Params: ./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin Build: release Host: bicycle.cs.washington.edu pid: 8336 ----hmm-from-cmFileName: Rfam/cm/RF00050.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Ecoli_0mm.mm --cm2hmm-set-greedy-node 250 25.00 Rfam/cm/RF00050.cm forward-alg-inf 100000 cycling-node cfsqp-elim-gauss 0 1 Build: release Host: recycle.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Ecoli_0mm.mm --cm2hmm-set-greedy-node 250 25.00 Rfam/cm/RF00050.cm forward-alg-inf 100000 cycling-node cfsqp-elim-gauss 0 1 Build: release Host: recycle.cs.washington.edu ----hmm-from-cmFileName: Rfam/cm/RF00050.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Ecoli_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00050.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Ecoli_0mm.mm --cm2hmm-set-node-combiner-forward-inf Rfam/cm/RF00050.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----cmFile: Rfam/cm/RF00050.cm (global) ----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/org.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/phg.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #17951,sp|AE001820.1|AE001820 Thermotoga maritima section 132 of 136 of the complete genome. ----isReversed: 1 ----hitSequence: AAACGCUCUCGGGGCAGGGUGGAAUUCCCGACCGGCGGUGAAAGCCCGCGAGCCCUCUCAGGAGGGUUGACCCGGUGGAAUUCCGGGGCCGACGGUGAAAGUCCGGAUGGGAGAGAGCGUGA hit 0 : 156 35 (rev) 135.04 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,.,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC.uguuaa 59 :++C::::UC+GGGCAGGGUG AAUUCCC+ACCGGCGGU AAAGCCCGCGAGC ++U A 10001 AAACGCUCUCGGGGCAGGGUGGAAUUCCCGACCGGCGGUGAAAGCCCGCGAGCcCUCUCA 10060 ,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,,)))))))) 60 gguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAuga 118 GG GG+UGA:CCGGUG +AUUCCGG:GCCGAC:G A+AGUC:GGAUGGGAGA::::G+ 10061 GGAGGGUUGACCCGGUGGAAUUCCGGGGCCGACGGuGAAAGUCCGGAUGGGAGAGAGCGU 10120 )) 119 ag 120 +: 10121 GA 10122 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #17974,sp|AE001878.1|AE001878 Deinococcus radiodurans R1 section 15 of 229 of the complete chromosome 1. ----isReversed: 0 ----hitSequence: GACCUCUUUCGGGGCGGGGCGAAAUUCCCCACCGGCGGUAAGUUCUCCCGAACAAGCCCGCGAAGCCCGCGCAAACCGCACCACGCGCCGGGCCCGAUGCCGCGCAACUCGGCAGCCGACGGUCACAGUCCGGACGAAAGAAGGAGGAG hit 1 : 30 178 (fwd) 94.21 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___............___>>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA............AAGCCCG 48 GA:C:::UUC+GGGC+GGG GAAAUUCCCCACCGGCGGUAA AAGCCCG 30 GACCUCUUUCGGGGCGGGGCGAAAUUCCCCACCGGCGGUAAguucucccgaacAAGCCCG 89 ,,,.,,...............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 49 CGA.GC...............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGA GC + + G C GAU:C G G +A UC G:AGCCGAC 90 CGAaGCccgcgcaaaccgcacCACGCGCCGGGCCCGAUGCCGCGCAACUCGGCAGCCGAC 149 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G A AGUC:GGA G++AGAA:::G:AG 150 GGuCACAGUCCGGACGAAAGAAGGAGGAG 178 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #19204,sp|AE004431.1|AE004431 Vibrio cholerae chromosome II, section 88 of 93 of the complete chromosome. ----isReversed: 1 ----hitSequence: CAAUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGUGGUAUGCCGCAAGGCGAGCCCACGAGCGCUCGAUUCGUCGAGGUCAGCAGAUCUGGUGAGAAGCCAGGGCCGACGGUUACAGUCCGGAUGAGAGAGAAUGACA hit 2 : 9358 9220 (rev) 127.24 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..........___>>>>,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..........AAGCCCGCG 50 : ::AU::UCAGGGC+GGG GAAAUUCCCCACCG+:GGUA AGCC:+CG 3856 CAAUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGUGGUAUgccgcaaggcGAGCCCACG 3915 ,,,........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 51 AGC........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 AGC GU +AGGUC+GC+GA:C:GGUGAGA CC:G:GCCGAC:G UA AGUC 3916 AGCgcucgauuCGUCGAGGUCAGCAGAUCUGGUGAGAAGCCAGGGCCGACGGuUACAGUC 3975 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 :GGAUG+GAGA::AU:: : 3976 CGGAUGAGAGAGAAUGACA 3994 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #19592,sp|AE004822.1|AE004822 Pseudomonas aeruginosa PAO1, section 383 of 529 of the complete genome. ----isReversed: 1 ----hitSequence: UAACGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAUGGCGCGCAAGGCGCCUAGCCCGCGAGCGCUUGCCGGACCGGCCACCGCCGGACGACAAGGUCAGCAGACCCGGUGCGAUUCCGGGGCCGACGGUCAUAGUCCGGAUAAAGAGAGAACGGGA hit 3 : 2219 2057 (rev) 123.33 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................___ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................AAG 44 :+ C:U::UCAGGGC+GGGUGAAA UCCCCACCGGCGGUAA AG 8717 UAACGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAuggcgcgcaaggcgccUAG 8776 >>>>,,,,,.........................,,,,,,,,,,,,,,,,<<<<<_____ 45 CCCGCGAGC.........................uguuaagguCGGcuGAuccGGUGAgA 79 CCCGCGAGC G AAGGUC+GC+GA:CCGGUG GA 8777 CCCGCGAGCgcuugccggaccggccaccgccggaCGACAAGGUCAGCAGACCCGGUGCGA 8836 __>>>>>,,,,,<<<.______>>>,,,,,,.,)))))))))) 80 UUCCggaGCCGACaG.UAuAGUCuGGAUGGg.AGAAgAugaag 120 UUCCGG:GCCGAC:G AUAGUC:GGAU ++ AGA::A:G +: 8837 UUCCGGGGCCGACGGuCAUAGUCCGGAUAAAgAGAGAACGGGA 8879 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20298,sp|AE005534.1|AE005534 Escherichia coli O157:H7 EDL933 genome, contig 3 of 3, section 153 of 290. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG hit 4 : 2257 2109 (rev) 137.50 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAGCC 9832 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAGCC 9891 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 9892 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 9951 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUGGGAGA:::U:A:G 9952 GGuUAGAGUCCGGAUGGGAGAGAGUAACG 9980 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20937,sp|AE006176.1|AE006176 Pasteurella multocida PM70 section 143 of 204 of the complete genome. ----isReversed: 1 ----hitSequence: GCGCAUUCUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUAAAUGUAUAACAUAAGCCCACGAGCGUUUACUAUUUCAUGUCACAAGAGAUAGUAAAGUCAGCAGAUUUGGUGAGAAUCCAAAGCCGACAGUAUAGUCUGGAUGAAAGAGAAUAAGC hit 5 : 9504 9349 (rev) 133.93 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...........___>>>>, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...........AAGCCCGC 49 +:::AU::UCAGGGCAGGGUGAAAUUCCC ACCG+:GGUAA AAGCC:+C 2533 GCGCAUUCUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUAAauguauaacauAAGCCCAC 2592 ,,,,.........................,,,,,,,,,,,,,,,,<<<<<_______>>> 50 GAGC.........................uguuaagguCGGcuGAuccGGUGAgAUUCCg 84 GAGC U UAA+GUC+GC+GAU::GGUGAGA UCC: 2593 GAGCguuuacuauuucaugucacaagagaUAGUAAAGUCAGCAGAUUUGGUGAGAAUCCA 2652 >>,,,,,<<<______>>>,,,,,,,)))))))))) 85 gaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 :AGCCGACAGUAUAGUCUGGAUG++AGA::AU:::+ 2653 AAGCCGACAGUAUAGUCUGGAUGAAAGAGAAUAAGC 2688 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21093,sp|AE006333.1|AE006333 Lactococcus lactis subsp. lactis IL1403 section 95 of 218 of the complete genome. ----isReversed: 0 ----hitSequence: AUAAAUCUUCAGGGCAGGGUGUAAUUCCCUACCGGCGGUAUAGCCCGCGAGCUGCUUGCAGCAUGAUUCGGUGAAACUCCGAGGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAUA hit 6 : 7352 7468 (fwd) 133.76 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 ::: AUCUUCAGGGCAGGGUG AAUUCCC ACCGGCGGUA AGCCCGCGAGC U ++ 7352 AUAAAUCUUCAGGGCAGGGUGUAAUUCCCUACCGGCGGUA-UAGCCCGCGAGC--UGCUU 7408 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 G G UGA::CGGUGA+A UCCG::GCCGACAGUAUAGUCUGGAUG++AGAAGAU ::: 7409 GCAGCAUGAUUCGGUGAAACUCCGAGGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAUA 7468 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21120,sp|AE006360.1|AE006360 Lactococcus lactis subsp. lactis IL1403 section 122 of 218 of the complete genome. ----isReversed: 1 ----hitSequence: AAAUAUCUUCAGGGCACCGUGUAAUUCGGGACCGGCGGUAAAUAGGGCUUUGACCUUAUGACUCCGCGAUUCGCUACGGCGAUUGAAGCAGUGAGAAUCUGCUAGCGACAGUAAAGUCUGGAUGGAAGAAGAUGAAC hit 7 : 976 840 (rev) 104.24 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.................._ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..................A 42 :A::AUCUUCAGGGCA+ GUG AAUUC ++ACCGGCG:UAA 13215 AAAUAUCUUCAGGGCACCGUGUAAUUCGGGACCGGCGGUAAauagggcuuugaccuuauG 13274 __>>>>,,,.,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______> 43 AGCCCGCGA.GCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUC 101 A :CCGCGA U +A G+CG +UGA::C:GUGAGA UC:G::+ CGACAGUA+AGUC 13275 ACUCCGCGAu--UCGCUACGGCGAUUGAAGCAGUGAGAAUCUGCUAGCGACAGUAAAGUC 13332 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 UGGAUGG+AGAAGAU::A: 13333 UGGAUGGAAGAAGAUGAAC 13351 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21251,sp|AE006500.1|AE006500 Streptococcus pyogenes M1 GAS strain SF370, section 29 of 167 of the complete genome. ----isReversed: 0 ----hitSequence: AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUAGUAACUAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAGAGAAGACCGGG hit 8 : 7207 7330 (fwd) 127.35 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...........___>>>>, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...........AAGCCCGC 49 :++::UCUUCAGGGCAGGGUG AUUCCC+ACCGGCG:U A AAG:CCGC 7207 AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGAcuaguaacuagAAGUCCGC 7266 ,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,, 50 GAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGg 109 GAGC G +GCUGAU::GGUG +A UCC::A+CCGACAGUAUAGUCUGGAUG+G 7267 GAGC-------GCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAG 7319 ,)))))))))) 110 AGAAgAugaag 120 AGAAGA::++: 7320 AGAAGACCGGG 7330 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22078,sp|AE007333.1|AE007333 Streptococcus pneumoniae TIGR4 section 16 of 194 of the complete genome. ----isReversed: 1 ----hitSequence: AACUAUCUUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUAUAGCCCACGAGCCGAAAGGCAUGAUUUGGUGAAAUUCCAAAGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAAA hit 9 : 6190 6076 (rev) 131.41 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 :A::AUCUUCAGGGCAGGGUGAAAUUCCC ACCG+:GGUA AGCC:+CGAGC + 5155 AACUAUCUUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUA-UAGCCCACGAGC----CGA 5209 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 G UGAU::GGUGA+AUUCC::AGCCGACAGUAUAGUCUGGAUG++AGAAGAU::A: 5210 AAGGCAUGAUUUGGUGAAAUUCCAAAGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAAA 5269 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22105,sp|AE007360.1|AE007360 Streptococcus pneumoniae TIGR4 section 43 of 194 of the complete genome. ----isReversed: 0 ----hitSequence: AAGAGUCUUCAGGGCAGGGUGAAAUUCCCGACCGGCGGUGACUUUAACUAGGAAAUGAUCUUUUCCUUUUAUACUUUGUUGACAAGCUUUGCCUAACCAGAAGUUAUGCCUACAGCUUGUCGCCUAGUCUAAAAGAAAAAUCUCUAUUUCCUUCUCUUUAAAGAAGUCCGUGAGCGCAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAUAGUCUGGAUGGGAGAAGACGAAA hit 10 : 5168 5402 (fwd) 124.45 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 :A:::UCUUCAGGGCAGGGUGAAAUUCCC+ACCGGCG:U A 5168 AAGAGUCUUCAGGGCAGGGUGAAAUUCCCGACCGGCGGUGAcuuuaacuaggaaaugauc 5227 ............................................................ - ............................................................ - 5228 uuuuccuuuuauacuuuguugacaagcuuugccuaaccagaaguuaugccuacagcuugu 5287 ...........................................___>>>>,,,,,,,,,, 42 ...........................................AAGCCCGCGAGCuguua 58 AAG:CCG GAGC 5288 cgccuagucuaaaagaaaaaucucuauuuccuucucuuuaaagAAGUCCGUGAGC----- 5342 ,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))) 59 agguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAuga 118 G +GCUGAU::GGUGAGAUUCC::A+CCGACAGUAUAGUCUGGAUGGGAGAAGA::: 5343 --GCAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAUAGUCUGGAUGGGAGAAGACGA 5400 )) 119 ag 120 A: 5401 AA 5402 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22318,sp|AE007574.1|AE007574 Clostridium acetobutylicum ATCC824 section 62 of 356 of the complete genome. ----isReversed: 0 ----hitSequence: GAUGUUCUUCAGGGAUGGGUGAAAUUCCCAAUCGGCGGUAAAGCCCGCAAGCCAUUUGGCAGAUCCGGUUAAACUCCGGGGCCGACAGUUAAAGUCUGGAUGAAAGAAGAAAUAG hit 11 : 3571 3685 (fwd) 121.87 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 GA+::UCUUCAGGG GGGUGAAAUUCCC A CGGCGGUA AAGCCCGC AGC + 3571 GAUGUUCUUCAGGGAUGGGUGAAAUUCCCAAUCGGCGGUA-AAGCCCGCAAGC-----CA 3624 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,,))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaa 119 U GGC+GA:CCGGU A+A UCCGG:GCCGACAG UA+AGUCUGGAUG++AGAAGA::+A 3625 UUUGGCAGAUCCGGUUAAACUCCGGGGCCGACAGuUAAAGUCUGGAUGAAAGAAGAAAUA 3684 ) 120 g 120 G 3685 G 3685 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22525,sp|AE007781.1|AE007781 Clostridium acetobutylicum ATCC824 section 269 of 356 of the complete genome. ----isReversed: 1 ----hitSequence: AAUGAUCUUCAGGGCAGGGUGAAAUUCCCUACCGGCGGUAUAGCCCGCGAGCCUUUUUAGGUAUGAUCCGGUUUGAUUCCGGAGCCGACAGUAAAGUCUGGAUGAAAGAAGAUAUAU hit 12 : 7704 7588 (rev) 134.00 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 A+:AUCUUCAGGGCAGGGUGAAAUUCCC ACCGGCGGUA AGCCCGCGAGC +U+++ 2326 AAUGAUCUUCAGGGCAGGGUGAAAUUCCCUACCGGCGGUA-UAGCCCGCGAGC--CUUUU 2382 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 G UGAUCCGGU GAUUCCGGAGCCGACAGUA+AGUCUGGAUG++AGAAGAU:+A 2383 UAGGUAUGAUCCGGUUUGAUUCCGGAGCCGACAGUAAAGUCUGGAUGAAAGAAGAUAUAU 2442 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22849,sp|AE008109.1|AE008109 Agrobacterium tumefaciens str. C58 circular chromosome, section 167 of 254 of the complete sequence. ----isReversed: 0 ----hitSequence: GGUUGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUCGGGAUUUGUCCCGGAGCCCGCGAGCGCUUCCGGUCUCCAAAGCCGGAAGGUCAGCAGAUCCGGUGAGAGGCCGGAGCCGACGGUAUAGUCCGGAUGGAAGAGGACAAGG hit 13 : 1004 1154 (fwd) 134.85 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U::U::UCAGGGC+GGGUG AAUUCCCCACCGGCGGUA AGCC 1004 GGUUGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUcgggauuugucccgGAGCC 1063 >>,,,,,.................,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,, 47 CGCGAGC.................uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCC 89 CGCGAGC AAGGUC+GC+GAUCCGGUGAGA CCGGAGCC 1064 CGCGAGCgcuuccggucuccaaagCCGGAAGGUCAGCAGAUCCGGUGAGAGGCCGGAGCC 1123 ,,<<<______>>>,,,,,,,)))))))))) 90 GACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 GAC:GUAUAGUC:GGAUGG+AGA::A::A:G 1124 GACGGUAUAGUCCGGAUGGAAGAGGACAAGG 1154 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23138,sp|AE008399.1|AE008399 Streptococcus pneumoniae R6 section 15 of 184 of the complete genome. ----isReversed: 1 ----hitSequence: AACUAUCUUCAGGGCAGGGUGCAAUUCCCUACCGGUGGUAUAGCCCACGAGCCGAAAGGCAUGAUUUGGUGAAAUUCCAAAGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAAA hit 14 : 8878 8764 (rev) 129.61 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 :A::AUCUUCAGGGCAGGGUG AAUUCCC ACCG+:GGUA AGCC:+CGAGC + 3255 AACUAUCUUCAGGGCAGGGUGCAAUUCCCUACCGGUGGUA-UAGCCCACGAGC----CGA 3309 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 G UGAU::GGUGA+AUUCC::AGCCGACAGUAUAGUCUGGAUG++AGAAGAU::A: 3310 AAGGCAUGAUUUGGUGAAAUUCCAAAGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAAA 3369 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23162,sp|AE008423.1|AE008423 Streptococcus pneumoniae R6 section 39 of 184 of the complete genome. ----isReversed: 0 ----hitSequence: AAGAGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUUUAACUAGGAAAUGAUCUUUUCCUUUUAUACUUUGUUGACAAGCUUUGCCUAACCAGAAGUUAUGCCUACAGCUUGUCGCCUAGUCUAAAAGAAAAAUCUCUAUUUCCUUCUCUUUAAAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAUAGUCUGGAUGGGAGAAGACGAAA hit 15 : 5133 5367 (fwd) 122.36 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 :A:::UCUUCAGGGCAGGGUG AUUCCC+ACCGGCG:U A 5133 AAGAGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGAcuuuaacuaggaaaugauc 5192 ............................................................ - ............................................................ - 5193 uuuuccuuuuauacuuuguugacaagcuuugccuaaccagaaguuaugccuacagcuugu 5252 ...........................................___>>>>,,,,,,,,,, 42 ...........................................AAGCCCGCGAGCuguua 58 AAG:CCGCGAGC 5253 cgccuagucuaaaagaaaaaucucuauuuccuucucuuuaaagAAGUCCGCGAGC----- 5307 ,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))) 59 agguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAuga 118 G +GCUGAU::GGUGAGAUUCC::A+CCGACAGUAUAGUCUGGAUGGGAGAAGA::: 5308 --GCAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAUAGUCUGGAUGGGAGAAGACGA 5365 )) 119 ag 120 A: 5366 AA 5367 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23572,sp|AE008847.1|AE008847 Salmonella typhimurium LT2, section 151 of 220 of the complete genome. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAGCGAUGUUUAACGCAUUUCUCAUCACGGCGCGCCGUGACGGAACGCGGAGAGCAGGUUGAAAGCCCGCGAGCGCUUUUUGCCAUAGCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAAAGUCCGGAUGGGAGAGGGUAACG hit 16 : 1073 875 (rev) 133.16 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA 19532 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucagcgauguuuaacgca 19591 .............................................___>>>>,,,,,... 42 .............................................AAGCCCGCGAGC... 53 AAGCCCGCGAGC 19592 uuucucaucacggcgcgccgugacggaacgcggagagcagguugaAAGCCCGCGAGCgcu 19651 ...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 54 ...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 G AAGGUC+GC+GA:CCGGUG +AUUCCGG:GCCGAC:G UA+AGUC 19652 uuuugccauagCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGuUAAAGUC 19711 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 :GGAUGGGAGA:::U:A:G 19712 CGGAUGGGAGAGGGUAACG 19730 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23864,sp|AE009143.1|AE009143 Agrobacterium tumefaciens strain C58 circular chromosome, section 169 of 256 of the complete sequence. ----isReversed: 0 ----hitSequence: GGUUGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUCGGGAUUUGUCCCGGAGCCCGCGAGCGCUUCCGGUCUCCAAAGCCGGAAGGUCAGCAGAUCCGGUGAGAGGCCGGAGCCGACGGUAUAGUCCGGAUGGAAGAGGACAAGG hit 17 : 6999 7149 (fwd) 134.85 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U::U::UCAGGGC+GGGUG AAUUCCCCACCGGCGGUA AGCC 6999 GGUUGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUcgggauuugucccgGAGCC 7058 >>,,,,,.................,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,, 47 CGCGAGC.................uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCC 89 CGCGAGC AAGGUC+GC+GAUCCGGUGAGA CCGGAGCC 7059 CGCGAGCgcuuccggucuccaaagCCGGAAGGUCAGCAGAUCCGGUGAGAGGCCGGAGCC 7118 ,,<<<______>>>,,,,,,,)))))))))) 90 GACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 GAC:GUAUAGUC:GGAUGG+AGA::A::A:G 7119 GACGGUAUAGUCCGGAUGGAAGAGGACAAGG 7149 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #24412,sp|AE009695.1|AE009695 Brucella melitensis 16M chromosome II, section 57 of 107 of the complete sequence. ----isReversed: 1 ----hitSequence: GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUGAAAAGCAAUUUUCAAGCCCGCGAGCGCCUGAAAUGGAAGCCGAUUCGCAUGCCAUUUCAGGGUCAGCAGAUCCGGUGAGAUGCCGGAGCCGACGGUUAAAGUCCGGAUGGAAGAGAGCGAAU hit 18 : 6814 6651 (rev) 132.79 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 :U:::::UC+GGGC+GGGUGAAA UCCCCACCGGCGGUA AAGCC 7182 GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUgaaaagcaauuuucAAGCC 7241 >>,,,,,.............................,,,,,,,,,,,,,,,,<<<<<___ 47 CGCGAGC.............................uguuaagguCGGcuGAuccGGUGA 77 CGCGAGC U+U A GGUC+GC+GAUCCGGUGA 7242 CGCGAGCgccugaaauggaagccgauucgcaugccaUUUCAGGGUCAGCAGAUCCGGUGA 7301 ____>>>>>,,,,,<<<.______>>>,,,,,,,)))))))))) 78 gAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 GAU CCGGAGCCGAC:G UA+AGUC:GGAUGG+AGA:::::A: 7302 GAUGCCGGAGCCGACGGuUAAAGUCCGGAUGGAAGAGAGCGAAU 7345 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #24694,sp|AE009983.1|AE009983 Streptococcus pyogenes strain MGAS8232, section 31 of 173 of the complete genome. ----isReversed: 0 ----hitSequence: AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUAGUAACUAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAGAGAAGACCGGG hit 19 : 9380 9503 (fwd) 127.35 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...........___>>>>, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...........AAGCCCGC 49 :++::UCUUCAGGGCAGGGUG AUUCCC+ACCGGCG:U A AAG:CCGC 9380 AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGAcuaguaacuagAAGUCCGC 9439 ,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,, 50 GAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGg 109 GAGC G +GCUGAU::GGUG +A UCC::A+CCGACAGUAUAGUCUGGAUG+G 9440 GAGC-------GCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAG 9492 ,)))))))))) 110 AGAAgAugaag 120 AGAAGA::++: 9493 AGAAGACCGGG 9503 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #25167,sp|AE010459.1|AE010459 Fusobacterium nucleatum subsp. nucleatum ATCC 25586, section 1 of 197 of the complete genome. ----isReversed: 0 ----hitSequence: AAUAAUCUUCGGGGCAGGGUGAAAUUCCCGACCGGUGGUAUAGUCCACGAAAGUAUUUGCUUUGAUUUGGUGAAAUUCCAAAACCGACAGUAGAGUCUGGAUGAGAGAAGAAAAGA hit 20 : 1615 1730 (fwd) 119.42 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 :+U UCUUC+GGGCAGGGUGAAAUUCCC+ACCG+:G:UA AG:C:+CGA +A+ 1615 AAUAAUCUUCGGGGCAGGGUGAAAUUCCCGACCGGUGGUA-UAGUCCACGA---AAGUAU 1670 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 U +UGAU::GGUGA+AUUCC::A+CCGACAGUA AGUCUGGAUG+GAGAAGA A+: 1671 UUGCUUUGAUUUGGUGAAAUUCCAAAACCGACAGUAGAGUCUGGAUGAGAGAAGAAAAGA 1730 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #25167,sp|AE010459.1|AE010459 Fusobacterium nucleatum subsp. nucleatum ATCC 25586, section 1 of 197 of the complete genome. ----isReversed: 0 ----hitSequence: UAAAGUCUUCAGGGCAGGGUGAAAUUCCCGACCGGUGGUACAGUCCACGAAAGCAUUUGCUUUGAUUUGGUGAAAUUCCAAAACCGACAGUAGAGUCUGGAUGGGAGAAGAAUUAG hit 21 : 9470 9585 (fwd) 118.26 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 :A+: UCUUCAGGGCAGGGUGAAAUUCCC+ACCG+:G:UA AG:C:+CGA A+ 9470 UAAAGUCUUCAGGGCAGGGUGAAAUUCCCGACCGGUGGUA-CAGUCCACGA---AAGCAU 9525 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 U +UGAU::GGUGA+AUUCC::A+CCGACAGUA AGUCUGGAUGGGAGAAGA :+A: 9526 UUGCUUUGAUUUGGUGAAAUUCCAAAACCGACAGUAGAGUCUGGAUGGGAGAAGAAUUAG 9585 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #26412,sp|AE011704.1|AE011704 Xanthomonas axonopodis pv. citri str. 306, section 82 of 469 of the complete genome. ----isReversed: 0 ----hitSequence: GAACGUCUUCAGGGCGGGGUGCGAUUCCCCACCGGCGGUAGGCAUGCGCAAGCAUGCGAGCCCGCGAGCGCUUGCACUCCAGGGUUGAGCGGACUAACGCCAAACCCCUGCUGCGCAAGGUCAGCAGAUCCGGUCCGAUGCCGGAGCCGACGGUAUAGUCCGGAUGAAAGAAGACGGCC hit 22 : 9343 9521 (fwd) 122.22 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................___ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................AAG 44 + C:UCUUCAGGGC+GGGUG AUUCCCCACCGGCGGUA AG 9343 GAACGUCUUCAGGGCGGGGUGCGAUUCCCCACCGGCGGUAGgcaugcgcaagcaugcGAG 9402 >>>>,,,,,...........................................,,,,,,,, 45 CCCGCGAGC...........................................uguuaagg 61 CCCGCGAGC AAGG 9403 CCCGCGAGCgcuugcacuccaggguugagcggacuaacgccaaaccccugcuGCGCAAGG 9462 ,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 62 uCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 UC+GC+GAUCCGGU GAU CCGGAGCCGAC:GUAUAGUC:GGAUG++AGAAGA:G + 9463 UCAGCAGAUCCGGUCCGAUGCCGGAGCCGACGGUAUAGUCCGGAUGAAAGAAGACGGCC 9521 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #26875,sp|AE012168.1|AE012168 Xanthomonas campestris pv. campestris str. ATCC 33913, section 76 of 460 of the complete genome. ----isReversed: 0 ----hitSequence: GAACGUCUUCAGGGCGGGGUGCGAUUCCCCACCGGCGGUAUGCAUGCGCAAGCGUGUGAGCCCGCGAGCGCUUCGCUGCCGAUCUCUCGCUGAGAGCACGGCGGUGAAGGUCAGCAGAUCCGGUGCGAUGCCGGGGCCGACGGUAUAGUCCGGAUGAAAGAAGACGGCC hit 23 : 3092 3260 (fwd) 129.38 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................___ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................AAG 44 + C:UCUUCAGGGC+GGGUG AUUCCCCACCGGCGGUA AG 3092 GAACGUCUUCAGGGCGGGGUGCGAUUCCCCACCGGCGGUAUgcaugcgcaagcguguGAG 3151 >>>>,,,,,.................................,,,,,,,,,,,,,,,,<< 45 CCCGCGAGC.................................uguuaagguCGGcuGAuc 71 CCCGCGAGC GU AAGGUC+GC+GA:C 3152 CCCGCGAGCgcuucgcugccgaucucucgcugagagcacggcGGUGAAGGUCAGCAGAUC 3211 <<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 72 cGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 CGGUG GAU CCGG:GCCGAC:GUAUAGUC:GGAUG++AGAAGA:G + 3212 CGGUGCGAUGCCGGGGCCGACGGUAUAGUCCGGAUGAAAGAAGACGGCC 3260 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27513,sp|AE013024.1|AE013024 Thermoanaerobacter tengcongensis strain MB4T, section 51 of 244 of the complete genome. ----isReversed: 0 ----hitSequence: CGGGGCAGGGUGGAAUUCCCGACCGGCAGUGAAAGCCUGCGAGCCGCAUAUGCGGUUGACUCGGUGAAAUUCCGAGGCCGACGGUAAAAGUCCGGAUGGGAG hit 24 : 1 102 (fwd) 98.48 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 C+GGGCAGGGUG AAUUCCC+ACCGG+:GU AAAGC:+GCGAGC A++ 1 ---------CGGGGCAGGGUGGAAUUCCCGACCGGCAGUGAAAGCCUGCGAGC-CGCAUA 50 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,,))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaa 119 +CGG+UGA::CGGUGA+AUUCCG::GCCGAC:G A+AGUC:GGAUGGGAG 51 UGCGGUUGACUCGGUGAAAUUCCGAGGCCGACGGuAAAAGUCCGGAUGGGAG-------- 102 ) 120 g 120 - - - ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28440,sp|AE013955.1|AE013955 Yersinia pestis KIM section 355 of 415 of the complete genome. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAAUUGUAUUGCGACGAUAUAGUCACGUCGGUGGUGCAAAAGCCCGCGAGCGCUCAUAUUGUUUCUCUUAUCCAAGAGAGCAAGGUAGAGGUCAGCAGACCCGGUGUAAUUCCGGGGCCGACGGUUAUAGUCCGGAUGGGAGAGAGUAACG hit 25 : 2525 2336 (rev) 133.96 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 G:U:A:::UCAGGGC+GGGUGAAA UCCCCACCGGCGGUAA 8117 GCUUAUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAauuguauugcgacgauaua 8176 ..................___>>>>,,,,,.............................. 42 ..................AAGCCCGCGAGC.............................. 53 AAGCCCGCGAGC 8177 gucacgucgguggugcaaAAGCCCGCGAGCgcucauauuguuucucuuauccaagagagc 8236 ..,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,, 54 ..uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgA 110 GU +AGGUC+GC+GA:CCGGUG +AUUCCGG:GCCGAC:G UAUAGUC:GGAUGGGA 8237 aaGGUAGAGGUCAGCAGACCCGGUGUAAUUCCGGGGCCGACGGuUAUAGUCCGGAUGGGA 8296 )))))))))) 111 GAAgAugaag 120 GA:::U:A:G 8297 GAGAGUAACG 8306 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28566,sp|AE014142.1|AE014142 Streptococcus pyogenes MGAS315, section 7 of 37 of the complete genome. ----isReversed: 0 ----hitSequence: AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUAGGUAACUAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAGAGAAGACCGGG hit 26 : 1906 2030 (fwd) 127.25 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___............___>>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA............AAGCCCG 48 :++::UCUUCAGGGCAGGGUG AUUCCC+ACCGGCG:U A AAG:CCG 1906 AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGAcuagguaacuagAAGUCCG 1965 ,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,, 49 CGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGG 108 CGAGC G +GCUGAU::GGUG +A UCC::A+CCGACAGUAUAGUCUGGAUG+ 1966 CGAGC-------GCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGA 2018 ,,)))))))))) 109 gAGAAgAugaag 120 GAGAAGA::++: 2019 GAGAAGACCGGG 2030 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28631,sp|AE014225.1|AE014225 Streptococcus agalactiae 2603V/R section 35 of 100 of the complete genome. ----isReversed: 0 ----hitSequence: GAAUUUCUUCGGGGUCAGGUGAAAAUCCUAACCGGCGGUAUAGUCCGCGAGCUUUCGAGCAUGAACUGGUGUGAUUCCAGUACCGACAGUAAAGUCUGGAUGAGAGAAGAAUUCA hit 27 : 13063 13177 (fwd) 114.32 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 + :UCUUC+GGG :GGUGAAA UCC: ACCGGCG:UA AG:CCGCGAGC +++ 13063 GAAUUUCUUCGGGGUCAGGUGAAAAUCCUAACCGGCGGUA-UAGUCCGCGAGC----UUU 13117 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 + G UGA:C:GGUG GAUUCC:G:+CCGACAGUA+AGUCUGGAUG+GAGAAGA: + 13118 CGAGCAUGAACUGGUGUGAUUCCAGUACCGACAGUAAAGUCUGGAUGAGAGAAGAAUUCA 13177 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28662,sp|AE014256.1|AE014256 Streptococcus agalactiae 2603V/R section 66 of 100 of the complete genome. ----isReversed: 1 ----hitSequence: AGGUGUCUUCAGGGCAGGGUGUAAUUCCCGACCGGCGGUAAUCGCUUCCAACUUAUUUGUCAGUUGUGAAGCAUCAGUCCGCGAGCGAAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAAAGUCUGGAUGGGAGAAGACAAAG hit 28 : 5466 5321 (rev) 132.94 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 :::::UCUUCAGGGCAGGGUG AAUUCCC+ACCGGCG:UAA 23970 AGGUGUCUUCAGGGCAGGGUGUAAUUCCCGACCGGCGGUAAucgcuuccaacuuauuugu 24029 ..............___>>>>,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>, 42 ..............AAGCCCGCGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaG 87 AG:CCGCGAGC G +GCUGAU::GGUGAGAUUCC::A+ 24030 caguugugaagcauCAGUCCGCGAGC-------GAAAGCUGAUGUGGUGAGAUUCCACAA 24082 ,,,,<<<______>>>,,,,,,,)))))))))) 88 CCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 CCGACAGUA+AGUCUGGAUGGGAGAAGA::::: 24083 CCGACAGUAAAGUCUGGAUGGGAGAAGACAAAG 24115 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28947,sp|AE014565.1|AE014565 Brucella suis 1330 chromosome II section 61 of 108 of the complete genome. ----isReversed: 0 ----hitSequence: GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUGAAAAGCAAUUUUCAAGCCCGCGAGCGCCUGAAAUGGAAGCCGAUUCGCAUGCCAUUUCAGGGUCAGCAGAUCCGGUGAGAUGCCGGAGCCGACGGUUAAAGUCCGGAUGGAAGAGAGCGAAU hit 29 : 1997 2160 (fwd) 132.79 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 :U:::::UC+GGGC+GGGUGAAA UCCCCACCGGCGGUA AAGCC 1997 GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUgaaaagcaauuuucAAGCC 2056 >>,,,,,.............................,,,,,,,,,,,,,,,,<<<<<___ 47 CGCGAGC.............................uguuaagguCGGcuGAuccGGUGA 77 CGCGAGC U+U A GGUC+GC+GAUCCGGUGA 2057 CGCGAGCgccugaaauggaagccgauucgcaugccaUUUCAGGGUCAGCAGAUCCGGUGA 2116 ____>>>>>,,,,,<<<.______>>>,,,,,,,)))))))))) 78 gAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 GAU CCGGAGCCGAC:G UA+AGUC:GGAUGG+AGA:::::A: 2117 GAUGCCGGAGCCGACGGuUAAAGUCCGGAUGGAAGAGAGCGAAU 2160 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28999,sp|AE014618.1|AE014618 Bifidobacterium longum NCC2705 section 5 of 202 of the complete genome. ----isReversed: 1 ----hitSequence: UGUCAGUUUCAGGGAAGGUGCAAUUCCUUACUGGCGGUAACCUGCACCCCGGGUUUCAUAACGGGGAUGGCAGGAAGCCCGCGACCCGCGCAAGCGGCUGAUCCGGUGAGAUUCCGGAGCCAACGGUAUAGUCCGGAUGGAAGAAACGAGGG hit 30 : 8796 8645 (rev) 115.27 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 :::: ::UUCAGGG A:GGUG AAUUCC: AC GGCGGUAA 2087 UGUCAGUUUCAGGG-AAGGUGCAAUUCCUUACUGGCGGUAAccugcaccccggguuucau 2145 ...............___>>>>,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>> 42 ...............AAGCCCGCGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCgga 86 AAGCCCGCGA C + + +CGGCUGAUCCGGUGAGAUUCCGGA 2146 aacggggauggcaggAAGCCCGCGACC-CGCGCAAGCGGCUGAUCCGGUGAGAUUCCGGA 2204 ,,,,,<<<______>>>,,,,,,,)))))))))) 87 GCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 GCC AC:GUAUAGUC:GGAUGG+AGAA:: :::: 2205 GCCAACGGUAUAGUCCGGAUGGAAGAAACGAGGG 2238 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29343,sp|AE014999.1|AE014999 Streptococcus mutans UA159 section 147 of 185 of the complete genome. ----isReversed: 1 ----hitSequence: AAGUGUCUUCAGGGCAGGGUGAGAUUCCCGACCGGCGGUGACAAAGGCGAUGAUUUUUCAACGAGAUUAGAUAGUAAGUCGAAGAUGAUAUUAGACUAUAUCAAGAUGAGCUAAUGAUGCGUCAGAGAAAAGAUUCCUUUUGAAGUCCGCGAGCGCAAGCUGAUGUGGUGAAAUUCCACAACCGACAGUAAAGUCUGGAUGGGAGAAGACUGAG hit 31 : 4492 4279 (rev) 122.96 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 :A+ :UCUUCAGGGCAGGGUGA AUUCCC+ACCGGCG:U A 2853 AAGUGUCUUCAGGGCAGGGUGAGAUUCCCGACCGGCGGUGAcaaaggcgaugauuuuuca 2912 ............................................................ - ............................................................ - 2913 acgagauuagauaguaagucgaagaugauauuagacuauaucaagaugagcuaaugaugc 2972 ......................___>>>>,,,,,,,,,,,,,,,,,,,,,<<<<<_____ 42 ......................AAGCCCGCGAGCuguuaagguCGGcuGAuccGGUGAgA 79 AAG:CCGCGAGC G +GCUGAU::GGUGA+A 2973 gucagagaaaagauuccuuuugAAGUCCGCGAGC-------GCAAGCUGAUGUGGUGAAA 3025 __>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 80 UUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 UUCC::A+CCGACAGUA+AGUCUGGAUGGGAGAAGA: +A: 3026 UUCCACAACCGACAGUAAAGUCUGGAUGGGAGAAGACUGAG 3066 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29664,sp|AE015320.1|AE015320 Shigella flexneri 2a str. 301 section 283 of 412 of the complete genome. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG hit 32 : 2277 2129 (rev) 137.50 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAGCC 12388 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAGCC 12447 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 12448 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 12507 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUGGGAGA:::U:A:G 12508 GGuUAGAGUCCGGAUGGGAGAGAGUAACG 12536 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29807,sp|AE015465.1|AE015465 Shewanella oneidensis MR-1 section 14 of 457 of the complete genome. ----isReversed: 1 ----hitSequence: UUCUCAGGGCGGGGUGAAACUCCCCACCGGCGGUAAAUAGUGAGGUAAAAGAGAUUUUCCCACGCUAAAGCCCGCGAGCGCCCGAACGCAAUUUCGGGGUCAGCAGAUCUGGUGCCCUAGCAUGUCUCGCCAUGGUUAACGCCAAACGAGACCGCGCUAUUAUUCCAGAGCCGACGGUAAUGGACUGUUUGCCACUAGCGACAGUACUGAGUCCGGAUGGAAGAGAA hit 33 : 227 1 (rev) 53.20 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 U::UCAGGGC+GGGUGAAA UCCCCACCGGCGGUAA 11063 -----UUCUCAGGGCGGGGUGAAACUCCCCACCGGCGGUAAauagugagguaaaagagau 11117 ............___>>>>,,,,,.................................... 42 ............AAGCCCGCGAGC.................................... 53 AAGCCCGCGAGC 11118 uuucccacgcuaAAGCCCGCGAGCgcccgaacgcaauuucggggucagcagaucuggugc 11177 ...............................................,,,,,,,,,,,,, 54 ...............................................uguuaagguCGGc 66 U++ A +G CG C 11178 ccuagcaugucucgccaugguuaacgccaaacgagaccgcgcuauuaUUCCAGAGCCGAC 11237 ,,,<<<<<_.______.>>>>>,,,,,<<<__..____>>>,,,,,,,)))))))))) 67 uGAuccGGU.GAgAUU.CCggaGCCGACaGUA..uAGUCuGGAUGGgAGAAgAugaag 120 G :::GG G UU CC:::+ CGAC GUA AGUC GGAUGG+AGA::A 11238 GGUAAUGG-aCUGUUUgCCACUAGCGACAGUAcuGAGUCCGGAUGGAAGAGAA----- 11289 ----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: AAAUAUCUUCAGGGCGGGGUGUAAUUCCCCACCGGCGGUAUAGCCCGCGAGCCGCAAGGCAUGAUUCGGUGUAACUCCGAAGCCGACAGUAAAGUCUGGAUGAAAGAAGGUAUAA hit 34 : 18444 18558 (fwd) 128.16 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 :A+:A:CUUCAGGGC+GGGUG AAUUCCCCACCGGCGGUA AGCCCGCGAGC + A+ 18444 AAAUAUCUUCAGGGCGGGGUGUAAUUCCCCACCGGCGGUA-UAGCCCGCGAGC--CGCAA 18500 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 G+C+ UGAU:CGGUG +A UCCG:AGCCGACAGUA+AGUCUGGAUG++AGAAG:U:+A: 18501 GGCA--UGAUUCGGUGUAACUCCGAAGCCGACAGUAAAGUCUGGAUGAAAGAAGGUAUAA 18558 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30275,sp|AE015938.1|AE015938 Clostridium tetani E88, section 3 of 10 of the complete genome. ----isReversed: 0 ----hitSequence: UACAUCCUUCAGGGUUUGGUGAGAUUCCAUACCGGUGGUAAAGCCCACGAGCCGCAAGGCAGAUCUGGUGAAAUUCCAGGGCCGACAGUUAAAGUCUGGAUGAAAGAAGGAAAUU hit 35 : 84701 84815 (fwd) 114.83 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 : : ::CUUCAGGG :GGUGA AUUCC: ACCG+:GGUA AAGCC:+CGAGC G 84701 UACAUCCUUCAGGGUUUGGUGAGAUUCCAUACCGGUGGUA-AAGCCCACGAGC-----CG 84754 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,,))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaa 119 GGC+GA:C:GGUGA+AUUCC:G:GCCGACAG UA+AGUCUGGAUG++AGAAG:: : 84755 CAAGGCAGAUCUGGUGAAAUUCCAGGGCCGACAGuUAAAGUCUGGAUGAAAGAAGGAAAU 84814 ) 120 g 120 : 84815 U 84815 ----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: UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUUGAGCCUGCGACCCACUAAUAUUGUUUUUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGUUAGAGUCUGGAUGGGAGAAAGAAUUU hit 36 : 289216 289078 (rev) 125.94 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 : +::::UUC+GGGCAGGGUGAAAUUCCC ACCGG+:GUAA AGC:+GCGA C 10814 UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAauuGAGCCUGCGACCcacu 10873 ...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 54 ...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 UG U+++ + GGCUGAUC::GUG GA UC::GAGCCGACAG UA AGUC 10874 aauauuguuuuUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGuUAGAGUC 10933 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 UGGAUGGGAGAA::::+ : 10934 UGGAUGGGAGAAAGAAUUU 10952 ----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: AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAUCUAAGCCUGCGACGACAACGUAUUAAUUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG hit 37 : 6622 6487 (rev) 120.28 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :::CAUCUUC+GGG AGGGUG AAUUCCC ACCGG+:GUAA AAGC:+GCGA C 293408 AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAucuAAGCCUGCGA-Cgaca 293466 ..........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>> 54 ..........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuG 103 U+UU+ + U +UGAU:C:GUGAGA UC:G:AGCCGACAGUAUAGUCUG 293467 acguauuaauUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUG 293526 ,,,,,,,)))))))))) 104 GAUGGgAGAAgAugaag 120 GAUGGGAGAAGAUG::: 293527 GAUGGGAGAAGAUGGAG 293543 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30304,sp|AE016767.1|AE016767 Escherichia coli CFT073 section 13 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: CAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAG hit 38 : 117 1 (rev) 54.55 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 CAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAGCC 300243 ---------CAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAGCC 300293 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 300294 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 300353 <<______>>>,,,,,,,)))))))))) 93 aGUAuAGUCuGGAUGGgAGAAgAugaag 120 GG U AG 300354 ----------GGUU---AG--------- 300359 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30312,sp|AE016776.1|AE016776 Pseudomonas putida KT2440 section 3 of 21 of the complete genome. ----isReversed: 1 ----hitSequence: GUCGGUCUUCAGGGCGGGGUGUAAGUCCCCACCGGCGGUAAAUCGAAAGAUGAGCCCGCGAGCGCCCCGACCAUGUCGGGGGUCAGCAGAUCUGGUGCAACUCCAGAGCCGACGGUCAUAGUCCGGAUGAAAGAAGGCGUCA hit 39 : 12904 12763 (rev) 123.02 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..........___>>>>,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..........AAGCCCGCG 50 : ::CUUCAGGGC+GGGUG AA UCCCCACCGGCGGUAA AGCCCGCG 287088 GUCGGUCUUCAGGGCGGGGUGUAAGUCCCCACCGGCGGUAAaucgaaagauGAGCCCGCG 287147 ,,,...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.____ 51 AGC...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuA 98 AGC ++ + GGUC+GC+GAUC:GGUG +A UCC:GAGCCGAC:G AUA 287148 AGCgccccgaccauGUCGGGGGUCAGCAGAUCUGGUGCAACUCCAGAGCCGACGGuCAUA 287207 __>>>,,,,,,,)))))))))) 99 GUCuGGAUGGgAGAAgAugaag 120 GUC:GGAUG++AGAAG:: : 287208 GUCCGGAUGAAAGAAGGCGUCA 287229 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30347,sp|AE016813.1|AE016813 Vibrio vulnificus CMCP6 chromosome II section 6 of 6 of the complete sequence. ----isReversed: 1 ----hitSequence: UUUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAUACCGAAUGAGGUGAGCCCGCGAGCGCUCGAUUCGUCGAGGUCAGCAGAUCUGGUGAGAGGCCAGAGCCGACGGUUAUAGUCCGGAUGAGAGAGAAUGAAA hit 40 : 63466 63326 (rev) 135.21 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___............___>>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA............AAGCCCG 48 ::U:AU::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUA AGCCCG 272717 UUUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAUaccgaaugagguGAGCCCG 272776 ,,,,,........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<._____ 49 CGAGC........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAG 99 CGAGC GU +AGGUC+GC+GAUC:GGUGAGA CC:GAGCCGAC:G UAUAG 272777 CGAGCgcucgauuCGUCGAGGUCAGCAGAUCUGGUGAGAGGCCAGAGCCGACGGuUAUAG 272836 _>>>,,,,,,,)))))))))) 100 UCuGGAUGGgAGAAgAugaag 120 UC:GGAUG+GAGA::AU:A:: 272837 UCCGGAUGAGAGAGAAUGAAA 272857 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30362,sp|AE016844.1|AE016844 Salmonella enterica subsp. enterica serovar Typhi Ty2, section 11 of 16 of the complete genome. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAGCGAUGUUUAACGCAUUUCUCAUCACGGUGCGCCGUGACGGAACGCGGAGAGCAGGUUGAAAGCCCGCGAGCGCUUUUUGCCAUAGCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAAAGUCCGGAUGGGAGAGGGUAACG hit 41 : 196657 196459 (rev) 133.16 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA 104918 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucagcgauguuuaacgca 104977 .............................................___>>>>,,,,,... 42 .............................................AAGCCCGCGAGC... 53 AAGCCCGCGAGC 104978 uuucucaucacggugcgccgugacggaacgcggagagcagguugaAAGCCCGCGAGCgcu 105037 ...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 54 ...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 G AAGGUC+GC+GA:CCGGUG +AUUCCGG:GCCGAC:G UA+AGUC 105038 uuuugccauagCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGuUAAAGUC 105097 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 :GGAUGGGAGA:::U:A:G 105098 CGGAUGGGAGAGGGUAACG 105116 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30379,sp|AE016862.1|AE016862 Pseudomonas syringae pv. tomato str. DC3000 section 7 of 21 of the complete genome. ----isReversed: 1 ----hitSequence: UAACGUUCUCAGGGCGGGGUGCAACUCCCCACCGGCGGUAAUGGCGCGCAAUGCGUCUAGCCCGCGAGCGCUUGGGGGUUUCAGCUUUGGCUGACGACCUGCAAGGUCAGCAGACCCGGUGUGAUUCCGGGGCCGACGGUCAUAGUCCGGAUGAAGAGAGAGCGGGA hit 42 : 116414 116248 (rev) 122.79 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................___ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................AAG 44 :+ C::::UCAGGGC+GGGUG AA UCCCCACCGGCGGUAA AG 193853 UAACGUUCUCAGGGCGGGGUGCAACUCCCCACCGGCGGUAAuggcgcgcaaugcgucUAG 193912 >>>>,,,,,.............................,,,,,,,,,,,,,,,,<<<<<_ 45 CCCGCGAGC.............................uguuaagguCGGcuGAuccGGU 75 CCCGCGAGC + AAGGUC+GC+GA:CCGGU 193913 CCCGCGAGCgcuuggggguuucagcuuuggcugacgacCUGCAAGGUCAGCAGACCCGGU 193972 ______>>>>>,,,,,<<<.______>>>,,,,,,.,)))))))))) 76 GAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGg.AGAAgAugaag 120 G GAUUCCGG:GCCGAC:G AUAGUC:GGAUG++ AGA::::G +: 193973 GUGAUUCCGGGGCCGACGGuCAUAGUCCGGAUGAAgAGAGAGCGGGA 194019 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30420,sp|AE016951.1|AE016951 Enterococcus faecalis V583, section 5 of 11 of the complete genome. ----isReversed: 0 ----hitSequence: GUUCGUCUUCAGGGGCAGGGUGUAAUUCCCGACCGGUGGUUAUAGUCCACGACUCGUUUUUAACGAUUGAAUUGGUGUAAUUCCAAUACCGACAGUAUAGUCUGGAUAAAGAAGAUAGGG hit 43 : 265043 265162 (fwd) 102.32 bits ((((((((((,,,,.,,<<<_______>>>,,,,,<<<<______>>>>,,,,,.,,,,, 1 gaucaUcUUCAGGG.CaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC.uguua 58 G :::UCUUCAGGG CAGGGUG AAUUCCC+ACCG+:G:U A AG:C:+CGA C GUU+ 265043 GUUCGUCUUCAGGGgCAGGGUGUAAUUCCCGACCGGUGGUUAUAGUCCACGA-CuCGUUU 265101 ,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))) 59 agguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAuga 118 ++ CG +UGA:::GGUG +AUUCC:::+CCGACAGUAUAGUCUGGAU ++AGAAGA::: 265102 UUAACGAUUGAAUUGGUGUAAUUCCAAUACCGACAGUAUAGUCUGGAU-AAAGAAGAUAG 265160 )) 119 ag 120 G 265161 GG 265162 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30428,sp|AE016961.1|AE016961 Coxiella burnetii strain RSA 493, section 2 of 7 of the complete genome. ----isReversed: 0 ----hitSequence: AAGCGCCUUCAGGGCGGGGUGGAAGUCCCCACCGGCGGUAAGUUUCUUUGAAAUAAGCCCGCGAGUCUCUAUUUUAAGAGACAGAUCUGGUUAAAUUCCAGAGCCGACGGUCAGAGUCCGGAUGAGAGAAGGUAUGC hit 44 : 292346 292482 (fwd) 118.77 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.............___>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA.............AAGCCC 47 :+ :::CUUCAGGGC+GGGUG AA UCCCCACCGGCGGUAA AAGCCC 292346 AAGCGCCUUCAGGGCGGGGUGGAAGUCCCCACCGGCGGUAAguuucuuugaaauAAGCCC 292405 >,,,,,...,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>> 48 GCGAGC...uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuG 103 GCGAG U UU+++ + G C+GAUC:GGU A+AUUCC:GAGCCGAC:G A AGUC:G 292406 GCGAGUcucUAUUUUAAGAGACAGAUCUGGUUAAAUUCCAGAGCCGACGGuCAGAGUCCG 292465 ,,,,,,,)))))))))) 104 GAUGGgAGAAgAugaag 120 GAUG+GAGAAG::: +: 292466 GAUGAGAGAAGGUAUGC 292482 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30448,sp|AE016988.1|AE016988 Shigella flexneri 2a str. 2457T section 11 of 16 of the complete genome. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG hit 45 : 252559 252411 (rev) 137.50 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAGCC 40348 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAGCC 40407 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 40408 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 40467 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUGGGAGA:::U:A:G 40468 GGuUAGAGUCCGGAUGGGAGAGAGUAACG 40496 ----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: GUCUAUCUUCGGGGCAGGGUGAAAAUCCCGACCGGCGGUGAUGAACUAUUUAUGAUUUUGUUCUAAGCCCGCGAGCCGUUAAGGCAGGAUUUGGUGUGAUUCCAAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG hit 46 : 225425 225564 (fwd) 129.86 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 G:::AUCUUC+GGGCAGGGUGAAA UCCC+ACCGGCGGU A 225425 GUCUAUCUUCGGGGCAGGGUGAAAAUCCCGACCGGCGGUGAugaacuauuuaugauuuug 225484 ....___>>>>,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<___ 42 ....AAGCCCGCGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAu 97 AAGCCCGCGAGC +++ G GAU::GGUG GAUUCC::AGCCGACAGUAU 225485 uucuAAGCCCGCGAGC---CGUUAAGGCAGGAUUUGGUGUGAUUCCAAAGCCGACAGUAU 225541 ___>>>,,,,,,,)))))))))) 98 AGUCuGGAUGGgAGAAgAugaag 120 AGUCUGGAUGGGAGAAGAU:::G 225542 AGUCUGGAUGGGAGAAGAUGGAG 225564 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30471,sp|AE017011.1|AE017011 Bacillus cereus ATCC 14579 section 14 of 18 of the complete genome. ----isReversed: 0 ----hitSequence: AGCAUCCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAUGAAGUGAAAACUUCUAAGUCCGUGACCCGUUUUCAACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUAUAGUCUGGAUGGGAGAAGGAUAUG hit 47 : 142450 142593 (fwd) 121.33 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................___ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................AAG 44 : ::::CUUC+GGG GGGUGAAAUUCCC ACCGGCG:U A AAG 142450 AGCAUCCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAugaagugaaaacuucuAAG 142509 >>>>,,,,,........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<__ 45 CCCGCGAGC........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUA 96 :CCG GA C U +A+ CGG+ GA:C::GUGA+A UC::G:GCCGACAGUA 142510 UCCGUGACCcguuuucaACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUA 142569 ____>>>,,,,,,,)))))))))) 97 uAGUCuGGAUGGgAGAAgAugaag 120 UAGUCUGGAUGGGAGAAG:::: : 142570 UAGUCUGGAUGGGAGAAGGAUAUG 142593 ----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: GUCUAUCUUCGGGGCAGGGUGAAAAUCCCGACCGGCGGUGAUGAACUAUUUAUGAUUUUGUUCUAAGCCCGCGAGCCGUUAAGGCAGGAUUUGGUGUGAUUCCAAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG hit 48 : 261819 261958 (fwd) 129.86 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 G:::AUCUUC+GGGCAGGGUGAAA UCCC+ACCGGCGGU A 261819 GUCUAUCUUCGGGGCAGGGUGAAAAUCCCGACCGGCGGUGAugaacuauuuaugauuuug 261878 ....___>>>>,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<___ 42 ....AAGCCCGCGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAu 97 AAGCCCGCGAGC +++ G GAU::GGUG GAUUCC::AGCCGACAGUAU 261879 uucuAAGCCCGCGAGC---CGUUAAGGCAGGAUUUGGUGUGAUUCCAAAGCCGACAGUAU 261935 ___>>>,,,,,,,)))))))))) 98 AGUCuGGAUGGgAGAAgAugaag 120 AGUCUGGAUGGGAGAAGAU:::G 261936 AGUCUGGAUGGGAGAAGAUGGAG 261958 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30489,sp|AE017037.1|AE017037 Bacillus anthracis str. Ames section 14 of 18 of the complete genome. ----isReversed: 0 ----hitSequence: AGCAUCCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAUGAAGUGCAAACUUCUAAGUCCGUGACCCGUUUUCAACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUAUAGUCUGGAUGGGAGAAGGAUAUG hit 49 : 154101 154244 (fwd) 121.33 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................___ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................AAG 44 : ::::CUUC+GGG GGGUGAAAUUCCC ACCGGCG:U A AAG 154101 AGCAUCCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAugaagugcaaacuucuAAG 154160 >>>>,,,,,........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<__ 45 CCCGCGAGC........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUA 96 :CCG GA C U +A+ CGG+ GA:C::GUGA+A UC::G:GCCGACAGUA 154161 UCCGUGACCcguuuucaACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUA 154220 ____>>>,,,,,,,)))))))))) 97 uAGUCuGGAUGGgAGAAgAugaag 120 UAGUCUGGAUGGGAGAAG:::: : 154221 UAGUCUGGAUGGGAGAAGGAUAUG 154244 ----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: UUUAAUCUUCAGGGCAGGGUGAAAUUCCCGAUCGGUGGUAAAGUCCGCGAGCCGAACUUCGAUUAACAUCAAGUUUAGCAGGAACUAGUGAAAUUCUAGUACCGACAGUAUAGUCUGGAUGGAAGAAGAGCAGA hit 50 : 36946 37079 (fwd) 124.09 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,....... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC....... 53 : U UCUUCAGGGCAGGGUGAAAUUCCC+A CGG:G:UA AAG:C:GCGAGC 36946 UUUAAUCUUCAGGGCAGGGUGAAAUUCCCGAUCGGUGGUA-AAGUCCGCGAGCcgaacuu 37004 ........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,, 54 ........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGA 105 ++ A + U G GA:C::GUGA+AUUC::G:+CCGACAGUAUAGUCUGGA 37005 cgauuaacAUCAAGUUUAGCAGGAACUAGUGAAAUUCUAGUACCGACAGUAUAGUCUGGA 37064 ,,,,,)))))))))) 106 UGGgAGAAgAugaag 120 UGG+AGAAGA A : 37065 UGGAAGAAGAGCAGA 37079 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #9636,sp|AF269345.1|AF269345 Staphylococcus epidermidis strain SR1 clone step.1002d07 genomic sequence. ----isReversed: 1 ----hitSequence: UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUUGAGCCUGCGACCCACUAAUAUUGUUUUUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGUUAGAGUCUGGAUGGGAGAAAGAAGUU hit 51 : 3001 2863 (rev) 126.92 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 : :::::UUC+GGGCAGGGUGAAAUUCCC ACCGG+:GUAA AGC:+GCGA C 618 UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAauuGAGCCUGCGACCcacu 677 ...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 54 ...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 UG U+++ + GGCUGAUC::GUG GA UC::GAGCCGACAG UA AGUC 678 aauauuguuuuUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGuUAGAGUC 737 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 UGGAUGGGAGAA::::: : 738 UGGAUGGGAGAAAGAAGUU 756 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #9937,sp|AF269646.1|AF269646 Staphylococcus epidermidis strain SR1 clone step.1015d10 genomic sequence. ----isReversed: 1 ----hitSequence: UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUUGAGCCUGCGACCCACUAAUAUUGUUUUUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGUUAGAGUCUGGAUGGGAGAAAGAAGUU hit 52 : 2218 2080 (rev) 126.92 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 : :::::UUC+GGGCAGGGUGAAAUUCCC ACCGG+:GUAA AGC:+GCGA C 1010 UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAauuGAGCCUGCGACCcacu 1069 ...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 54 ...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 UG U+++ + GGCUGAUC::GUG GA UC::GAGCCGACAG UA AGUC 1070 aauauuguuuuUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGuUAGAGUC 1129 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 UGGAUGGGAGAA::::: : 1130 UGGAUGGGAGAAAGAAGUU 1148 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #10001,sp|AF269712.1|AF269712 Staphylococcus epidermidis strain SR1 clone step.1018d10 genomic sequence. ----isReversed: 0 ----hitSequence: AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAUCUAAGCCUGCGACGACAACGUAUUAAUUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG hit 53 : 1300 1435 (fwd) 120.28 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :::CAUCUUC+GGG AGGGUG AAUUCCC ACCGG+:GUAA AAGC:+GCGA C 1300 AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAucuAAGCCUGCGA-Cgaca 1358 ..........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>> 54 ..........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuG 103 U+UU+ + U +UGAU:C:GUGAGA UC:G:AGCCGACAGUAUAGUCUG 1359 acguauuaauUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUG 1418 ,,,,,,,)))))))))) 104 GAUGGgAGAAgAugaag 120 GAUGGGAGAAGAUG::: 1419 GAUGGGAGAAGAUGGAG 1435 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #10177,sp|AF269888.1|AF269888 Staphylococcus epidermidis strain SR1 clone step.1028e12 genomic sequence. ----isReversed: 1 ----hitSequence: AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAUCUAAGCCUGCGACGACAACGUAUUAAUUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG hit 54 : 483 348 (rev) 120.28 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :::CAUCUUC+GGG AGGGUG AAUUCCC ACCGG+:GUAA AAGC:+GCGA C 2850 AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAucuAAGCCUGCGA-Cgaca 2908 ..........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>> 54 ..........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuG 103 U+UU+ + U +UGAU:C:GUGAGA UC:G:AGCCGACAGUAUAGUCUG 2909 acguauuaauUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUG 2968 ,,,,,,,)))))))))) 104 GAUGGgAGAAgAugaag 120 GAUGGGAGAAGAUG::: 2969 GAUGGGAGAAGAUGGAG 2985 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #10215,sp|AF269926.1|AF269926 Staphylococcus epidermidis strain SR1 clone step.1032d02 genomic sequence. ----isReversed: 1 ----hitSequence: UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUUGAGCCUGCGACCCACUAAUAUUGUUUUUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGUUAGAGUCUGGAUGGGAGAAAGAAGUU hit 55 : 559 421 (rev) 126.92 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 : :::::UUC+GGGCAGGGUGAAAUUCCC ACCGG+:GUAA AGC:+GCGA C 3163 UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAauuGAGCCUGCGACCcacu 3222 ...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 54 ...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 UG U+++ + GGCUGAUC::GUG GA UC::GAGCCGACAG UA AGUC 3223 aauauuguuuuUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGuUAGAGUC 3282 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 UGGAUGGGAGAA::::: : 3283 UGGAUGGGAGAAAGAAGUU 3301 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #332,sp|AJ414144.1|AJ414144 Yersinia pestis strain CO92 complete genome; segment 4/20 ----isReversed: 0 ----hitSequence: GCUUAUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAAUUGUAUUGCGACGAUAUAGUCACGUCGGUGGUGCAAAAGCCCGCGAGCGCUCAUAUUGUUUCUCUUAUCCAAGAGAGCAAGGUAGAGGUCAGCAGACCCGGUGUAAUUCCGGGGCCGACGGUUAUAGUCCGGAUGGGAGAGAGUAACG hit 56 : 14671 14860 (fwd) 133.96 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 G:U:A:::UCAGGGC+GGGUGAAA UCCCCACCGGCGGUAA 14671 GCUUAUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAauuguauugcgacgauaua 14730 ..................___>>>>,,,,,.............................. 42 ..................AAGCCCGCGAGC.............................. 53 AAGCCCGCGAGC 14731 gucacgucgguggugcaaAAGCCCGCGAGCgcucauauuguuucucuuauccaagagagc 14790 ..,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,, 54 ..uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgA 110 GU +AGGUC+GC+GA:CCGGUG +AUUCCGG:GCCGAC:G UAUAGUC:GGAUGGGA 14791 aaGGUAGAGGUCAGCAGACCCGGUGUAAUUCCGGGGCCGACGGuUAUAGUCCGGAUGGGA 14850 )))))))))) 111 GAAgAugaag 120 GA:::U:A:G 14851 GAGAGUAACG 14860 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #415,sp|AL591981.1|AL591981 Listeria monocytogenes strain EGD, complete genome, segment 9/12 ----isReversed: 1 ----hitSequence: GUUCAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGUGGUUAAAGUCCACGAUCUGCUUUUUUAGCAGUUGACUCUGGUGUAAUUCCAGGACCGACAGUAUAGUCUGGAUGGGAGAAGAUGUUG hit 57 : 267609 267487 (rev) 126.32 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,..,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC..uguua 58 G:+CAUCUUC+GGGCAGGGUG AAUUCCC+ACCG+:G:U AAAG:C:+CGA C +UU+ 79442 GUUCAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGUGGUUAAAGUCCACGAUCugCUUUU 79501 ,,,,,,,,,,,.<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,))))))) 59 agguCGGcuGA.uccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAug 117 ++ +C+G+UGA :C:GGUG +AUUCC:G:+CCGACAGUAUAGUCUGGAUGGGAGAAGAUG 79502 UUAGCAGUUGAcUCUGGUGUAAUUCCAGGACCGACAGUAUAGUCUGGAUGGGAGAAGAUG 79561 ))) 118 aag 120 +:G 79562 UUG 79564 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #426,sp|AL596170.1|AL596170 Listeria innocua Clip11262 complete genome, segment 8/12 ----isReversed: 1 ----hitSequence: GUUCAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGUGGUUAAAGUCCACGAUCUGCUUUCUUAGCAGUUGACUCUGGUGUAAUUCCAGGACCGACAGUAUAGUCUGGAUGGGAGAAGAUGUUG hit 58 : 284996 284874 (rev) 125.19 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,..,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC..uguua 58 G:+CAUCUUC+GGGCAGGGUG AAUUCCC+ACCG+:G:U AAAG:C:+CGA C +UU 28455 GUUCAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGUGGUUAAAGUCCACGAUCugCUUUC 28514 ,,,,,,,,,,,.<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,))))))) 59 agguCGGcuGA.uccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAug 117 ++ +C+G+UGA :C:GGUG +AUUCC:G:+CCGACAGUAUAGUCUGGAUGGGAGAAGAUG 28515 UUAGCAGUUGAcUCUGGUGUAAUUCCAGGACCGACAGUAUAGUCUGGAUGGGAGAAGAUG 28574 ))) 118 aag 120 +:G 28575 UUG 28577 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #444,sp|AL627278.1|AL627278 Salmonella enterica serovar Typhi (Salmonella typhi) strain CT18, complete chromosome; segment 14/20 ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAGCGAUGUUUAACGCAUUUCUCAUCACGGUGCGCCGUGACGGAACGCGGAGAGCAGGUUGAAAGCCCGCGAGCGCUUUUUGCCAUAGCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAAAGUCCGGAUGGGAGAGGGUAACG hit 59 : 10311 10113 (rev) 133.16 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA 247740 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucagcgauguuuaacgca 247799 .............................................___>>>>,,,,,... 42 .............................................AAGCCCGCGAGC... 53 AAGCCCGCGAGC 247800 uuucucaucacggugcgccgugacggaacgcggagagcagguugaAAGCCCGCGAGCgcu 247859 ...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 54 ...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 G AAGGUC+GC+GA:CCGGUG +AUUCCGG:GCCGAC:G UA+AGUC 247860 uuuugccauagCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGuUAAAGUC 247919 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 :GGAUGGGAGA:::U:A:G 247920 CGGAUGGGAGAGGGUAACG 247938 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #477,sp|AL646083.1|AL646083 Ralstonia solanacearum GMI1000 megaplasmid, complete sequence; segment 8/11 ----isReversed: 1 ----hitSequence: GUACGUCUUCAGGGCGGGGUGGAAUUCCCCACCGGCGGUAUGCGGGCCAUCGGUCUGCGAGCCCGCGAGCGCCCGGCAUGCGCAGCGCAUGCCGGGGUCAGCAGAUCCGGUGAGAUGCCGGGGCCGACGGUCAGAGUCCGGAUGGAAGAAGAUGUGC hit 60 : 100911 100755 (rev) 133.44 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.................__ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA.................AA 43 + +C:UCUUCAGGGC+GGGUG AAUUCCCCACCGGCGGUA A 107140 GUACGUCUUCAGGGCGGGGUGGAAUUCCCCACCGGCGGUAUgcgggccaucggucugcGA 107199 _>>>>,,,,,...................,,,,,,,,,,,,,,,,<<<<<_______>>> 44 GCCCGCGAGC...................uguuaagguCGGcuGAuccGGUGAgAUUCCg 84 GCCCGCGAGC UG+ + GGUC+GC+GA:CCGGUGAGAU CCG 107200 GCCCGCGAGCgcccggcaugcgcagcgcaUGCCGGGGUCAGCAGAUCCGGUGAGAUGCCG 107259 >>,,,,,<<<.______>>>,,,,,,,)))))))))) 85 gaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 G:GCCGAC:G A AGUC:GGAUGG+AGAAGA:G+ + 107260 GGGCCGACGGuCAGAGUCCGGAUGGAAGAAGAUGUGC 107296 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #485,sp|AL935256.1|AL935256 Lactobacillus plantarum strain WCFS1 complete genome; segment 5/11 ----isReversed: 0 ----hitSequence: CGAUUUCUUCGGGGCAGGGUGCAAUUCCCGACCGACGGUAACAACGUAAGUUGAAGUCCGUGACCCGCGUGAGCGGUGGACCCAGUGCAAGUCUGGGACCGACAGUAUAGUCUGGAUGGGAGAAGAAAAUU hit 61 : 62753 62883 (fwd) 118.92 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___............___>>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA............AAGCCCG 48 :::UCUUC+GGGCAGGGUG AAUUCCC+ACCG:CG:UAA AAG:CC: 62753 CGAUUUCUUCGGGGCAGGGUGCAAUUCCCGACCGACGGUAAcaacguaaguugAAGUCCG 62812 ,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,, 49 CGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGG 108 GA C ++G +CGG+ GA:CC:GUG +A UC:GG:+CCGACAGUAUAGUCUGGAUGG 62813 UGACC-CGCGUGAGCGGUGGACCCAGUGCAAGUCUGGGACCGACAGUAUAGUCUGGAUGG 62871 ,,)))))))))) 109 gAGAAgAugaag 120 GAGAAGA::: 62872 GAGAAGAAAAUU 62883 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #486,sp|AL935257.1|AL935257 Lactobacillus plantarum strain WCFS1 complete genome; segment 6/11 ----isReversed: 1 ----hitSequence: GUUCAUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUAAUAACCCGCGACCUAUGCGUGUGCAUAGUGAUUUGGUGCAAUUCCAAAGUCGACAGUAAAGUCUGGUAUAAAGAAGAUCGAG hit 62 : 151025 150904 (rev) 96.43 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,.,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC.uguuaa 59 G:: AUCUUCAGGGCAGGGUG AUUCCC+ACCGGCGGUAA A CCCGCGA C + ++ 151026 GUUCAUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUAAUAACCCGCGACCuAUGCGU 151085 ,,,,,,,.,,,<<<<<_______>>>>>,,,,,<<<______>>>,.,,,,,,))))))) 60 gguCGGc.uGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGG.AUGGgAGAAgAug 117 G +C+ UGAU::GGUG +AUUCC::AG CGACAGUA+AGUCUGG AU ++AGAAGAU 151086 GUGCAUAgUGAUUUGGUGCAAUUCCAAAGUCGACAGUAAAGUCUGGuAU-AAAGAAGAUC 151144 ))) 118 aag 120 ::G 151145 GAG 151147 ----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: UUUAUCCUUCGGGGCUGGGUGGAAAUCCCGACCGGCGGUGAUGAAGCGAAUGCUUCUUAGUCCGUGACCCGGUUGCUGAUAUCAGUAAGCGGUGGACCUGGUGAAAAUCCGGGACCGACAGUGAAAGUCUGGAUGGGAGAAGGAAACG hit 63 : 135315 135462 (fwd) 115.74 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................___ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................AAG 44 : U ::CUUC+GGGC GGGUG AA UCCC+ACCGGCG:U A AG 135315 UUUAUCCUUCGGGGCUGGGUGGAAAUCCCGACCGGCGGUGAugaagcgaaugcuucuUAG 135374 >>>>,,,,,...........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<< 45 CCCGCGAGC...........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACa 93 :CCG GA C ++ +++ +CGG+ GA:C:GGUGA+A UCC:G:+CCGACA 135375 UCCGUGACCcgguugcugauAUCAGUAAGCGGUGGACCUGGUGAAAAUCCGGGACCGACA 135434 <.______>>>,,,,,,,)))))))))) 94 G.UAuAGUCuGGAUGGgAGAAgAugaag 120 G A+AGUCUGGAUGGGAGAAG:: A : 135435 GuGAAAGUCUGGAUGGGAGAAGGAAACG 135462 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #960,sp|AP002564.1|AP002564 Escherichia coli O157:H7 DNA, complete genome, section 15/20. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG hit 64 : 19513 19365 (rev) 137.50 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAGCC 288450 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAGCC 288509 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 288510 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 288569 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUGGGAGA:::U:A:G 288570 GGuUAGAGUCCGGAUGGGAGAGAGUAACG 288598 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #983,sp|AP003011.2|AP003011 Mesorhizobium loti DNA, complete genome, section 18/21. ----isReversed: 1 ----hitSequence: UAAAGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAGGGCCUCAAACCCAAGCCCGCGAGCGCUUUCCAAGACAAUUGGAAAGGUCAGCAGAUCCGGUGUGAUUCCGGAGCCGACGGUUAGAGUCCGGAUGAAAGAGGACGAAA hit 65 : 168184 168036 (rev) 139.26 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.............___>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA.............AAGCCC 47 :A:::U::UCAGGGC+GGGUGAAA UCCCCACCGGCGGUAA AAGCCC 178327 UAAAGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAgggccucaaacccAAGCCC 178386 >,,,,,...............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 48 GCGAGC...............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 GCGAGC UG AAGGUC+GC+GAUCCGGUG GAUUCCGGAGCCGAC 178387 GCGAGCgcuuuccaagacaauUGGAAAGGUCAGCAGAUCCGGUGUGAUUCCGGAGCCGAC 178446 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUG++AGA::A:::A: 178447 GGuUAGAGUCCGGAUGAAAGAGGACGAAA 178475 ----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: AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAGUAUGUAUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG hit 66 : 24232 24098 (rev) 131.26 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :::CAUCUUC+GGG GGGUG AAUUCCC ACCGG+:GUAA AAGC:+GCGA C 277319 AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAauaAAGCCUGCGACCugcu 277378 ........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,, 54 ........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGA 105 U UA++ + GGCUGAUC::GUGAGAUUC::GAGCCGACAGUAUAGUCUGGA 277379 aguauguaUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGA 277438 ,,,,,)))))))))) 106 UGGgAGAAgAugaag 120 UGGGAGAAGAUG::: 277439 UGGGAGAAGAUGGAG 277453 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #997,sp|AP003135.2|AP003135 Staphylococcus aureus subsp. aureus N315 genomic DNA, complete genome, section 7/10. ----isReversed: 1 ----hitSequence: UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAAUAUGUUUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUUAAAGUCUGGAUGGGAGAAAGAAUGU hit 67 : 27380 27245 (rev) 132.94 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :++::::UUC+GGGCAGGGUGAAAUUCCC ACCGG+:GUAA AAGC:+GCGA C 263771 UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAauaAAGCCUGCGACCugcu 263830 ........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>, 54 ........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGG 104 U UA++ + GGCUGAUC::GUGAGAUUC::GAGCCGACAG UA+AGUCUGG 263831 aauauguuUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGuUAAAGUCUGG 263890 ,,,,,,)))))))))) 105 AUGGgAGAAgAugaag 120 AUGGGAGAA::::++: 263891 AUGGGAGAAAGAAUGU 263906 ----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: AAAAUUCUUCAGGGCAGGGUGAAAUUCCCUACCGGCGGUAAAGCCCGCGAGCUAGUUUAGCAUGAUUCGGUGAAAUUCCGAGGCCGACAGUAAAGUCUGGAUGAAAGAAGAAUAUC hit 68 : 100445 100560 (fwd) 138.58 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 : :::UCUUCAGGGCAGGGUGAAAUUCCC ACCGGCGGUA AAGCCCGCGAGC UA + 100445 AAAAUUCUUCAGGGCAGGGUGAAAUUCCCUACCGGCGGUA-AAGCCCGCGAGC---UAGU 100500 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 U G UGA::CGGUGA+AUUCCG::GCCGACAGUA+AGUCUGGAUG++AGAAGA::: : 100501 UUAGCAUGAUUCGGUGAAAUUCCGAGGCCGACAGUAAAGUCUGGAUGAAAGAAGAAUAUC 100560 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1010,sp|AP003193.2|AP003193 Clostridium perfringens str. 13 DNA, complete genome, section 9/10. ----isReversed: 1 ----hitSequence: AAAAGUCUUCAGGGCGGGGUGUGAGUCCCCACCGGCGGUAAAGCCCGCGAGCUAGUUUUUAGCAUGAUUCGGUGAAAUUCCGAGGCCGACAGUAUAGUCUGGAUGAAAGAAGAUGAGU hit 69 : 79921 79804 (rev) 132.69 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 +:::UCUUCAGGGC+GGGUG A UCCCCACCGGCGGUA AAGCCCGCGAGC + +++ 223330 AAAAGUCUUCAGGGCGGGGUGUGAGUCCCCACCGGCGGUA-AAGCCCGCGAGC-UAGUUU 223387 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 U G UGA::CGGUGA+AUUCCG::GCCGACAGUAUAGUCUGGAUG++AGAAGA:::+ 223388 UUAGCAUGAUUCGGUGAAAUUCCGAGGCCGACAGUAUAGUCUGGAUGAAAGAAGAUGAGU 223447 ----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: 1 ----hitSequence: AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAGUAUGUAUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG hit 70 : 211263 211129 (rev) 131.26 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :::CAUCUUC+GGG GGGUG AAUUCCC ACCGG+:GUAA AAGC:+GCGA C 135638 AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAauaAAGCCUGCGACCugcu 135697 ........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,, 54 ........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGA 105 U UA++ + GGCUGAUC::GUGAGAUUC::GAGCCGACAGUAUAGUCUGGA 135698 aguauguaUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGA 135757 ,,,,,)))))))))) 106 UGGgAGAAgAugaag 120 UGGGAGAAGAUG::: 135758 UGGGAGAAGAUGGAG 135772 ----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: UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAAUAUGUUUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUUAAAGUCUGGAUGGGAGAAAGAAUGU hit 71 : 170441 170306 (rev) 132.94 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :++::::UUC+GGGCAGGGUGAAAUUCCC ACCGG+:GUAA AAGC:+GCGA C 172160 UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAauaAAGCCUGCGACCugcu 172219 ........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>, 54 ........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGG 104 U UA++ + GGCUGAUC::GUGAGAUUC::GAGCCGACAG UA+AGUCUGG 172220 aauauguuUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGuUAAAGUCUGG 172279 ,,,,,,)))))))))) 105 AUGGgAGAAgAugaag 120 AUGGGAGAA::::++: 172280 AUGGGAGAAAGAAUGU 172295 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1062,sp|AP004600.1|AP004600 Oceanobacillus iheyensis HTE831 genomic DNA, section 8/13. ----isReversed: 1 ----hitSequence: UCCAAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGCGGUAAAGUCCGCGAGCUGCAUACAUAUUGUGGUUGAUCUGGUUAAAUUCCAGUACCGACAGUUAUAGUCUGGAUGGGAGAAGAUGUCG hit 72 : 281754 281631 (rev) 134.74 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,....,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC....ugu 56 ::::AUCUUC+GGGCAGGGUG AAUUCCC+ACCGGCG:UA AAG:CCGCGAGC U + 18197 UCCAAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGCGGUA-AAGUCCGCGAGCugcaUAC 18255 ,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,,))))) 57 uaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgA 115 +A+ + GG+UGA C:GGU A+AUUCC:G +CCGACAG UAUAGUCUGGAUGGGAGAAGA 18256 AUAUUGUGGUUGAUCUGGUUAAAUUCCAGUACCGACAGuUAUAGUCUGGAUGGGAGAAGA 18315 ))))) 116 ugaag 120 U:::: 18316 UGUCG 18320 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1066,sp|AP004604.1|AP004604 Oceanobacillus iheyensis HTE831 genomic DNA, section 12/13. ----isReversed: 1 ----hitSequence: UGUAUUCUUCGGGGCAGGGUGUAAUUCCCGACCGGCGGUGACAAGUCAUCAGAACUUGAAGUCCGUGACCCGCUUUUAUGCGGUGGAUCUAGUGAGAAUCUAGAGCCGACAGUAAUAGUCUGGAUGGGAGAAGAAUAGC hit 73 : 48939 48801 (rev) 128.42 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.................__ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA.................AA 43 :U::UCUUC+GGGCAGGGUG AAUUCCC+ACCGGCG:U A AA 250412 UGUAUUCUUCGGGGCAGGGUGUAAUUCCCGACCGGCGGUGAcaagucaucagaacuugAA 250471 _>>>>,,,,,.,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______> 44 GCCCGCGAGC.uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUC 101 G:CCG GA C UU+++ +CGG+ GAUC::GUGAGA UC::GAGCCGACAG AUAGUC 250472 GUCCGUGACCcGCUUUUAUGCGGUGGAUCUAGUGAGAAUCUAGAGCCGACAGuAAUAGUC 250531 >>,,,,,,,)))))))))) 102 uGGAUGGgAGAAgAugaag 120 UGGAUGGGAGAAGA::A: 250532 UGGAUGGGAGAAGAAUAGC 250550 ----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: AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAAUUAAGCCUGCGACCUGCUAGUAUGUAUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG hit 74 : 34791 34657 (rev) 131.26 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :::CAUCUUC+GGG GGGUG AAUUCCC ACCGG+:GUAA AAGC:+GCGA C 298960 AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAauuAAGCCUGCGACCugcu 299019 ........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,, 54 ........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGA 105 U UA++ + GGCUGAUC::GUGAGAUUC::GAGCCGACAGUAUAGUCUGGA 299020 aguauguaUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGA 299079 ,,,,,)))))))))) 106 UGGgAGAAgAugaag 120 UGGGAGAAGAUG::: 299080 UGGGAGAAGAUGGAG 299094 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1074,sp|AP004828.1|AP004828 Staphylococcus aureus subsp. aureus MW2 DNA, complete genome, strain:MW2, section 7/10. ----isReversed: 1 ----hitSequence: UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAAUAUGUUUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUUAAAGUCUGGAUGGGAGAAAGAAUGU hit 75 : 41687 41552 (rev) 132.94 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...___>>>>,,,,,.... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...AAGCCCGCGAGC.... 53 :++::::UUC+GGGCAGGGUGAAAUUCCC ACCGG+:GUAA AAGC:+GCGA C 231164 UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAauaAAGCCUGCGACCugcu 231223 ........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>, 54 ........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGG 104 U UA++ + GGCUGAUC::GUGAGAUUC::GAGCCGACAG UA+AGUCUGG 231224 aauauguuUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGuUAAAGUCUGG 231283 ,,,,,,)))))))))) 105 AUGGgAGAAgAugaag 120 AUGGGAGAA::::++: 231284 AUGGGAGAAAGAAUGU 231299 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1106,sp|AP005048.1|AP005048 Streptomyces avermitilis genomic DNA, complete genome, section 28/30. ----isReversed: 0 ----hitSequence: CAGCGCACUCCGGGGUCGGUGAAAGUCCGAACCGGCGGUUAUAGUCCGCGACCCGCUCGCCUCGGCGAUCGGUUGACCAGGUGGAAUUCCUGGACCGACGGUUAAAGUCCGGAUGGGAGGCAGUGCGC hit 76 : 135331 135458 (fwd) 100.46 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,....... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC....... 53 :+ C:::: C GGG +GGUGAAA UCC+ ACCGGCG:U A AG:CCGCGA C 135331 CAGCGCACUCCGGGGUCGGUGAAAGUCCGAACCGGCGGUUAUAGUCCGCGACCcgcucgc 135390 ,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,,)) 54 uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGA 112 ++ + G UCGG+UGA:C:GGUG +AUUCC:G:+CCGAC:G UA+AGUC:GGAUGGGAG 135391 CUCGGCGAUCGGUUGACCAGGUGGAAUUCCUGGACCGACGGuUAAAGUCCGGAUGGGAGG 135450 )))))))) 113 AgAugaag 120 ::::G +: 135451 CAGUGCGC 135458 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1124,sp|AP005088.1|AP005088 Vibrio parahaemolyticus DNA, chromosome 2, complete sequence, 5/6. ----isReversed: 0 ----hitSequence: AAUUGUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAUACUUUUUCAAGUGAGCCCGCGAGCGCUCGAUUCGUCGAGGUCAGCAGAUCUGGUGAGAUGCCAGAGCCGACGGUUAUAGUCCGGAUGAAAGAGAAUAAGA hit 77 : 121584 121724 (fwd) 138.23 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___............___>>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA............AAGCCCG 48 :+U::U::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUA AGCCCG 121584 AAUUGUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAUacuuuuucaaguGAGCCCG 121643 ,,,,,........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<._____ 49 CGAGC........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAG 99 CGAGC GU +AGGUC+GC+GAUC:GGUGAGAU CC:GAGCCGAC:G UAUAG 121644 CGAGCgcucgauuCGUCGAGGUCAGCAGAUCUGGUGAGAUGCCAGAGCCGACGGuUAUAG 121703 _>>>,,,,,,,)))))))))) 100 UCuGGAUGGgAGAAgAugaag 120 UC:GGAUG++AGA::A::A+: 121704 UCCGGAUGAAAGAGAAUAAGA 121724 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1131,sp|AP005146.1|AP005146 Streptococcus pyogenes SSI-1 DNA, complete genome, section 6/6. ----isReversed: 1 ----hitSequence: AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUAGGUAACUAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAGAGAAGACCGGG hit 78 : 16628 16504 (rev) 127.25 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___............___>>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA............AAGCCCG 48 :++::UCUUCAGGGCAGGGUG AUUCCC+ACCGGCG:U A AAG:CCG 307198 AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGAcuagguaacuagAAGUCCG 307257 ,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,, 49 CGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGG 108 CGAGC G +GCUGAU::GGUG +A UCC::A+CCGACAGUAUAGUCUGGAUG+ 307258 CGAGC-------GCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGA 307310 ,,)))))))))) 109 gAGAAgAugaag 120 GAGAAGA::++: 307311 GAGAAGACCGGG 307322 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1133,sp|AP005214.1|AP005214 Corynebacterium efficiens YS-314 DNA, complete genome, section 1/11. ----isReversed: 1 ----hitSequence: GGGUGUUCUCAGGGCGGGGUGUAAUUCCCCACCGGCGGUGAGAGUGUCCUCCAGAUGGGGAGGCUCAAGCCCGCGAGCGCCACCGUAUUCCGCUUAUGGAGGGUGGGUCAGCAGAUCCGGUGUGAUUCCGGAGCCGACGGUCAUAGUCCGGAUGGAAGAGAACCGUG hit 79 : 86557 86391 (rev) 134.52 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 G +::U::UCAGGGC+GGGUG AAUUCCCCACCGGCGGU A 226644 GGGUGUUCUCAGGGCGGGGUGUAAUUCCCCACCGGCGGUGAgaguguccuccagaugggg 226703 ......___>>>>,,,,,.....................,,,,,,,,,,,,,,,,<<<<< 42 ......AAGCCCGCGAGC.....................uguuaagguCGGcuGAuccGG 74 AAGCCCGCGAGC G + GGUC+GC+GAUCCGG 226704 aggcucAAGCCCGCGAGCgccaccguauuccgcuuauggAGGGUGGGUCAGCAGAUCCGG 226763 _______>>>>>,,,,,<<<.______>>>,,,,,,,)))))))))) 75 UGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 UG GAUUCCGGAGCCGAC:G AUAGUC:GGAUGG+AGA::A::+ G 226764 UGUGAUUCCGGAGCCGACGGuCAUAGUCCGGAUGGAAGAGAACCGUG 226810 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1146,sp|AP005274.1|AP005274 Corynebacterium glutamicum ATCC 13032 DNA, complete genome, section 1/10. ----isReversed: 1 ----hitSequence: UUUUGUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAGACGAAUCAUCAGAUAUGACUAGUUGAGCCCGCGAGCGCCACCAACUAGCAAUGGUUUGUGGGUCAGCAGAUCCGGUUAAAUUCCGGAGCCGACGGUCAUAGUCCGGAUGCAAGAGAACCGUG hit 80 : 66442 66279 (rev) 132.97 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 :::::U::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA 273559 UUUUGUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAgacgaaucaucagauauga 273618 ......___>>>>,,,,,..................,,,,,,,,,,,,,,,,<<<<<___ 42 ......AAGCCCGCGAGC..................uguuaagguCGGcuGAuccGGUGA 77 AGCCCGCGAGC U+U + GGUC+GC+GAUCCGGU A 273619 cuaguuGAGCCCGCGAGCgccaccaacuagcaauggUUUGUGGGUCAGCAGAUCCGGUUA 273678 ____>>>>>,,,,,<<<.______>>>,,,,,,,)))))))))) 78 gAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 +AUUCCGGAGCCGAC:G AUAGUC:GGAUG +AGA::A::::: 273679 AAUUCCGGAGCCGACGGuCAUAGUCCGGAUGCAAGAGAACCGUG 273722 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1193,sp|AP005962.1|AP005962 Bradyrhizobium japonicum USDA 110 DNA, complete genome, section 28/31. ----isReversed: 1 ----hitSequence: AUAAGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAGGGCCGAAAGGCCUAAGCCCGCGAGCGCCUUCUCCUUGAUAGGGAUUCCCUCGGGGACCCCUCGGAGGGAAGGGUCAGCAGAUUCGGUGCAACUCCGAAGCCGACGGUUAAAGUCCGGAUGAAAGAGAACGGUC hit 81 : 90299 90125 (rev) 128.81 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 :: ::U::UCAGGGC+GGGUGAAA UCCCCACCGGCGGUAA AAGCC 209902 AUAAGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAgggccgaaaggccuAAGCC 209961 >>,,,,,........................................,,,,,,,,,,,,, 47 CGCGAGC........................................uguuaagguCGGc 66 CGCGAGC G A GGUC+GC 209962 CGCGAGCgccuucuccuugauagggauucccucggggaccccucggaGGGAAGGGUCAGC 210021 ,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,,)))))))))) 67 uGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 +GAU:CGGUG +A UCCG:AGCCGAC:G UA+AGUC:GGAUG++AGA::A:: :: 210022 AGAUUCGGUGCAACUCCGAAGCCGACGGuUAAAGUCCGGAUGAAAGAGAACGGUC 210076 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1214,sp|U27202.1|AP27202 Actinobacillus pleuropneumoniae riboflavin biosynthesis operon, riboflavin-specific deaminase (ribG), riboflavin synthase alpha subunit (ribB), bifunctional GTP cyclohydrase II/3,4-dihydroxy-2-butanone-4-phosphate synthase (ribA), and riboflavin synthase beta subunit (ribH) genes, complete cds. ----isReversed: 0 ----hitSequence: AAUAAUCUUCAGGGCAGGGUGAAAUUCCCGAUCGGCGGUAAAGUCCGCGAGCCGAACGAAAAAGGUUUGGCAGGAACCGGUGAGAUUCCGGUACCGACAGUAUAGUCUGGAUGGAAGAAGAUGAAA hit 82 : 210 335 (fwd) 135.63 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,....... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC....... 53 :AU:AUCUUCAGGGCAGGGUGAAAUUCCC+A CGGCG:UA AAG:CCGCGAGC 210 AAUAAUCUUCAGGGCAGGGUGAAAUUCCCGAUCGGCGGUA-AAGUCCGCGAGCcgaacga 268 ,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,))) 54 uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAA 113 + + U G GA:CCGGUGAGAUUCCGG:+CCGACAGUAUAGUCUGGAUGG+AGAA 269 AAAAGGUUUGGCAGGAACCGGUGAGAUUCCGGUACCGACAGUAUAGUCUGGAUGGAAGAA 328 ))))))) 114 gAugaag 120 GAU:AA: 329 GAUGAAA 335 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #28069,sp|AY246427.1|AY246427 Rhizobium leguminosarum bv. viciae Hurl (hurl) gene, complete cds. ----isReversed: 0 ----hitSequence: UUCUGUUCUCAGGGCGGGGUGAAACUCCCCACCGGCGGUAAGAGUUUCGGCUCGAGCCCGCGAGCGCCUUCCCUCGUGUCCAAGCGGGGGAAGGGUCAACAGAUCCGGUGCGAUUCCGGAGCCGACGGUUAAAGUCCGGAUGGAAGAGAAUGAGU hit 83 : 2402 2556 (fwd) 125.76 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___............___>>>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA............AAGCCCG 48 : :::U::UCAGGGC+GGGUGAAA UCCCCACCGGCGGUAA AGCCCG 2402 UUCUGUUCUCAGGGCGGGGUGAAACUCCCCACCGGCGGUAAgaguuucggcucGAGCCCG 2461 ,,,,,......................,,,,,,,,,,,,,,,,<<<<<_______>>>>> 49 CGAGC......................uguuaagguCGGcuGAuccGGUGAgAUUCCgga 86 CGAGC G A GGUC+ C+GAUCCGGUG GAUUCCGGA 2462 CGAGCgccuucccucguguccaagcggGGGAAGGGUCAACAGAUCCGGUGCGAUUCCGGA 2521 ,,,,,<<<.______>>>,,,,,,,)))))))))) 87 GCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 GCCGAC:G UA+AGUC:GGAUGG+AGA::A::: : 2522 GCCGACGGuUAAAGUCCGGAUGGAAGAGAAUGAGU 2556 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #36138,sp|AJ010128.1|BAJ10128 Bacillus cereus bc297a, alkD genes and partial glyS gene ----isReversed: 1 ----hitSequence: CAGCAUCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAUGAAGUGCAAACUUCUAAGUCCGUGACCCGUUUUCAACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUAUAGUCUGGAUGGGAGAAGGAUAUG hit 84 : 362 219 (rev) 119.31 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................___ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................AAG 44 : : :CUUC+GGG GGGUGAAAUUCCC ACCGGCG:U A AAG 2322 CAGCAUCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAugaagugcaaacuucuAAG 2381 >>>>,,,,,........,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<__ 45 CCCGCGAGC........uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUA 96 :CCG GA C U +A+ CGG+ GA:C::GUGA+A UC::G:GCCGACAGUA 2382 UCCGUGACCcguuuucaACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUA 2441 ____>>>,,,,,,,)))))))))) 97 uAGUCuGGAUGGgAGAAgAugaag 120 UAGUCUGGAUGGGAGAAG: : : 2442 UAGUCUGGAUGGGAGAAGGAUAUG 2465 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #36230,sp|Z46864.1|BAORFP17 B.abortus gene for open reading frame. ----isReversed: 0 ----hitSequence: GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUGAAAAGCAAUUUUCAAGCCCGCGAGCGCCUGAAAUGGAAGCCGAUUCGCAUGCCAUUUCAGGGUCAGCAGAUCCGGUGAGAUGCCGGAGCCGACGGUUAAAGUCCGGAUGGAAGAGAGCGAAU hit 85 : 50 213 (fwd) 132.79 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 :U:::::UC+GGGC+GGGUGAAA UCCCCACCGGCGGUA AAGCC 50 GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUgaaaagcaauuuucAAGCC 109 >>,,,,,.............................,,,,,,,,,,,,,,,,<<<<<___ 47 CGCGAGC.............................uguuaagguCGGcuGAuccGGUGA 77 CGCGAGC U+U A GGUC+GC+GAUCCGGUGA 110 CGCGAGCgccugaaauggaagccgauucgcaugccaUUUCAGGGUCAGCAGAUCCGGUGA 169 ____>>>>>,,,,,<<<.______>>>,,,,,,,)))))))))) 78 gAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 GAU CCGGAGCCGAC:G UA+AGUC:GGAUGG+AGA:::::A: 170 GAUGCCGGAGCCGACGGuUAAAGUCCGGAUGGAAGAGAGCGAAU 213 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #36317,sp|X95955.1|BARIBGENS B.amyloliquefaciens ribB, ribG, ribA, ribH & ribT genes ----isReversed: 0 ----hitSequence: UGUAUCCUUCGGGGCUGGGUGAAAAUCCCGACCGGCGGUAAUAAGGCGCUCCUGCGCUUUACAGCCCGUGACCCGUAUGCAUCUGUAUACGGUGGAUUCAGUGAAAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAG hit 86 : 376 523 (fwd) 122.63 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 ::::::CUUC+GGGC GGGUGAAA UCCC+ACCGGCGGUAA 376 UGUAUCCUUCGGGGCUGGGUGAAAAUCCCGACCGGCGGUAAuaaggcgcuccugcgcuuu 435 .___>>>>,,,,,.......,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<< 42 .AAGCCCGCGAGC.......uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACa 93 AGCCCG GA C ++U+++ CGG+ GAU:C:GUGA+A C:G:AGCCGACA 436 aCAGCCCGUGACCcguaugcAUCUGUAUACGGUGGAUUCAGUGAAAAGCUGAAGCCGACA 495 <.______>>>,,,,,,,)))))))))) 94 G.UAuAGUCuGGAUGGgAGAAgAugaag 120 G A+AGUCUGGAUGGGAGAAG:::::: 496 GuGAAAGUCUGGAUGGGAGAAGGAUGAG 523 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #40127,sp|L09228.1|BSDIA Bacillus subtilis spoVA to serA region. ----isReversed: 0 ----hitSequence: UUGUAUCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGUAAAGCACAUUUGCUUUAGAGCCCGUGACCCGUGUGCAUAAGCACGCGGUGGAUUCAGUUUAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAU hit 87 : 7992 8136 (fwd) 104.84 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.................._ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..................A 42 ::+ :CUUC+GGGCAGGGUG AA UCCC+ACCGGCGGUA 7992 UUGUAUCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGuaaagcacauuugcuuuaG 8051 __>>>>,,,,,.......,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<. 43 AGCCCGCGAGC.......uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG. 94 AGCCCG GA C + + + +CGG+ GAU:C:GU +A C:G:AGCCGACAG 8052 AGCCCGUGACCcgugugcAUAAGCACGCGGUGGAUUCAGUUUAA-GCUGAAGCCGACAGu 8110 ______>>>,,,,,,,)))))))))) 95 UAuAGUCuGGAUGGgAGAAgAugaag 120 A+AGUCUGGAUGGGAGAAG: +:: 8111 GAAAGUCUGGAUGGGAGAAGGAUGAU 8136 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #41863,sp|X51510.1|BSRIB B.subtilis riboflavin biosynthesis operon ribG, ribB, ribA, ribH, and ribT genes. ----isReversed: 0 ----hitSequence: UGUAUCCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGUAAAGCACAUUUGCUUUAGAGCCCGUGACCCGUGUGCAUAAGCACGCGGUGGAUUCAGUUUAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAU hit 88 : 938 1082 (fwd) 109.18 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.................._ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..................A 42 ::::::CUUC+GGGCAGGGUG AA UCCC+ACCGGCGGUA 938 UGUAUCCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGuaaagcacauuugcuuuaG 997 __>>>>,,,,,.......,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<. 43 AGCCCGCGAGC.......uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG. 94 AGCCCG GA C + + + +CGG+ GAU:C:GU +A C:G:AGCCGACAG 998 AGCCCGUGACCcgugugcAUAAGCACGCGGUGGAUUCAGUUUAA-GCUGAAGCCGACAGu 1056 ______>>>,,,,,,,)))))))))) 95 UAuAGUCuGGAUGGgAGAAgAugaag 120 A+AGUCUGGAUGGGAGAAG:::::: 1057 GAAAGUCUGGAUGGGAGAAGGAUGAU 1082 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #41865,sp|X59538.1|BSRIBOFLV B.subtilis DNA for promoter and terminator of riboflavin biosynthesis operon ----isReversed: 0 ----hitSequence: UGUAUCCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGUAAAGCACAUUUGCUUUAGAGCCCGUGACCCGUGUGCAUAAGCACGCGGUGGAUUCAGUUUAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAU hit 89 : 81 225 (fwd) 109.18 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.................._ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..................A 42 ::::::CUUC+GGGCAGGGUG AA UCCC+ACCGGCGGUA 81 UGUAUCCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGuaaagcacauuugcuuuaG 140 __>>>>,,,,,.......,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<. 43 AGCCCGCGAGC.......uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG. 94 AGCCCG GA C + + + +CGG+ GAU:C:GU +A C:G:AGCCGACAG 141 AGCCCGUGACCcgugugcAUAAGCACGCGGUGGAUUCAGUUUAA-GCUGAAGCCGACAGu 199 ______>>>,,,,,,,)))))))))) 95 UAuAGUCuGGAUGGgAGAAgAugaag 120 A+AGUCUGGAUGGGAGAAG:::::: 200 GAAAGUCUGGAUGGGAGAAGGAUGAU 225 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #42010,sp|L47648.1|BSSERA Bacillus subtilis phosphoglycerate dehydrogenase (serA), ypaA, ferredoxin (fer), ypbB, recS, ypbD, ypbE, ypbF, ypbG, ypbH, glutamate dehydrogenase (ypcA), ypdA, ypdB, ypdC, spore cortex lytic enzyme (sleB), ypeB, ypfA, ypfB, cytidine monophosphate kinase (cmk), ypfD, ypgA, yphA, yphB, yphC, NAD+ dependent glycerol-3-phosphate dehydrogenase (glyc), yphE and yphF genes, complete cds. ----isReversed: 0 ----hitSequence: AUCAAUCUUCGGGGCAGGGUGAAAUUCCCUACCGGCGGUGAUGAGCCAAUGGCUCUAAGCCCGCGAGCUGUCUUUACAGCAGGAUUCGGUGAGAUUCCGGAGCCGACAGUACAGUCUGGAUGGGAGAAGAUGGAG hit 90 : 1826 1960 (fwd) 132.27 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...............___> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...............AAGC 45 ::::AUCUUC+GGGCAGGGUGAAAUUCCC ACCGGCGGU A AAGC 1826 AUCAAUCUUCGGGGCAGGGUGAAAUUCCCUACCGGCGGUGAugagccaauggcucuAAGC 1885 >>>,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,, 46 CCGCGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGA 105 CCGCGAGCUGU +++ G GAU:CGGUGAGAUUCCG:AGCCGACAGUA AGUCUGGA 1886 CCGCGAGCUGUCUUUACAGCAGGAUUCGGUGAGAUUCCGGAGCCGACAGUACAGUCUGGA 1945 ,,,,,)))))))))) 106 UGGgAGAAgAugaag 120 UGGGAGAAGAU:::: 1946 UGGGAGAAGAUGGAG 1960 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #42393,sp|Z99116.2|BSUB0013 Bacillus subtilis complete genome (section 13 of 21): from 2409151 to 2613687. ----isReversed: 1 ----hitSequence: UUGUAUCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGUAAAGCACAUUUGCUUUAGAGCCCGUGACCCGUGUGCAUAAGCACGCGGUGGAUUCAGUUUAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAU hit 91 : 21661 21517 (rev) 104.84 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___.................._ 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..................A 42 ::+ :CUUC+GGGCAGGGUG AA UCCC+ACCGGCGGUA 182877 UUGUAUCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGuaaagcacauuugcuuuaG 182936 __>>>>,,,,,.......,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<. 43 AGCCCGCGAGC.......uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG. 94 AGCCCG GA C + + + +CGG+ GAU:C:GU +A C:G:AGCCGACAG 182937 AGCCCGUGACCcgugugcAUAAGCACGCGGUGGAUUCAGUUUAA-GCUGAAGCCGACAGu 182995 ______>>>,,,,,,,)))))))))) 95 UAuAGUCuGGAUGGgAGAAgAugaag 120 A+AGUCUGGAUGGGAGAAG: +:: 182996 GAAAGUCUGGAUGGGAGAAGGAUGAU 183021 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #42393,sp|Z99116.2|BSUB0013 Bacillus subtilis complete genome (section 13 of 21): from 2409151 to 2613687. ----isReversed: 1 ----hitSequence: AUCAAUCUUCGGGGCAGGGUGAAAUUCCCUACCGGCGGUGAUGAGCCAAUGGCUCUAAGCCCGCGAGCUGUCUUUACAGCAGGAUUCGGUGAGAUUCCGGAGCCGACAGUACAGUCUGGAUGGGAGAAGAUGGAG hit 92 : 921 787 (rev) 132.27 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...............___> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...............AAGC 45 ::::AUCUUC+GGGCAGGGUGAAAUUCCC ACCGGCGGU A AAGC 203617 AUCAAUCUUCGGGGCAGGGUGAAAUUCCCUACCGGCGGUGAugagccaauggcucuAAGC 203676 >>>,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,, 46 CCGCGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGA 105 CCGCGAGCUGU +++ G GAU:CGGUGAGAUUCCG:AGCCGACAGUA AGUCUGGA 203677 CCGCGAGCUGUCUUUACAGCAGGAUUCGGUGAGAUUCCGGAGCCGACAGUACAGUCUGGA 203736 ,,,,,)))))))))) 106 UGGgAGAAgAugaag 120 UGGGAGAAGAU:::: 203737 UGGGAGAAGAUGGAG 203751 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #43033,sp|BX640412.1|BX640412 Bordetella pertussis strain Tohama I, complete genome; segment 2/12 ----isReversed: 0 ----hitSequence: GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUGCCACGCAAUGUGGCGAGCCCGCGAGCGCCCUGCGUUGGCAACAGCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGGCCGACGGUCAUAGUCCGGAUGAGAGAAGAUGUGC hit 93 : 135572 135725 (fwd) 132.25 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...............___> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...............AAGC 45 + +C:UCUUCAGGGC+GGGUG AAUUCCCCACCGGCGGUA AGC 135572 GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUgccacgcaauguggcGAGC 135631 >>>,,,,,..................,,,,,,,,,,,,,,,,<<<<<_______>>>>>, 46 CCGCGAGC..................uguuaagguCGGcuGAuccGGUGAgAUUCCggaG 87 CCGCGAGC G+ + GGUC+GC+GA:C:GGUGAGAU CC:G:G 135632 CCGCGAGCgcccugcguuggcaacagCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGG 135691 ,,,,<<<.______>>>,,,,,,,)))))))))) 88 CCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 CCGAC:G AUAGUC:GGAUG+GAGAAGA:G+ + 135692 CCGACGGuCAUAGUCCGGAUGAGAGAAGAUGUGC 135725 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #43057,sp|BX640436.1|BX640436 Bordetella parapertussis strain 12822, complete genome; segment 14/14 ----isReversed: 0 ----hitSequence: GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUGCCACGCAAUGUGGCGAGCCCGCGAGCGCCCUGCGUUGGCAACAGCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGGCCGACGGUCAUAGUCCGGAUGAGAGAAGAUGUGC hit 94 : 209532 209685 (fwd) 132.25 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...............___> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...............AAGC 45 + +C:UCUUCAGGGC+GGGUG AAUUCCCCACCGGCGGUA AGC 209532 GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUgccacgcaauguggcGAGC 209591 >>>,,,,,..................,,,,,,,,,,,,,,,,<<<<<_______>>>>>, 46 CCGCGAGC..................uguuaagguCGGcuGAuccGGUGAgAUUCCggaG 87 CCGCGAGC G+ + GGUC+GC+GA:C:GGUGAGAU CC:G:G 209592 CCGCGAGCgcccugcguuggcaacagCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGG 209651 ,,,,<<<.______>>>,,,,,,,)))))))))) 88 CCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 CCGAC:G AUAGUC:GGAUG+GAGAAGA:G+ + 209652 CCGACGGuCAUAGUCCGGAUGAGAGAAGAUGUGC 209685 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #43073,sp|BX640452.1|BX640452 Bordetella bronchiseptica strain RB50, complete genome; segment 16/16 ----isReversed: 0 ----hitSequence: GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUGCCACGCAAUGUGGCGAGCCCGCGAGCGCCCUGCGUUGGCAACAGCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGGCCGACGGUCAUAGUCCGGAUGAGAGAAGAUGUGC hit 95 : 73704 73857 (fwd) 132.25 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___...............___> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA...............AAGC 45 + +C:UCUUCAGGGC+GGGUG AAUUCCCCACCGGCGGUA AGC 73704 GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUgccacgcaauguggcGAGC 73763 >>>,,,,,..................,,,,,,,,,,,,,,,,<<<<<_______>>>>>, 46 CCGCGAGC..................uguuaagguCGGcuGAuccGGUGAgAUUCCggaG 87 CCGCGAGC G+ + GGUC+GC+GA:C:GGUGAGAU CC:G:G 73764 CCGCGAGCgcccugcguuggcaacagCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGG 73823 ,,,,<<<.______>>>,,,,,,,)))))))))) 88 CCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 CCGAC:G AUAGUC:GGAUG+GAGAAGA:G+ + 73824 CCGACGGuCAUAGUCCGGAUGAGAGAAGAUGUGC 73857 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #48585,sp|U28377.1|EC28377 Escherichia coli K-12 genome; approximately 65 to 68 minutes. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG hit 96 : 139106 138958 (rev) 137.50 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAGCC 2639 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAGCC 2698 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 2699 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 2758 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUGGGAGA:::U:A:G 2759 GGuUAGAGUCCGGAUGGGAGAGAGUAACG 2787 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #49103,sp|AE000386.1|ECAE386 Escherichia coli K12 MG1655 section 276 of 400 of the complete genome. ----isReversed: 1 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG hit 97 : 2256 2108 (rev) 137.50 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAGCC 10046 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAGCC 10105 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 10106 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 10165 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUGGGAGA:::U:A:G 10166 GGuUAGAGUCCGGAUGGGAGAGAGUAACG 10194 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #775,sp|M64472.1|ECHTRP E.coli htrP gene, complete cds. ----isReversed: 0 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG hit 98 : 901 1048 (fwd) 129.73 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAG C 901 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAG-C 959 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 960 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 1019 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUGGGAGA:::U:A:G 1020 GGuUAGAGUCCGGAUGGGAGAGAGUAACG 1048 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #2446,sp|X66720.1|ECRIBB E.coli ribB gene for 3,4-dihydroxy-2-butanone 4-phosphate synthase ----isReversed: 0 ----hitSequence: GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG hit 99 : 387 534 (fwd) 129.73 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 G:U:A:::UCAGGGC+GGG GAAAUUCCCCACCGGCGGUAA AAG C 387 GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAaucaacucaguugaAAG-C 445 >>,,,,,..............,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,< 47 CGCGAGC..............uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGAC 92 CGCGAGC ++ AAGG C+GC+GA:CCGGUG +AUUCCGG:GCCGAC 446 CGCGAGCgcuuugggugcgaaCUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGAC 505 <<.______>>>,,,,,,,)))))))))) 93 aG.UAuAGUCuGGAUGGgAGAAgAugaag 120 :G UA AGUC:GGAUGGGAGA:::U:A:G 506 GGuUAGAGUCCGGAUGGGAGAGAGUAACG 534 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #5787,sp|U32760.1|HI32760 Haemophilus influenzae Rd section 75 of 163 of the complete genome. ----isReversed: 0 ----hitSequence: UCGCAUUCUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUAAAGCCCACGAGCGUUUAAAAGUGCGGUCAAUUUUUGGCAAAUUUUUCCUGCGAAAUUGUCCUGAUUUUCACUUUUAAAGUCAGCAGAUUUGGUGAAAUUCCAAAGCCGACAGUAAAGUCUGGAUGAAAGAGAAUAAAA hit 100 : 7642 7819 (fwd) 135.78 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,....... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC....... 53 ::::AU::UCAGGGCAGGGUGAAAUUCCC ACCG+:GGUA AAGCC:+CGAGC 7642 UCGCAUUCUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUA-AAGCCCACGAGCguuuaaa 7700 ....................................................,,,,,,,, 54 ....................................................uguuaagg 61 U+UUAA+G 7701 agugcggucaauuuuuggcaaauuuuuccugcgaaauuguccugauuuucacUUUUAAAG 7760 ,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 62 uCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 UC+GC+GAU::GGUGA+AUUCC::AGCCGACAGUA+AGUCUGGAUG++AGA::AU:::: 7761 UCAGCAGAUUUGGUGAAAUUCCAAAGCCGACAGUAAAGUCUGGAUGAAAGAGAAUAAAA 7819 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #21684,sp|U23806.1|PS23806 Providencia stuartii putative Mg2+ transport protein MgtE (mgtE) gene, complete cds. ----isReversed: 0 ----hitSequence: CGCUUAUCUCAGGGCGGGGUGGAAGUCCCCACCGGCGGUAACAUGCCUAGGCAUGAAGCCCGCGAGCGCUUUAUCAUUUGUUAGGGUAAAGGUCAGCAGAUCAGGACAGGAUAUAUCGAACGAAGGUAUAUCCCCAUGUAACUUCCAAUGU hit 101 : 70 220 (fwd) 38.20 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___..............___>> 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA..............AAGCC 46 :::: AGGGC+GGGUG AA UCCCCACCGGCGGUAA AAGCC 70 CGCUUAUCUCAGGGCGGGGUGGAAGUCCCCACCGGCGGUAAcaugccuaggcaugAAGCC 129 >>,,,,,.................,,,,,,,,,,,,,,,,<<<<<____.___>>>>>,, 47 CGCGAGC.................uguuaagguCGGcuGAuccGGUGAg.AUUCCggaGC 88 CGCGAGC GU AAGGUC+GC+GA: : AG AU : :+ 130 CGCGAGCgcuuuaucauuuguuagGGUAAAGGUCAGCAGAUCAGGACAGgAUAUAUCGAA 189 ,,,<<<______>>>,,,,,,,)))))))))) 89 CGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 CGA::GUAUA UC:: AUG +A :::: 190 CGAAGGUAUA-UCCCCAUGUAACUUCCAAUGU 220 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #26975,sp|AL766847.1|SAG766847 Streptococcus agalactiae NEM316 complete genome, segment 5 ----isReversed: 0 ----hitSequence: CUUCGGGGUCAGGUGAAAAUCCUAACCGGCGGUAUAGUCCGCGAGCUUUCGAGCAUGAACUGGUGUGAUUCCAGUACCGACAGUAAAGUCUGGAUGAGAGAAG hit 102 : 1 103 (fwd) 100.76 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,,,,,,,, 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGCuguuaag 60 CUUC+GGG :GGUGAAA UCC: ACCGGCG:UA AG:CCGCGAGC +++ 1 ------CUUCGGGGUCAGGUGAAAAUCCUAACCGGCGGUA-UAGUCCGCGAGC----UUU 49 ,,,,,,,,,<<<<<_______>>>>>,,,,,<<<______>>>,,,,,,,)))))))))) 61 guCGGcuGAuccGGUGAgAUUCCggaGCCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 + G UGA:C:GGUG GAUUCC:G:+CCGACAGUA+AGUCUGGAUG+GAGAAG 50 CGAGCAUGAACUGGUGUGAUUCCAGUACCGACAGUAAAGUCUGGAUGAGAGAAG------ 103 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #26979,sp|AL766851.1|SAG766851 Streptococcus agalactiae NEM316 complete genome, segment 9 ----isReversed: 1 ----hitSequence: AGGUGUCUUCAGGGCAGGGUGUAAUUCCCGACCGGCGGUAAUCGCUUCCAACUUAUUUGUCAGUUGUGAAGCAUCAGUCCGCGAGCGAAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAAAGUCUGGAUGGGAGAAGACAAAG hit 103 : 11027 10882 (rev) 132.94 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 :::::UCUUCAGGGCAGGGUG AAUUCCC+ACCGGCG:UAA 102024 AGGUGUCUUCAGGGCAGGGUGUAAUUCCCGACCGGCGGUAAucgcuuccaacuuauuugu 102083 ..............___>>>>,,,,,,,,,,,,,,,,,,,,,<<<<<_______>>>>>, 42 ..............AAGCCCGCGAGCuguuaagguCGGcuGAuccGGUGAgAUUCCggaG 87 AG:CCGCGAGC G +GCUGAU::GGUGAGAUUCC::A+ 102084 caguugugaagcauCAGUCCGCGAGC-------GAAAGCUGAUGUGGUGAGAUUCCACAA 102136 ,,,,<<<______>>>,,,,,,,)))))))))) 88 CCGACaGUAuAGUCuGGAUGGgAGAAgAugaag 120 CCGACAGUA+AGUCUGGAUGGGAGAAGA::::: 102137 CCGACAGUAAAGUCUGGAUGGGAGAAGACAAAG 102169 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #28275,sp|AL939108.1|SCO939108 Streptomyces coelicolor A3(2) complete genome; segment 5/29 ----isReversed: 1 ----hitSequence: CAGCGCACUCCGGGGUCGGUGAAAGUCCGAACCGGCGGUUACAGUCCGCGACCCGGUCGCCUCCAGCGACCGGUUGACCAGGUGAAAUUCCUGGACCGACGGUUAAAGUCCGGAUGGGAGGCAGUGCGC hit 104 : 337004 336876 (rev) 101.63 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<______>>>>,,,,,....... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAAAAGCCCGCGAGC....... 53 :+ C:::: C GGG +GGUGAAA UCC+ ACCGGCG:U A AG:CCGCGA C 2647 CAGCGCACUCCGGGGUCGGUGAAAGUCCGAACCGGCGGUUACAGUCCGCGACCcggucgc 2706 .,,,,,,,,,,,,,,,,<<<<<_______>>>>>,,,,,<<<.______>>>,,,,,,,) 54 .uguuaagguCGGcuGAuccGGUGAgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAG 111 U + + G CGG+UGA:C:GGUGA+AUUCC:G:+CCGAC:G UA+AGUC:GGAUGGGAG 2707 cUCCAGCGACCGGUUGACCAGGUGAAAUUCCUGGACCGACGGuUAAAGUCCGGAUGGGAG 2766 ))))))))) 112 AAgAugaag 120 ::::G +: 2767 GCAGUGCGC 2775 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #30225,sp|AL591790.1|SME591790 Sinorhizobium meliloti 1021 complete chromosome; segment 9/12 ----isReversed: 0 ----hitSequence: AAGCGUUCUCAGGGCGGGGUGAAAUUCCCCACCGGCGGUAGCGAACACAGGAUCGGGAAUGGUCGGUGGUCGGAGCCCGCGAGCGCUUCGCAUUUCGUGCGAAGGUCAGCAGAUCCGGUCGAAUUCCGGAGCCGACGGUUAUAGUCCGGAUGGAAGAGAGCAAGC hit 105 : 15823 15987 (fwd) 133.27 bits ((((((((((,,,,,,<<<_______>>>,,,,,<<<<___................... 1 gaucaUcUUCAGGGCaGGGUGAAAUUCCCcACCGGCGGUAA................... 41 :+::::::UCAGGGC+GGGUGAAAUUCCCCACCGGCGGUA 15823 AAGCGUUCUCAGGGCGGGGUGAAAUUCCCCACCGGCGGUAGcgaacacaggaucgggaau 15882 ............___>>>>,,,,,.............,,,,,,,,,,,,,,,,<<<<<__ 42 ............AAGCCCGCGAGC.............uguuaagguCGGcuGAuccGGUG 76 AGCCCGCGAGC UG+ AAGGUC+GC+GAUCCGGU 15883 ggucgguggucgGAGCCCGCGAGCgcuucgcauuucgUGCGAAGGUCAGCAGAUCCGGUC 15942 _____>>>>>,,,,,<<<.______>>>,,,,,,,)))))))))) 77 AgAUUCCggaGCCGACaG.UAuAGUCuGGAUGGgAGAAgAugaag 120 +AUUCCGGAGCCGAC:G