Params: ./cmzasha --no-stderr --filter 350 20 Rfam/cm/RF00059.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm_5.0/RF00059_forwardinf_hmmtype1_Ecoli_0MM.bin 2struct-str data/TryAllCm_5.0/RF00059_forwardinf_hmmtype1_Ecoli_0MM.bin 1/remember-left,44,77,116,117 2struct-str data/TryAllCm_5.0/RF00059_forwardinf_hmmtype1_Ecoli_0MM.bin 1/sub,113,40 2struct-str data/TryAllCm_5.0/RF00059_forwardinf_hmmtype1_Ecoli_0MM.bin 1/remember-left,44,77,115,116,117 2struct-str data/TryAllCm_5.0/RF00059_forwardinf_hmmtype1_Ecoli_0MM.bin 1/sub,103,100 Build: release Host: gattaca.cs.washington.edu pid: 22021 ----hmm-from-cmFileName: Rfam/cm/RF00059.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/RF00059.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/RF00059.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----hmm-from-cmFileName: Rfam/cm/RF00059.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/RF00059.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/RF00059.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/remember-left,44/remember-left,77/remember-left,116/remember-left,117 ----hmm-from-cmFileName: Rfam/cm/RF00059.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/RF00059.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/RF00059.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/sub,113,40 ----hmm-from-cmFileName: Rfam/cm/RF00059.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/RF00059.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/RF00059.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/remember-left,44/remember-left,77/remember-left,115/remember-left,116/remember-left,117 ----hmm-from-cmFileName: Rfam/cm/RF00059.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/RF00059.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/RF00059.cm 1 1 100000 1 Build: release Host: gattaca.cs.washington.edu ----2struct-info: 1/sub,103,100 ----cmFile: Rfam/cm/RF00059.cm (global) ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----sequence: #2252,sp|AB033416.1|AB033416 Fusarium oxysporum sti35 gene for stress-responsive gene product, complete cds. ----isReversed: 0 ----hitSequence: UCAGUUCAAACUGGUCGUGUUGAUGAUAGGGGGAUGUGGCUGAGAUUAUACGGCAAAACUUGAUCUGGAUAAUACCAGCGAAAGGAUCAUGUCAUCUCCCCUAU hit 0 : 2117 2220 (fwd) 47.60 bits :::::[[[[[((((..,,<<<<<<___________________>>>>>>,,,,<<<<<<< 1 aauaaccaccaGGG..GUGCcucuugcaauUuUcAaAaguggaagagGCUGAGagggggg 58 + + CA: ::GG GUG:: :+ A A G+GGA: ::CUGAGA++ 2117 UCAGUUCAAACUGGucGUGUUGAUG---------AUAGGGGGAUGUGGCUGAGAUU---- 2163 <_______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>- 59 ugugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGC 118 A A C:: + A AC:U:A UCUGG+UAAU+CCAGC 2164 -----------------------AUA-CGGCAAA---ACUUGA-UCUGGAUAAUACCAGC 2195 -->>>>,,,,]]]]]:::::::::::: 119 GuUAGGGAaAgguggcuauuaauuuua 145 G :A:GGA :UG C++ U + U+ 2196 G-AAAGGA-UCAUGUCAUCUCCCCUAU 2220 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----sequence: #17771,sp|AF217503.1|AF217503 Aspergillus oryzae putative thiazole synthase (thiA) gene, complete cds. ----isReversed: 0 ----hitSequence: ACAUGGCAUCGAUGGACUGGGUUCGUUCUGAGAUUAUACGGCUAAAACUUGAUCUGGAUAAUACCAGCGAAAAGGGUCAUGCCUUCUCUCGUUC hit 1 : 595 688 (fwd) 26.28 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A ++ :CA: :::GG+ : :: :: : UGAGA++ 595 ACAUGGCAUCGAUGGACUGGGU-------------------UCGUUCUGAGAUU------ 629 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A AC:::U+ A AC:U:A UCUGG+UAAU+CCAGCG+ 630 ---------------------AUACGGCUAAA---ACUUGA-UCUGGAUAAUACCAGCGA 664 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :A:GG :UG:CU+ U + UU 665 AAAGGG-UCAUGCCUUCUCUCGUUC 688 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----sequence: #41166,sp|AY007661.1|AY007661 Neurospora crassa thiamine biosynthesis protein NMT-1 (nmt-1) gene, complete cds. ----isReversed: 0 ----hitSequence: GAUGGGCCAACUGCGGCGGUACCACGUUGGUCUGAGAAAUACCGGCGAACUUGAUCUGGAUAAUACCAGCGAAAGGAUUGGCUUCUUGGGACCC hit 2 : 633 726 (fwd) 41.37 bits :::::[[[[[((((,..,<<<<<<___________________>>>>>>,,,,<<<<<<< 1 aauaaccaccaGGGG..UGCcucuugcaauUuUcAaAaguggaagagGCUGAGagggggg 58 AU :C:::::G G G::: ++G + :::CUGAGA+ 633 GAUGGGCCAACUGCGgcGGUACCACG-----------------UUGGUCUGAGAA----- 670 <_______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>- 59 ugugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGC 118 A A C:: AC:U:A UCUGG+UAAU+CCAGC 671 -----------------------AUACCGGCGA----ACUUGA-UCUGGAUAAUACCAGC 702 -->>>>,,,,]]]]]:::::::::::: 119 GuUAGGGAaAgguggcuauuaauuuua 145 G :A:GGA :::G:+U UU ++ 703 G-AAAGGA--UUGGCUUCUUGGGACCC 726 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----sequence: #61337,sp|M33642.1|FSSTI31X F.solani STI35 protein gene, complete cds. ----isReversed: 0 ----hitSequence: GUGUACAUCAAUGUCAAGAAGAGGAGAGCGUGGCUGAGAUUAUACGGCGAAACUUGAUCUGGAUAAUACCAGCGAAAGGAUCAUGCUCUCCUCCCCC hit 3 : 428 524 (fwd) 46.70 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +AC::+: UG:C: : A A G G : :G:CUGAGA++ 428 GUGUACAUCAA----UGUCAAGA---------AGAGGAGAGCGUGGCUGAGAUU------ 468 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A AC + A AC:U:A UCUGG+UAAU+CCAGCG 469 ---------------------AUAC-GGCGAA---ACUUGA-UCUGGAUAAUACCAGCG- 501 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :A:GGA :+::GCU U + 502 AAAGGA--UCAUGCUCUCCUCCCCC 524 ----endhit ----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/pln.dat.fasta.gz ----sequence: #8695,sp|AC005496.3|AC005496 Arabidopsis thaliana chromosome 2 clone T27A16 map mi54, complete sequence. ----isReversed: 1 ----hitSequence: GCCUGCGAAAAGGCGGGCUAUCCGGGACCAGGCUGAGAAAGUCCCUUUGAACCUGAACAGGGUAAUGCCUGCGCAGGGAGUGUGCAGUUUUUUUUUU hit 4 : 78594 78498 (rev) 62.41 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 + A::AGG G GC: +G GGA :GCUGAGA+ 12072 GCCUGCGAAAAGGCGGGCUAUCCG--------------GGACCAGGCUGAGAA------- 12110 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AG CCUUUGA ACCU A C:GG:UAAU:CC:GCG 12111 ---------------------AGUCCCUUUGA---ACCUGA-ACAGGGUAAUGCCUGCG- 12144 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 AGGGA ::U ++UU++UUUU 12145 CAGGGA-GUGUGCAGUUUUUUUUUU 12168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #9411,sp|AC084406.7|AC084406 Oryza sativa chromosome 3 BAC OSJNBa0067E01 genomic sequence, complete sequence. ----isReversed: 1 ----hitSequence: CCUCUUGGCCUGGAUUGUUGUGAAUUGGGCUGAGAAAGUCCCUUUGAACCUGAACAGGAUAAUGCCUGCGAAGGGAGUGUGCAUUUCUACUUUUA hit 5 : 91393 91299 (rev) 54.29 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U +:: +C GG: UG:: : : ::CUGAGA+ 48652 CCUCUUGGCCUGGAUUGUUGUGAA-----------------UUGGGCUGAGAA------- 48687 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AG :CC UUGA ACCU:A C:GG:UAAU:CC:GCG 48688 ---------------------AGUCCCUUUGA---ACCUGA-ACAGGAUAAUGCCUGCG- 48721 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA+ G+ ::+U+ UA+UUUUA 48722 AAGGGAGUGUGCAUUUCUACUUUUA 48746 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #35070,sp|AF264021.1|AF264021 Poa secunda putative thiamine biosythesis protein ThiC mRNA, complete cds. ----isReversed: 0 ----hitSequence: AACAAUCUGAAGGGCCCUUGGCCUGGAUUGUUGUGAUAUGGGCUGAGAAAGUCCCUUUGAACCUGAACAGGAUAAUGCCUGCGUAGGGAGUGUGCAUUUCUAUUUUG hit 6 : 2254 2360 (fwd) 59.71 bits :::::[[[[[((((,...,<<<<<<___________________>>>>>>,,,,<<<<<< 1 aauaaccaccaGGGG...UGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggg 57 AA AA C :AGGG UG C:::+ UU GUG :::G CUGAGA+ 2254 AACAAUCUGAAGGGCccuUGGCCUGGAUUGUU-------GUGAUAUGGGCUGAGAA---- 2302 <<_______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>> 58 gugugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaG 117 AG CCCUUUGA ACCUGA C:GG:UAAU:CC:G 2303 ------------------------AGUCCCUUUGA---ACCUGA-ACAGGAUAAUGCCUG 2334 --->>>>,,,,]]]]]:::::::::::: 118 CGuUAGGGAaAgguggcuauuaauuuua 145 CG UAGGGA : G U+U +AUUUU 2335 CG-UAGGGA-GUGUGCAUUUCUAUUUUG 2360 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #74936,sp|AK065235.1|AK065235 Oryza sativa (japonica cultivar-group) cDNA clone:J013002H20, full insert sequence. ----isReversed: 0 ----hitSequence: CCUCUUGGCCUGGAUUGUUGUGAAUUGGGCUGAGAAAGUCCCUUUGAACCUGAACAGGAUAAUGCCUGCGAAGGGAGUGUGCAUUUCUACUUUUA hit 7 : 2130 2224 (fwd) 54.29 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U +:: +C GG: UG:: : : ::CUGAGA+ 2130 CCUCUUGGCCUGGAUUGUUGUGAA-----------------UUGGGCUGAGAA------- 2165 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AG :CC UUGA ACCU:A C:GG:UAAU:CC:GCG 2166 ---------------------AGUCCCUUUGA---ACCUGA-ACAGGAUAAUGCCUGCG- 2199 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA+ G+ ::+U+ UA+UUUUA 2200 AAGGGAGUGUGCAUUUCUACUUUUA 2224 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #78403,sp|AK068703.1|AK068703 Oryza sativa (japonica cultivar-group) cDNA clone:J013159A12, full insert sequence. ----isReversed: 0 ----hitSequence: CCUCUUGGCCUGGAUUGUUGUGAAUUGGGCUGAGAAAGUCCCUUUGAACCUGAACAGGAUAAUGCCUGCGAAGGGAGUGUGCAUUUCUACUUUUA hit 8 : 2124 2218 (fwd) 54.29 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U +:: +C GG: UG:: : : ::CUGAGA+ 2124 CCUCUUGGCCUGGAUUGUUGUGAA-----------------UUGGGCUGAGAA------- 2159 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AG :CC UUGA ACCU:A C:GG:UAAU:CC:GCG 2160 ---------------------AGUCCCUUUGA---ACCUGA-ACAGGAUAAUGCCUGCG- 2193 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA+ G+ ::+U+ UA+UUUUA 2194 AAGGGAGUGUGCAUUUCUACUUUUA 2218 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #178474,sp|BT009095.1|BT009095 Triticum aestivum clone wkm2c.pk005.e4:fis, full insert mRNA sequence. ----isReversed: 0 ----hitSequence: CCCCUUGGCCUGGAUUGUUGCGAUAUGGGCUGAGAAAGUCCCUUUGAACCUGAACAGGAUAAUGCCUGCGAAGGGAGUGUGCAUUUUUAUUUUCA hit 9 : 1820 1914 (fwd) 54.78 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +:: +C GG: UG:: : : ::CUGAGA+ 1820 CCCCUUGGCCUGGAUUGUUGCGAU-----------------AUGGGCUGAGAA------- 1855 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AG :CC UUGA ACCU:A C:GG:UAAU:CC:GCG 1856 ---------------------AGUCCCUUUGA---ACCUGA-ACAGGAUAAUGCCUGCG- 1889 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA+ G+ ::+U+UUA+UUU A 1890 AAGGGAGUGUGCAUUUUUAUUUUCA 1914 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #6576,sp|AB042239.3|AB042239 Streptococcus criceti orf1, orf2, orf3, paaA, orf5, paaB, orf7 orf8, orf9, orf10 genes, complete cds. ----isReversed: 1 ----hitSequence: AUUCCAUAACAUUGGAGUUUUGCGCAAAGUCUGGGUGUCUAAACUCUUUGAACCUGAACAAGGUAAUGCUUGCGUAAGGGAUGUGCAGAAAUAAGUGGA hit 10 : 9757 9659 (rev) 51.26 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A U : ::CA::GG+G::U::+ G ::A::CUG G:G: 8686 AUUCCAUAACAUUGGAGUUUUGC----------------GCAAAGUCUGGGUGU------ 8723 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :U:+AC::UUUGA ACCU:A C::G:UAAU:C::GCGU 8724 -------------------CUAAACUCUUUGA---ACCUGA-ACAAGGUAAUGCUUGCGU 8760 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA G:: :++A UAA+U A 8761 AAGGGA-UGUGCAGAAAUAAGUGGA 8784 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #12953,sp|AB087258.1|AB087258 Haemophilus somnus ibpB, ibpA, tbpA genes for outer membrane transporter protein, high molecular weight-immunoglobulin binding proteins, hypothetical proteins, complete cds. ----isReversed: 0 ----hitSequence: CCGACUUAGUCGGGGUGCUGAUAACAGCUGAGAUAAUACCCGUGAACCUGAUACAGUUAAUACUGACGUAGGAAACUAAUGGUCUUACUCC hit 11 : 15478 15568 (fwd) 69.68 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A ::A:::GGGGUGC:::U A:::GCUGAGA++ 15478 CCGACUUAGUCGGGGUGCUGAU-------------------AACAGCUGAGAUA------ 15512 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U ACCUGA U:::GUUAAUAC:::CG 15513 ---------------------AUACCCGUGA----ACCUGA-UACAGUUAAUACUGACG- 15545 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A ::U::++ U ++ U 15546 UAGGAA--ACUAAUGGUCUUACUCC 15568 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #16864,sp|AE000633.1|AE000633 Helicobacter pylori 26695 section 111 of 134 of the complete genome. ----isReversed: 0 ----hitSequence: AGCAUUUAAGGGGUGCUUUUUAAAACGCUCAAGUUUUUAAAAGGCUGAGAUCAAACCCGUAGAACUUGUCAAGGUAAUUCUUGCGUAAGGAAAUAGCAUGUUAAUAAC hit 12 : 3712 3819 (fwd) 64.68 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A A++:A GGGGUGC:U:UU +AA ++UCAA + U AA:A:GCUGAGA++ 3712 AGCAUUUA--AGGGGUGCUUUUUAAAACGCUCAAGUUUUUAAAAGGCUGAGAUC------ 3763 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A+ACCC U+GA AC:UG UC::G UAAU C::GCG 3764 ---------------------AAACCCGUAGA---ACUUG--UCAAGGUAAUUCUUGCG- 3796 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UA:GGA A +U:+C+++U+A U + 3797 UAAGGA-A-AUAGCAUGUUAAUAAC 3819 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #17682,sp|AE001547.1|AE001547 Helicobacter pylori, strain J99 section 108 of 132 of the complete genome. ----isReversed: 0 ----hitSequence: GGAGCAUUUAAGGGGUGCUUUUUAAAACGCUCAAGUUUUUAAAAGGCUGAGAUCAAACCCGUAGAACUUGUCAAGGUAAUUCUUGCGUAAGGAAUAACAUGUUAAUAACCA hit 13 : 1336 1446 (fwd) 69.46 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 + : ::: GGGGUGC:U:UU +AA ++UCAA + U AA:A:GCUGAGA++ 1336 GGAGCAUUUAAGGGGUGCUUUUUAAAACGCUCAAGUUUUUAAAAGGCUGAGAUC------ 1389 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A+ACCC U+GA AC:UG UC::G UAAU C::GCG 1390 ---------------------AAACCCGUAGA---ACUUG--UCAAGGUAAUUCUUGCG- 1422 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UA:GGA A::: :+++U+A+ + A 1423 UAAGGA-AUAACAUGUUAAUAACCA 1446 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #17878,sp|AE001747.1|AE001747 Thermotoga maritima section 59 of 136 of the complete genome. ----isReversed: 0 ----hitSequence: ACCUUCCCCAGGGGGAGCUCCUAUUCCGGGGCUGAGAGGAGGACGGAAGUCCUCGACCCCAAGAACCUGAUCCGGGUAAUGCCGGCGGAGGGAUCGGGGAAGGAGGAAAU hit 14 : 6884 6993 (fwd) 85.64 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A ++CC:+::GGGG+GC::C + G::GCUGAG+GG:G: :G 6884 ACCUUCCCCAGGGGGAGCUCCUAUUC---------------CGGGGCUGAGAGGAGGACG 6928 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 + : :U:CU+GACCC: +GA ACCU+A UC:GG:UAAU:CC:GCG 6929 G-------------AAGUCCUCGACCCCAAGA---ACCUGA-UCCGGGUAAUGCCGGCG- 6970 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA :+:GG++A+ A ++ + 6971 GAGGGA--UCGGGGAAGGAGGAAAU 6993 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #17958,sp|AE001862.1|AE001862 Deinococcus radiodurans R1 section 1 of 2 of the complete chromosome 2. ----isReversed: 1 ----hitSequence: CAUCGUCAACAGGGGUGCCUCCGCAUAUGGGCCGGAGGCUGAGAGGGCAACUCGGGCCUAACCCUAUGAACCUGAACUGGUUAGCACCAGCGGAGGGAGUGUGACGGGCGCAGAGA hit 15 : 178389 178274 (rev) 73.07 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AU :CA::AGGGGUGCCUC:++ A A+G+G :GAGGCUGAGAGG:: ::+ 35344 CAUCGUCAACAGGGGUGCCUCCGC--------AUAUGGGCCGGAGGCUGAGAGGGCAACU 35395 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :: ::CUA ACCCU UGA ACCU+A CUGGUUA ACCAGCG 35396 --------------CGGGCCUA-ACCCUAUGA---ACCUGA-ACUGGUUAGCACCAGCG- 35435 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA ::UG:C+ + + A 35436 GAGGGA-GUGUGACGGGCGCAGAGA 35459 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #17983,sp|AE001887.1|AE001887 Deinococcus radiodurans R1 section 24 of 229 of the complete chromosome 1. ----isReversed: 0 ----hitSequence: UCGCGUCACCGGGGGUGCCCUGCUUCGGCAGCGGCUGAGAACACACCCCAGGAACCUGAACCGGGUCAUUCCGGCGGAGGGAGUGUGAUGCUCUGCUCCG hit 16 : 9104 9203 (fwd) 63.65 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 :CAC::GGGGUGCC :+ + GG : GGCUGAGA++ 9104 UCGCGUCACCGGGGGUGCCCUGCUUC------------GGCAGCGGCUGAGAAC------ 9145 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC: GA ACCU+A C:GG U AU CC:GCG 9146 ---------------------ACACCCCAGGA---ACCUGA-ACCGGGUCAUUCCGGCG- 9179 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA :GUG:++ U + U 9180 GAGGGA-GUGUGAUGCUCUGCUCCG 9203 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #18623,sp|AE002554.1|AE002554 Neisseria meningitidis serogroup B strain MC58 section 196 of 206 of the complete genome. ----isReversed: 1 ----hitSequence: ACAUUGAAACAGGGGUGCUGCCUGAUGUUUAGGCGGCUGAGAAAUACCCUUUACACCCGAUCGGGAUAAUACCUGCGUGGGGAGUUUUCACGGAUUCUGC hit 17 : 2672 2573 (rev) 74.73 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A +++::A:CAGGGGUGC::C:UG+ UU A:G::GCUGAGA+ 8995 ACAUUGAAACAGGGGUGCUGCCUGAUGUU----------UAGGCGGCUGAGAA------- 9037 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCCUUU ACC:GA UC:GG+UAAU+CC:GCG 9038 ---------------------AUACCCUUUAC---ACCCGA-UCGGGAUAAUACCUGCG- 9071 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 U:GGGA G:U::C+ + A+U U 9072 UGGGGA--GUUUUCACGGAUUCUGC 9094 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #18625,sp|AE002556.2|AE002556 Neisseria meningitidis serogroup B strain MC58 section 198 of 206 of the complete genome. ----isReversed: 0 ----hitSequence: AGCUCCUUGUCGGAGUGCCGCCGCCGGGCGGCUGAGAUUGCGAAAGCAGAAUCCGUAGAACCUGUCGGGGUAAUGCCUGCGUAGGAAACAAACCGUCAAAUGCC hit 18 : 9004 9107 (fwd) 71.77 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A + :::::GG:GUGCC:C:++ :G:GGCUGAG++::::+ 9004 AGCUCCUUGUCGGAGUGCCGCCGC---------------CGGGCGGCUGAGAUUGCGA-- 9046 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::+++A:CC:U+GA ACCUG UC:GG:UAAU:CC:GCG 9047 ----------------AAGCAGAAUCCGUAGA---ACCUG--UCGGGGUAAUGCCUGCG- 9084 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A :::: C U AA U 9085 UAGGAA--ACAAACCGUCAAAUGCC 9107 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #18791,sp|AE004009.1|AE004009 Xylella fastidiosa 9a5c, section 155 of 229 of the complete genome. ----isReversed: 0 ----hitSequence: GCUUUGAAGCGGGGGUACCAUAGCCAAGCUGCGGUUGAGACACACCCUUCGAACCUGAUCCGGUUUACACCGGCGUAGGAAAGCUUCGUGGACCGCGCC hit 19 : 105 203 (fwd) 63.81 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U++::A:C:GGGGU:CC +++CAA+ + GG:UGAGA 105 GCUUUGAAGCGGGGGUACCAUAGCCAAGC------------UGCGGUUGAGAC------- 145 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U GA ACCUGA UC:GGUU A ACC:GCG 146 ---------------------ACACCCUUCGA---ACCUGA-UCCGGUUUACACCGGCG- 179 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A AG:U::+U ++ ++ 180 UAGGAA-AGCUUCGUGGACCGCGCC 203 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #18870,sp|AE004097.1|AE004097 Vibrio cholerae chromosome I, section 5 of 251 of the complete chromosome. ----isReversed: 0 ----hitSequence: UUCCACUUGUCGGAGUGCCAUUGGGCUGAGACCGUUUAUUCGGGAUCCGUUGAACCUGAUCAGGUUAAUACCUGCGAAGGGAACAAGAGAAGACUCUCU hit 20 : 4180 4278 (fwd) 82.58 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AC:::::GG:GUGCC : : GGCUGAG+::G::+ 4180 UUCCACUUGUCGGAGUGCCAU---------------------UGGGCUGAGACCGUUU-- 4216 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::U::+GA:CC:UUGA ACCU:A UC:GGUUAAUACC:GCG 4217 ----------------AUUCGGGAUCCGUUGA---ACCUGA-UCAGGUUAAUACCUGCG- 4255 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G +A A+U U 4256 AAGGGA--ACAAGAGAAGACUCUCU 4278 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #18982,sp|AE004209.1|AE004209 Vibrio cholerae chromosome I, section 117 of 251 of the complete chromosome. ----isReversed: 0 ----hitSequence: UUGGGUAUAACAACGUGCGAAUUAAAGGCUGAGAUCGCGUAGCGAGACCCGUUGAACCUGAUUCAGUUAGGACUGACGUAGGGAACUAUCCUCAACCGCUGG hit 21 : 3590 3691 (fwd) 55.05 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 ::: ::: GUGC :UU A: GCUGAGA+:::G+ 3590 UUGGGUAUAACAACGUGCGAAUU------------------AAAGGCUGAGAUCGCGU-- 3629 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :::+AGA :::UUGA ACCUGA U:::GUUA AC:::CG 3630 -----------------AGCGAGACCCGUUGA---ACCUGA-UUCAGUUAGGACUGACG- 3667 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA A ::: CU + ++ U 3668 UAGGGA-ACUAUCCUCAACCGCUGG 3691 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #19096,sp|AE004323.1|AE004323 Vibrio cholerae chromosome I, section 231 of 251 of the complete chromosome. ----isReversed: 1 ----hitSequence: AACCCACUCACGGGGGGCCACCCAUUCAUCCGAAUGGCGCUGAGAUCAAGCACUGCUUGGGACCCGCAAUGACUGCGAUGUUCGCGGUUGAACCUGAACCAGAUAAUGCUGGCGUAGGAAUUGAGCUAGGUUUGCAGA hit 22 : 4287 4150 (rev) 38.06 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA C:C:: GGG GC C + +A+ G A G GCUGAG++ :::::+ 10104 AACCCACUCACGGGGGGCCACCCAUU-------CAUCCGAAUGGCGCUGAGAUCAAGCAC 10156 _______._______>>>>>>>>,,......)))),,,,,,,,<<<<---<<<<<____> 61 ugaUgcg.aguuuucggcuucuagA......CCCuUuGAugaACCUGAGUCuGGuUAAUa 113 UG U++G A++ ++ ::::: ++GA C :UUGA ACCUGA C::G:UAAU: 10157 UGCUUGGgACCCGCAAUGACUGCGAuguucg-CGGUUGA---ACCUGA-ACCAGAUAAUG 10211 >>>>--->>>>,,,,]]]]]:::::::::::: 114 CCaGCGuUAGGGAaAgguggcuauuaauuuua 145 C::GCG UAGG+A :G:G ++ +U+++ A 10212 CUGGCG-UAGGAA-UUGAGCUAGGUUUGCAGA 10241 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #19680,sp|AE004910.1|AE004910 Pseudomonas aeruginosa PAO1, section 471 of 529 of the complete genome. ----isReversed: 1 ----hitSequence: GGGUUCUUGUCGGGGUGCCCUAUACGAGGGGCUGAGAUCGGAUAGUUCCGGAUCCCGUUGAACCUGAUCGGGCUAGCGUCCGGUUCCGCCUCGCGCGGACCGCAGCAACCCGCGUAGGGAACAAGAUGUCCGCGCCA hit 23 : 5287 5151 (rev) 34.39 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 ++C:::::GGGGUGCC: :U : :GGCUGAG++::G::+ 9713 GGGUUCUUGUCGGGGUGCCCUAUA---------------CGAGGGGCUGAGAUCGGAUA- 9756 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____........ 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAU........ 112 ::U::+++ CCC:UUGA ACCUGA UC GG:UA 9757 ---------------GUUCCGGAUCCCGUUGA---ACCUGA-UCGGGCUAGCguccgguu 9797 ......................>>>>>--->>>>,,,,]]]]]:::::::::::: 113 ......................aCCaGCGuUAGGGAaAgguggcuauuaauuuua 145 :CC GCG UAGGGA ::::G U U A 9798 ccgccucgcgcggaccgcagcaACCCGCG-UAGGGA--ACAAGAUGUCCGCGCCA 9849 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #19947,sp|AE005183.1|AE005183 Escherichia coli O157:H7 EDL933 genome, contig 1 of 3, section 7 of 155. ----isReversed: 1 ----hitSequence: CCGUUCUCAACGGGGUGCCACGCGGACGCGUGCGCUGAGAAAAUACCCGUCGAACCUGAUCCGGAUAACGCCGGCGAAGGGAUUUGAGGCUCCUUCUCAA hit 24 : 12182 12083 (rev) 74.38 bits :::::[[[[[((((,,<<<<<<___________________>>>>.>>,,,,<<<<<<<< 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagag.GCUGAGaggggggu 59 ++C:::::GGGGUGCC:C:+G A :G:G GCUGAGA++ 86 CCGUUCUCAACGGGGUGCCACGCGGA-------------CGCGUGcGCUGAGAAA----- 127 _______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>-- 60 gugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCG 119 A ACCC:U GA ACCU:A UC:GG:UAA :CC:GCG 128 ----------------------AUACCCGUCGA---ACCUGA-UCCGGAUAACGCCGGCG 161 ->>>>,,,,]]]]]:::::::::::: 120 uUAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G+ + ++ U +A 162 -AAGGGA-UUUGAGGCUCCUUCUCAA 185 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20200,sp|AE005436.1|AE005436 Escherichia coli O157:H7 EDL933 genome, contig 3 of 3, section 55 of 290. ----isReversed: 1 ----hitSequence: CCAAACGACUCGGGGUGCCCUUCUGCGUGAAGGCUGAGAAAUACCCGUAUCACCUGAUCUGGAUAAUGCCAGCGUAGGGAAGUCACGGACCACCAGG hit 25 : 8098 8002 (rev) 73.09 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +AA :AC::GGGGUGCC : + + G : GGCUGAGA+ 2249 CCAAACGACUCGGGGUGCCCUUCUGC-------------GUGAAGGCUGAGAA------- 2288 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U+ ACCUGA UCUGG:UAAU:CCAGCG 2289 ---------------------AUACCCGUAUC---ACCUGA-UCUGGAUAAUGCCAGCG- 2322 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :GU: C+ A 2323 UAGGGA--AGUCACGGACCACCAGG 2345 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20395,sp|AE005631.1|AE005631 Escherichia coli O157:H7 EDL933 genome, contig 3 of 3, section 250 of 290. ----isReversed: 1 ----hitSequence: AAUUUCUUGUCGGAGUGCCUUAACUGGCUGAGACCGUUUAUUCGGGAUCCGCGGAACCUGAUCAGGCUAAUACCUGCGAAGGGAACAAGAGUUAAUCUGCU hit 26 : 5793 5693 (rev) 80.24 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AAU++C:::::GG:GUGCC : : GGCUGAG+::G::+ 5628 AAUUUCUUGUCGGAGUGCCUUA-------------------ACUGGCUGAGACCGUUU-- 5666 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::U::+GA:CC: GA ACCU:A UC:GG:UAAU:CC:GCG 5667 ----------------AUUCGGGAUCCGCGGA---ACCUGA-UCAGGCUAAUACCUGCG- 5705 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G ++U+A+ U 5706 AAGGGA--ACAAGAGUUAAUCUGCU 5728 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20637,sp|AE005876.1|AE005876 Caulobacter crescentus CB15 section 202 of 359 of the complete genome. ----isReversed: 1 ----hitSequence: GUCUGUUCACCGGGGGGCCGCUCGCGCGGCUGAGAUUGGGCUCACGCCCUGACCCGUAGAACCUGAUCCGGGUCAUGCCGGCGAAGGGAGGGAACGCGGACGACAG hit 27 : 3727 3622 (rev) 81.47 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 + ::::C:GGGG GCC:C +G G:GGCUGAG++:::G:U+ 6346 GUCUGUUCACCGGGGGGCCGCUCG-----------------CGCGGCUGAGAUUGGGCUC 6388 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :C:::++GACCC:U+GA ACCU:A UC:GG:U AU:CC:GCG 6389 ---------------ACGCCCUGACCCGUAGA---ACCUGA-UCCGGGUCAUGCCGGCG- 6428 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA G::::C+ + A+++ + 6429 AAGGGA--GGGAACGCGGACGACAG 6451 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20835,sp|AE006074.1|AE006074 Pasteurella multocida PM70 section 41 of 204 of the complete genome. ----isReversed: 0 ----hitSequence: GACUCUUAGUCGGGGUGCUAUUGCGUUAGCUGAGAUGAUACCCGUGAACCUGAUGCAGUUAAUACUGACGUAGGAAACUAGCAGUCAAUAUUG hit 28 : 48 140 (fwd) 71.36 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A + +:A:::GGGGUGC::: ++ :::GCUGAGA+ 48 GACUCUUAGUCGGGGUGCUAUUGC-----------------GUUAGCUGAGAU------- 83 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +A ACCC:U ACCUGA U ::GUUAAUAC:: CG 84 --------------------GAUACCCGUGA----ACCUGA-UGCAGUUAAUACUGACG- 117 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A ::U:+C+ U AAU+UU 118 UAGGAA--ACUAGCAGUCAAUAUUG 140 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #20926,sp|AE006165.1|AE006165 Pasteurella multocida PM70 section 132 of 204 of the complete genome. ----isReversed: 1 ----hitSequence: GCACUUUAGUCGGGGUGCUUUGUAACCAAAUUGUACAAAGCUGAGAUGAUACCCGUGAACCUGAUACAGCUAACACUGACGUAGGAAACUAAUUAUGCCAAUAA hit 29 : 9171 9068 (rev) 67.46 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 + +::A:::GGGGUGC:U::U ++ AAA UG A::A:GCUGAGA+ 1815 GCACUUUAGUCGGGGUGCUUUGUAAC------CAAAUUGUACAAAGCUGAGAU------- 1861 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +A ACCC:U ACCUGA U:::G:UAA :C:::CG 1862 --------------------GAUACCCGUGA----ACCUGA-UACAGCUAACACUGACG- 1895 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A ::U::+UAU + +U+A 1896 UAGGAA--ACUAAUUAUGCCAAUAA 1918 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21028,sp|AE006268.1|AE006268 Lactococcus lactis subsp. lactis IL1403 section 30 of 218 of the complete genome. ----isReversed: 1 ----hitSequence: UAUUUGCACAAUGGGUCUAUUGACAAAACUGUCAGUAGCGAGAAAUACCAUCUGACCUGAUCUGGGUAAUGCCAGCGUAGGAAUGUGUUAAGACAAAUGU hit 30 : 10610 10511 (rev) 61.55 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AU++:CAC:A:GGGU :: :: + AAA+ G :: :: GAGA+ 262 UAUUUGCACAAUGGGUCUAUUGAC---------AAAACUGUCAGUAGCGAGAA------- 305 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACC:U UG ACCUGA UCUGG:UAAU:CCAGCG 306 ---------------------AUACCAUCUG----ACCUGA-UCUGGGUAAUGCCAGCG- 338 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A :GUG:++A++ A +U 339 UAGGAA--UGUGUUAAGACAAAUGU 361 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21118,sp|AE006358.1|AE006358 Lactococcus lactis subsp. lactis IL1403 section 120 of 218 of the complete genome. ----isReversed: 1 ----hitSequence: GGUAAAAACUAAAAUUACCGGUUGAGAAAGACCAUCAGACUUGAACAGGUUAAGACCUGCGUAAGAAUGUGUCCGAGUUUUAAUU hit 31 : 10289 10205 (rev) 32.33 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 UAA ::+:A::: U:CC GG:UGAGA+ 9 GGUAAAAACUAAAAUUACC-------------------------GGUUGAGAA------- 36 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AGA:::U +G AC:UGA C:GGUUAA ACC:GCG 37 ---------------------AGACCAUCAG----ACUUGA-ACAGGUUAAGACCUGCG- 69 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UA:G+A :+:: C+A+U++U+ U 70 UAAGAA-UGUGUCCGAGUUUUAAUU 93 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21266,sp|AE006515.1|AE006515 Streptococcus pyogenes M1 GAS strain SF370, section 44 of 167 of the complete genome. ----isReversed: 1 ----hitSequence: UAUUUCACAAAGGAGUGCUUUGGCUGAGAUCGCAAUUGCGAAAUCCUGAGGACCUGAUCUUGUUAGUACAAGCGUAGGGAUUGUGACCAAUAAUCAA hit 32 : 5636 5540 (rev) 69.07 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AU++C::::AGG:GUGC: :GCUGAGA+::::+ 4619 UAUUUCACAAAGGAGUGCUU-----------------------UGGCUGAGAUCGCAA-- 4653 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::+A+A:CCU +G ACCUGA UCU:GUUA UAC:AGCG 4654 ----------------UUGCGAAAUCCUGAGG---ACCUGA-UCUUGUUAGUACAAGCG- 4692 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA ::::G ++A U +A 4693 UAGGGA--UUGUGACCAAUAAUCAA 4715 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21694,sp|AE006947.1|AE006947 Mycobacterium tuberculosis CDC1551, section 33 of 280 of the complete genome. ----isReversed: 0 ----hitSequence: CCCUGUAGACACGGGAGUCCCGGGAGCGGGGUCUGAGAGUGGGCGCGCCUGCCCUUACCGUCACACCUGAUCCGGAUCAUGCCGGCGAAGGGAGGUCAAGGAUGGCGUCCG hit 33 : 1412 1522 (fwd) 66.66 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 + : ::CA:GGG+G:C:C +G +G G:G:CUGAG+:::: : + 1412 CCCUGUAGACACGGGAGUCCCGGG--------------AGCGGGGUCUGAGAGUGGGCGC 1457 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 + : ::::+ ACC:U + ACCU:A UC:GG:U AU:CC:GCG 1458 G-------------CCUGCCCUUACCGUCAC----ACCUGA-UCCGGAUCAUGCCGGCG- 1498 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA G:: :++AU ++U 1499 AAGGGA-GGUCAAGGAUGGCGUCCG 1522 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21694,sp|AE006947.1|AE006947 Mycobacterium tuberculosis CDC1551, section 33 of 280 of the complete genome. ----isReversed: 1 ----hitSequence: GGGUACCCACGCGGGAGCGCACGCCGAGUGCGCUGAGAGGACGGCUCGGGGCCGUCGACCGUACGAACCUGACCGGGUAAUGCCGGCGUAGGGAGUUGCAAAUGACCAUCA hit 34 : 10691 10581 (rev) 69.28 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +A C :C::GGG+GC :::++ GA::: GCUGAG+G::::G + 8167 GGGUACCCACGCGGGAGCGCACGC--------------CGAGUGCGCUGAGAGGACGGCU 8212 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 G G::::U+GACC:: GA ACCUGA C:GG:UAAU:CC:GCG 8213 CG------------GGGCCGUCGACCGUACGA---ACCUGA--CCGGGUAAUGCCGGCG- 8254 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA G: G +AU A+ +U A 8255 UAGGGA--GUUGCAAAUGACCAUCA 8277 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22125,sp|AE007380.1|AE007380 Streptococcus pneumoniae TIGR4 section 63 of 194 of the complete genome. ----isReversed: 0 ----hitSequence: UAGAGACAUUUGGGGUGCUUUAGGCUGAGAUAAUACCCAUUGAACCUGAUACAGUUAAGACUGGCGAAGGGAAAUGUGAACAGUUUUUU hit 35 : 3446 3534 (fwd) 75.18 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A A :CA:: GGGGUGC:U +A:GCUGAGA++ 3446 UAGAGACAUUUGGGGUGCUU----------------------UAGGCUGAGAUA------ 3477 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC UUGA ACCU:A U:::GUUAA AC:::CG 3478 ---------------------AUACCCAUUGA---ACCUGA-UACAGUUAAGACUGGCG- 3511 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::UG:++A + +UUUU 3512 AAGGGA--AAUGUGAACAGUUUUUU 3534 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22125,sp|AE007380.1|AE007380 Streptococcus pneumoniae TIGR4 section 63 of 194 of the complete genome. ----isReversed: 0 ----hitSequence: UAAAGACAUUUGGGGUGCUUUAGGCUGAGAUGAUACCCAUUGAACCUGAUACAGUUAAGACUGGCGAAGGGAAAUGUGAAAUGUUUUUU hit 36 : 6276 6364 (fwd) 75.47 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A+A :CA:: GGGGUGC:U +A:GCUGAGA+ 6276 UAAAGACAUUUGGGGUGCUU----------------------UAGGCUGAGAU------- 6306 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +A ACCC UUGA ACCU:A U:::GUUAA AC:::CG 6307 --------------------GAUACCCAUUGA---ACCUGA-UACAGUUAAGACUGGCG- 6341 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::UG:++A U +UUUU 6342 AAGGGA--AAUGUGAAAUGUUUUUU 6364 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22126,sp|AE007381.1|AE007381 Streptococcus pneumoniae TIGR4 section 64 of 194 of the complete genome. ----isReversed: 1 ----hitSequence: AACAACCACUAGGGGUGCGUAAAGCUGAGAUUAACGACUGUUAGAUCCCUCUGACUCAAUCUAGGUAAUGCUAGCUGAUGGAAGUGGAAAUGAUAAUGG hit 37 : 1109 1011 (rev) 47.04 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA AACCAC:AGGGGUGC U A GCUGAG++:::: + 10039 AACAACCACUAGGGGUGCGU----------------------AAAGCUGAGAUUAACGA- 10075 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::+++ CCCU UG AC:: A UCU:G:UAAU:C:AGC 10076 ---------------CUGUUAGAUCCCUCUG----ACUCAA-UCUAGGUAAUGCUAGCU- 10114 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 ::GGA :GUGG +AU A+ +U 10115 GAUGGA--AGUGGAAAUGAUAAUGG 10137 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22253,sp|AE007508.1|AE007508 Streptococcus pneumoniae TIGR4 section 191 of 194 of the complete genome. ----isReversed: 1 ----hitSequence: CAUAUAAUAUAUGGGAGUCUGUGUACAGUCUGAGAGGAAGUGUUAAACUUCGACCGCACCUGAUCUGGGUAAUGCCAGCGGAGGGAACGAUACUUAGUCUAAUU hit 38 : 3048 2945 (rev) 64.76 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AUA+:::: :GGG+G:CU:U+ A:AG:CUGAG+G::::::+ 9171 CAUAUAAUAUAUGGGAGUCUGUGU-----------------ACAGUCUGAGAGGAAGUGU 9213 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::::U+GACC: ACCU+A UCUGG:UAAU:CCAGCG 9214 --------------UAAACUUCGACCGC-------ACCUGA-UCUGGGUAAUGCCAGCG- 9250 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA A ::::CU+ ++U+ U 9251 GAGGGA-ACGAUACUUAGUCUAAUU 9274 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22395,sp|AE007651.1|AE007651 Clostridium acetobutylicum ATCC824 section 139 of 356 of the complete genome. ----isReversed: 0 ----hitSequence: UUUUAGUGCUAGGGGUGCCUUUUGGCUGAGAGAAGUUAAAAAACUUUAACCCUUUGAACCUGAUUCGGUUAAUUCUGACGAAGGAAAGCUUUUUAAAUGAUUA hit 39 : 7649 7751 (fwd) 74.90 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U+A: :C:AGGGGUGCC : : GGCUGAG+G:: ::: 7649 UUUUAGUGCUAGGGGUGCCUU---------------------UUGGCUGAGAGAAGUUAA 7687 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::: ::U++ACCCUUUGA ACCU:A U:::G UAAU C:::CG 7688 --------------AAAACUUUAACCCUUUGA---ACCUGA-UUCGGUUAAUUCUGACG- 7728 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGG+A :G: :+U+ +A+++UUA 7729 AAGGAA--AGCUUUUUAAAUGAUUA 7751 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22533,sp|AE007789.1|AE007789 Clostridium acetobutylicum ATCC824 section 277 of 356 of the complete genome. ----isReversed: 0 ----hitSequence: UAUAUGUGCUAGGGGUGCCUUUAGGCUGAGAAACAGUUUGUCACGUUAACCCUUAACCUGAUCUGGAUAAUACCAGCGUAGGGAAGCAGUU hit 40 : 11572 11662 (fwd) 62.73 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AUA+ ::C:AGGGGUGCCU: :AGGCUGAG+: ::G:U+ 11572 UAUAUGUGCUAGGGGUGCCUU---------------------UAGGCUGAGAAACAGUUU 11610 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 G:C:: :++ACCCUU+ ACCUGA UCUGG+UAAU+CCAGCG 11611 --------------GUCACGUUAACCCUUA-----ACCUGA-UCUGGAUAAUACCAGCG- 11649 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :G:: +U 11650 UAGGGA--AGCAGUU---------- 11662 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22533,sp|AE007789.1|AE007789 Clostridium acetobutylicum ATCC824 section 277 of 356 of the complete genome. ----isReversed: 1 ----hitSequence: AUAUAGUUAACGGGGAGCCUGUAGACAGGCUGAGAGUGGAAUGUGAUUCCAGACCCUCAUAACCUGAUUUGGAUAAUGCCAACGUAGGGAGUUAAUGCAUCAUGUUUG hit 41 : 9122 9015 (rev) 88.52 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A ++A::::::GGGG+GCCU:U G A:AGGCUGAGA::GG+:+G 2541 AUAUAGUUAACGGGGAGCCUGUAG-----------------ACAGGCUGAGAGUGGAAUG 2583 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +:+UU::AGACCC: + A ACCUGA U:UGG:UAAU:CCA:CG 2584 --------------UGAUUCCAGACCCUCAUA---ACCUGA-UUUGGAUAAUGCCAACG- 2624 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :::::+ AU A++UUU 2625 UAGGGA-GUUAAUGCAUCAUGUUUG 2648 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22542,sp|AE007798.1|AE007798 Clostridium acetobutylicum ATCC824 section 286 of 356 of the complete genome. ----isReversed: 1 ----hitSequence: UAUUUUAGCUAGGGGUGCCUUUUAAGGCUUUUAUAGUUGAUAUCAUUAAAAAUAUUUAACUAAUAAAAGACUUUAGGCUGAGAGGAGAAAUCCAACCCUUUGAACUUGAUGUAGUUAAUACUACCGUAGGGAAGCAGUGCAUUGUAUAU hit 42 : 8173 8025 (rev) 50.04 bits :::::[[[[[((((,,<<<<<<__________............................ 1 aauaaccaccaGGGGUGCcucuugcaauUuUc............................ 32 AU+++ :C:AGGGGUGCCU::U + UUU+ 2437 UAUUUUAGCUAGGGGUGCCUUUUAAGGCUUUUauaguugauaucauuaaaaauauuuaac 2496 ..._________>>>>>>,,,,<<<<<<<<_______________>>>>>>>>,,)))), 33 ...AaAaguggaagagGCUGAGaggggggugugaUgcgaguuuucggcuucuagACCCuU 89 +AAA+++ ::AGGCUGAG+::: + :::++ACCCUU 2497 uaaUAAAAGACUUUAGGCUGAGAGGAGA--------------------AAUCCAACCCUU 2536 ,,,,,,,<<<<---<<<<<____>>>>>--->>>>,,,,]]]]]:::::::::::: 90 uGAugaACCUGAGUCuGGuUAAUaCCaGCGuUAGGGAaAgguggcuauuaauuuua 145 UGA AC:UGA U U:GUUAAUAC:A CG UA:GGA :G: +++ U+ U+U+ 2537 UGA---ACUUGA-UGUAGUUAAUACUACCG-UAGGGA--AGCAGUGCAUUGUAUAU 2585 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22550,sp|AE007806.1|AE007806 Clostridium acetobutylicum ATCC824 section 294 of 356 of the complete genome. ----isReversed: 1 ----hitSequence: AAUAUUUUUCAGGGGAGCUUGUUUUCAGGCUGAGAGGAAGUAAUUGAACUUCGAUCCAUAUACCUGAUUUGGAUAAUGCCAACGUAGGAAAUAGGUUACUUGAUUUA hit 43 : 8808 8702 (rev) 68.28 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AAUA+++: : GG:G+GC:U::U ::A:GCUGAG+G:::::: 4439 AAUAUUUUUCAGGGGAGCUUGUUU-----------------UCAGGCUGAGAGGAAGUAA 4481 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 U ::::::U+GA:CC U+ ACCUGA U:UGG:UAAU:CCA:CG 4482 U-------------UGAACUUCGAUCCAUAU----ACCUGA-UUUGGAUAAUGCCAACG- 4522 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A : :+++UA U+ UUUA 4523 UAGGAA--AUAGGUUACUUGAUUUA 4545 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22909,sp|AE008169.1|AE008169 Agrobacterium tumefaciens str. C58 circular chromosome, section 227 of 254 of the complete sequence. ----isReversed: 1 ----hitSequence: GCCAUUCACCAGGGGUGUCCCGUCAAGGGGCUGAGAUUCUGCUUUCAUGCGCAGUGACCCGUUGAACCUGAUCCAGUUCAUACUGGCGUAGGGACGGUGCAAAGACCUGAUG hit 44 : 8240 8129 (rev) 83.74 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A+ CACC GGGGUG:C:C:U A:G:G:CUGAG++ ::G:++ 74 GCCAUUCACCAGGGGUGUCCCGU----------------CAAGGGGCUGAGAUUCUGCUU 117 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 U+A +:C:: ++GACCC UUGA ACCUGA UC::GUU AUAC::GCG 118 UCA-----------UGCGCAGUGACCCGUUGA---ACCUGA-UCCAGUUCAUACUGGCG- 161 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA GGUG +A++ +U U 162 UAGGGA-CGGUGCAAAGACCUGAUG 185 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #22924,sp|AE008184.1|AE008184 Agrobacterium tumefaciens str. C58 circular chromosome, section 242 of 254 of the complete sequence. ----isReversed: 1 ----hitSequence: CUUGAUCUAACGGGGUGUCUUCUGUGCUUUUGUGCAGAAGGCUGAGAGGCUUGCCAACCCGAAGAACCUGAUCCGGUUCAUACCGGCGGAGGGAUUAGACGGCUUAAAGGC hit 45 : 8540 8430 (rev) 76.44 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U A:C::::GGGGUG:CU::UG UUU +GUG A::AG:CUGAG+:: + 4265 CUUGAUCUAACGGGGUGUCUUCUGUGCUUU-----UGUGCAGAAGGCUGAGAGGCU---- 4315 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::++ACCC: +GA ACCU+A UC:GGUU AUACC:GCG 4316 ------------------UGCCAACCCGAAGA---ACCUGA-UCCGGUUCAUACCGGCG- 4352 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA :::G:C+ U+A + 4353 GAGGGA--UUAGACGGCUUAAAGGC 4375 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23094,sp|AE008354.1|AE008354 Agrobacterium tumefaciens str. C58 linear chromosome, section 158 of 187 of the complete sequence. ----isReversed: 1 ----hitSequence: AGCUCUUCCGAGGGGAGCACCAGACGGUGCUGAGAUGGUGGUGAACCGGACCCUUGAACCUGAUCCGGGUCAUGCCGGCGUAGGAACGGAACUGUCGUGCGCU hit 46 : 8291 8189 (rev) 69.45 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A + :::C AGGGG+GC::C + G::GCUGAG++G : 4143 AGCUCUUCCGAGGGGAGCACCAGA-----------------CGGUGCUGAGAUGGUGG-- 4183 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 : C++GACCCUU ACCUGA UC:GG:U AU:CC:GCG 4184 ---------------UGAACCGGACCCUUGA----ACCUGA-UCCGGGUCAUGCCGGCG- 4222 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A G:::CU U ++ 4223 UAGGAA--CGGAACUGUCGUGCGCU 4245 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23180,sp|AE008441.1|AE008441 Streptococcus pneumoniae R6 section 57 of 184 of the complete genome. ----isReversed: 0 ----hitSequence: UAGAGACAUUUGGGGUGCUUUAAGCUGAGAUGAUACCCAUUGAACCUGAUACAGUUAAGACUGGCGAAGGGAAAUGUGAAACGUUUUUU hit 47 : 3915 4003 (fwd) 72.18 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A A :CA:: GGGGUGC:U +A:GCUGAGA+ 3915 UAGAGACAUUUGGGGUGCUU----------------------UAAGCUGAGAU------- 3945 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +A ACCC UUGA ACCU:A U:::GUUAA AC:::CG 3946 --------------------GAUACCCAUUGA---ACCUGA-UACAGUUAAGACUGGCG- 3980 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::UG:++A +UUUU 3981 AAGGGA--AAUGUGAAACGUUUUUU 4003 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23180,sp|AE008441.1|AE008441 Streptococcus pneumoniae R6 section 57 of 184 of the complete genome. ----isReversed: 0 ----hitSequence: UAAAGACAUUUGGGGUGCUUUAGGCUGAGAUGAUACCCAUUGAACCUGAUACAGUUAAGACUGGCGAAGGGAAAUGUGAAAUGUUUUUU hit 48 : 6797 6885 (fwd) 75.47 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A+A :CA:: GGGGUGC:U +A:GCUGAGA+ 6797 UAAAGACAUUUGGGGUGCUU----------------------UAGGCUGAGAU------- 6827 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +A ACCC UUGA ACCU:A U:::GUUAA AC:::CG 6828 --------------------GAUACCCAUUGA---ACCUGA-UACAGUUAAGACUGGCG- 6862 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::UG:++A U +UUUU 6863 AAGGGA--AAUGUGAAAUGUUUUUU 6885 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23180,sp|AE008441.1|AE008441 Streptococcus pneumoniae R6 section 57 of 184 of the complete genome. ----isReversed: 1 ----hitSequence: AACAACCACUAGGGGUGCGUAAAGCUGAGAUUAACGACUGUUAGAUCCCUCUGACUCAAUCUAGGUAAUGCUAGCUGAUGGAAGUGGAAAUGAUAAUGG hit 49 : 13586 13488 (rev) 47.04 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA AACCAC:AGGGGUGC U A GCUGAG++:::: + 16 AACAACCACUAGGGGUGCGU----------------------AAAGCUGAGAUUAACGA- 52 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::+++ CCCU UG AC:: A UCU:G:UAAU:C:AGC 53 ---------------CUGUUAGAUCCCUCUG----ACUCAA-UCUAGGUAAUGCUAGCU- 91 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 ::GGA :GUGG +AU A+ +U 92 GAUGGA--AGUGGAAAUGAUAAUGG 114 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23303,sp|AE008564.1|AE008564 Streptococcus pneumoniae R6 section 180 of 184 of the complete genome. ----isReversed: 1 ----hitSequence: UACAGUCUGAGAGGAAGUGUUAAACUUCGACCGCACCUGAUCUGGGUAAUGCCAGCGGAGGGAACGAUACUUAGUCUAAUU hit 50 : 13544 13464 (rev) 24.92 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A A : : ::GG +G: U +A :CU ++ 8 UACAGUCUGAGAGGAAGUGU----------------------UAAACU----UC------ 35 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 GACC:: ACCU+A UCUGG:UAAU:CCAGCG 36 ----------------------GACCGC-------ACCUGA-UCUGGGUAAUGCCAGCG- 64 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA A : :CU+ ++U+ U 65 GAGGGA-ACGAUACUUAGUCUAAUU 88 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23427,sp|AE008698.1|AE008698 Salmonella typhimurium LT2, section 6 of 220 of the complete genome. ----isReversed: 1 ----hitSequence: CCGAACUCAACGGGGUGCCGCGCUCAUGCGCGCGCUGAGAAAAUACCCGUCGAACCUGAUCCGGAUAAUGCCGGCGAAGGGAUUUGAGGCUACCUCUCAA hit 51 : 18540 18441 (rev) 76.13 bits :::::[[[[[((((,,<<<<<<___________________>>>>.>>,,,,<<<<<<<< 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagag.GCUGAGaggggggu 59 AAC:::::GGGGUGCC:C:+ CA :G:G GCUGAGA++ 2019 CCGAACUCAACGGGGUGCCGCGCUCA-------------UGCGCGcGCUGAGAAA----- 2060 _______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>-- 60 gugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCG 119 A ACCC:U GA ACCU:A UC:GG:UAAU:CC:GCG 2061 ----------------------AUACCCGUCGA---ACCUGA-UCCGGAUAAUGCCGGCG 2094 ->>>>,,,,]]]]]:::::::::::: 120 uUAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G+ + + U +A 2095 -AAGGGA-UUUGAGGCUACCUCUCAA 2118 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23520,sp|AE008795.1|AE008795 Salmonella typhimurium LT2, section 99 of 220 of the complete genome. ----isReversed: 1 ----hitSequence: CUUGACGACUCGGGGUGCCCUUCUUUGUGAAGGCUGAGAAAUACCCGUACCACCUGAUCUGGAUAAUGCCAGCGUAGGGAAGUCUGACACUGCUCGU hit 52 : 16610 16514 (rev) 68.24 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U A :AC::GGGGUGCC : + G : GGCUGAGA+ 5830 CUUGACGACUCGGGGUGCCCUUCUUU-------------GUGAAGGCUGAGAA------- 5869 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U+ ACCUGA UCUGG:UAAU:CCAGCG 5870 ---------------------AUACCCGUACC---ACCUGA-UCUGGAUAAUGCCAGCG- 5903 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :GU: ++ + U 5904 UAGGGA--AGUCUGACACUGCUCGU 5926 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23619,sp|AE008894.1|AE008894 Salmonella typhimurium LT2, section 198 of 220 of the complete genome. ----isReversed: 1 ----hitSequence: ACGAAGCCAACGAAGAGGCAGCGCGAAGGAUGAAGUGGAAAAGGCUGAGACCGUUAAUUCGGGAUCCGCGGAACCUGAUCAGGUUAAUACCUGCGAAGGGAACAAGAGUAAUUCUGCUU hit 53 : 19601 19483 (rev) 61.11 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A AA C : :G::G+G C ++ AA++ + AAGUGGA G CUGAG+::G::+ 4050 ACGAAGCCAACGAAGAGGCAGCGCGAAGGA--UGAAGUGGAAAAGGCUGAGACCGUUA-- 4105 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::U::+GA::C: GA ACCU:A UC:GGUUAAUACC:GCG 4106 ----------------AUUCGGGAUCCGCGGA---ACCUGA-UCAGGUUAAUACCUGCG- 4144 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA A : G +UA U++U U 4145 AAGGGA-ACAAGAGUAAUUCUGCUU 4168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23924,sp|AE009203.1|AE009203 Agrobacterium tumefaciens strain C58 circular chromosome, section 229 of 256 of the complete sequence. ----isReversed: 1 ----hitSequence: GCCAUUCACCAGGGGUGUCCCGUCAAGGGGCUGAGAUUCUGCUUUCAUGCGCAGUGACCCGUUGAACCUGAUCCAGUUCAUACUGGCGUAGGGACGGUGCAAAGACCUGAUG hit 54 : 4053 3942 (rev) 83.74 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A+ CACC GGGGUG:C:C:U A:G:G:CUGAG++ ::G:++ 7981 GCCAUUCACCAGGGGUGUCCCGU----------------CAAGGGGCUGAGAUUCUGCUU 8024 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 U+A +:C:: ++GACCC UUGA ACCUGA UC::GUU AUAC::GCG 8025 UCA-----------UGCGCAGUGACCCGUUGA---ACCUGA-UCCAGUUCAUACUGGCG- 8068 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA GGUG +A++ +U U 8069 UAGGGA-CGGUGCAAAGACCUGAUG 8092 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23938,sp|AE009217.1|AE009217 Agrobacterium tumefaciens strain C58 circular chromosome, section 243 of 256 of the complete sequence. ----isReversed: 1 ----hitSequence: CUUGAUCUAACGGGGUGUCUUCUGUGCUUUUGUGCAGAAGGCUGAGAGGCUUGCCAACCCGAAGAACCUGAUCCGGUUCAUACCGGCGGAGGGAUUAGACGGCUUAAAGGC hit 55 : 9644 9534 (rev) 76.44 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U A:C::::GGGGUG:CU::UG UUU +GUG A::AG:CUGAG+:: + 517 CUUGAUCUAACGGGGUGUCUUCUGUGCUUU-----UGUGCAGAAGGCUGAGAGGCU---- 567 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::++ACCC: +GA ACCU+A UC:GGUU AUACC:GCG 568 ------------------UGCCAACCCGAAGA---ACCUGA-UCCGGUUCAUACCGGCG- 604 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA :::G:C+ U+A + 605 GAGGGA--UUAGACGGCUUAAAGGC 627 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23979,sp|AE009258.1|AE009258 Agrobacterium tumefaciens str. C58 linear chromosome, section 28 of 187 of the complete sequence. ----isReversed: 0 ----hitSequence: AGCUCUUCCGAGGGGAGCACCAGACGGUGCUGAGAUGGUGGUGAACCGGACCCUUGAACCUGAUCCGGGUCAUGCCGGCGUAGGAACGGAACUGUCGUGCGCU hit 56 : 7675 7777 (fwd) 69.45 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A + :::C AGGGG+GC::C + G::GCUGAG++G : 7675 AGCUCUUCCGAGGGGAGCACCAGA-----------------CGGUGCUGAGAUGGUGG-- 7715 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 : C++GACCCUU ACCUGA UC:GG:U AU:CC:GCG 7716 ---------------UGAACCGGACCCUUGA----ACCUGA-UCCGGGUCAUGCCGGCG- 7754 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A G:::CU U ++ 7755 UAGGAA--CGGAACUGUCGUGCGCU 7777 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #24188,sp|AE009471.1|AE009471 Brucella melitensis 16M chromosome I, section 28 of 195 of the complete sequence. ----isReversed: 1 ----hitSequence: GUCGCUCUAACGGGGUGCCAUCUGCUUUUGGGGAUGGCUGAGAGGCCAAACAAGGCAUUUCCAGCAAAAGCGUGAAACGGUUUUGCAUCAGGAAAUACUUGAAAACUGCCCGGCCAACCCGCUGAACCUGAUCCGGUUUGCACCGGCGGAGGGAUUAGACGCUCGAUGAAC hit 57 : 6144 5974 (rev) 24.77 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<. 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggu. 59 :C::::GGGGUGCC:::UGC +UU GG :::GGCUGAG+:: :+ : 4640 GUCGCUCUAACGGGGUGCCAUCUGCUUUU---------GGGGAUGGCUGAGAGGCCAAAc 4690 ..________._______......................................>>>> 60 ..gugaUgcg.aguuuuc......................................ggcu 78 G++AU+ + AG++ : +: 4691 aaGGCAUUUCcAGCAAAAgcgugaaacgguuuugcaucaggaaauacuugaaaacuGCCC 4750 >>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--->>>>,,,,]]]]]::::: 79 ucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGuUAGGGAaAgguggcuauu 138 ::++ACCC: UGA ACCU+A UC:GGUU ACC:GCG +AGGGA :::G:C+ U 4751 GGCCAACCCGCUGA---ACCUGA-UCCGGUUUGCACCGGCG-GAGGGA--UUAGACGCUC 4803 ::::::: 139 aauuuua 145 AU + 4804 GAUGAAC 4810 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #24324,sp|AE009607.1|AE009607 Brucella melitensis 16M chromosome I, section 164 of 195 of the complete sequence. ----isReversed: 0 ----hitSequence: CAAAAUUCGUUGGGGUGCCUUGAAAGAGGCUGAGAGACGCAUUCUCACGUCAACCCAUUGAACCUGAUCCGGGUAAUACCUGCGUAGGGAACGGAGUUUGGCGCGUC hit 58 : 63 169 (fwd) 76.26 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A+AA:+::: GGGGUGCCU : : AGGCUGAG+G : + 63 CAAAAUUCGUUGGGGUGCCUUGAA-----------------AGAGGCUGAGAGACGCAUU 105 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 : U++ACCC UUGA ACCUGA UC GG UAAU CC GCG 106 --------------CUCACGUCAACCCAUUGA---ACCUGA-UCCGGGUAAUACCUGCG- 146 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :::+:+U+U ++ U 147 UAGGGA--ACGGAGUUUGGCGCGUC 169 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #24711,sp|AE010000.1|AE010000 Streptococcus pyogenes strain MGAS8232, section 48 of 173 of the complete genome. ----isReversed: 1 ----hitSequence: UAUUUCACAAAGGAGUGCUUUGGCUGAGAUCGCAAUUGCGAAAUCCUGAGGACCUGAUCUUGUUAGUACAAGCGUAGGGAUUGUGACCAAUAAUCAA hit 59 : 5636 5540 (rev) 69.07 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AU++C::::AGG:GUGC: :GCUGAGA+::::+ 4549 UAUUUCACAAAGGAGUGCUU-----------------------UGGCUGAGAUCGCAA-- 4583 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::+A+A:CCU +G ACCUGA UCU:GUUA UAC:AGCG 4584 ----------------UUGCGAAAUCCUGAGG---ACCUGA-UCUUGUUAGUACAAGCG- 4622 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA ::::G ++A U +A 4623 UAGGGA--UUGUGACCAAUAAUCAA 4645 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #25187,sp|AE010479.1|AE010479 Fusobacterium nucleatum subsp. nucleatum ATCC 25586, section 21 of 197 of the complete genome. ----isReversed: 1 ----hitSequence: AACUAGUUACAAGGGAGUUAAUAAAUUGACUGAGAAAAGGAUGUGAGCCUUGACCUUUUGACCUGAUUUGGAUAAUGCCAACGUAGGAAGUAAAAGAGUUUAUUUU hit 60 : 12991 12886 (rev) 77.20 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA +A :::CA:GGG+G::::U A::::CUGAG+::::::+G 32 AACUAGUUACAAGGGAGUUAAUAA-----------------AUUGACUGAGAAAAGGAUG 74 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +::::::+GACC:UUUG ACCUGA U:UGG:UAAU:CCA:CG 75 --------------UGAGCCUUGACCUUUUG----ACCUGA-UUUGGAUAAUGCCAACG- 114 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A G::: +A+U++ UUU 115 UAGGAA--GUAAAAGAGUUUAUUUU 137 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #25244,sp|AE010536.1|AE010536 Fusobacterium nucleatum subsp. nucleatum ATCC 25586, section 78 of 197 of the complete genome. ----isReversed: 1 ----hitSequence: AUAUAUGUACUGGGGAGCUUUGUGCUGAGAUUAGAACCUUUUUUCUUAGACCCAUAGUACCUGAUUUGGAUAAUGCCAACGAAGGGAGUACCAUCUUAAUAAUA hit 61 : 2776 2673 (rev) 73.79 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A ++A :::C GGGG+GC: + :GCUGAGA+::G: :+ 10404 AUAUAUGUACUGGGGAGCUU----------------------UGUGCUGAGAUUAGAACC 10441 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 U : :U::+AGACCC U+G ACCU:A U:UGG:UAAU:CCA:CG 10442 UU------------UUUUCUUAGACCCAUAGU---ACCUGA-UUUGGAUAAUGCCAACG- 10484 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA G::: U UUAAU+ UA 10485 AAGGGA--GUACCAUCUUAAUAAUA 10507 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #25990,sp|AE011282.1|AE011282 Leptospira interrogans serovar lai str. 56601 chromosome I, section 91 of 397 of the complete sequence. ----isReversed: 1 ----hitSequence: CUUGGACGUUGGGGGUGGGAUUCACUGCGUGAAUCUCUGAGAGAGUCCCCGGAACCUGAUCAGGAUAAGACCUGCGUAGGAAAACGGACCUGUAAAAUU hit 62 : 7576 7478 (rev) 45.03 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U C::::GGGGUG ::U+ A +G G A:: CUGAGAG 3271 CUUGGACGUUGGGGGUGGGAUUC----------ACUGCGUGAAUCUCUGAGAG------- 3313 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AG CCC: GA ACCUGA UC:GG+UAA +CC:GCG 3314 ---------------------AGUCCCC-GGA---ACCUGA-UCAGGAUAAGACCUGCG- 3346 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A :::G U +A + U 3347 UAGGAA--AACGGACCUGUAAAAUU 3369 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #26699,sp|AE011991.1|AE011991 Xanthomonas axonopodis pv. citri str. 306, section 369 of 469 of the complete genome. ----isReversed: 1 ----hitSequence: CCGCCGAAGUGGGGGUACCGCAGCGUGCUGCGGUUGAGAUAGUCCCUUCGAACCUGAUCCGGCUGAUACCGGCGUAGGGAAGCUUCGUCAGAUGCGAU hit 63 : 4930 4833 (rev) 66.87 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 ::A:::GGGGU:CC:C+++ G +G:GG:UGAGA+ 5224 CCGCCGAAGUGGGGGUACCGCAGCGU-------------GCUGCGGUUGAGAU------- 5263 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AG CCC:U GA ACCUGA UC:GG:U AU:CC:GCG 5264 ---------------------AGUCCCUUCGA---ACCUGA-UCCGGCUGAUACCGGCG- 5297 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA A::U::+U A++ + 5298 UAGGGA-AGCUUCGUCAGAUGCGAU 5321 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27156,sp|AE012449.1|AE012449 Xanthomonas campestris pv. campestris str. ATCC 33913, section 357 of 460 of the complete genome. ----isReversed: 1 ----hitSequence: CCGCCGAAGUGGGGGUACCACAGCACUGCUGCGGUUGAGAUAGUCCCUUCGAACCUGAUCCGGCUCAUACCGGCGUAGGGAAGCUUCGUUAGAUGCGCU hit 64 : 4930 4832 (rev) 69.45 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 ::A:::GGGGU:CC C+++++++ +G GG:UGAGA+ 6521 CCGCCGAAGUGGGGGUACCACAGCACUGC------------UGCGGUUGAGAU------- 6561 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 AG CCC:U GA ACCUGA UC:GG:U AU:CC:GCG 6562 ---------------------AGUCCCUUCGA---ACCUGA-UCCGGCUCAUACCGGCG- 6595 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA A::U::+U+ A++ 6596 UAGGGA-AGCUUCGUUAGAUGCGCU 6619 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27263,sp|AE012556.1|AE012556 Xylella fastidiosa Temecula1, section 4 of 9 of the complete genome. ----isReversed: 1 ----hitSequence: ACUUUGAAGCGGGGGUACCGUAGCCAAGCUGCGGUUGAGACACACCCUUCGAACCUGAUCCGGUUUACACCGGCGUAGGAAAGCUUCGUGGACCGCGCC hit 65 : 212138 212040 (rev) 65.95 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A U++::A:C:GGGGU:CC: +++CAA+ + :GG:UGAGA 87892 ACUUUGAAGCGGGGGUACCGUAGCCAAGC------------UGCGGUUGAGAC------- 87932 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U GA ACCUGA UC:GGUU A ACC:GCG 87933 ---------------------ACACCCUUCGA---ACCUGA-UCCGGUUUACACCGGCG- 87966 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A AG:U::+U ++ ++ 87967 UAGGAA-AGCUUCGUGGACCGCGCC 87990 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27390,sp|AE012901.1|AE012901 Chlorobium tepidum TLS section 122 of 194 of the complete genome. ----isReversed: 0 ----hitSequence: AAAUCAUCUUGGGGGUGCUUCGCCAUGUUCCAUGAACCGAAGCUGAGAUCACACCCCUAUAACUUGAUGCAGGUAAUGCUGACGCAAGGAAAGAUGAAGCACGCAUC hit 66 : 6754 6860 (fwd) 63.94 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA++ ::::::GGGGUGC:UC:+++ UU + A ++ :GA:GCUGAGA++ 6754 AAAUCAUCUUGGGGGUGCUUCGCCAUGUU----CCAUGAACCGAAGCUGAGAUC------ 6803 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U+ A AC:U A U ::G:UAAU:C:: CG 6804 ---------------------ACACCCCUAUA---ACUUGA-UGCAGGUAAUGCUGACG- 6837 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 A:GGA :::::++A+ A++ U 6838 CAAGGA--AAGAUGAAGCACGCAUC 6860 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27601,sp|AE013112.1|AE013112 Thermoanaerobacter tengcongensis strain MB4T, section 139 of 244 of the complete genome. ----isReversed: 1 ----hitSequence: CUCAAGUGCUAGGGGAGCCAAAAAUGGCUGAGAGGGGAUUCGUUCCCGACCCUUAGAACCUGACCAGGGUAAUGCCUGCGAAGGGAAGCACGUUUUACGAAAU hit 67 : 9358 9256 (rev) 82.21 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA:::C:AGGGG+GCC::: :::GGCUGAG+:GGG U 2591 CUCAAGUGCUAGGGGAGCCAAA-------------------AAUGGCUGAGAGGGGAUU- 2630 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 UUC:+GACCCUU+GA ACCU:A C:GG:UAAU:CC:GCG 2631 ---------------CGUUCCCGACCCUUAGA---ACCUGA-CCAGGGUAAUGCCUGCG- 2670 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA :G:::+U+UUA+++ + 2671 AAGGGA--AGCACGUUUUACGAAAU 2693 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27616,sp|AE013127.1|AE013127 Thermoanaerobacter tengcongensis strain MB4T, section 154 of 244 of the complete genome. ----isReversed: 1 ----hitSequence: CUCAAGUGCUAGGGGAGCCAGAAAUGGCUGAGAGGGGAUUCGUUCCCGACCCUUAGAACCUGACCAGGGUAAUGCCUGCGAAGGGAAGCACGUUUUAUUGAGU hit 68 : 3291 3189 (rev) 80.02 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA:::C:AGGGG+GCC: : : :GGCUGAG+:GGG U 7080 CUCAAGUGCUAGGGGAGCCAGA-------------------AAUGGCUGAGAGGGGAUU- 7119 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 UUC:+GACCCUU+GA ACCU:A C:GG:UAAU:CC:GCG 7120 ---------------CGUUCCCGACCCUUAGA---ACCUGA-CCAGGGUAAUGCCUGCG- 7159 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA :G:::+U+UUA+U 7160 AAGGGA--AGCACGUUUUAUUGAGU 7182 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27656,sp|AE013167.1|AE013167 Thermoanaerobacter tengcongensis strain MB4T, section 194 of 244 of the complete genome. ----isReversed: 1 ----hitSequence: UCAAAGUGCUAGGGGAGCCAGAAAUGGCUGAGAGGGGAUUCGUUCCCGACCCUUAGAACCUGACCAGGGUAAUGCCUGCGAAGGGAAGCACGUUUUACGGAAU hit 69 : 14408 14306 (rev) 81.34 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +AA:::C:AGGGG+GCC: : : :GGCUGAG+:GGG U 91 UCAAAGUGCUAGGGGAGCCAGA-------------------AAUGGCUGAGAGGGGAUU- 130 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 UUC:+GACCCUU+GA ACCU:A C:GG:UAAU:CC:GCG 131 ---------------CGUUCCCGACCCUUAGA---ACCUGA-CCAGGGUAAUGCCUGCG- 170 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA :G:::+U+UUA++ + 171 AAGGGA--AGCACGUUUUACGGAAU 193 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #27681,sp|AE013192.1|AE013192 Thermoanaerobacter tengcongensis strain MB4T, section 219 of 244 of the complete genome. ----isReversed: 1 ----hitSequence: UAUGUCCGCUGGGGGAGCCUGAAAAGGCUGAGACGGCAGAAAUGCCGAACCCUUGGAACCUGAUGAGGGUAAUGCCUCCGUAGGGAAUGCGGGCUCAAAAGGCA hit 70 : 4947 4844 (rev) 75.11 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AU +CC:C :GGGG+GCCU : : AGGCUGAG+:G::+++ 4254 UAUGUCCGCUGGGGGAGCCUGA-------------------AAAGGCUGAGACGGCAGA- 4293 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ++::C:++ACCC:U GA ACCUGA U :GG:UAAU:CC: CG 4294 ---------------AAUGCCGAACCCUUGGA---ACCUGA-UGAGGGUAAUGCCUCCG- 4333 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA A G:GG+ + +AA A 4334 UAGGGA-AUGCGGGCUCAAAAGGCA 4357 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28135,sp|AE013650.1|AE013650 Yersinia pestis KIM section 50 of 415 of the complete genome. ----isReversed: 1 ----hitSequence: AGGCUCUUGUCGGAGUGCCUAGCACCUGCUUUUUUAGGAAAGCAAACGCAGGCUGAGACCGUUAAUUCGGGAUCCGCGGAACCUGAUCGGGUUAAUACCCGCGAAGGGAACAAGAGUAAUUUAUCG hit 71 : 6078 5953 (rev) 69.06 bits :::::[[[[[((((,,<<<<<<__________......_________>>>>>>,,,,<<< 1 aauaaccaccaGGGGUGCcucuugcaauUuUc......AaAaguggaagagGCUGAGagg 54 A +C:::::GG:GUGCCU + C+++ UU+ AAA + AGGCUGAG+:: 5100 AGGCUCUUGUCGGAGUGCCUAGCACCUGCUUUuuuaggAAAGCAAACGCAGGCUGAGACC 5159 <<<<<_______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>> 55 ggggugugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaC 114 G::+ ::U::+GA:CC: GA ACCU:A UC GGUUAAUAC 5160 GUUA------------------AUUCGGGAUCCGCGGA---ACCUGA-UCGGGUUAAUAC 5197 >>>--->>>>,,,,]]]]]:::::::::::: 115 CaGCGuUAGGGAaAgguggcuauuaauuuua 145 C GCG :AGGGA ::::G ++ +++U+U 5198 CCGCG-AAGGGA--ACAAGAGUAAUUUAUCG 5225 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28224,sp|AE013739.1|AE013739 Yersinia pestis KIM section 139 of 415 of the complete genome. ----isReversed: 0 ----hitSequence: CAUUCUGACUCGGGGUGCCUGCCACAAUGCGGUGGUAAGGCUGAGAGAUGACCCGUAUUACCUGAUCUGGAUUAUGCCAGCGUAGGGAAGUCUCGGCACCGUAGG hit 72 : 9688 9792 (fwd) 70.05 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AU+ :AC::GGGGUGCCU + CAAU++ G+ G AGGCUGAG+G+ 9688 CAUUCUGACUCGGGGUGCCUGCCACAAUGC------GGUGGUAAGGCUGAGAGA------ 9735 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +GACCC:U+ ACCUGA UCUGG:U AU:CCAGCG 9736 ---------------------UGACCCGUAUU---ACCUGA-UCUGGAUUAUGCCAGCG- 9769 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :GU: C+ + ++U 9770 UAGGGA--AGUCUCGGCACCGUAGG 9792 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28453,sp|AE013968.1|AE013968 Yersinia pestis KIM section 368 of 415 of the complete genome. ----isReversed: 0 ----hitSequence: ACCACCUAACCGCCGCAAUUUUUUUCGCUGAGAGUAAACCCGUCGAACCUGAUCCGGUUAACCCCGGCGGAGGGAUUUGAGAAUGAUAACGAC hit 73 : 546 638 (fwd) 53.79 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A A C:::::G GC::::U ::::GCUGAGAG 546 ACCACCUAACCGC--CGCAAUUUU-----------------UUUCGCUGAGAG------- 579 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 UA+AC C:U GA ACCU+A UC:GG UAA CC:GCG 580 --------------------UAAACCCGUCGA---ACCUGA-UCCGGUUAACCCCGGCG- 614 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA ::::G +++++A + 615 GAGGGA-UUUGAGAAUGAUAACGAC 638 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28569,sp|AE014145.1|AE014145 Streptococcus pyogenes MGAS315, section 10 of 37 of the complete genome. ----isReversed: 1 ----hitSequence: UAUUUCACAAAGGAGUGCUUUGGCUGAGAUCGCAAUUGCGAAAUCCUGAGGACCUGAUCUUGUUAGUACAAGCGUAGGGAUUGUGACCAAUAAUCAA hit 74 : 5600 5504 (rev) 69.07 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AU++C::::AGG:GUGC: :GCUGAGA+::::+ 44728 UAUUUCACAAAGGAGUGCUU-----------------------UGGCUGAGAUCGCAA-- 44762 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::+A+A:CCU +G ACCUGA UCU:GUUA UAC:AGCG 44763 ----------------UUGCGAAAUCCUGAGG---ACCUGA-UCUUGUUAGUACAAGCG- 44801 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA ::::G ++A U +A 44802 UAGGGA--UUGUGACCAAUAAUCAA 44824 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28635,sp|AE014229.1|AE014229 Streptococcus agalactiae 2603V/R section 39 of 100 of the complete genome. ----isReversed: 1 ----hitSequence: AAAUACACAAGGGAGUGCCUUGAGCUGAGAUUGCAGAUAUGCAAAAUCCUCUAACCUGAUCUCGUUAGGACGAGCGUAGGAAUUGUGGUUUGAAUUGGU hit 75 : 2499 2401 (rev) 62.84 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA++AC:::::GG:GUGC + GCUGAGA+:::+ + 19283 AAAUACACAAGGGAGUGCCU----------------------UGAGCUGAGAUUGCAGA- 19319 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +:::+A+A:CC: U ACCUGA UCU GUUA AC AGCG 19320 ---------------UAUGCAAAAUCCUCUA----ACCUGA-UCUCGUUAGGACGAGCG- 19358 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A ::::G+U+U AAUU 19359 UAGGAA--UUGUGGUUUGAAUUGGU 19381 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28636,sp|AE014230.1|AE014230 Streptococcus agalactiae 2603V/R section 40 of 100 of the complete genome. ----isReversed: 0 ----hitSequence: AUAGGACAUUUGGGGUGCGUAACAGCUGAGAUUAUACCCAUUGAACUUGAUGCAGUUAGUACUGUCGAAGGGAAAUGUGUGCCAUUACAA hit 76 : 102 191 (fwd) 59.05 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A + :CA:: GGGGUGC : : GCUGAGA++ 102 AUAGGACAUUUGGGGUGCGUA---------------------ACAGCUGAGAUU------ 134 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC UUGA AC:U:A U ::GUUA UAC:: CG 135 ---------------------AUACCCAUUGA---ACUUGA-UGCAGUUAGUACUGUCG- 168 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :A:GGA ::UG:+U A+U+ +A 169 AAGGGA--AAUGUGUGCCAUUACAA 191 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28716,sp|AE014334.1|AE014334 Brucella suis 1330 chromosome I section 20 of 190 of the complete genome. ----isReversed: 1 ----hitSequence: CAAAAUUCGUUGGGGUGCCUUGAAAGAGGCUGAGAGACGCAUUCUCGCGUCAACCCAUUGAACCUGAUCCGGGUAAUACCUGCGUAGGGAACGGAGUUUGGCGCGUC hit 77 : 9887 9781 (rev) 77.10 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A+AA:+::: GGGGUGCCU : : AGGCUGAG+G :: + 143 CAAAAUUCGUUGGGGUGCCUUGAA-----------------AGAGGCUGAGAGACGCAUU 185 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :: U++ACCC UUGA ACCUGA UC GG UAAU CC GCG 186 --------------CUCGCGUCAACCCAUUGA---ACCUGA-UCCGGGUAAUACCUGCG- 226 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :::+:+U+U ++ U 227 UAGGGA--ACGGAGUUUGGCGCGUC 249 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #28849,sp|AE014467.1|AE014467 Brucella suis 1330 chromosome I section 153 of 190 of the complete genome. ----isReversed: 0 ----hitSequence: AAGCGUGAAACGGUUUUGCAUCAGGAAAUACUUGAAAACUGCCCGGCCAACCCGCUGAACCUGAUCCGGUUUGCACCGGCGGAGGGAUUAGACGCUCGAUGAAC hit 78 : 32 135 (fwd) 23.30 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA : :::GG: U: :: G GA :: :UGA ++ :::: 32 AAGCGUGAAACGGUUUUGCAUCAG---------------GAAAUACUUGAAAA-CUGCC- 74 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :::: ++A:CC: UGA ACCU+A UC:GGUU ACC:GCG 75 ---------------CGGC--CAACCCGCUGA---ACCUGA-UCCGGUUUGCACCGGCG- 112 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGGGA :: :C+ U AU + 113 GAGGGA--UUAGACGCUCGAUGAAC 135 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29007,sp|AE014626.1|AE014626 Bifidobacterium longum NCC2705 section 13 of 202 of the complete genome. ----isReversed: 1 ----hitSequence: ACUGUAAUGCAGGGGAACUCGCAUGUGGUUCGCGAGUUGAGAAAGGCCUGAGCCUGACCCUUAGAACCUGUUGGUUAAGACCAUCGUAGGGAGCAGUAAAUGAGCAAUA hit 79 : 5916 5808 (rev) 49.95 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A U +: ::CAGGGG+:C:::: +G+ ::::G:UGAG++:::::U 5104 ACUGUAAUGCAGGGGAACUCGCA----------UGUGGUUCGCGAGUUGAGAAAGGCCU- 5152 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::: +GACCCUU+GA ACCUG U UGGUUAA ACCA CG 5153 ---------------GAGCC-UGACCCUUAGA---ACCUG--U-UGGUUAAGACCAUCG- 5189 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA G:: : +AU A + UA 5190 UAGGGA--GCAGUAAAUGAGCAAUA 5212 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29052,sp|AE014671.1|AE014671 Bifidobacterium longum NCC2705 section 58 of 202 of the complete genome. ----isReversed: 1 ----hitSequence: CCGAUUCGUAAGGGGUGCUUUAGGCUGAGACGGUAUGUGCCGAACCCUUCGAACCUGUGAGCUAACACUCGCGUAGGGAAUGCGACGGUUGAACUCC hit 80 : 10278 10182 (rev) 62.07 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A+:C: :AGGGGUGC:U +A:GCUGAG+:G:: + 23 CCGAUUCGUAAGGGGUGCUU----------------------UAGGCUGAGACGGUAU-- 58 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::C:++ACCCUU GA ACCUG U :G:UAA :C: GCG 59 ----------------GUGCCGAACCCUUCGA---ACCUG--U-GAGCUAACACUCGCG- 95 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA A: :G:C+ UU A U 96 UAGGGA-AUGCGACGGUUGAACUCC 119 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29110,sp|AE014729.1|AE014729 Bifidobacterium longum NCC2705 section 116 of 202 of the complete genome. ----isReversed: 1 ----hitSequence: ACCGUAACGAACGGGAGCCGUGAGGCUGAGAGGAAGUCGCCAGACUUCGACCGGGGAACUUGACGCGGGUCAUGCCGCCGUAAGGAAUCGUUGUCGCAGAUUUG hit 81 : 1422 1319 (rev) 56.56 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A +::::: :GGG+GCC GGCUGAG+G::::::G 9487 ACCGUAACGAACGGGAGCCGU---------------------GAGGCUGAGAGGAAGUCG 9525 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::::U+GACC: GA AC:UGA :GG:U AU:CC: CG 9526 C-------------CAGACUUCGACCGG-GGA---ACUUGA-CGCGGGUCAUGCCGCCG- 9566 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UA:GGA A:::::+U + A UUU 9567 UAAGGA-AUCGUUGUCGCAGAUUUG 9590 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29111,sp|AE014730.1|AE014730 Bifidobacterium longum NCC2705 section 117 of 202 of the complete genome. ----isReversed: 1 ----hitSequence: GGAGUUGACACGGGAGCUGCCGUUGGGCGGCUGAGAGGAGACUCAUAGUCUCGACCGAUGGAACGUGACCGGAUAAUGCCGGCGCACGGAAAUGUCGCUCUUACCUACC hit 82 : 8718 8610 (rev) 57.02 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 + ++:AC: :GGG+GC::C:+ :G::GCUGAG+GG::+:++ 1585 GGAGUUGACA-CGGGAGCUGCCGU---------------UGGGCGGCUGAGAGGAGACUC 1628 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +:+::CU+GACC: U GA AC U A C:GG:UAAU:CC:GCG 1629 --------------AUAGUCUCGACCGAUGGA---ACGUGA--CCGGAUAAUGCCGGCG- 1668 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 A GGAAA:GU:+CU UUA+ U 1669 CACGGAAAUGUCGCUCUUACCUACC 1693 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29257,sp|AE014913.1|AE014913 Streptococcus mutans UA159 section 61 of 185 of the complete genome. ----isReversed: 1 ----hitSequence: AAAUAUCACAAGGAGUGCUAACCUUAGCUGAGAUUGCAUUUGCAAAAUCCUAUGGACCUGAUCUAGUUAAUACUAGCGUGGGAAUGUGAUUCGUUUCAUGA hit 83 : 8949 8849 (rev) 78.06 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA++A:CAC:AGG:GUGC::: :::GCUGAGA+::::+ 1081 AAAUAUCACAAGGAGUGCUAAC-------------------CUUAGCUGAGAUUGCAU-- 1119 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::::+A+A:CCU UG ACC:GA UCU:GUUAAUAC:AGCG 1120 ----------------UUGCAAAAUCCUAUGG---ACCUGA-UCUAGUUAAUACUAGCG- 1158 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 U:GG+A :GUG:+U +U++ +U A 1159 UGGGAA--UGUGAUUCGUUUCAUGA 1181 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29388,sp|AE015044.1|AE015044 Shigella flexneri 2a str. 301 section 7 of 412 of the complete genome. ----isReversed: 1 ----hitSequence: CCGUUCUCAACGGGGUGCCACGCAAACGCGUGCGCUGAGAAAAUACCCGUCGAACCUGAUCCGGAUAACGCCGGCGAAGGGAUUUGAGGCUC hit 84 : 92 1 (rev) 59.33 bits :::::[[[[[((((,,<<<<<<___________________>>>>.>>,,,,<<<<<<<< 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagag.GCUGAGaggggggu 59 ++C:::::GGGGUGCC:C:+ +A :G:G GCUGAGA++ 9938 CCGUUCUCAACGGGGUGCCACGCAAA-------------CGCGUGcGCUGAGAAA----- 9979 _______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>-- 60 gugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCG 119 A ACCC:U GA ACCU:A UC:GG:UAA :CC:GCG 9980 ----------------------AUACCCGUCGA---ACCUGA-UCCGGAUAACGCCGGCG 10013 ->>>>,,,,]]]]]:::::::::::: 120 uUAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G+ + 10014 -AAGGGA-UUUGAGGCUC-------- 10029 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29576,sp|AE015232.1|AE015232 Shigella flexneri 2a str. 301 section 195 of 412 of the complete genome. ----isReversed: 1 ----hitSequence: CCAAACGACUCGGGGUGCCCUUCUGCGUGAAGGCUGAGAAAUACCCGUAUCACCUGAUCUGGAUAAUGCCAGCGUAGGGAAGUCACGGACCACCAGG hit 85 : 7947 7851 (rev) 73.09 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +AA :AC::GGGGUGCC : + + G : GGCUGAGA+ 2083 CCAAACGACUCGGGGUGCCCUUCUGC-------------GUGAAGGCUGAGAA------- 2122 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U+ ACCUGA UCUGG:UAAU:CCAGCG 2123 ---------------------AUACCCGUAUC---ACCUGA-UCUGGAUAAUGCCAGCG- 2156 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :GU: C+ A 2157 UAGGGA--AGUCACGGACCACCAGG 2179 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #29758,sp|AE015414.1|AE015414 Shigella flexneri 2a str. 301 section 377 of 412 of the complete genome. ----isReversed: 1 ----hitSequence: AAUUUCUUGUCGGAGUGCCUUAACUGGCUGAGACCGUUUAUUCGGGAUCCGCGGAACCUGAUCAGGCUAAUACCUGCGAAGGGAACAAGAGUUAAUCUGCU hit 86 : 5697 5597 (rev) 80.24 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AAU++C:::::GG:GUGCC : : GGCUGAG+::G::+ 5776 AAUUUCUUGUCGGAGUGCCUUA-------------------ACUGGCUGAGACCGUUU-- 5814 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::U::+GA:CC: GA ACCU:A UC:GG:UAAU:CC:GCG 5815 ----------------AUUCGGGAUCCGCGGA---ACCUGA-UCAGGCUAAUACCUGCG- 5853 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G ++U+A+ U 5854 AAGGGA--ACAAGAGUUAAUCUGCU 5876 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30027,sp|AE015685.1|AE015685 Shewanella oneidensis MR-1 section 234 of 457 of the complete genome. ----isReversed: 1 ----hitSequence: UGCCUUUUGGCUGAGACCGUUUAUUCGGGAUCCGUUGAACCUGAUCAGGUUAAAACCUGCGAAGGAAACAAGCAUAAUAACUUC hit 87 : 10697 10614 (rev) 35.83 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 ++::: ::G:G+ C :U A: G 3 UGCCUUUUGGCUGAGACCGUUU-------------------AUUCGG------------- 30 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 GA:C::UUGA ACCU:A UC:GGUUAA ACC:GCG 31 ----------------------GAUCCGUUGA---ACCUGA-UCAGGUUAAAACCUGCG- 63 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGG+A :::+C++ ++A UU 64 AAGGAA--ACAAGCAUAAUAACUUC 86 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30052,sp|AE015710.1|AE015710 Shewanella oneidensis MR-1 section 259 of 457 of the complete genome. ----isReversed: 1 ----hitSequence: UGUUUGCCAAAAUUCGGCAGACUGAGAUGUCAUCAGACGAACCCUUAGAACCUGAUCCGGCUAAUACCGGCGUAGGAAUGGGCCAAUCAACAGCA hit 88 : 12073 11979 (rev) 54.37 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U++:C:::A +::C : : G::UGAG++: :++ 2 UGUUUGCCAAA----AUUCGG---------------------CAGACUGAGAUGUCAU-- 34 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 +: :+++ACCCUU+GA ACCUGA UC:GG:UAAU:CC:GCG 35 ----------------CAGACGAACCCUUAGA---ACCUGA-UCCGGCUAAUACCGGCG- 73 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A :::G:C+AU AA + A 74 UAGGAA--UGGGCCAAUCAACAGCA 96 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30273,sp|AE015936.1|AE015936 Clostridium tetani E88, section 1 of 10 of the complete genome. ----isReversed: 1 ----hitSequence: AUGUAGUGCUAGGGGUGCUAUAUAAGAGCUGAGAAAUGAAUUAUUUAUGAUCAAUUCAUUAACCCUUGUACCUGAACUAGAUAAUUCUAGCGUAGGGAAGCCUUUUAUAGAUAUA hit 89 : 222874 222760 (rev) 61.69 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A +A: :C:AGGGGUGC: ::U :: :GCUGAG+:::G: ++ 77156 AUGUAGUGCUAGGGGUGCUAUAU------------------AAGAGCUGAGAAAUGAAUU 77197 _______._______>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>-- 61 ugaUgcg.aguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCG 119 U G ++ + :U:::++ACCCUU ACCUGA CU:G UAAU C:AGCG 77198 AUUUAUGaUC-----AAUUCAUUAACCCUUGU----ACCUGA-ACUAGAUAAUUCUAGCG 77247 ->>>>,,,,]]]]]:::::::::::: 120 uUAGGGAaAgguggcuauuaauuuua 145 UAGGGA :G: :+U+ UA U UA 77248 -UAGGGA--AGCCUUUUAUAGAUAUA 77270 ----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: AAAUAAAUUUAGGGGAGCUUAUAAAAAUAGGCUGAGAAAGAGAUGUUAUCUCUGACCCUCAUAACCUGAUUUGGCUAAUACCAACGUAGGGAACAUUGUGUAUUGUAGU hit 90 : 273488 273596 (fwd) 78.03 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AA++A::: :AGGGG+GC:U:U +A A:A:GCUGAG+::::: +G 273488 AAAUAAAUUUAGGGGAGCUUAUAAAA---------------AUAGGCUGAGAAAGAGAUG 273532 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 + :::::+GACCCU + A ACCUGA U:UGG:UAAU:CCA:CG 273533 --------------UUAUCUCUGACCCUCAUA---ACCUGA-UUUGGCUAAUACCAACG- 273573 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA : :::+U U++++U 273574 UAGGGA--ACAUUGUGUAUUGUAGU 273596 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30279,sp|AE015942.1|AE015942 Clostridium tetani E88, section 7 of 10 of the complete genome. ----isReversed: 1 ----hitSequence: AUAAAGUUUCAGGGGAGCUGGUUUAUGUCAGCUGAGAGUAAGAACUAAAUUCUUAGACCCUUUAACCUGAUCUGGAUAAUGCCAGCGUAGGGAGAUGGUUUACUAUAUAA hit 91 : 58651 58542 (rev) 69.93 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A +AA + :CAGGGG+GC:: U + ::GCUGAGAG::: :+ 241521 AUAAAGUUUCAGGGGAGCUGGUUUAU---------------GUCAGCUGAGAGUAAGAAC 241565 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 U : :::UAGACCCUUU ACCUGA UCUGG:UAAU:CCAGCG 241566 UA------------AAUUCUUAGACCCUUUA----ACCUGA-UCUGGAUAAUGCCAGCG- 241607 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA G: + +U+ +AU+U+A 241608 UAGGGA--GAUGGUUUACUAUAUAA 241630 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30283,sp|AE016744.1|AE016744 Staphylococcus epidermidis ATCC 12228, section 1 of 9 of the complete genome. ----isReversed: 1 ----hitSequence: UAGUAUCACUAGGGGUGCAAUUCAAUUUGCUGAGAGAAAGUCUACUUUCAACCCUUGAACCUGUUGGUUAGCACCGGCGUAGGAAAGUGAGCAAUAUUGAUA hit 92 : 250277 250176 (rev) 59.02 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A +A:CAC:AGGGGUGC:::U+ A:::GCUGAG+G:: :: 50511 UAGUAUCACUAGGGGUGCAAUUCA-----------------AUUUGCUGAGAGAAAGUC- 50552 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :: ::U++ACCCUU ACCUG U GUUA ACC CG 50553 ---------------UACUUUCAACCCUUGA----ACCUGU-UG--GUUAGCACCGGCG- 50589 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A :GUG:+ A UA+U UA 50590 UAGGAA--AGUGAGCAAUAUUGAUA 50612 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30284,sp|AE016745.1|AE016745 Staphylococcus epidermidis ATCC 12228, section 2 of 9 of the complete genome. ----isReversed: 1 ----hitSequence: UAUAUGCACUAGGGGUGUUUUUUAACUGAGAUGGAUAUCAUCCAAACCCUUUGAACCUGAACUAGCUUAUACUAGCGGAGGAAAGUGUUGAAUCUCAUCU hit 93 : 27312 27213 (rev) 72.33 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AUA+:CAC:AGGGGUG:: : : ::CUGAGA+GG: +U 272931 UAUAUGCACUAGGGGUGUUUU---------------------UUAACUGAGAUGGAUAU- 272968 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :UC+A+ACCCUUUGA ACCU+A CU:G:U AU:C:AGCG 272969 ----------------CAUCCAAACCCUUUGA---ACCUGA-ACUAGCUUAUACUAGCG- 273007 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 +AGG+A :GUG:++A U + +U 273008 GAGGAA--AGUGUUGAAUCUCAUCU 273030 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30285,sp|AE016746.1|AE016746 Staphylococcus epidermidis ATCC 12228, section 3 of 9 of the complete genome. ----isReversed: 1 ----hitSequence: UGAACGCACUAGGGGUGUAUUCUUUACUGAGAUGAGGCCAACCUCAAACCCUUCGAACCUGAUCUAGCUAGUUACUAGCGUAGGAAAGUGUUGUUAUACAUCU hit 94 : 165122 165020 (rev) 68.64 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +A :CAC:AGGGGUG:: + ::CUGAGA+:: :: 138090 UGAACGCACUAGGGGUGUAU-------------------UC-UUUACUGAGAUGAGGCC- 138128 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____.>>>>>-- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAU.aCCaGCG 119 :: ::+A+ACCCUU GA ACCUGA UCU:G:UA U :C:AGCG 138129 ---------------AACCUCAAACCCUUCGA---ACCUGA-UCUAGCUAGUuACUAGCG 138169 ->>>>,,,,]]]]]:::::::::::: 120 uUAGGGAaAgguggcuauuaauuuua 145 UAGG+A :GUG:+++U++A +U 138170 -UAGGAA--AGUGUUGUUAUACAUCU 138192 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30288,sp|AE016749.1|AE016749 Staphylococcus epidermidis ATCC 12228, section 6 of 9 of the complete genome. ----isReversed: 1 ----hitSequence: AUUUGCUACUAGGGGAGCCAAAAGGCUGAGAUGAAUGUAUUCAGACCCUUAUAACCUGAUUUGGUUAAUACCAACGUAGGAAAGUAGUUAUUAACUAUU hit 95 : 244290 244192 (rev) 83.16 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A U+ C:AC:AGGGG+GCC : : GGCUGAGA+::: G 58534 AUUUGCUACUAGGGGAGCCAA---------------------AAGGCUGAGAUGAAUG-- 58570 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :::+AGACCCUU+ A ACCUGA U:UGGUUAAUACCA:CG 58571 ----------------UAUUCAGACCCUUAUA---ACCUGA-UUUGGUUAAUACCAACG- 58609 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGG+A :GU:G+UAUUAA U U 58610 UAGGAA--AGUAGUUAUUAACUAUU 58632 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30289,sp|AE016750.1|AE016750 Staphylococcus epidermidis ATCC 12228, section 7 of 9 of the complete genome. ----isReversed: 0 ----hitSequence: UUUAACCACUGGAAGUGCCUUUGUUUAAGGCUGAGAGUAAAGAACUGACUUUAUAAUUCCUGGAACCUGAUCCAGUUCAUACUGGCGUAGGGAAGUGGCGACGCUCAAUU hit 96 : 293855 293964 (fwd) 73.32 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 UAACCAC::G::GUGCCU::+ ::AGGCUGAG+ :::++: 293855 UUUAACCACUGGAAGUGCCUUUG----------------UUUAAGGCUGAGAGUAAAGAA 293898 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :++::: ++A::C:U GA ACCUGA UC::GUU AUAC::GCG 293899 CU------------GACUUUAUAAUUCCUGGA---ACCUGA-UCCAGUUCAUACUGGCG- 293941 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :GUGGC+A + + U 293942 UAGGGA--AGUGGCGACGCUCAAUU 293964 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30292,sp|AE016755.1|AE016755 Escherichia coli CFT073 section 1 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: CCGUUCUCAACGGGGUGCCACGCAGCCGCGUGCGCUGAGAAAAUACCCGUCGAACCUGAUCCGGAUAACGCCGGCGAAGGGAUUUGAGGCUCCUUCUCAA hit 97 : 79951 79852 (rev) 72.38 bits :::::[[[[[((((,,<<<<<<___________________>>>>.>>,,,,<<<<<<<< 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagag.GCUGAGaggggggu 59 ++C:::::GGGGUGCC:C:+ + :G:G GCUGAGA++ 220459 CCGUUCUCAACGGGGUGCCACGCAGC-------------CGCGUGcGCUGAGAAA----- 220500 _______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>-- 60 gugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCG 119 A ACCC:U GA ACCU:A UC:GG:UAA :CC:GCG 220501 ----------------------AUACCCGUCGA---ACCUGA-UCCGGAUAACGCCGGCG 220534 ->>>>,,,,]]]]]:::::::::::: 120 uUAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G+ + ++ U +A 220535 -AAGGGA-UUUGAGGCUCCUUCUCAA 220558 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30300,sp|AE016763.1|AE016763 Escherichia coli CFT073 section 9 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: CCAAACGACUCGGGGUGCCCUUCUUUGUGAAGGCUGAGAAAUACCCGUAUCACCUGAUCUGGAUAAUGCCAGCGUAGGGAAGUCACGGACCACCAGG hit 98 : 55154 55058 (rev) 72.37 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +AA :AC::GGGGUGCC : + G : GGCUGAGA+ 245977 CCAAACGACUCGGGGUGCCCUUCUUU-------------GUGAAGGCUGAGAA------- 246016 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U+ ACCUGA UCUGG:UAAU:CCAGCG 246017 ---------------------AUACCCGUAUC---ACCUGA-UCUGGAUAAUGCCAGCG- 246050 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :GU: C+ A 246051 UAGGGA--AGUCACGGACCACCAGG 246073 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30307,sp|AE016770.1|AE016770 Escherichia coli CFT073 section 16 of 18 of the complete genome. ----isReversed: 1 ----hitSequence: AAUUUCUUGUCGGAGUGCCUUAACUGGCUGAGACCGUUUAUUCGGGAUCCGCGGAACCUGAUCAGGCUAAUACCUGCGAAGGGAACAAGAGUUAAUCUGCU hit 99 : 193697 193597 (rev) 80.24 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 AAU++C:::::GG:GUGCC : : GGCUGAG+::G::+ 111046 AAUUUCUUGUCGGAGUGCCUUA-------------------ACUGGCUGAGACCGUUU-- 111084 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::U::+GA:CC: GA ACCU:A UC:GG:UAAU:CC:GCG 111085 ----------------AUUCGGGAUCCGCGGA---ACCUGA-UCAGGCUAAUACCUGCG- 111123 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G ++U+A+ U 111124 AAGGGA--ACAAGAGUUAAUCUGCU 111146 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30321,sp|AE016785.1|AE016785 Pseudomonas putida KT2440 section 12 of 21 of the complete genome. ----isReversed: 0 ----hitSequence: AGCGCCACCAAGGGGAGCCCGGCAAUGGGCUGAGAAACCGCUGAACGCUACAGCGCGGUGACCCUUCGAACCUGAUCCGGAUCAUGCCGGCGAAGGGAUGGGGCUUGUAACCUGC hit 100 : 288775 288889 (fwd) 67.30 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A C :C:AGGGG+GCC: :+ : :GGCUGAG+ ::G:+G 288775 AGCGCCACCAAGGGGAGCCCGGCA-----------------AUGGGCUGAGAAACCGCUG 288817 _______._______>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>-- 61 ugaUgcg.aguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCG 119 A+ U C+:C:: +GACCCUU GA ACCU:A UC:GG:U AU:CC:GCG 288818 -------aACGCUACAGCGCGGUGACCCUUCGA---ACCUGA-UCCGGAUCAUGCCGGCG 288866 ->>>>,,,,]]]]]:::::::::::: 120 uUAGGGAaAgguggcuauuaauuuua 145 :AGGGA :G: GCU++UAA U 288867 -AAGGGA--UGGGGCUUGUAACCUGC 288889 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30328,sp|AE016792.1|AE016792 Pseudomonas putida KT2440 section 19 of 21 of the complete genome. ----isReversed: 1 ----hitSequence: AUGUUCUUGUCGGGGUGCCUUGAAGCAAAGGCUGAGAUCGCAGAGGUGCGGAUCCCGUUGAACCUGAUCAGGUUAGCGCCUGCGUAGGGAACAAGAUUGCUCGCCUU hit 101 : 163969 163863 (rev) 78.21 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A ++C:::::GGGGUGCCU:: G ::AGGCUGAG++::: G+ 137740 AUGUUCUUGUCGGGGUGCCUUGAA---------------GCAAAGGCUGAGAUCGCAGA- 137783 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 G :::+++ CCC:UUGA ACCUGA UC:GG:UA :CC:GCG 137784 ---------------GGUGCGGAUCCCGUUGA---ACCUGA-UCAGGUUAGCGCCUGCG- 137823 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA ::::G U++ +++ U 137824 UAGGGA--ACAAGAUUGCUCGCCUU 137846 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30333,sp|AE016799.1|AE016799 Vibrio vulnificus CMCP6 chromosome I section 3 of 11 of the complete sequence. ----isReversed: 1 ----hitSequence: AACCACUCAUCGGGGCGCUUAACUGUGGUGUUUUAUUGCAUCGCAGUGGCUGAGACUAGGCAAAGGCCUAGGACCCGUAAACCUGAACCAGAUAAUGCUGGCGUAGGAAUUGAGUCGGGAUUAAUU hit 102 : 119184 119059 (rev) 52.93 bits :::::[[[[[((((,,<<<<<<__________..._________>>>>>>,,,,<<<<<< 1 aauaaccaccaGGGGUGCcucuugcaauUuUc...AaAaguggaagagGCUGAGaggggg 57 AA AC::: :GGGG GC: :+ +U U+ + +U G : :GCUGAG+ :: : 182052 AACCACUCAUCGGGGCGCUUAACUGUGGUGUUuuaUUGCAUCGCAGUGGCUGAGACUAGG 182111 <<_______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>> 58 gugugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaG 117 :: ::: :: +GACCC:U+ ACCUGA C::G:UAAU:C::G 182112 CAA--------------AGGCCUAGGACCCGUAA----ACCUGA-ACCAGAUAAUGCUGG 182152 --->>>>,,,,]]]]]:::::::::::: 118 CGuUAGGGAaAgguggcuauuaauuuua 145 CG UAGG+A :::G+ + A+U+ U 182153 CG-UAGGAA--UUGAGUCGGGAUUAAUU 182177 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30334,sp|AE016800.1|AE016800 Vibrio vulnificus CMCP6 chromosome I section 4 of 11 of the complete sequence. ----isReversed: 1 ----hitSequence: UUUCACUUGUCGGAGUGCCUUAGGGCUGAGACCGUUUAUUCGGGAUCCGUUGAACCUGAUCAGGUUAGAACCUGCGAAGGGAACAAGAGAAGAUACUUG hit 103 : 67341 67243 (rev) 77.18 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U AC:::::GG:GUGCC : : GGCUGAG+::G::+ 232598 UUUCACUUGUCGGAGUGCCUU---------------------AGGGCUGAGACCGUUU-- 232634 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::U::+GA:CC:UUGA ACCU:A UC:GGUUA ACC:GCG 232635 ----------------AUUCGGGAUCCGUUGA---ACCUGA-UCAGGUUAGAACCUGCG- 232673 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G +A A+ UU 232674 AAGGGA--ACAAGAGAAGAUACUUG 232696 ----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: CCAACAUAGUCGGGGAGCCUUAUCGGCUGAGAUCGCCACGCGAGACCCGUUGAACCUGAUUCAGUUAAUACUGACGUAGGGAACUAUUACGCGCAUAUA hit 104 : 68647 68549 (rev) 78.95 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 +A ::A:::GGGG+GCC A + GGCUGAGA+::: + 267536 CCAACAUAGUCGGGGAGCCU-------------------UA-UCGGCUGAGAUCGCCA-- 267573 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 :::+AGACCC:UUGA ACCUGA U:::GUUAAUAC:::CG 267574 -----------------CGCGAGACCCGUUGA---ACCUGA-UUCAGUUAAUACUGACG- 267611 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA ::U::++ + + U UA 267612 UAGGGA--ACUAUUACGCGCAUAUA 267634 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30352,sp|AE016834.1|AE016834 Salmonella enterica subsp. enterica serovar Typhi Ty2, section 1 of 16 of the complete genome. ----isReversed: 1 ----hitSequence: CCGAACUCAACGGGGUGCCGCGCUCAUGCGCGCGCUGAGAAAAUACCCGUCGAACCUGAUCCGGAUAAUGCCGGCGAAGGGAUUUGAGGCUACCUCUCAA hit 105 : 128207 128108 (rev) 76.13 bits :::::[[[[[((((,,<<<<<<___________________>>>>.>>,,,,<<<<<<<< 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagag.GCUGAGaggggggu 59 AAC:::::GGGGUGCC:C:+ CA :G:G GCUGAGA++ 171963 CCGAACUCAACGGGGUGCCGCGCUCA-------------UGCGCGcGCUGAGAAA----- 172004 _______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>-- 60 gugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCG 119 A ACCC:U GA ACCU:A UC:GG:UAAU:CC:GCG 172005 ----------------------AUACCCGUCGA---ACCUGA-UCCGGAUAAUGCCGGCG 172038 ->>>>,,,,]]]]]:::::::::::: 120 uUAGGGAaAgguggcuauuaauuuua 145 :AGGGA ::::G+ + + U +A 172039 -AAGGGA-UUUGAGGCUACCUCUCAA 172062 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30354,sp|AE016836.1|AE016836 Salmonella enterica subsp. enterica serovar Typhi Ty2, section 3 of 16 of the complete genome. ----isReversed: 0 ----hitSequence: CUUGACGACUCGGGGUGCCCUUCUUUGUGAAGGCUGAGAAAUACCCGUACCACCUGAUCUGGAUAAUGCCAGCGUAGGGAAGUCUGACACUGCUCGU hit 106 : 195900 195996 (fwd) 68.24 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 U A :AC::GGGGUGCC : + G : GGCUGAGA+ 195900 CUUGACGACUCGGGGUGCCCUUCUUU-------------GUGAAGGCUGAGAA------- 195939 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 A ACCC:U+ ACCUGA UCUGG:UAAU:CCAGCG 195940 ---------------------AUACCCGUACC---ACCUGA-UCUGGAUAAUGCCAGCG- 195973 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 UAGGGA :GU: ++ + U 195974 UAGGGA--AGUCUGACACUGCUCGU 195996 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30363,sp|AE016845.1|AE016845 Salmonella enterica subsp. enterica serovar Typhi Ty2, section 12 of 16 of the complete genome. ----isReversed: 0 ----hitSequence: ACGAAGCCAACGAAGAGGCAGCGCGAAGGAUGAAGUGGAAAAGGCUGAGACCGUUAAUUCGGGAUCCGCGGAACCUGAUCAGGUUAAUACCUGCGAAGGGAACAAGAGUAAUUCUGCUU hit 107 : 248940 249058 (fwd) 61.11 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 A AA C : :G::G+G C ++ AA++ + AAGUGGA G CUGAG+::G::+ 248940 ACGAAGCCAACGAAGAGGCAGCGCGAAGGA--UGAAGUGGAAAAGGCUGAGACCGUUA-- 248995 ______________>>>>>>>>,,)))),,,,,,,,<<<<---<<<<<____>>>>>--- 61 ugaUgcgaguuuucggcuucuagACCCuUuGAugaACCUGAGUCuGGuUAAUaCCaGCGu 120 ::U::+GA::C: GA ACCU:A UC:GGUUAAUACC:GCG 248996 ----------------AUUCGGGAUCCGCGGA---ACCUGA-UCAGGUUAAUACCUGCG- 249034 >>>>,,,,]]]]]:::::::::::: 121 UAGGGAaAgguggcuauuaauuuua 145 :AGGGA A : G +UA U++U U 249035 AAGGGA-ACAAGAGUAAUUCUGCUU 249058 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #30391,sp|AE016874.1|AE016874 Pseudomonas syringae pv. tomato str. DC3000 section 19 of 21 of the complete genome. ----isReversed: 1 ----hitSequence: GCGUUCUUGUCGGGGUGCCUUGCUAUGAGGCUGAGAUCGGUUAAACCGGAUCCCGUUGAACCUGAUCAGGUUAGCGCCUGCGUAGGGAACAAGAUUUCUCGUCUC hit 108 : 27758 27654 (rev) 75.15 bits :::::[[[[[((((,,<<<<<<___________________>>>>>>,,,,<<<<<<<<_ 1 aauaaccaccaGGGGUGCcucuugcaauUuUcAaAaguggaagagGCUGAGaggggggug 60 ++C:::::GGGGUGCCU + A AGGCUGAG++:: :++ 282272 GCGUUCUUGUCGGGGUGCCUUGC---