0 ----hitSequence: CAGUGAGGUAGAGGUUGCGCGGAUGAUGAGUCACACAUGCUAGGCUGACAGGGGCUGUUAAACAUGUGUAAAAGGCAUCAGCGCCGAAGUGUGGAGAAAGCCGAUCCUUCUCUAUGCUGGGACUGUAUCUGAAUAAGUGCAGGACUGCCGCGUGCUUUUUCGCGGAGGGCUAUCCGGAGA hit 60 : 6877 7056 (fwd) 85.27 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 A UG G:UAGAGG+ GCG: :AU+AUGAGU AC:::U : AGG U+AC+ + 6877 CAGUGAGGUAGAGGUuGCGCGGAUGAUGAGUCACACAUGCUAGGCUGACAGGGGCUguua 6936 .>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>><< 56 .agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUGG 111 : A:::GU AAAGG+AU: :CGCCGAAG::+::A:AA C+ + UU:U::+::CUGG 6937 aACAUGUGUAAAAGGCAUCAGCGCCGAAGUGUGGAGAAAgcCGAUcCUUCUCUAUGCUGG 6996 <<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<.___>>>>>>>,,,,)))))):::: 112 gcuugcauu.GAAU.aaaugcaagaCUGUCAcaga.UuUucugUGGAGaGCUAccuuggu 168 G :UG:A: GAAU :U:CA: ACUG:C:C: : UUU: :G:G:AG GCUA:C +G + 6997 GACUGUAUCuGAAUa-AGUGCAGGACUGCCGCGUGcUUUUUCGCGGAGGGCUAUCCGGAG 7055 : 169 a 169 A 7056 A 7056 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #39914,sp|J03294.1|BSAPKII Bacillus subtilis thioredoxin (trx), uvrB and aspartokinase II genes, complete cds. ----isReversed: 0 ----hitSequence: GGUGAAGAUAGAGGUGCGAACUUCAAGAGUAUGCCUUUGGAGAAAGAUGGAUUCUGUGAAAAAGGCUGAAAGGGGAGCGUCGCCGAAGCAAAUAAAACCCCAUCGGUAUUAUUUGCUGGCCGUGCAUUGAAUAAAUGUAAGGCUGUCAAGAAAUCAUUUUCUUGGAGGGCUAUCUCGUUG hit 61 : 2297 2476 (fwd) 118.71 bits :::::((((((,,,,<<<<<<<<<.-------<<<<<<<<_..._______________. 1 aauugaggUAGAGGcGCgauaauc.AuGAGUAacuauucgG...agGuuaAcuaCaAUG. 55 +U +AG:UAGAGG+GCGA :U: A+GAGUA :::UU:GG A G U+ U C UG 2297 GGUGAAGAUAGAGGUGCGAA-CUUcAAGAGUAUGCCUUUGGagaAAGAUGGAUUCUGUGa 2355 >>>>>>>>------.>>>>>>>>>,,,<<<<<<<<<<<<____...>>>>>>>>>>>><< 56 agaauaguGAAAGG.gauuaucGCCGAAgcaaauaaaagcUCA...cuuuuauuugcUGG 111 A:AA::: GAAAGG :A:+ UCGCCGAAGCAAAUAA A:C CA :U UUAUUUGCUGG 2356 AAAAGGCUGAAAGGgGAGCGUCGCCGAAGCAAAUAAAACCCCAucgGUAUUAUUUGCUGG 2415 <<<<<<<<<____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::: 112 gcuugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuugg 167 :C U:CAUUGAAU AAUG:A G:CUGUCA:::A U + U:::UGGAG GCUA:CU G+ 2416 CCGUGCAUUGAAUa-AAUGUAAGGCUGUCAAGAAaUCAuuUUCUUGGAGGGCUAUCUCGU 2474 :: 168 ua 169 U 2475 UG 2476 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #39939,sp|M93419.1|BSASPKIN Bacillus sp. aspartokinase II (alpha and beta subunits) gene, complete cds. ----isReversed: 0 ----hitSequence: AGUGAAGAUAGAGGUGCGAACUUCAUCAGUAAAAGCUUGGAGAAGAAUGAGCUUCAAUGAAAAGCUUUGAAAGGGAACGUUCGCCGAAGUGAAGAAAAACUCAUUUUUUUCUUUGCUGGUCCUGCAUUUAAGAGAUGCCGGAUUGUCAAGGCGGUGCCGCCUUGGAGAGCUAUCUCACUG hit 62 : 332 511 (fwd) 126.04 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<_...._______________. 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgG....agGuuaAcuaCaAUG. 55 A+U +AG:UAGAGG+GCGA:::UCAU AGUAA::::U:GG + U A CU CAAUG 332 AGUGAAGAUAGAGGUGCGAACUUCAUCAGUAAAAGCUUGGagaaGAAUGAGCUUCAAUGa 391 >>>>>>>>------>>>.>>>>>>,,,<<<<<<<<<<<<____..>>>>>>>>>>>><<< 56 agaauaguGAAAGGgau.uaucGCCGAAgcaaauaaaagcUCA..cuuuuauuugcUGGg 112 A:A::::UGAAAGGGA: ::UCGCCGAAG::AA:AAAA:CUCA :UUUU:UU::CUG:: 392 AAAGCUUUGAAAGGGAAcGUUCGCCGAAGUGAAGAAAAACUCAuuUUUUUCUUUGCUGGU 451 <<<<<<<<____._>>>>>>>>>>>,<<<<<<<..___.>>>>>>>,,,,)))))):::: 113 cuugcauuGAAU.aaaugcaagaCUGUCAcaga..UuU.ucugUGGAGaGCUAccuuggu 168 C: GCAU: AA :AUGC :G::UGUCA::G: U :C::UGGAGAGCUA:CU U 452 CCUGCAUUUAAGa-GAUGCCGGAUUGUCAAGGCggUGCcGCCUUGGAGAGCUAUCUCACU 510 : 169 a 169 511 G 511 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #42395,sp|Z99118.2|BSUB0015 Bacillus subtilis complete genome (section 15 of 21): from 2812801 to 3013507. ----isReversed: 1 ----hitSequence: GGUGAAGAUAGAGGUGCGAACUUCAAGAGUAUGCCUUUGGAGAAAGAUGGAUUCUGUGAAAAAGGCUGAAAGGGGAGCGUCGCCGAAGCAAAUAAAACCCCAUCGGUAUUAUUUGCUGGCCGUGCAUUGAAUAAAUGUAAGGCUGUCAAGAAAUCAUUUUCUUGGAGGGCUAUCUCGUUG hit 63 : 97320 97141 (rev) 118.71 bits :::::((((((,,,,<<<<<<<<<.-------<<<<<<<<_..._______________. 1 aauugaggUAGAGGcGCgauaauc.AuGAGUAacuauucgG...agGuuaAcuaCaAUG. 55 +U +AG:UAGAGG+GCGA :U: A+GAGUA :::UU:GG A G U+ U C UG 103388 GGUGAAGAUAGAGGUGCGAA-CUUcAAGAGUAUGCCUUUGGagaAAGAUGGAUUCUGUGa 103446 >>>>>>>>------.>>>>>>>>>,,,<<<<<<<<<<<<____...>>>>>>>>>>>><< 56 agaauaguGAAAGG.gauuaucGCCGAAgcaaauaaaagcUCA...cuuuuauuugcUGG 111 A:AA::: GAAAGG :A:+ UCGCCGAAGCAAAUAA A:C CA :U UUAUUUGCUGG 103447 AAAAGGCUGAAAGGgGAGCGUCGCCGAAGCAAAUAAAACCCCAucgGUAUUAUUUGCUGG 103506 <<<<<<<<<____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::: 112 gcuugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuugg 167 :C U:CAUUGAAU AAUG:A G:CUGUCA:::A U + U:::UGGAG GCUA:CU G+ 103507 CCGUGCAUUGAAUa-AAUGUAAGGCUGUCAAGAAaUCAuuUUCUUGGAGGGCUAUCUCGU 103565 :: 168 ua 169 U 103566 UG 103567 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #42398,sp|Z99121.2|BSUB0018 Bacillus subtilis complete genome (section 18 of 21): from 3414339 to 3609030. ----isReversed: 1 ----hitSequence: CAGUGAGGUAGAGGUUGCGCGGAUGAUGAGUCACACAUGCUAGGCUGACAGGGGCUGUUAAACAUGUGUAAAAGGCAUCAGCGCCGAAGUGUGGAGAAAGCCGAUCCUUCUCUAUGCUGGGACUGUAUCUGAAUAAGUGCAGGACUGCCGCGUGCUUUUUCGCGGAGGGCUAUCCGGAGA hit 64 : 6040 5861 (rev) 85.27 bits :::::((((((,,,,.<<<<<<<<<-------<<<<<<<<________________.... 1 aauugaggUAGAGGc.GCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.... 55 A UG G:UAGAGG+ GCG: :AU+AUGAGU AC:::U : AGG U+AC+ + 188653 CAGUGAGGUAGAGGUuGCGCGGAUGAUGAGUCACACAUGCUAGGCUGACAGGGGCUguua 188712 .>>>>>>>>------>>>>>>>>>,,,<<<<<<<<<<<<..____.>>>>>>>>>>>><< 56 .agaauaguGAAAGGgauuaucGCCGAAgcaaauaaaag..cUCA.cuuuuauuugcUGG 111 : A:::GU AAAGG+AU: :CGCCGAAG::+::A:AA C+ + UU:U::+::CUGG 188713 aACAUGUGUAAAAGGCAUCAGCGCCGAAGUGUGGAGAAAgcCGAUcCUUCUCUAUGCUGG 188772 <<<<<<<<<.____._>>>>>>>>>>>,<<<<<<<.___>>>>>>>,,,,)))))):::: 112 gcuugcauu.GAAU.aaaugcaagaCUGUCAcaga.UuUucugUGGAGaGCUAccuuggu 168 G :UG:A: GAAU :U:CA: ACUG:C:C: : UUU: :G:G:AG GCUA:C +G + 188773 GACUGUAUCuGAAUa-AGUGCAGGACUGCCGCGUGcUUUUUCGCGGAGGGCUAUCCGGAG 188831 : 169 a 169 A 188832 A 188832 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #42502,sp|Z75208.1|BSZ75208 B.subtilis genomic sequence 89009bp ----isReversed: 0 ----hitSequence: GGUGAAGAUAGAGGUGCGAACUUCAAGAGUAUGCCUUUGGAGAAAGAUGGAUUCUGUGAAAAAGGCUGAAAGGGGAGCGUCGCCGAAGCAAAUAAAACCCCAUCGGUAUUAUUUGCUGGCCGUGCAUUGAAUAAAUGUAAGGCUGUCAAGAAAUCAUUUUCUUGGAGGGCUAUCUCGUUG hit 65 : 54883 55062 (fwd) 118.71 bits :::::((((((,,,,<<<<<<<<<.-------<<<<<<<<_..._______________. 1 aauugaggUAGAGGcGCgauaauc.AuGAGUAacuauucgG...agGuuaAcuaCaAUG. 55 +U +AG:UAGAGG+GCGA :U: A+GAGUA :::UU:GG A G U+ U C UG 54883 GGUGAAGAUAGAGGUGCGAA-CUUcAAGAGUAUGCCUUUGGagaAAGAUGGAUUCUGUGa 54941 >>>>>>>>------.>>>>>>>>>,,,<<<<<<<<<<<<____...>>>>>>>>>>>><< 56 agaauaguGAAAGG.gauuaucGCCGAAgcaaauaaaagcUCA...cuuuuauuugcUGG 111 A:AA::: GAAAGG :A:+ UCGCCGAAGCAAAUAA A:C CA :U UUAUUUGCUGG 54942 AAAAGGCUGAAAGGgGAGCGUCGCCGAAGCAAAUAAAACCCCAucgGUAUUAUUUGCUGG 55001 <<<<<<<<<____._>>>>>>>>>>>,<<<<<<<.___..>>>>>>>,,,,))))))::: 112 gcuugcauuGAAU.aaaugcaagaCUGUCAcaga.UuU..ucugUGGAGaGCUAccuugg 167 :C U:CAUUGAAU AAUG:A G:CUGUCA:::A U + U:::UGGAG GCUA:CU G+ 55002 CCGUGCAUUGAAUa-AAUGUAAGGCUGUCAAGAAaUCAuuUUCUUGGAGGGCUAUCUCGU 55060 :: 168 ua 169 U 55061 UG 55062 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #49193,sp|AE000476.1|ECAE476 Escherichia coli K12 MG1655 section 366 of 400 of the complete genome. ----isReversed: 1 ----hitSequence: CAGGCCAGAAGAGGCGCGUUGCCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUACAGGGGCUGAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 66 : 232 36 (rev) 63.19 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 A ::G:AGAGGCGCG+U:::CA AGUA ::U:UU+G +G + A+U+C UG A 14443 CAGGCCAGAAGAGGCGCGUUGCCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 14498 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG:::A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 14499 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 14557 <<<<<<<<<.._____>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu..GAAUaaaugcaagaCUGUCAcaga....UuU.................. 147 ::+:::::: GAAU :::::: :::UGUCAC::: UU 14558 CUACAGGGGcuGAAU-CCCCUG-GGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 14615 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 14616 aaGUGGUGGAGCACUUCUGGGUGA 14639 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #1177,sp|X00008.1|ECLYSC E.coli lysC gene promoter region ----isReversed: 0 ----hitSequence: CAGGCCAGAAGAGGCGCGUUGCCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUAAGGGGGCUGAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 67 : 296 492 (fwd) 62.93 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 A ::G:AGAGGCGCG+U:::CA AGUA ::U:UU+G +G + A+U+C UG A 296 CAGGCCAGAAGAGGCGCGUUGCCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 351 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG:::A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 352 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 410 <<<<<<<<<.._____>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu..GAAUaaaugcaagaCUGUCAcaga....UuU.................. 147 :: :G ::: GAAU ::: C: :::UGUCAC::: UU 411 CUAAGGGGGcuGAAU-CCC-CUGGGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 468 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 469 aaGUGGUGGAGCACUUCUGGGUGA 492 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #1998,sp|X15196.1|ECPGI E. coli pgi gene for phosphoglucose isomerase (EC 5.3.1.9) ----isReversed: 1 ----hitSequence: GCAGCCAGAAGAGGCGCGUUGCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUACAGGGGCUGAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 68 : 270 75 (rev) 54.69 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 ::G:AGAGGCGCG+U :CA AGUA ::U:UU+G +G + A+U+C UG A 2304 GCAGCCAGAAGAGGCGCGUU-GCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 2358 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG: +A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 2359 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 2417 <<<<<<<<<.._____>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu..GAAUaaaugcaagaCUGUCAcaga....UuU.................. 147 ::+:::::: GAAU :::::: :::UGUCAC::: UU 2418 CUACAGGGGcuGAAU-CCCCUG-GGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 2475 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 2476 aaGUGGUGGAGCACUUCUGGGUGA 2499 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #3293,sp|U00006.1|ECUW89 E. coli chromosomal region from 89.2 to 92.8 minutes. ----isReversed: 1 ----hitSequence: CAGGCCAGAAGAGGCGCGUUGCCCAAGUAACGGUGUUGGAGGAGCCAGUCCUGUGAUAACACCUGAGGGGGUGCAUCGCCGAGGUGAUUGAACGGCUGGCCACGUUCAUCAUCGGCUACAGGGGCUGAAUCCCCUGGGUUGUCACCAGAAGCGUUCGCAGUCGGGCGUUUCGCAAGUGGUGGAGCACUUCUGGGUGA hit 69 : 98763 98567 (rev) 63.19 bits :::::((((((,,,,<<<<<<<<<-------..<<<<<<<<________________..> 1 aauugaggUAGAGGcGCgauaaucAuGAGUA..acuauucgGagGuuaAcuaCaAUG..a 56 A ::G:AGAGGCGCG+U:::CA AGUA ::U:UU+G +G + A+U+C UG A 77433 CAGGCCAGAAGAGGCGCGUUGCCCA--AGUAacGGUGUUGGAGGAGCCAGUCC--UGugA 77488 >>>>>>>.------>>>>>>>>>,,,<<<<<<<<<<<<...____.>>>>>>>>>>>><< 57 gaauagu.GAAAGGgauuaucGCCGAAgcaaauaaaag...cUCA.cuuuuauuugcUGG 111 +AA:A:: GA GGG:::A+CGCCGA::::A+U:AA:G ++C C:UU:A U::::G: 77489 UAACACCuGAGGGGGUGCAUCGCCGAGGUGAUUGAACGgcuGGCCaCGUUCA-UCAUCGG 77547 <<<<<<<<<.._____>>>>>>>>>>>,<<<<<<<....___.................. 112 gcuugcauu..GAAUaaaugcaagaCUGUCAcaga....UuU.................. 147 ::+:::::: GAAU :::::: :::UGUCAC::: UU 77548 CUACAGGGGcuGAAU-CCCCUG-GGUUGUCACCAGaagcGUUcgcagucgggcguuucgc 77605 ..>>>>>>>,,,,))))))::::: 148 ..ucugUGGAGaGCUAccuuggua 169 :::GUGGAG+ CU:C::+G++A 77606 aaGUGGUGGAGCACUUCUGGGUGA 77629 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #5859,sp|U32832.1|HI32832 Haemophilus influenzae Rd section 147 of 163 of the complete genome. ----isReversed: 1 ----hitSequence: UACAAAAGUAGAGGCGCAAUUAUUAUAAGUAUUUUUUCAGAGUGGAUAACGAAGAAGAAAAAAGAAAGGAAUAGUUGCCGAAAUCAAAUAAAAGUCGUUUUGUUUGGUUGGUGGCGUGCUCGAAAGGGGCGACACUGUCAUAGUUUUUCUGAUUAACUAUGGAGUGCUACGGUUGUU hit 70 : 9495 9319 (rev) 132.41 bits :::::((((((,,,,<<<<<<<<<-------<<<<<<<<________________.>>>> 1 aauugaggUAGAGGcGCgauaaucAuGAGUAacuauucgGagGuuaAcuaCaAUG.agaa 59 A+ ++ GUAGAGGCGC:A+:AU:AU AGUA+:U:UUC+ + GU +A++AC+A G +GAA 677 UACAAAAGUAGAGGCGCAAUUAUUAUAAGUAUUUUUUCA-GAGUGGAUAACGAAGaAGAA 735 >>>>------>>>>>>>>>,,,<<<<<<<<<<<<____>>>>>>>>>>>><<<<<<<<<< 60 uaguGAAAGGgauuaucGCCGAAgcaaauaaaagcUCAcuuuuauuugcUGGgcuugcau 119 :A:+GAAAGG:AU:+U:GCCGAA:::AA:+AAA:+UC :UUU+:UU:::UGG:: :G::: 736 AAAAGAAAGGAAUAGUUGCCGAAAUCAAAUAAAAGUCGUUUUGUUUGGUUGGUGGCGUGC 795 <._____>>>>>>>>>>>,<<<<<<<.___.......>>>>>>>,,,,))))))::::: 120 u.GAAUaaaugcaagaCUGUCAcaga.UuU.......ucugUGGAGaGCUAccuuggua 169 : GAA ::::C: ::CUGUCA:AG: UUU :CU:UGGAG GCUAC +U+GU 796 UcGAAA-GGGGCGACACUGUCAUAGUuUUUcugauuaACUAUGGAGUGCUACGGUUGUU 853 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro05.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/phg.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz Found 71 hits. done 8.59064e+09 nucs (frac lets thru so far=0.000163891, 2d-fracLetsThru=8.85809e-05). Filter report: done 8.59064e+09 nucs (frac lets thru so far=0.252773, 2d-fracLetsThru=0.166886). Filter report: done 2.17148e+09 nucs (frac lets thru so far=0.310482, 2d-fracLetsThru=0.273266). Filter report: done 6.74204e+08 nucs (frac lets thru so far=0.184736, 2d-fracLetsThru=0.174559). Filter report: done 1.2455e+08 nucs (frac lets thru so far=0.192002, 2d-fracLetsThru=0.186956). Filter report: done 2.39138e+07 nucs (frac lets thru so far=0.0588753, 2d-fracLetsThru=0.0595189). done 8.59064e+09 nucs (frac lets thru so far=0.000163891, 2d-fracLetsThru=8.85809e-05). CPU time: 927605.41u 326.70s 257:45:32.10 Elapsed: 257:43:30