Params: ./cmzasha --no-stderr --filter 120 4 Rfam/cm/RF00170.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00170_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin Build: release Host: boudin.cs.washington.edu pid: 7713 ----cmFile: Rfam/cm/RF00170.cm (global) ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----sequence: #5462,sp|AC007694.6|AC007694 Drosophila melanogaster, chromosome 3R, region 89A-89A, BAC clone BACR17O24, complete sequence. ----isReversed: 0 ----hitSequence: UAUCUUUAGCGUCGAGUCUUUGGGUUAAGUCUACCACUUGUUUCGUUCGAUUGAUUUAUUGAAUAGU hit 0 : 38187 38253 (fwd) 10.07 bits ::::::::::::::.:::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGaua.GGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 +UCUUUAGCG+ G +UU+GGGU A+GUCU: : ::GUUUC:: : : U AUUU 38187 UAUCUUUAGCGUCGaGUCUUUGGGUUAAGUCUACCA-CUUGUUUCGUU-CGAU-UGAUUU 38243 :::::::::: 60 AuUGAacGUu 69 AUUGAA+ U 38244 AUUGAAUAGU 38253 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----sequence: #6736,sp|AC093547.3|AC093547 Drosophila melanogaster 3L BAC RP98-2K11 (Roswell Park Cancer Institute Drosophila BAC Library) complete sequence. ----isReversed: 0 ----hitSequence: GCAGAUUAGUGUUUGGAUUAAAAAAAAUUGAGUUAAACUCUACUCGGUAGUUGUCAGGUUCUGAACCAUUGAAAGUA hit 1 : 71367 71443 (fwd) 4.07 bits :::::::::::::::::::::..........<<<<<-----<<<<-<<<<___>>>>->> 1 aCuCUUUAGCGauaGGauUAg..........gguuacGUCUggucGggcgUUUcgccAga 50 +C+ UUAG G+U GGAUUA : U A+ UCU: C G : UU: C G 71367 GCAGAUUAGUGUUUGGAUUAAaaaaaauugaGUUAAACUCUACUC-GGUAGUUGUCA-GG 71424 >>->>>>>::::::::::: 51 ccCuaauuuAuUGAacGUu 69 :CU A :+AUUGAA GU 71425 UUCUGAACCAUUGAAAGUA 71443 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----sequence: #6984,sp|AC129948.3|AC129948 Branchiostoma floridae, clone -33B4, complete sequence. ----isReversed: 0 ----hitSequence: UAACAUUAGGGUUAGGCCUAGGGUUGUAAUUAUCUGACUGAAAGUACCAGUAAGACUUGACAGACUGCUUGUG hit 2 : 4704 4776 (fwd) 4.13 bits :::::::::::::::::::::......<<<<<-----<<<<-<<<<___>>>>->>>>-> 1 aCuCUUUAGCGauaGGauUAg......gguuacGUCUggucGggcgUUUcgccAgaccCu 54 ++C UUAG G+UAGG++UAG ::U A UCUG:::G:::GU C:::A:::C U 4704 UAACAUUAGGGUUAGGCCUAGgguuguAAUUA--UCUGACUGAAAGUACCAGUAAGACUU 4761 >>>>::::::::::: 55 aauuuAuUGAacGUu 69 A:: A UG ++GU 4762 GACAGACUGCUUGUG 4776 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----sequence: #7614,sp|AE003598.2|AE003598 Drosophila melanogaster chromosome 3L, section 79 of 83 of the complete sequence. ----isReversed: 0 ----hitSequence: GCAGAUUAGUGUUUGGAUUAAAAAAAAUUGAGUUAAACUCUACUCGGUAGUUGUCAGGUUCUGAACCAUUGAAAGUA hit 3 : 11735 11811 (fwd) 4.07 bits :::::::::::::::::::::..........<<<<<-----<<<<-<<<<___>>>>->> 1 aCuCUUUAGCGauaGGauUAg..........gguuacGUCUggucGggcgUUUcgccAga 50 +C+ UUAG G+U GGAUUA : U A+ UCU: C G : UU: C G 11735 GCAGAUUAGUGUUUGGAUUAAaaaaaauugaGUUAAACUCUACUC-GGUAGUUGUCA-GG 11792 >>->>>>>::::::::::: 51 ccCuaauuuAuUGAacGUu 69 :CU A :+AUUGAA GU 11793 UUCUGAACCAUUGAAAGUA 11811 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----sequence: #7725,sp|AE003709.3|AE003709 Drosophila melanogaster chromosome 3R, section 47 of 118 of the complete sequence. ----isReversed: 0 ----hitSequence: UAUCUUUAGCGUCGAGUCUUUGGGUUAAGUCUACCACUUGUUUCGUUCGAUUGAUUUAUUGAAUAGU hit 4 : 93174 93240 (fwd) 10.07 bits ::::::::::::::.:::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGaua.GGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 +UCUUUAGCG+ G +UU+GGGU A+GUCU: : ::GUUUC:: : : U AUUU 93174 UAUCUUUAGCGUCGaGUCUUUGGGUUAAGUCUACCA-CUUGUUUCGUU-CGAU-UGAUUU 93230 :::::::::: 60 AuUGAacGUu 69 AUUGAA+ U 93231 AUUGAAUAGU 93240 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/inv02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv02.dat.fasta.gz ----sequence: #44183,sp|Z81088.1|CEF53F1 Caenorhabditis elegans cosmid F53F1 ----isReversed: 1 ----hitSequence: CCAUUUUAGCACCUGCAUUAUCUCCUAUCACGUAUUUAUACUUUGUUCGACCGUAUCGUCAGAACGUGAAGAGAUUUAUUGCA hit 5 : 36233 36151 (rev) 5.08 bits :::::::::::::::::::::............<<<<<.-----<<<<-<<<<___>>>> 1 aCuCUUUAGCGauaGGauUAg............gguua.cGUCUggucGggcgUUUcgcc 47 C+ UUUAGC G AUUA ::UU: + U UG:UCG: CGU UCG : 3246 CCAUUUUAGCACCUGCAUUAUcuccuaucacguAUUUAuACUUUGUUCGACCGUAUCGUC 3305 ->>>>-.>>>>>::::::::::: 48 AgaccC.uaauuuAuUGAacGUu 69 AGA:C :AA:: AUU A++G 3306 AGAACGuGAAGAGAUUUAUUGCA 3328 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/inv03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv03.dat.fasta.gz ----sequence: #16019,sp|AL929357.1|PFA929357 Plasmodium falciparum strain 3D7, chromosome 9; segment 3/5 ----isReversed: 0 ----hitSequence: ACAUUUUAUCGUCGUAUGAGGUAAGAUGUCAAAAUGUUGAGGGAUUUUAUCCUUCAAUAAACUAUUCAUUGUU hit 6 : 87314 87386 (fwd) 4.37 bits :::::::::::::::::::::......<<<<<.-----<<<<-<<<<___>>>>->>>>- 1 aCuCUUUAGCGauaGGauUAg......gguua.cGUCUggucGggcgUUUcgccAgaccC 53 AC+ UUUA CG+ G AU+AG U:A + U U:G: GG::UUU::CC :C: 87314 ACAUUUUAUCGUC-GUAUGAGguaagaUGUCAaAAUGUUGAG-GGAUUUUAUCC-UUCAA 87370 >>>>>::::::::::: 54 uaauuuAuUGAacGUu 69 U:A UAUU A++GUU 87371 UAAACUAUUCAUUGUU 87386 ----endhit ----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/mus.dat.fasta.gz ----sequence: #4727,sp|AC069561.37|AC069561 Mus musculus chromosome 9 clone rp23-263o15 strain C57BL/6J, complete sequence. ----isReversed: 0 ----hitSequence: GCUCUAUAGCAGCACCCGGUUUAAGGCUAUAACUUUGAUCAGUCUAUAGCCAGUCUUUAACUCAAGGCAUGUU hit 7 : 134593 134665 (fwd) 4.27 bits ::::::::::::::...:::::::<<<<<.-----<<<<-<<<<___>>>>->>>>->>> 1 aCuCUUUAGCGaua...GGauUAggguua.cGUCUggucGggcgUUUcgccAgaccCuaa 56 +CUCU UAGC A GG UUA G::UA + + U G: :G: U U :C:A :C UA: 134593 GCUCUAUAGCAGCAcccGGUUUAAGGCUAuAACUUUGAUCAGUCUAUAGCCAGUCUUUAA 134652 >>::::::::::: 57 uuuAuUGAacGUu 69 :U+A G A+GUU 134653 CUCAAGGCAUGUU 134665 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #7482,sp|AC132600.3|AC132600 Mus musculus chromosome 3 clone RP24-134A5, complete sequence. ----isReversed: 0 ----hitSequence: AAUUUUUAAGGUUAUGGAUGUCUAAUAAGCAUUUGGGGUAUGUUUAGACUUCUAUUACAUAUGAAUUGUU hit 8 : 49709 49778 (fwd) 4.11 bits ::::::::::::::.:::::::.<<<<<.-----<<<<-<<<<___>>>>->>>>->>>> 1 aCuCUUUAGCGaua.GGauUAg.gguua.cGUCUggucGggcgUUUcgccAgaccCuaau 57 A+U UUUA G+UA GGAU++ ::U:A C U U G: ::::UUU:::: :C U:A: 49709 AAUUUUUAAGGUUAuGGAUGUCuAAUAAgCAUUUGGGG-UAUGUUUAGAC-UUCUAUUAC 49766 >::::::::::: 58 uuAuUGAacGUu 69 :UAU A++GUU 49767 AUAUGAAUUGUU 49778 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #24838,sp|AL669834.10|AL669834 Mouse DNA sequence from clone RP23-114O4 on chromosome 4 ----isReversed: 1 ----hitSequence: UCACUUUCUAGUCAGGAUUACUAGAAAGGUAAGCUCUUGCCUGUGUUUGGCUUCUCUCUUCUACUGAACAUA hit 9 : 3038 2967 (rev) 4.38 bits :::::::::::::::::::::......<<<<<-----<<<<-<<<<___>>>>->>>>-> 1 aCuCUUUAGCGauaGGauUAg......gguuacGUCUggucGggcgUUUcgccAgaccCu 54 C+CUUU G+ AGGAUUA :G: A UCU G:C :G: UUU :C: :C CU 144211 UCACUUUCUAGUCAGGAUUACuagaaaGGUAAGCUCUUGCC-UGUGUUUGGCU--UCUCU 144267 >>>>::::::::::: 55 aauuuAuUGAacGUu 69 :U:UA UGAAC U 144268 CUUCUACUGAACAUA 144282 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #25068,sp|AL671877.15|AL671877 Mouse DNA sequence from clone RP23-214E3 on chromosome 3 ----isReversed: 0 ----hitSequence: UCACUUUGGGGAAAUGCCUAUGCAAGUCAAGUCUUAAGUCAUUUUUGGAGAUUGAUUGAUUGAUUGAUUGAU hit 10 : 125984 126055 (fwd) 5.82 bits :::::::::::::::::::::...<<<<<-----<<<<-<<<<___>>>>->>>>->>>> 1 aCuCUUUAGCGauaGGauUAg...gguuacGUCUggucGggcgUUUcgccAgaccCuaau 57 C+CUUU G GA A G++UA :GU A+GUCU::: :::UUU::: A ::: U AU 125984 UCACUUUGGGGAAAUGCCUAUgcaAGUCAAGUCUUAAGUCAUUUUUGGAGAUUGAUUGAU 126043 >::::::::::: 58 uuAuUGAacGUu 69 : AUUGA++G U 126044 UGAUUGAUUGAU 126055 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #26334,sp|AL808102.8|AL808102 Mouse DNA sequence from clone RP23-192O6 on chromosome 2 ----isReversed: 0 ----hitSequence: UCUUUCUAGAGAUAGGGUUUGAUACACAGCAAAAUAUGGUAGGAAGUUUCCACAGCCCUUAUUUAACUGAGUGUG hit 11 : 172691 172765 (fwd) 6.47 bits :::::::::::::::::::::......<<<<<-----<<<<-<<<<___>>>>->>>>-> 1 aCuCUUUAGCGauaGGauUAg......gguuacGUCUggucGggcgUUUcgccAgaccCu 54 CU U UAG GAUAGG UU+G :G: A+ U UGG GG::GUUUC::CA CC U 172691 UCUUUCUAGAGAUAGGGUUUGauacacAGCAAAAUAUGGUAGGAAGUUUCCACAGCCCUU 172750 >>>>::::::::::: 55 aauuuAuUGAacGUu 69 :U: A UGA++GU 172751 AUUUAACUGAGUGUG 172765 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99800,sp|AF422881.1|AF422881 Octodon degus clone BM727 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAACGGCUUGACGAGGAUUUAACUGUCUCUUGCUUAUAGUCUGUG hit 12 : 73 140 (fwd) 4.88 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::ACG CU G:CG:G :UUU: C: G:C CU::+:U 73 GUUCUUUAAAUAA-GGACUAGuAUGAACGGCUUGACGAGGAUUUAACU-GUCUCUUGCUU 130 :::::::::: 60 AuUGAacGUu 69 AU G +GU 131 AUAGUCUGUG 140 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99804,sp|AF422885.1|AF422885 Clyomys laticeps clone CIT 1235 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUACUUAUAGUCAGUG hit 13 : 97 164 (fwd) 5.82 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 97 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUACUU 154 :::::::::: 60 AuUGAacGUu 69 AU G GU 155 AUAGUCAGUG 164 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99807,sp|AF422888.1|AF422888 Euryzygomatomys guiara clone SU 73 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUACUUACAGUCAGUG hit 14 : 101 168 (fwd) 4.70 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 101 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUACUU 158 :::::::::: 60 AuUGAacGUu 69 A G GU 159 ACAGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99810,sp|AF422891.1|AF422891 Lonchothrix emiliae clone INPA 2472 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUACUUACGGUCAGUG hit 15 : 100 167 (fwd) 4.53 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 100 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUACUU 157 :::::::::: 60 AuUGAacGUu 69 A G GU 158 ACGGUCAGUG 167 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99811,sp|AF422892.1|AF422892 Mesomys occultus clone JUR 501 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUACUUAUGGUCAGUG hit 16 : 101 168 (fwd) 5.65 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 101 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUACUU 158 :::::::::: 60 AuUGAacGUu 69 AU G GU 159 AUGGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99812,sp|AF422893.1|AF422893 Mesomys occultus clone MNFS 201 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUACUUAUGGUCAGUG hit 17 : 101 168 (fwd) 5.65 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 101 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUACUU 158 :::::::::: 60 AuUGAacGUu 69 AU G GU 159 AUGGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99813,sp|AF422894.1|AF422894 Mesomys hispidus clone MNFS 436 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUACUUACGGUCAGUG hit 18 : 101 168 (fwd) 4.53 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 101 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUACUU 158 :::::::::: 60 AuUGAacGUu 69 A G GU 159 ACGGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99814,sp|AF422895.1|AF422895 Mesomys hispidus clone MNFS 745 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUACUUACGGUCAGUG hit 19 : 101 168 (fwd) 4.53 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 101 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUACUU 158 :::::::::: 60 AuUGAacGUu 69 A G GU 159 ACGGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99818,sp|AF422899.1|AF422899 Trinomys yonenagae clone PEU 880027 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUGCUUACAGUCAGUG hit 20 : 102 169 (fwd) 4.70 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 102 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUGCUU 159 :::::::::: 60 AuUGAacGUu 69 A G GU 160 ACAGUCAGUG 169 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99819,sp|AF422900.1|AF422900 Trinomys paratus clone YL 34 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAGGGACUAGUAUGAAAGGCUAGACGAGGGUUUAACUGUCUCCUGCUUACAGUCAGUG hit 21 : 101 168 (fwd) 4.37 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+:: +G CU:G:CG:G :UUU: C: G:C:C ::+:U 101 GUUCUUUAAAUAG-GGACUAGuAUGAAAGGCUAGACGAGGGUUUAACU-GUCUCCUGCUU 158 :::::::::: 60 AuUGAacGUu 69 A G GU 159 ACAGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99822,sp|AF422903.1|AF422903 Trinomys eliasi clone ML 141 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAGGGACUAGUAUGAAAGGCUAGACGAGGGUUUAACUGUCUCCUGCUUACAGUCAGUG hit 22 : 101 168 (fwd) 4.37 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+:: +G CU:G:CG:G :UUU: C: G:C:C ::+:U 101 GUUCUUUAAAUAG-GGACUAGuAUGAAAGGCUAGACGAGGGUUUAACU-GUCUCCUGCUU 158 :::::::::: 60 AuUGAacGUu 69 A G GU 159 ACAGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99823,sp|AF422904.1|AF422904 Trinomys setosus denigratus clone MNRJ 31441 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial pro ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUGCUUAUAGUCAGUG hit 23 : 101 168 (fwd) 5.82 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 101 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUGCUU 158 :::::::::: 60 AuUGAacGUu 69 AU G GU 159 AUAGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99824,sp|AF422905.1|AF422905 Trinomys setosus elegans clone MNRJ 31448 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial produc ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUGCUUAUAGUCAGUG hit 24 : 101 168 (fwd) 5.82 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 101 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUGCUU 158 :::::::::: 60 AuUGAacGUu 69 AU G GU 159 AUAGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #99825,sp|AF422906.1|AF422906 Trinomys setosus setosus clone AL 3072 16S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product. ----isReversed: 0 ----hitSequence: GUUCUUUAAAUAAGGACUAGUAUGAAAGGCUUGACGAGGGUUUAACUGUCUCUUGCUUAUAGUCAGUG hit 25 : 101 168 (fwd) 5.82 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 + UCUUUA A GGA+UAG :+::A+G CU G:CG:G :UUU: C: G:C CU::+:U 101 GUUCUUUAAAUAA-GGACUAGuAUGAAAGGCUUGACGAGGGUUUAACU-GUCUCUUGCUU 158 :::::::::: 60 AuUGAacGUu 69 AU G GU 159 AUAGUCAGUG 168 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----sequence: #200158,sp|X03793.1|MINCURF2 Neurospora crassa mitochondrial URF downstream of tRNA-Met(m) gene ----isReversed: 0 ----hitSequence: UUUCUUUUGCGGGUAUUCCGCCUCUUGUAGGGUUUUUUGCCAAACAGAUGGUAUUGAGUGCU hit 26 : 1408 1469 (fwd) 4.99 bits :::::::::::::::::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>:: 1 aCuCUUUAGCGauaGGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuuA 60 UCUUU GCG G AUU : ::: UCU:GU GGG::UUU::CCA AC: ::: :UA 1408 UUUCUUUUGCGG--GUAUU--CCGCC--UCUUGUAGGGUUUUUUGCCAAACA-GAUGGUA 1460 ::::::::: 61 uUGAacGUu 69 UUGA++G U 1461 UUGAGUGCU 1469 ----endhit ----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: #115331,sp|AJ531611.1|ATH531611 Arabidopsis thaliana T-DNA flanking sequence, left border, clone 238D09 ----isReversed: 0 ----hitSequence: AAUUGUUAUCGUUGGGACAUGAAUAAGAUCUGGAUCUUGUAUCGGAGAUCAGUUUAUCAAGUAGAAUU hit 27 : 635 702 (fwd) 5.31 bits :::::::::::::::::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>:: 1 aCuCUUUAGCGauaGGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuuA 60 A+U UUA CG+U GGA+ +G::::A UCU G:: ::GU UC:: ::C U::::+A 635 AAUUGUUAUCGUUGGGACAUGAAUAAGAUCUGGAU-CUUGUAUCGGAGAUCAGUUUAUCA 693 ::::::::: 61 uUGAacGUu 69 A+ UU 694 AGUAGAAUU 702 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #11418,sp|AB079134.1|AB079134 Vibrio parahaemolyticus retron element and yabA, orf560, orf218 genes for reverse transcriptase, hypothetical ATP-binding prote ----isReversed: 0 ----hitSequence: GCUCUUUAGCUUAGGACGAAUUUCGUCUAGUCGGGUGAUUAGCCAGACUCUAACUUAUUGAACGGG hit 28 : 692 757 (fwd) 28.24 bits :::::::::::::::::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>:: 1 aCuCUUUAGCGauaGGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuuA 60 +CUCUUUAGC + GGA++ ::UU+CGUCU:GUCGGG:: UU::CCAGAC:C+AA::UA 692 GCUCUUUAGCUUA-GGACG--AAUUUCGUCUAGUCGGGUGAUUAGCCAGACUCUAACUUA 748 ::::::::: 61 uUGAacGUu 69 UUGAACG 749 UUGAACGGG 757 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #19082,sp|AE004309.1|AE004309 Vibrio cholerae chromosome I, section 217 of 251 of the complete chromosome. ----isReversed: 0 ----hitSequence: GCUCUUUAGCGAAUGGACUACACAUAUUAGUCUAGUCGGGCGUUUAGCCAGACUGAAAUUUAUUGAACGAC hit 29 : 1945 2015 (fwd) 32.92 bits :::::::::::::::::::::..<<<<<-----<<<<-<<<<___>>>>->>>>->>>>> 1 aCuCUUUAGCGauaGGauUAg..gguuacGUCUggucGggcgUUUcgccAgaccCuaauu 58 +CUCUUUAGCGA GGA+UA :++U++GUCU:GUCGGGC:UUU:GCCAGAC: +A++: 1945 GCUCUUUAGCGAAUGGACUACacAUAUUAGUCUAGUCGGGCGUUUAGCCAGACUGAAAUU 2004 ::::::::::: 59 uAuUGAacGUu 69 UAUUGAACG 2005 UAUUGAACGAC 2015 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #21444,sp|AE006696.1|AE006696 Sulfolobus solfataricus section 55 of 272 of the complete genome. ----isReversed: 0 ----hitSequence: UCUUCUUUUCGACGAGGCUAUAUUCUUUAACCUCUCUUCGUACUUUUCGACGAGGCUUAUCUUAUUGAUUAUU hit 30 : 3878 3950 (fwd) 4.06 bits :::::::::::::::::::::....<<<<<-----<<<<-<<<<___>>>>->>>>->>> 1 aCuCUUUAGCGauaGGauUAg....gguuacGUCUggucGggcgUUUcgccAgaccCuaa 56 CU UU CGA G +UA +U:AC UCU :UCG::C:UUU:G:: GA: CU:A 3878 UCUUCUUUUCGACGAGGCUAUauucUUUAACCUCUCUUCGUACUUUUCGAC-GAGGCUUA 3936 >>.::::::::::: 57 uu.uAuUGAacGUu 69 + UAUUGA++ UU 3937 UCuUAUUGAUUAUU 3950 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----sequence: #23604,sp|AE008879.1|AE008879 Salmonella typhimurium LT2, section 183 of 220 of the complete genome. ----isReversed: 0 ----hitSequence: ACUCUUUAGCGUUAGGCUUUGAUUUAUAGCCUUGUCGAGCGUUUCGCCAGACACUAACUUAUUGAGUACU hit 31 : 8721 8790 (fwd) 37.61 bits :::::::::::::::::::::<<<<<.-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAggguua.cGUCUggucGggcgUUUcgccAgaccCuaauuu 59 ACUCUUUAGCG+UAGG+UU+G:+UUA +G+CU:GUCG:GCGUUUCGC:AGAC:CUAA+:U 8721 ACUCUUUAGCGUUAGGCUUUGAUUUAuAGCCUUGUCGAGCGUUUCGCCAGACACUAACUU 8780 :::::::::: 60 AuUGAacGUu 69 AUUGA++ U 8781 AUUGAGUACU 8790 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #8766,sp|AF261825.2|AF261825 Salmonella enterica subsp. enterica serovar Typhimurium genomic island I, complete sequence. ----isReversed: 0 ----hitSequence: ACUCUUUAGCGUUAGGCUUUGAUUUAUAGCCUUGUCGAGCGUUUCGCCAGACACUAACUUAUUGAGUACU hit 32 : 44164 44233 (fwd) 37.61 bits :::::::::::::::::::::<<<<<.-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAggguua.cGUCUggucGggcgUUUcgccAgaccCuaauuu 59 ACUCUUUAGCG+UAGG+UU+G:+UUA +G+CU:GUCG:GCGUUUCGC:AGAC:CUAA+:U 44164 ACUCUUUAGCGUUAGGCUUUGAUUUAuAGCCUUGUCGAGCGUUUCGCCAGACACUAACUU 44223 :::::::::: 60 AuUGAacGUu 69 AUUGA++ U 44224 AUUGAGUACU 44233 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----sequence: #31920,sp|AF427793.1|AF427793 Nannocystis exedends retron-Ne144, complete sequence. ----isReversed: 0 ----hitSequence: UCAUGACAACGGCGAAGGCCGAGCCUAGCAACCCGGGCGGCGGAUCGCCGUCCUUGCAACAAGCUCGUU hit 33 : 1037 1105 (fwd) 4.19 bits ::::::::::::::..:::::::...<<<<<-----<<<<-<<<<___>>>>->>>>->> 1 aCuCUUUAGCGaua..GGauUAg...gguuacGUCUggucGggcgUUUcgccAgaccCua 55 C+ A CG GG+++AG ::::A +C GG:C GGCG UCGCC G:CC U: 1037 UCAUGACAACGGCGaaGGCCGAGccuAGCAA--CCCGGGC-GGCGGAUCGCC-GUCC-UU 1091 >>>.::::::::::: 56 auu.uAuUGAacGUu 69 ::: +A G +CGUU 1092 GCAaCA-AGCUCGUU 1105 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1027,sp|AP003585.1|AP003585 Nostoc sp. PCC 7120 DNA, complete genome, section 5/19. ----isReversed: 0 ----hitSequence: GAGCUUCUGCGUCUGGACUAUGGUGGUCUAGUAAGGCUAUGCCAAGACUAGCACUCACGUAAAGUU hit 34 : 972 1037 (fwd) 4.64 bits :::::::::::::::::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>:: 1 aCuCUUUAGCGauaGGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuuA 60 ++ CUU GCG+ GGA+UA G:U: UCU:GU :G U U C:A AC: :A:U+A 972 GAGCUUCUGCGUCUGGACUAUGGUGG--UCUAGUA-AGGCUAUGCCAAGACUAGCACUCA 1028 ::::::::: 61 uUGAacGUu 69 AA GUU 1029 CGUAAAGUU 1037 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #1150,sp|AP005278.1|AP005278 Corynebacterium glutamicum ATCC 13032 DNA, complete genome, section 5/10. ----isReversed: 0 ----hitSequence: GCACUUCAGCCAUAGGGUUAACAUGUACAAGCCCGUAGGGGGUUUCCCCACCGAGUUCAGAUUUGUCGUG hit 35 : 67809 67878 (fwd) 4.48 bits :::::::::::::::::::::..<<<<<.-----<<<<-<<<<___>>>>->>>>-.>>> 1 aCuCUUUAGCGauaGGauUAg..gguua.cGUCUggucGggcgUUUcgccAgaccC.uaa 56 +C+CUU AGC AUAGG UUA :::: +G+C G: GGG GUUUC CCA :C ::: 67809 GCACUUCAGCCAUAGGGUUAAcaUGUACaAGCCCGU-AGGGGGUUUCCCCA--CCGaGUU 67865 >>::::::::::: 57 uuuAuUGAacGUu 69 : AUU +CGU 67866 CAGAUUUGUCGUG 67878 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----sequence: #48295,sp|U02551.1|EC02551 Escherichia coli Ec 110 reverse transcriptase gene, complete cds. ----isReversed: 0 ----hitSequence: ACUCUUUAGCGUUGGACGGUUACGUCUAGUCGGGUGAUUAGCCAGACUCUAACUUAUUGAACGUA hit 36 : 12 76 (fwd) 35.95 bits :::::::::::::::::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>:: 1 aCuCUUUAGCGauaGGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuuA 60 ACUCUUUAGCG+U GGA+ G:UUACGUCU:GUCGGG:: UU::CCAGAC:CUAA:UUA 12 ACUCUUUAGCGUU-GGAC---GGUUACGUCUAGUCGGGUGAUUAGCCAGACUCUAACUUA 67 ::::::::: 61 uUGAacGUu 69 UUGAACGU 68 UUGAACGUA 76 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #1796,sp|X60206.1|ECOEXRETA Escherichia coli reverse transcriptase, retron EC86 ----isReversed: 0 ----hitSequence: CACCCUUAGCGAGAGGUUUAUCAUUAAGGUCAACCUCUGGAUGUUGUUUCGGCAUCCUGCAUUGAAUCUGAGUU hit 37 : 2132 2205 (fwd) 20.83 bits :::::::::::::::::::::......<<<<<.-----<<<<-<<<<___>>>>->>>>- 1 aCuCUUUAGCGauaGGauUAg......gguua.cGUCUggucGggcgUUUcgccAgaccC 53 + C UUAGCGA AGG UUA GGU:: C UCUGG:: G::GUUUC::C ::CC 2132 CACCCUUAGCGAGAGGUUUAUcauuaaGGUCAaCCUCUGGAU-GUUGUUUCGGC-AUCCU 2189 >>>>>::::::::::: 54 uaauuuAuUGAacGUu 69 ::AUU A U + GUU 2190 GCAUUGAAUCUGAGUU 2205 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #2181,sp|Z12832.1|ECPRORET E.coli proA and ret genes encoding gamma-glutamylphosphate reductase and reverse transcriptase ----isReversed: 0 ----hitSequence: GCUCUUUAGCGUUUUAUGGAUUUACCACCUGAUUGGUCAAAUCUAGUUGGGCGUUGCGCAAACUCUAAUUUAUUGAUUACA hit 38 : 542 622 (fwd) 22.56 bits ::::::::::::::...:::::::..........<<<<<-----<<<<-<<<<___>>>> 1 aCuCUUUAGCGaua...GGauUAg..........gguuacGUCUggucGggcgUUUcgcc 47 +CUCUUUAGCG+U GGAUU+ GGU:A+ UCU:GU:GGGCGUU CGC 542 GCUCUUUAGCGUUUuauGGAUUUAccaccugauuGGUCAAAUCUAGUUGGGCGUUGCGC- 600 ->>>>->>>>>::::::::::: 48 AgaccCuaauuuAuUGAacGUu 69 A:AC:CU:AUUUAUUGA++ 601 AAACUCUAAUUUAUUGAUUACA 622 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #2399,sp|M24408.1|ECREVTR Escherichia coli B reverse transcriptase required for the formation of a DNA-RNA compound, complete cds. ----isReversed: 0 ----hitSequence: CACCCUUAGCGAGAGGUUUAUCAUUAAGGUCAACCUCUGGAUGUUGUUUCGGCAUCCUGCAUUGAAUCUGAGUU hit 39 : 377 450 (fwd) 20.83 bits :::::::::::::::::::::......<<<<<.-----<<<<-<<<<___>>>>->>>>- 1 aCuCUUUAGCGauaGGauUAg......gguua.cGUCUggucGggcgUUUcgccAgaccC 53 + C UUAGCGA AGG UUA GGU:: C UCUGG:: G::GUUUC::C ::CC 377 CACCCUUAGCGAGAGGUUUAUcauuaaGGUCAaCCUCUGGAU-GUUGUUUCGGC-AUCCU 434 >>>>>::::::::::: 54 uaauuuAuUGAacGUu 69 ::AUU A U + GUU 435 GCAUUGAAUCUGAGUU 450 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #2483,sp|X62583.1|ECRNEC107 E.coli Retron-Ec107 ----isReversed: 0 ----hitSequence: AAACUUUUUCGAUAGCAUUAGCUGGUUACAGGUCUGGCGUGUGUUUCGCCAGGCCCAGUUGCCACGUAAUGUG hit 40 : 626 698 (fwd) 24.28 bits :::::::::::::::::::::...<<<<<.-----<<<<-<<<<___>>>>->>>>-.>> 1 aCuCUUUAGCGauaGGauUAg...gguua.cGUCUggucGggcgUUUcgccAgaccC.ua 55 A++CUUU CGAUAG AUUAG ::::: GUCUGG CG:G:GUUUC:C:AG+CCC :: 626 AAACUUUUUCGAUAGCAUUAGcugGUUACaGGUCUGG-CGUGUGUUUCGCCAGGCCCaGU 684 >>>::::::::::: 56 auuuAuUGAacGUu 69 :::+A AA+GU 685 UGCCACGUAAUGUG 698 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #13679,sp|U15181.1|ML15181 Mycobacterium leprae cosmid B1764. ----isReversed: 0 ----hitSequence: ACUUUUUAUCGAUAGCCUGGAGUGAUUGUAUAGGUCUGGUUGGGGUAUUUAUCGACCGGUAAGCGAAUGCACACU hit 41 : 20509 20583 (fwd) 4.85 bits :::::::::::::::::::::......<<<<<-----<<<<-<<<<___>>>>->>>>-> 1 aCuCUUUAGCGauaGGauUAg......gguuacGUCUggucGggcgUUUcgccAgaccCu 54 ACU UUUA CGAUAG +U+ ::+UA GUCU G :GG : UU: C : C U 20509 ACUUUUUAUCGAUAGCCUGGAgugauuGUAUAGGUCUGGUUGGGGUAUUUAUCGACCGGU 20568 >>>>::::::::::: 55 aauuuAuUGAacGUu 69 A+:: A UG AC U 20569 AAGCGAAUGCACACU 20583 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #13758,sp|L01536.1|MLB1912CS M. leprae genomic dna sequence, cosmid b1912. ----isReversed: 0 ----hitSequence: ACUUUUUAUCGAUAGCCUGGAGUGAUUGUAUAGGUCUGGUUGGGGUAUUUAUCGACCGGUAAGCGAAUGCACACU hit 42 : 4444 4518 (fwd) 4.85 bits :::::::::::::::::::::......<<<<<-----<<<<-<<<<___>>>>->>>>-> 1 aCuCUUUAGCGauaGGauUAg......gguuacGUCUggucGggcgUUUcgccAgaccCu 54 ACU UUUA CGAUAG +U+ ::+UA GUCU G :GG : UU: C : C U 4444 ACUUUUUAUCGAUAGCCUGGAgugauuGUAUAGGUCUGGUUGGGGUAUUUAUCGACCGGU 4503 >>>>::::::::::: 55 aauuuAuUGAacGUu 69 A+:: A UG AC U 4504 AAGCGAAUGCACACU 4518 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #13831,sp|AL583920.1|MLEPRTN4 Mycobacterium leprae strain TN complete genome; segment 4/10 ----isReversed: 0 ----hitSequence: ACUUUUUAUCGAUAGCCUGGAGUGAUUGUAUAGGUCUGGUUGGGGUAUUUAUCGACCGGUAAGCGAAUGCACACU hit 43 : 204690 204764 (fwd) 4.85 bits :::::::::::::::::::::......<<<<<-----<<<<-<<<<___>>>>->>>>-> 1 aCuCUUUAGCGauaGGauUAg......gguuacGUCUggucGggcgUUUcgccAgaccCu 54 ACU UUUA CGAUAG +U+ ::+UA GUCU G :GG : UU: C : C U 204690 ACUUUUUAUCGAUAGCCUGGAgugauuGUAUAGGUCUGGUUGGGGUAUUUAUCGACCGGU 204749 >>>>::::::::::: 55 aauuuAuUGAacGUu 69 A+:: A UG AC U 204750 AAGCGAAUGCACACU 204764 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #33956,sp|Y18930.1|SSU18930 Sulfolobus solfataricus 281 kb genomic DNA fragment, strain P2 ----isReversed: 1 ----hitSequence: UCUUCUUUUCGACGAGGCUAUAUUCUUUAACCUCUCUUCGUACUUUUCGACGAGGCUUAUCUUAUUGAUUAUU hit 44 : 127256 127184 (rev) 4.06 bits :::::::::::::::::::::....<<<<<-----<<<<-<<<<___>>>>->>>>->>> 1 aCuCUUUAGCGauaGGauUAg....gguuacGUCUggucGggcgUUUcgccAgaccCuaa 56 CU UU CGA G +UA +U:AC UCU :UCG::C:UUU:G:: GA: CU:A 153989 UCUUCUUUUCGACGAGGCUAUauucUUUAACCUCUCUUCGUACUUUUCGAC-GAGGCUUA 154047 >>.::::::::::: 57 uu.uAuUGAacGUu 69 + UAUUGA++ UU 154048 UCuUAUUGAUUAUU 154061 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----sequence: #49032,sp|AJ249205.1|VCH249205 Vibrio cholerae ret, abpA and abpB genes and ORF262, ORF206 and ORF149 ----isReversed: 0 ----hitSequence: GCUCUUUAGCGAAUGGACUACACAUAUUAGUCUAGUCGGGCGUUUAGCCAGACUGAAAUUUAUUGAACGAC hit 45 : 1092 1162 (fwd) 32.92 bits :::::::::::::::::::::..<<<<<-----<<<<-<<<<___>>>>->>>>->>>>> 1 aCuCUUUAGCGauaGGauUAg..gguuacGUCUggucGggcgUUUcgccAgaccCuaauu 58 +CUCUUUAGCGA GGA+UA :++U++GUCU:GUCGGGC:UUU:GCCAGAC: +A++: 1092 GCUCUUUAGCGAAUGGACUACacAUAUUAGUCUAGUCGGGCGUUUAGCCAGACUGAAAUU 1151 ::::::::::: 59 uAuUGAacGUu 69 UAUUGAACG 1152 UAUUGAACGAC 1162 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro05.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #31669,sp|U51652.1|BBU51652 Barbus barbus x Barbus meridionalis microsatellite clone no.20. ----isReversed: 0 ----hitSequence: ACUCUUUNNCNACAGUUUUAUGGGGAUCUGUUGGNCUUUUGGACAAGCCUCACUGAAAGAAAGCC hit 46 : 584 648 (fwd) 5.44 bits :::::::::::::::::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>:: 1 aCuCUUUAGCGauaGGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuuA 60 ACUCUUU C A AG UUA G:::A UCUG:U GG C:UUU:G CA A:CCU:::U A 584 ACUCUUUNNCNACAGUUUUAUGGGGA--UCUGUU-GGNCUUUUGGACA-AGCCUCACUGA 639 ::::::::: 61 uUGAacGUu 69 GAA G 640 AAGAAAGCC 648 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #36544,sp|BX088719.6|BX088719 Zebrafish DNA sequence from clone CH211-207H2 in linkage group 17 ----isReversed: 0 ----hitSequence: AUUUUUUAGCGAGUUGGAAUAUUGUUAAGAUUGUCUAGAUCAGUGUUUCCCAACUCUGUUCCUUAAGGCACACA hit 47 : 62687 62760 (fwd) 5.54 bits ::::::::::::::.:::::::....<<<<<-----<<<<-<<<<___>>>>->>>>->> 1 aCuCUUUAGCGaua.GGauUAg....gguuacGUCUggucGggcgUUUcgccAgaccCua 55 A U UUUAGCGA GGA UA ::::+ GUCU:G: :G GUUUC C:A :C: +: 62687 AUUUUUUAGCGAGUuGGAAUAUuguuAAGAUUGUCUAGAUCAGUGUUUCCCAACUCUGUU 62746 >>>::::::::::: 56 auuuAuUGAacGUu 69 :::UA G AC 62747 CCUUAAGGCACACA 62760 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #39839,sp|AJ279031.1|GGA279031 Gallus gallus partial mRNA for teneurin-2 (TEN2 gene), long splice variant ----isReversed: 0 ----hitSequence: GAUCUUUACCGUUAUGAUGAGAUUUCUGGCAAAGUUGAGCAUUUUGGCAAAUUUGGAGUUAUUUAUUAUG hit 48 : 6427 6496 (fwd) 8.60 bits :::::::::::::::::::::<<<<<.-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAggguua.cGUCUggucGggcgUUUcgccAgaccCuaauuu 59 ++UCUUUA CG+UA GAU+AG::U : G+ : U:G: C:UUU:G :A:A : : A::U 6427 GAUCUUUACCGUUAUGAUGAGAUUUCuGGCAAAGUUGAGCAUUUUGGCAAAUUUGGAGUU 6486 :::::::::: 60 AuUGAacGUu 69 AUU A++ U 6487 AUUUAUUAUG 6496 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum02.dat.fasta.gz ----sequence: #541,sp|AC005216.1|AC005216 Homo sapiens chromosome 5, BAC clone 282B7 (LBNL H192), complete sequence. ----isReversed: 0 ----hitSequence: AAUUUUUAGCUGUAGGAUGAGGUCUAAUACCCACCCUGCUUGAGAUUUUCCUAAUCUGCUCUUAUGCAAGCU hit 49 : 111670 111741 (fwd) 4.77 bits :::::::::::::::::::::.....<<<<<.-----<<<<-<<<<___>>>>->>>>-> 1 aCuCUUUAGCGauaGGauUAg.....gguua.cGUCUggucGggcgUUUcgccAgaccCu 54 A+U UUUAGC UAGGAU+AG :+ :: + +CUG U:G:G: UUU :C: :A C : 111670 AAUUUUUAGCUGUAGGAUGAGgucuaAUACCcACCCUGCUUGAGA-UUU-UCCUAAUCUG 111727 >>>>::::::::::: 55 aauuuAuUGAacGUu 69 : +:UA UG A G U 111728 CUCUUA-UGCAAGCU 111741 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum02.dat.fasta.gz ----sequence: #8305,sp|AC073538.5|AC073538 Homo sapiens chromosome 5 clone CTD-2338P8, complete sequence. ----isReversed: 1 ----hitSequence: UAACUUCAGCAAUAGAAUUAUACUUUAAAUCUUGGCUGAUUUUUGAAUAGCCAAAAUGUAUUCAUUGUG hit 50 : 40737 40669 (rev) 5.78 bits :::::::::::::::::::::.<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAg.gguuacGUCUggucGggcgUUUcgccAgaccCuaauuu 59 ++CUU AGC AUAG AUUA :+UU + UCU:G:C : :UUU: : AG:C: AA+:U 57555 UAACUUCAGCAAUAGAAUUAUaCUUUAAAUCUUGGCUGAUUUUUGAAUAGCCA-AAAUGU 57613 :::::::::: 60 AuUGAacGUu 69 AUU A++GU 57614 AUUCAUUGUG 57623 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum03.dat.fasta.gz ----sequence: #281,sp|AC091887.3|AC091887 Homo sapiens chromosome 5 clone RP11-118M9, complete sequence. ----isReversed: 0 ----hitSequence: AAUUUUUAGCUGUAGGAUGAGGUCUAAUACCCACCCUGCUUGAGAUUUUCCUAAUCUGCUCUUAUGCAAGCU hit 51 : 99718 99789 (fwd) 4.77 bits :::::::::::::::::::::.....<<<<<.-----<<<<-<<<<___>>>>->>>>-> 1 aCuCUUUAGCGauaGGauUAg.....gguua.cGUCUggucGggcgUUUcgccAgaccCu 54 A+U UUUAGC UAGGAU+AG :+ :: + +CUG U:G:G: UUU :C: :A C : 99718 AAUUUUUAGCUGUAGGAUGAGgucuaAUACCcACCCUGCUUGAGA-UUU-UCCUAAUCUG 99775 >>>>::::::::::: 55 aauuuAuUGAacGUu 69 : +:UA UG A G U 99776 CUCUUA-UGCAAGCU 99789 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum03.dat.fasta.gz ----sequence: #1363,sp|AC093628.3|AC093628 Homo sapiens BAC clone RP11-98N20 from 4, complete sequence. ----isReversed: 0 ----hitSequence: UCAUGUUAGCUAUAGGCUUUGGGUUCAAAUUCUUAAAUUUCUUUGGUGGUAAUUUGGGCAUUUAAAAUA hit 52 : 62228 62296 (fwd) 5.17 bits :::::::::::::::::::::..<<<<<-----<<<<-<<<<___>>>>->>>>->>>>> 1 aCuCUUUAGCGauaGGauUAg..gguuacGUCUggucGggcgUUUcgccAgaccCuaauu 58 C+ UUAGC AUAGG+UU+G :::A+ UCU::: ::: UUU ::: ::: U::: 62228 UCAUGUUAGCUAUAGGCUUUGggUUCAAAUUCUUAAA-UUUCUUUGGUG-GUAAUUUGGG 62285 ::::::::::: 59 uAuUGAacGUu 69 +AUU AA U 62286 CAUUUAAAAUA 62296 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum03.dat.fasta.gz ----sequence: #1506,sp|AC093808.2|AC093808 Homo sapiens BAC clone RP11-342A1 from 4, complete sequence. ----isReversed: 0 ----hitSequence: CAUCUUUUCCUGAUGGAUGUGUUGAAAGCCUCUCUUUGUGUGUUUCUCAAUAAGUUCCCUAAGGAAAAUU hit 53 : 41442 41511 (fwd) 5.28 bits :::::::::::::::::::::.<<<<<.-----<<<<-<<<<___>>>>->>>>->>>>> 1 aCuCUUUAGCGauaGGauUAg.gguua.cGUCUggucGggcgUUUcgccAgaccCuaauu 58 +UCUUU C GGAU++G : :A C UCU :U G:G GUUUC C:A A: U: : 41442 CAUCUUUUCCUGAUGGAUGUGuUGAAAgCCUCUCUUUGUGUGUUUCUCAAUAAG-UUCCC 41500 ::::::::::: 59 uAuUGAacGUu 69 UA GAA UU 41501 UAAGGAAAAUU 41511 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum03.dat.fasta.gz ----sequence: #2488,sp|AC100847.2|AC100847 Homo sapiens chromosome 18, clone RP11-706P11, complete sequence. ----isReversed: 0 ----hitSequence: GAAUUUCAGUGUUGGUAUAUAUUUUUCUAGUCAGUGUAUCGCUGACUCUCCCAUCAACAUUGUU hit 54 : 76586 76649 (fwd) 5.42 bits :::::::::::::::::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>:: 1 aCuCUUUAGCGauaGGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuuA 60 +++ UU AG G+U GG UA :+ + UCU:GUC :G:GU UC:C: GAC:C+ +:U 76586 GAAUUUCAGUGUU-GGUAUAUAUUUU--UCUAGUC-AGUGUAUCGCU-GACUCUCCCAUC 76640 ::::::::: 61 uUGAacGUu 69 A++GUU 76641 AACAUUGUU 76649 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum04.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum05.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum06.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum07.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum08.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum09.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz ----sequence: #7214,sp|AP001862.2|AP001862 Homo sapiens genomic DNA, chromosome 4q22-q24, clone:2060O22. ----isReversed: 0 ----hitSequence: UCAUGUUAGCUAUAGGCUUUGGGUUCAAAUUCUUAAAUUUCUUUGGUGGUAAUUUGGGCAUUUAAAAUA hit 55 : 16290 16358 (fwd) 5.17 bits :::::::::::::::::::::..<<<<<-----<<<<-<<<<___>>>>->>>>->>>>> 1 aCuCUUUAGCGauaGGauUAg..gguuacGUCUggucGggcgUUUcgccAgaccCuaauu 58 C+ UUAGC AUAGG+UU+G :::A+ UCU::: ::: UUU ::: ::: U::: 16290 UCAUGUUAGCUAUAGGCUUUGggUUCAAAUUCUUAAA-UUUCUUUGGUG-GUAAUUUGGG 16347 ::::::::::: 59 uAuUGAacGUu 69 +AUU AA U 16348 CAUUUAAAAUA 16358 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz ----sequence: #9823,sp|AY052369.1|AY052369 Homo sapiens PP2A B56 gamma gene, complete cds, alternative splice products. ----isReversed: 0 ----hitSequence: AUUCUUGUGAGGGAGGACUUGAUUAGCAGCCCUGAAGGGCGGUAGCAGUUCCCUUACUCAUUGAAUGUA hit 56 : 1126 1194 (fwd) 4.72 bits :::::::::::::::::::::<<<<<.-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAggguua.cGUCUggucGggcgUUUcgccAgaccCuaauuu 59 A UCUU G G AGGA+U+G:+U: +G+C G: G GC: U :GC :C C :A+:+ 1126 AUUCUUGUGAGGGAGGACUUGAUUAGcAGCCCUGAAGGGCGGU-AGCAGUUCCCUUACUC 1184 :::::::::: 60 AuUGAacGUu 69 AUUGAA+GU 1185 AUUGAAUGUA 1194 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum11.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum12.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum13.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum14.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum14.dat.fasta.gz ----sequence: #3434,sp|AL137779.6|CNS01DWM Human chromosome 14 DNA sequence BAC C-2017C7 of library CalTech-D from chromosome 14 of Homo sapiens (Human) ----isReversed: 1 ----hitSequence: AUUCUUGUGAGGGAGGACUUGAUUAGCAGCCCUGAAGGGCGGUAGCAGUUCCCUUACUCAUUGAAUGUA hit 57 : 70535 70467 (rev) 4.72 bits :::::::::::::::::::::<<<<<.-----<<<<-<<<<___>>>>->>>>->>>>>: 1 aCuCUUUAGCGauaGGauUAggguua.cGUCUggucGggcgUUUcgccAgaccCuaauuu 59 A UCUU G G AGGA+U+G:+U: +G+C G: G GC: U :GC :C C :A+:+ 118582 AUUCUUGUGAGGGAGGACUUGAUUAGcAGCCCUGAAGGGCGGU-AGCAGUUCCCUUACUC 118640 :::::::::: 60 AuUGAacGUu 69 AUUGAA+GU 118641 AUUGAAUGUA 118650 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum15.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum16.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum17.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum17.dat.fasta.gz ----sequence: #197,sp|AJ250235.1|HSA250235 Homo sapiens FECH gene for ferrochelatase, exons 1-11 ----isReversed: 0 ----hitSequence: GAAUUUCAGUGUUGGUAUAUAUUUUUCUAGUCAGUGUAUCGCUGACUCUCCCAUCAACAUUGUU hit 58 : 35278 35341 (fwd) 5.42 bits :::::::::::::::::::::<<<<<-----<<<<-<<<<___>>>>->>>>->>>>>:: 1 aCuCUUUAGCGauaGGauUAggguuacGUCUggucGggcgUUUcgccAgaccCuaauuuA 60 +++ UU AG G+U GG UA :+ + UCU:GUC :G:GU UC:C: GAC:C+ +:U 35278 GAAUUUCAGUGUU-GGUAUAUAUUUU--UCUAGUC-AGUGUAUCGCU-GACUCUCCCAUC 35332 ::::::::: 61 uUGAacGUu 69 A++GUU 35333 AACAUUGUU 35341 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum18.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum19.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum20.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum21.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum22.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum23.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum24.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum25.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum26.dat.fasta.gz done 1.65905e+10 nucs (frac lets thru so far=0.00111628, 2d-fracLetsThru=0.000572911). Filter report: done 1.65905e+10 nucs (frac lets thru so far=0.00111628, 2d-fracLetsThru=0.000572911). done 1.65905e+10 nucs (frac lets thru so far=0.00111628, 2d-fracLetsThru=0.000572911). CPU time: 214142.14u 320.84s 59:34:22.98 Elapsed: 59:35:32