Params: ./cmzasha --no-stderr --filter 560 40 Rfam/cm/RF00024.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00024_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin Build: release Host: xmen.cs.washington.edu pid: 1542 ----cmFile: Rfam/cm/RF00024.cm (global) ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #9644,sp|AF054814.1|AF054814 Bos taurus telomerase RNA gene, complete sequence. ----isReversed: 0 ----hitSequence: UGGGCCCCGGGUUGGUGGCAGCCAUUUCUCAUCUAACCCUAAUUGAGACAGGCGUAGGCGCUGUGCUUUUGGUUACCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGCCUACCGCCAUCCACCAUCCAGUCUGCAACAAACAAAAAAUGUCAGCCGCUGGCUCGCUCACCUCUCCCGGGAACCUGCGGUGGUCCGCCCGCCCAGCCCCAGUGCCCCGCCUGAGGCCGCGGUCGGCCCGGUGCUUCUCCGGAGGUGUCCAUUGCCGCCGUGAAGAAUUGGGCUCUGUCAGCCGCGGGUCGCUCGGUGGGCCGAGGCAUGGCUGUAACCGCAGGGAAAGGAACGGAGUGGGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCACCCGGGACUCGGCUCAGACAUCC hit 0 : 6 435 (fwd) 363.49 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 UGGGCCC+GG :GG:GG+:G:C:+UU U+ UCUAACCCUAAU+GAGA GGCGUAGGCG 6 UGGGCCCCGGGUUGGUGGCAGCCAUUUCUCAUCUAACCCUAAUUGAGACAGGCGUAGGCG 65 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 CUGUGCUUUUG+U+ CCGC+CGCUGUUUUUCUCGCUGACUUUCAGCG+GCG GAAAAGCC 66 CUGUGCUUUUGGUUACCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCG-GAAAAGCC 124 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 CGGCCUACCGCC+UCCACC UCCAGUCUG A+C+A+CA AAAAAUGUCAGCCGC:G: C 125 UCGGCCUACCGCCAUCCACCAUCCAGUCUGCAACAAACA-AAAAAUGUCAGCCGCUGG-C 182 >...>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<---- 181 c...uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUg 234 : UC:CC: CC+GGG++CCUGCGG+GG +CGCC GCC AGCC C:G CCCGCCUG 183 UcgcUCACCUCUCCCGGGAACCUGCGGUGGUCCGCCCGCCCAGCCCCAGugcCCCGCCUG 242 -----<<<<<-<<<<__________________________>>>>>>>>>---------- 235 gAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGU 294 AGGCC CGGUCGGCCCGG GCUUCUCCGGAGG+G+CCA+UGCCGCCG GAAGA UU G+ 243 -AGGCCGCGGUCGGCCCGGUGCUUCUCCGGAGGUGUCCAUUGCCGCCGUGAAGAAUUGGG 301 ------------>>>>----->>>>>>---->>>>->>>>-------------->>>>>> 295 CUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGG 354 CUCUGUCAGCC+CGGGUC C C:G GG+C + GGC GGC U U CCGCAGG 302 CUCUGUCAGCCGCGGGUCGCUCGGUGGGCCGAGGCAUGGC--------UGUAACCGCAGG 353 ,,,,,,,,,,<<<<.--<<<----------<<<<---<<<<________>>>>--->>>> 355 GAGAGcAAcGGAgC.GGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCac 413 GA AG AACGGAG: GGGUCCCCG+GCGCGGUGCGCUUCCCUGAGCUGUGGGAC UGCAC 354 GAAAGGAACGGAGUgGGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCAC 413 ---->>>--->>>>:::::::: 414 cCGGgacuCGGcUCcgACAcgC 435 CCGGGACUCG:CUC+GACA +C 414 CCGGGACUCGGCUCAGACAUCC 435 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16798,sp|AF221906.1|AF221906 Dasypus novemcinctus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GGGCCCGGGAGGGGUGAGCGUCCAUUAUCGUCUAACCCUAACUGAGAUGGGCGUAGGCGCCGCGCUUUUGCUUCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGCCUACUGCCGUCUACUGUCGUAUCUGGAGCAAACAAAAAAUGUCAGCCGCUGGUCCGCUCGCCCCAUCCGGGAACCUGCGGUGGCUCGUCCGCCCUGCCCCCGCGCUCCGCCUAGAGGCCGCGGUCCGCCCGGGGCUUCUCCGGAGGCACCCAAUGCAGCCGCGAAGAGUUAGGCUCUGUCAGCCGCGGAUCCCGCGGGGGCCAAGGGUGAGGCUUAGGCCGCGGGCCGCAGGAAGAAAAACCGAGCGAGUUCUCACGCGCGGUGCGCUUCCCUGAGCUGUGGGUCGUGCGCCUGGGACUCGGCUCAGACACGU hit 1 : 110 545 (fwd) 372.21 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 GGGCCCGG :GGGG:G:G GUC UU U++UCUAACCCUAA +GAGA GGGC:UAGGCG 110 -GGGCCCGGGAGGGGUGAGCGUCCAUUAUCGUCUAACCCUAACUGAGAUGGGCGUAGGCG 168 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 C+G+GCUUUUGCU+CCCGC+CGCUGUUUUUCUCGCUGACUUUCAGCG+GCG GAAAAGCC 169 CCGCGCUUUUGCUUCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCG-GAAAAGCC 227 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 CGGCCUAC:GCCGUC AC GUC UCUGGAGC+A+CA AAAAAUGUCAGCCGC GG+C 228 UCGGCCUACUGCCGUCUACUGUCGUAUCUGGAGCAAACA-AAAAAUGUCAGCCGCUGGUC 286 >..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<----- 181 c..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUgg 235 :C:CCCC: CCGGG++CCUGCGG+GGC CG:CC+CCC GCCCCCG :CCGCCU G 287 CgcUCGCCCCAUCCGGGAACCUGCGGUGGCUCGUCCGCCCUGCCCCCGcgcUCCGCCUAG 346 ----<<<<<-<<<<__________________________>>>>>>>>>----------- 236 AGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUC 295 AGGCCGCGGUC GCCCGGGGCUUCUCCGGAGGC CCCA UGC GCCGCGAAGAGUU G+C 347 AGGCCGCGGUCCGCCCGGGGCUUCUCCGGAGGCACCCAAUGCAGCCGCGAAGAGUUAGGC 406 ----------->>>>----->>>>>>---->>>>->>>>-------------->>>>>>, 296 UCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGGG 355 UCUGUCAGCC+CGG:UCCCGCGGGGGCC+AGGG++AG:C +GG++ +C GGCCGCAGG 407 UCUGUCAGCCGCGGAUCCCGCGGGGGCCAAGGGUGAGGCUUAGGCC-GCGGGCCGCAGGA 465 ,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>-- 356 AGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccC 415 AGA AAC GAGCG GU:C C +GCGCGG:GCGCU CCCUGAGCUGUGGG CGUGC:CC 466 AGAAAAACCGAGCGAGUUCUCACGCGCGGUGCGCUUCCCUGAGCUGUGGGUCGUGCGCCU 525 -->>>--->>>>:::::::: 416 GGgacuCGGcUCcgACAcgC 435 GG:ACUCGGCUC+GACACG+ 526 GGGACUCGGCUCAGACACGU 545 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16799,sp|AF221912.1|AF221912 Tupaia glis belangeri telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCCCGGGACGGGCGCGGACCCGGUAAUCUAACCCUGACUCACAAGAGGCGUAGGCGCCGUGCUUUUGCUCCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGUUCGGAAAAGCCCUGUGGCCUAUCGCCAUCCACCAUCCUUUCUGGAACAAACAGACAAAAAAAAAAAUGUCAGCUGCUGGUCCGUUCGCUCCUCCCGGGCCCUGCGGUGGCCGCCAGCCCGCCCUCUCAUCCCCCGCGUCCCGCCUAGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGUGCCCAUUGCCGCCGCGAAGAGUUAGGCUCUGUCAGCCGCGGGCUCUCGGGGGGCCCAGGGCGAGGUUUAGGCCUCGUGGCCGCAGGGACAGCAACGGAGCGGGUCCCCGCGAGCCUGUGCGCGUCCCUGAGCCGUGGGACUUGCACCGGGGACUUUGCUCGGACAAUC hit 2 : 110 564 (fwd) 341.72 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------.-<<<<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg.ggcguaggc 59 UGGGCCCGGG: G:G:G:GG::C G U UCUAACCCU A ++A A+G GGCGUAGGC 110 UGGGCCCGGGACGGGCGCGGACCCGGUA--AUCUAACCCUGACUCACAAGaGGCGUAGGC 167 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 GC+GUGCUUUUGCUCCCCG: CGCUGUUUUUCUCGCUGACUUUCAGCG :CG GAAAAGC 168 GCCGUGCUUUUGCUCCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGUUCG-GAAAAGC 226 ----..>>>>>->>>-------------------------....---....--------- 120 cgcG..gccuaCcgcCGuCCACCGUccAgUcUGGagccag....CAA....AAAAAuGUC 169 C++G GCCUA CGCC+UCCACC UCC +UCUGGA+C+A+ CAA AAAAAUGUC 227 CCUGugGCCUAUCGCCAUCCACCAUCCUUUCUGGAACAAAcagaCAAaaaaAAAAAUGUC 286 ------>>>->>..>>>>>>>>>>>>>>,,<<<<<<-------...<<<<<<<<--.... 170 AGCCGCgggccc..uccccccccccggggcCCuGcggCggCgc...gcccgcccaG.... 220 AGC+GC G:+:C :C:C:C :CCCGGG CCUGCGG+GGC+ +CCCGCCC 287 AGCUGCUGGUCCguUCGCUCCUCCCGGGC-CCUGCGGUGGCCGccaGCCCGCCCUCucau 345 <<<<<<...<<<<---------<<<<<-<<<<__________________________>> 221 cccCcg...CCCgCCUggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGC 277 CCCCCG CCCGCCU GAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGG+GCCCA+UGC 346 CCCCCGcguCCCGCCUAGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGUGCCCAUUGC 405 >>>>>>>---------------------->>>>----->>>>>>.---->>>>->>>>-- 278 cGcCGCGAAGAGUUCGUCUCUGUCAGCCucGGGuCcCGcgGggg.ccgagggccaggcgc 336 CGCCGCGAAGAGUU G+CUCUGUCAGCC+CGGG C C CGGGGG CC AGGGC+AGG+ 406 CGCCGCGAAGAGUUAGGCUCUGUCAGCCGCGGG-CUCUCGGGGGgCCCAGGGCGAGGUUU 464 ------------>>>>>>,,,,,,,,,,<<<<--<<<--.--------<<<<---<<<<_ 337 GGgGgcucuGGccgCaGGGAGAGcAAcGGAgCGGgucCC.cgugcgCgguGCgCUUCCCU 395 +GG+++ UGGCCGCAGGGA AGCAACGGAGCGGGUCCC + + C GUGCGC UCCCU 465 AGGCCUCGUGGCCGCAGGGACAGCAACGGAGCGGGUCCCcGCGAGCCUGUGCGCGUCCCU 524 _______>>>>--->>>>---->>>--->>>>:::::::: 396 GAGCUGUGGGAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 GAGC GUGGGAC UGCACC GGGACU GCUC GACA +C 525 GAGCCGUGGGACUUGCACCGGGGACUUUGCUCGGACAAUC 564 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16800,sp|AF221917.1|AF221917 Procyon lotor telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCCUGGGAGGGGUGGCGGUCGUUUUAUGUCUAACCCUAACUGAGAAGGGCAUAGGCGCUGCGCUUUUGUUCCCCGCACGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGCCUACUGCCAUCCACCAUCCAGUUUGGAGCAAACAAAAAAUGUCAGCCGCCGGCCUGCUCGCCCCUCCCGGGAUCCUGCGGUGGCUCGCCCGCUUAGCCCCCGCGUCCCGCCUGGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCACCCAUUGCCGUCGCGAAGAGUUGGGCUCUGUCAGCCGCGGGACCUUUGGGGGCCAAGGGCGAGGCUCUGGCCGCAGGGAGAGAAAACGGAGCGGGUCCCCUUGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCACCCGGGACUAGGCUCACACACAU hit 3 : 112 542 (fwd) 403.71 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 UGGGCC:GGG:GGGG:GG+:GUC +UUU U+UCUAACCCUAA +GAGA+GGGC UAGGCG 112 UGGGCCUGGGAGGGGUGGCGGUCGUUUUAUGUCUAACCCUAACUGAGAAGGGCAUAGGCG 171 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 CUG+GCUUUUG+UCCCCGC:CGCUGUUUUUCUCGCUGACUUUCAGCG:GCG GAAAAGCC 172 CUGCGCUUUUGUUCCCCGCACGCUGUUUUUCUCGCUGACUUUCAGCGGGCG-GAAAAGCC 230 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 CGGCCUAC GCC+UCCACC UCCAGU+UGGAGC+A+CA AAAAAUGUCAGCCGC GGCC 231 UCGGCCUACUGCCAUCCACCAUCCAGUUUGGAGCAAACA-AAAAAUGUCAGCCGCCGGCC 289 >..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<----- 181 c..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUgg 235 : UC:CCCC:CCC:GG+ CCUGCGG+GGC CGCCCGC::AGCCCCC+ CCCGCCUGG 290 UgcUCGCCCCUCCCGGGAUCCUGCGGUGGCUCGCCCGCUUAGCCCCCGcguCCCGCCUGG 349 ----<<<<<-<<<<__________________________>>>>>>>>>----------- 236 AGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUC 295 AGGCCGCG:UCGGCCCGGGGCUUCUCCGGAGGC CCCA+UGCCG:CGCGAAGAGUU G+C 350 AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCACCCAUUGCCGUCGCGAAGAGUUGGGC 409 ----------->>>>----->>>>>>---->>>>->>>>-------------->>>>>>, 296 UCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGGG 355 UCUGUCAGCC+CGGG CC +GGGGGCC+A::GC+AGGC UCUGGCCGCAGGG 410 UCUGUCAGCCGCGGGACCUUUGGGGGCCAAGGGCGAGGC--------UCUGGCCGCAGGG 461 ,,,,,,,.,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>- 356 AGAGcAA.cGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCacc 414 AGAG AA CGGAGCGGGUCCCC UGCGCGGUGCGCUUCCCUGAGCUGUGGGAC UGCACC 462 AGAGAAAaCGGAGCGGGUCCCCUUGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCACC 521 --->>>--->>>>:::::::: 415 CGGgacuCGGcUCcgACAcgC 435 CGGGACU GGCUC+ ACAC + 522 CGGGACUAGGCUCACACACAU 542 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16801,sp|AF221918.1|AF221918 Oryctolagus cuniculus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCUCGGGAGGGGCCCGGUCAUUUCUCAUCUAACCCUAACUGAGCAGGGCGUAGGCGCCGCGCUUUUGUUUCCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGCGUGGGAAAAGCCUUGGCCUACCGCCGUCCACCGUUCAUUUCGCAGUAAACAAAAAAUGUCAGCCGCUGGCCGGUUCGCCCUUCCCGGGGACCUGCGGUGGCUCGCCCGCCCGGCCCCCGUGCCCCGCCUGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGUGCCCAAUGCCGCCGCGAAGAGUUAGGCUCUGUCAGCCGCGGGUCCCUCGGGGGCCAAGGGCGAGGCGCAGGCCGUCUGGCCGCAGGGAGAGGAACGGAGCGGGUCCCCCAGCGUGGUGCGCUUCCCUGAGCUGUGGGACUUGCACCCGGGACUCGGCUCAAACACGC hit 4 : 110 547 (fwd) 401.42 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 UGGGC:CGGG::GGG: : +GUC:+UU U+ UCUAACCCUAA +GAG +GGGCGUAGGCG 110 UGGGCUCGGGAGGGGCCC-GGUCAUUUCUCAUCUAACCCUAACUGAGCAGGGCGUAGGCG 168 ----<<<<<-------.<<<<<<<<<_________________>>>>>>>>>--->>>>> 61 CuGuGCUuUUgcuccC.cGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 C+G+GCUUUUG+U+CC C C+CGCUGUUUUUCUCGCUGACUUUCAGCG+G GGGAAAAGC 169 CCGCGCUUUUGUUUCCcCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGCGUGGGAAAAGC 228 ---->>>>>->>>------------------------------------------->>>- 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggc 179 C +GGCCUACCGCCGUCCACCGU CA+U++G AG +A+CA AAAAAUGUCAGCCGC:GGC 229 CUUGGCCUACCGCCGUCCACCGUUCAUUUCGCAGUAAACA-AAAAAUGUCAGCCGCUGGC 287 >>..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<---- 180 cc..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUg 234 C+ : :CCC::CCCG:GG+CCUGCGG+GGC CGCCCGCCC+GCCCCCG CCCGCCUG 288 CGguUCGCCCUUCCCGGGGACCUGCGGUGGCUCGCCCGCCCGGCCCCCGugcCCCGCCUG 347 -----<<<<<-<<<<__________________________>>>>>>>>>---------- 235 gAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGU 294 AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGG+GCCCA UGCCGCCGCGAAGAGUU G+ 348 -AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGUGCCCAAUGCCGCCGCGAAGAGUUAGG 406 ------------>>>>----->>>>>>---->>>>->>>>-------------->>>>>> 295 CUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGG 354 CUCUGUCAGCC+CGGGUCCC CGGGGGCC+AGGGC+AGGCGC+GG++ UCUGGCCGCAGG 407 CUCUGUCAGCCGCGGGUCCCUCGGGGGCCAAGGGCGAGGCGCAGGCCGUCUGGCCGCAGG 466 ,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>- 355 GAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCacc 414 GAGAG AACGGAGCGGGUCCCC+ GCG GGUGCGCUUCCCUGAGCUGUGGGAC UGCACC 467 GAGAGGAACGGAGCGGGUCCCCCAGCGUGGUGCGCUUCCCUGAGCUGUGGGACUUGCACC 526 --->>>--->>>>:::::::: 415 CGGgacuCGGcUCcgACAcgC 435 CGGGACUCGGCUC+ ACACGC 527 CGGGACUCGGCUCAAACACGC 547 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16802,sp|AF221919.1|AF221919 Dasyurus hallucatus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GGGCUGCGUGGGCGGGUCGGUCCGUCCUGGCACAUCUAACCCUAAAUGCGCGCUGGUUGAAGUGGCUUCUCCUGGGCGAUCGCUCGCUGUUUUUGUGGCUGGCUUUCAGCGGGCUGGAGGAGCCGGGAGCGGAGGCGGAGGACCGAGCCAAAAACGUCAGCCGAGGCCGGGCGGCCCCGCUCGUGGCCCGUCCGCACUGUCCGGGCCAGGCCCCGGCCCGAACCCCCUGGAGACAACUCCCGCAGGGUCUGCGCUGCGCCGCGGAGCCCCGGCUGCCCACGUAGAGGCGGCGGCCGUCUCGGGGCCCCUGCGUGCGGGGCGCCCACUGCGGCCGCCAAGAGCUCGUCUCUGUCAGCCUCGGGUGCACGUGGGCCCGCGGUCGAGCCCUAAGGCCGGGCGUGGGGCUGGGGUCGCAGGGAGAGUAACCGUGAGCCGGCGCCCAGCCUUCAGGGCGCUCCCUCGAGCUAUGGGAGCUGCCCCCGGGCACGGCUCGGACACCC hit 5 : 115 614 (fwd) 205.59 bits ::::<<<<<<<<<<<<<<-<<<<<------....---------------------<<<<< 1 uggGcccgggggggggggggguccguuUuU....uUCUAACCCUAAUggaGaGgggcgua 56 GGG::: G:GGG:+ G ++GUC GU U UCUAACCCUAA +G G G G+ :: 115 -GGGCUGCGUGGGCGGGUCGGUCCGUCCUGgcacAUCUAACCCUAAAUGCGCGCUGGUUG 173 <<<-----<<<<<-------.<<<<<<<<<_________________>>>>>>>>>---> 57 ggcGCuGuGCUuUUgcuccC.cGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAA 115 :::+ ++U:CU::UG+ C+ GC:CGCUGUUUUU U+GCUG CUUUCAGCG:GC GGA: 174 AAGUGGCUUCUCCUGGGCGAuCGCUCGCUGUUUUUGUGGCUGGCUUUCAGCGGGCUGGAG 233 >>>>---->>>>>->>>-------------------------.----------------- 116 aAGCcgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccag.CAAAAAAAuGUCAGCCG 174 :AG:CG G::::: +C G G++CC + C AAAAA+GUCAGCCG 234 GAGCCGGGAGCGGAGGCGGA---------------GGACCGAgCC-AAAAACGUCAGCCG 277 ->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------....................... 175 Cgggccc.uccccccccccggggcCCuGcggCggCgc....................... 210 GGCC+ C +:CCC:C :::G CC:G: C 278 -AGGCCGgGCGGCCCCGCUCGUGGCCCGUCCGCACUGuccgggccaggccccggcccgaa 336 ..............................<<<<<<<<..--.<<<<<<....<<<<--- 211 ..............................gcccgccc..aG.cccCcg....CCCgCCU 233 GC:+ +CC +G ++CCC+ CCC:C U 337 cccccuggagacaacucccgcagggucugcGCUGCGCCgcGGaGCCCCGgcugCCCACGU 396 ------<<<<<-<<<<______________...____________>>>>>>>>>------ 234 ggAGGCCGCGgUCgGCCCGGGGCUUCUCCg...GAGGcGCCCAcUGCcGcCGCGAAGAGU 290 GAGGC GCGG C :C CGGGGC+ CU CG G+GGCGCCCACUG: GCCGC AAGAG 397 AGAGGCGGCGGCCGUCUCGGGGCCCCUGCGugcGGGGCGCCCACUGCGGCCGCCAAGAGC 456 ---------------->>>>.----->>>>>>.----...........>>>>->>>>--- 291 UCGUCUCUGUCAGCCucGGG.uCcCGcgGggg.ccga...........gggccaggcgcG 337 UCGUCUCUGUCAGCCU:GGG +C CG+GGG++ +CG+ GG+ + :GCG G 457 UCGUCUCUGUCAGCCUCGGGuGCACGUGGGCCcGCGGucgagcccuaaGGCCG-GGCGUG 515 ----------->>>>>>,,,,,,,,.,,.<<<<.--<<<----------<<<<---<<<< 338 GgGgcucuGGccgCaGGGAGAGcAA.cG.GAgC.GGgucCCcgugcgCgguGCgCUUCCC 394 GGG+ U GG :C:GGGAGAG+AA CG GAGC GG :CCC G++++C G:GCGC UCCC 516 GGGC-UGGGGUCGCAGGGAGAGUAAcCGuGAGCcGGCGCCCAGCCUUCAGGGCGC-UCCC 573 _._______>>>>--->>>>---->>>--->>>>:::::::: 395 U.GAGCUGUGGGAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 U GAGCU UGGGA UGC:CCCGGG: + GGCUC GACAC+C 574 UcGAGCUAUGGGAGCUGCCCCCGGGCAC-GGCUCGGACACCC 614 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16803,sp|AF221920.1|AF221920 Sus scrofa telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCCCAGGAGCGGUGGCGGCCAUUUUUUAAGUCUAACCCUAACUGAAAGAGGCGUAGGCGCUGCGCUUUUGCUUCACGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGCCUACCGCCAUCCACCAUCCAGUCUGAAACAAACAAAAAAUGUCAGCCUCUGGCUCGCUCACUGCUCCCGGGAACCUGCGGUGGUUCGCCCGCCCAGCCCCCGCGCCCCGCCUGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCGCCCAUUGCCGCCGCGAAGAGUUGGGCUCUGUCAGCCGCGGGUCCCUCGGGGGCCAAGGCGAGGCUCUGACCGCAGGGAAAGGAACGGAGUUGGUCCCCGCGCGCUGUGCGCUUCCCUAAGCUGUGGGCUGUGCACCUGGGACUCGGCUCAGACACUU hit 6 : 112 541 (fwd) 383.80 bits ::::<<<<<<<<<<<<<<-<<<<<------..---------------------<<<<<<< 1 uggGcccgggggggggggggguccguuUuU..uUCUAACCCUAAUggaGaGgggcguagg 58 UGGGCCC:GG:G+:G:GG+G :C:+UUUUU +UCUAACCCUAA +GA AG GGCGUAGG 112 UGGGCCCAGGAGCGGUGGCGGCCAUUUUUUaaGUCUAACCCUAACUGAAAGAGGCGUAGG 171 <-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>> 59 cGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAG 118 CGCUG+GCUUUUGCU+C CGC+CGCUGUUUUUCUCGCUGACUUUCAGCG+GCG GAAAAG 172 CGCUGCGCUUUUGCUUCACGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCG-GAAAAG 230 >---->>>>>->>>------------------------------------------->>> 119 CcgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCggg 178 CC CGGCCUACCGCC+UCCACC UCCAGUCUG A+C+A+CA AAAAAUGUCAGCC C:G: 231 CCUCGGCCUACCGCCAUCCACCAUCCAGUCUGAAACAAACA-AAAAAUGUCAGCCUCUGG 289 ->>..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<--- 179 ccc..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCU 233 C C UC:C:+C:CC:GGG++CCUGCGG+GG CGCCCGCC AGCCCCCG CCCGCCU 290 CUCgcUCACUGCUCCCGGGAACCUGCGGUGGUUCGCCCGCCCAGCCCCCGcgcCCCGCCU 349 ------<<<<<-<<<<__________________________>>>>>>>>>--------- 234 ggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCG 293 G AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCGCCCA+UGCCGCCGCGAAGAGUU G 350 G-AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCGCCCAUUGCCGCCGCGAAGAGUUGG 408 ------------->>>>----->>>>>>---->>>>->>>>-------------->>>>> 294 UCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaG 353 +CUCUGUCAGCC+CGGGUCCC CGGGGGCC+ GGC+AGGC UCUG CCGCAG 409 GCUCUGUCAGCCGCGGGUCCCUCGGGGGCCA-AGGCGAGGC--------UCUGACCGCAG 459 >,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>> 354 GGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCac 413 GGA AG AACGGAG: GGUCCCCG+GCGC GUGCGCU CCCU AGCUGUGGG +GUGCAC 460 GGAAAGGAACGGAGUUGGUCCCCGCGCGCUGUGCGCUUCCCUAAGCUGUGGGCUGUGCAC 519 ---->>>--->>>>:::::::: 414 cCGGgacuCGGcUCcgACAcgC 435 C GGGACUCG:CUC+GACAC++ 520 CUGGGACUCGGCUCAGACACUU 541 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16804,sp|AF221921.1|AF221921 Suncus murinus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GGUUGCGGGAGCUGCGAGCGGCCGUCUCGUCUAACCCUAAAGAGAAAGGCGUAGGUGCUUGGCCUUGGCGACUCGCCCGCUGUUUUUUGGCUGGCUUUCAGCGGGUGAAGAGGCCCAAGACCUACCGCCACCCACCGUCUAGUGUCUUAAGGGCACAAAGUCCUGCCCGCCACCCUUCGAGGAGCGAAACCCAAAAAAGUCAGCCCCUGGCCGCCUCUCGCCCUCUCGCAACCCGCCUCCGUCCCAGCCUCCAUCCCCGCCCCAGGCCGCGGUCGGUCCGGGCUUCUUCGGAAGUCCCGUUGCCGUCGCGAAGAGUUCGCCUCUGUCAGCCGCGGGGCUUGGGGCCAGGGACGGGACCCUGUCCGCAGGGAGAGAAACUGGAGCCGGGCCCUCCACGGUGCCUCCCCGAGCUGUGGGAUCUGCACCCGGGACUCGAACCCUACACUU hit 7 : 102 548 (fwd) 258.11 bits ::::<<<<<<<<.<<<<<<-<<<<<---------------------------<<<<<<<< 1 uggGcccggggg.ggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggc 59 GG+ :CG G:G :G G :++G:C ++U +UCUAACCCUAA GAGA+ GGCGUAGG: 102 -GGUUGCGGGAGcUGCGAGCGGCCGUCUC--GUCUAACCCUAAA-GAGAAAGGCGUAGGU 157 -----<<<<<-------.<<<<<<<<<_________________>>>>>>>>>--->>>> 60 GCuGuGCUuUUgcuccC.cGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAG 118 GCU G ::UUG+ C C CCCGCUGUUUUU U+GCUG CUUUCAGCGGG G +A:: 158 GCUU-GGCCUUGGCGACuCGCCCGCUGUUUUU-UGGCUGGCUUUCAGCGGGUGAAGAGGC 215 >---->>>>>->>>-----------------............................. 119 CcgcGgccuaCcgcCGuCCACCGUccAgUcU............................. 149 CC +G:CCUACCGCC+ CCACCGUC+AGU U 216 CCAAGACCUACCGCCACCCACCGUCUAGUGUcuuaagggcacaaaguccugcccgccacc 275 ......--------..------------------>>>->>...>>>>>>>>>>>>>>,,< 150 ......GGagccag..CAAAAAAAuGUCAGCCGCgggccc...uccccccccccggggcC 198 GGAGC A+ C AAAAA GUCAGCC C G:CC+ : C C:C:C CG: + C 276 cuucgaGGAGCGAAacCC-AAAAAAGUCAGCCCCUGGCCGccuCUCGCCCUCUCGCAA-C 333 <<<<<-------<<<<<<<<--.<<<<<<.<<<<---------<<<<<-<<<<_______ 199 CuGcggCggCgcgcccgcccaG.cccCcg.CCCgCCUggAGGCCGCGgUCgGCCCGGGGC 256 C:GC + CC+:CCCAG C:CC:: CCCGCC+ AGGCCGCG:UCGG:CC GGGC 334 CCGCCU-------CCGUCCCAGcCUCCAUcCCCGCCCC-AGGCCGCGGUCGGUCC-GGGC 384 ___________________>>>>>>>>>---------------------->>>>-----> 257 UUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCUCUGUCAGCCucGGGuCcCGc 316 UUCU CGGA G+ CCC++U:CCG:CGCGAAGAGUUCG CUCUGUCAGCC+CGGG+C : 385 UUCUUCGGAAGU-CCCGUUGCCGUCGCGAAGAGUUCGCCUCUGUCAGCCGCGGGGC---U 440 >>>>>---->>>>->>>>-------.------->>>>>>,,,,,,,,.,,<<<<--<<<- 317 gGgggccgagggccaggcgcGGgGg.cucuGGccgCaGGGAGAGcAA.cGGAgCGGgucC 374 :GG:G C AGGG:C GG G C CUG C GC:GGGAGAG AA +GG GG CC 441 UGGGG-CCAGGGAC-GG-------GaCCCUGUCCGCAGGGAGAGAAAcUGGAGCCGGGCC 491 ---------<<<<---<<<<________>>>>--->>>>---->>>--->>>>::::::: 375 CcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccCGGgacuCGGcUCcgACAcg 434 C U+C CGGUGC C UCCC GAGCUGUGGGA+ UGCACCCGGG CUCG CC+ACAC+ 492 C--UCCACGGUGC-C-UCCCCGAGCUGUGGGAUCUGCACCCGGGACUCGAACCCUACACU 547 : 435 C 435 + 548 U 548 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16805,sp|AF221923.1|AF221923 Trichechus manatus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: CCCGGGUCGGGCAGUGGUCUUUUUUGUUCUAACCCUAACUGGCAAGGGCGUAGGUGCUGUGCUUUUGUUCCCCGCGCGUUGUUUUUCUCGCUGACUUUCAGCGGGCGGGAAAAGCCCUGGCCUACCGCCGUCUACCGAUAGUUUGGAGCAAACAAAAAAAUGUCAGCCGCUGGCCGCUCACCCCUCCCGGGAACCUGUGGUGGCUCGCCCGCCCAGCCCCGCGCCCCGCCUGGAGGCCGCGGUCGGCCUGGGGCUUCUCCGGAGGUUCCCAUUGCCGCCGCGAAGAGUUAGGCUCUGUCAGCCGCGGGUCCUGCGGGAACCAAGGGCGAGGCUUAGGCCUCCUGAACGCAGGGAGAGAAAUGGAGCGAUUCCCCGAGUACGUGUGCUUCCCUGAGUUGUGGGAUGUGCGUCCGGGACUCAGCUCCGACAGGU hit 8 : 123 554 (fwd) 367.26 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 CCCGGG: GGG :G +GUC:+UUUU UUCUAACCCUAA +G A+GGGCGUAGG:G 123 ----CCCGGGUCGGGCAGUGGUCUUUUUUGUUCUAACCCUAACUGGCAAGGGCGUAGGUG 178 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 CUGUGCUUUUG+UCCCCGC+CG:UGUUUUUCUCGCUGACUUUCA:CG+GCGGGAAAAGCC 179 CUGUGCUUUUGUUCCCCGCGCGUUGUUUUUCUCGCUGACUUUCAGCGGGCGGGAAAAGCC 238 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 ++G:CCUACCGCCGUC ACCG +AGU+UGGAGC+A+CAAAAAAAUGUCAGCCGC:GGCC 239 CUGGCCUACCGCCGUCUACCG-AUAGUUUGGAGCAAACAAAAAAAUGUCAGCCGCUGGCC 297 >.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<------ 181 c.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUggA 236 + U: CCC :CCCGGG++CCUG:GG+GGC CGCCCGCCCAG CCCG CCCGCCUGGA 298 GcUCACCCCUCCCGGGAACCUGUGGUGGCUCGCCCGCCCAG-CCCCGcgcCCCGCCUGGA 356 ---<<<<<-<<<<__________________________>>>>>>>>>------------ 237 GGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCU 296 GGCCGCGGUCGGCC+GGGGCUUCUCCGGAGG+ CCCA+UGCCGCCGCGAAGAGUU G+CU 357 GGCCGCGGUCGGCCUGGGGCUUCUCCGGAGGUUCCCAUUGCCGCCGCGAAGAGUUAGGCU 416 ---------->>>>----->>>>>>.---->>>>->>>>-------------->>>>>>, 297 CUGUCAGCCucGGGuCcCGcgGggg.ccgagggccaggcgcGGgGgcucuGGccgCaGGG 355 CUGUCAGCC+CGGGUCC GCGGG CC+AGGGC+AGGC +GG+++ CUG C:CAGGG 417 CUGUCAGCCGCGGGUCCUGCGGGA-aCCAAGGGCGAGGCUUAGGCCUCCUGAACGCAGGG 475 ,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>-- 356 AGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccC 415 AGAG AA+GGAGCG :UCCC + ++ :G:GCUUCCCUGAG UGUGGGA+GU:C: CC 476 AGAGAAAUGGAGCGAUUCCC-CGAGUACGUGUGCUUCCCUGAGUUGUGGGAUGUGCGUCC 534 -->>>--->>>>:::::::: 416 GGgacuCGGcUCcgACAcgC 435 GGGA:UC GCUCCGACA G+ 535 GGGACUCAGCUCCGACAGGU 554 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16806,sp|AF221925.1|AF221925 Equus caballus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGUCUGGGCGGGGCGGCGGUCACGUUUUGUCUAACCCUAACUGAGCUGGGCGGAGGCGCCGCGCUUUUGCUCCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGUCUACCGCCACUUACCAUCCAGUCUGGAGUAAACAAAAAAUGUCAGCCGCUGGCUCGCUCGCCCCUCCCGGGACCCUGCGACGGCUCGCCCGCCCAGCCCCCGCGCCCCGCCUGGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCGCCCAAUGCCGCCGCGAAGAGUUGGGCUCUGUCAGCCGCGGGUGCCUCGGGGGCCAGGGACGAGGCUCUGGCCGCAGGGAGAGGAACGGAGCGGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACGUGCACCCGGGACUCGGCUCAAACACGU hit 9 : 111 540 (fwd) 400.53 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 UGGG:C:GGG GGGG:GG+G UC:+ UUUU+UCUAACCCUAA +GAG GGGCG AG+CG 111 UGGGUCUGGGCGGGGCGGCGGUCACGUUUUGUCUAACCCUAACUGAGCUGGGCGGAGGCG 170 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 C+G+GCUUUUGCUCCCCGC+CGCUGUUUUUCUCGCUGACUUUCAGCG+GCG GAAAAGCC 171 CCGCGCUUUUGCUCCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCG-GAAAAGCC 229 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 CGG+CU CCGCC+ ACC UCCAGUCUGGAG +A+CA AAAAAUGUCAGCCGC:GGC 230 UCGGUCUACCGCCACUUACCAUCCAGUCUGGAGUAAACA-AAAAAUGUCAGCCGCUGGCU 288 >..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<----- 181 c..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUgg 235 C UC:CCCC CCC:G:+CCCUGCG CGGC CGCCCG CCAGCCCCCG CCCGCCUGG 289 CgcUCGCCCCUCCCGGGACCCUGCGACGGCUCGCCCGCCCAGCCCCCGcgcCCCGCCUGG 348 ----<<<<<-<<<<__________________________>>>>>>>>>----------- 236 AGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUC 295 AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCGCCCA UGCCGCCGCGAAGAGUU G+C 349 AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCGCCCAAUGCCGCCGCGAAGAGUUGGGC 408 ----------->>>>----->>>>>>---->>>>->>>>-------------->>>>>>, 296 UCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGGG 355 UCUGUCAGCC+CGGGU CC CGGGGGCC++GG C+AGGC UCUGGCCGCAGGG 409 UCUGUCAGCCGCGGGUGCCUCGGGGGCCAGGGACGAGGC--------UCUGGCCGCAGGG 460 ,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>-- 356 AGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccC 415 AGAG AACGGAGCGGGUCCCCG+GCGCGGUGCGCUUCCCUGAGCUGUGGGACGUGCACCC 461 AGAGGAACGGAGCGGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACGUGCACCC 520 -->>>--->>>>:::::::: 416 GGgacuCGGcUCcgACAcgC 435 GGGACUCGGCUC+ ACACG+ 521 GGGACUCGGCUCAAACACGU 540 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16807,sp|AF221931.1|AF221931 Mustela putorius furo telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCUCGGGAGGGGUGGCGGUCAUUUUCUGUCUAACCCUAACUGAAACGGGCGUAGGCGCUGCGCUUUUGUUCCCCGCACGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUUGGCCUACUGCCACACACCAUCCAGUUUGGAGCAAACAAAAAAUGUCAGCGGCUGGCCUGCUCGCCCCUCCCGGGAGCCUGCGGCGACUCGCCCGCUUAGCCCCCGCAUCCCGCCUGGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCACCCAUUGCCGUCGCGAAGAGUUGGGCUCUGUCAGCCGCGGGACCCUUGGGGGCCAAGGGCGAGGCUCUGGCCGCAGGGAGAGAAACGGAGCGGGUCCCCUCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCACCCGGGACUAGGCUCACACACAC hit 10 : 112 541 (fwd) 397.98 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 UGGGC:CGGG:GGGG:GG+:GUC:+UUU+U+UCUAACCCUAA +GA A GGGC:UAGGCG 112 UGGGCUCGGGAGGGGUGGCGGUCAUUUUCUGUCUAACCCUAACUGAAACGGGCGUAGGCG 171 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 CUG+GCUUUUG+UCCCCGC:CGCUGUUUUUCUCGCUGACUUUCAGCG:GCG GAAAAGCC 172 CUGCGCUUUUGUUCCCCGCACGCUGUUUUUCUCGCUGACUUUCAGCGGGCG-GAAAAGCC 230 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 +GGCCUAC:GCC+ CACC UCCAGU+UGGAGC+A+CA AAAAAUGUCAGC GC:GGCC 231 UUGGCCUACUGCCACACACCAUCCAGUUUGGAGCAAACA-AAAAAUGUCAGCGGCUGGCC 289 >..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<----- 181 c..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUgg 235 : UC:CCCC:CCCG:G+ CCUGCGGCG C CGCCCGC::AGCCCCC+ CCCGCCUGG 290 UgcUCGCCCCUCCCGGGAGCCUGCGGCGACUCGCCCGCUUAGCCCCCGcauCCCGCCUGG 349 ----<<<<<-<<<<__________________________>>>>>>>>>----------- 236 AGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUC 295 AGGCCGCG:UCGGCCCGGGGCUUCUCCGGAGGC CCCA+UGCCG:CGCGAAGAGUU G+C 350 AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCACCCAUUGCCGUCGCGAAGAGUUGGGC 409 ----------->>>>----->>>>>>---->>>>->>>>-------------->>>>>>, 296 UCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGGG 355 UCUGUCAGCC+CGGG CCC +GGGGGCC+A::GC+AGGC UCUGGCCGCAGGG 410 UCUGUCAGCCGCGGGACCCUUGGGGGCCAAGGGCGAGGC--------UCUGGCCGCAGGG 461 ,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>-- 356 AGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccC 415 AGAG AACGGAGCGGGUCCCC +GCGCGGUGCGCUUCCCUGAGCUGUGGGAC UGCACCC 462 AGAGAAACGGAGCGGGUCCCCUCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCACCC 521 -->>>--->>>>:::::::: 416 GGgacuCGGcUCcgACAcgC 435 GGGACU GGCUC+ ACAC C 522 GGGACUAGGCUCACACACAC 541 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16808,sp|AF221932.1|AF221932 Elephas maximus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UACGCCCGGGAGGGCGGUGGUCUGUUCUGUUCUAACCCUAACUGAUAAGGGCGUAGGCGCCGUGCUUUUGUUCCCCGCGCGUUGUUUUUCUCGCUGACUUUCAGCGGGCGGGAAAAGCCUCGGUCUACCGCCGUCUACCGAUAGCCUGGAGCAAACAAAAAAAUGUCAGCCGCCGGCCGCUCGCCCCUCCCGGGAACCUGCAGUGGCUCGCCCGCCCAGCCCCGCUCCCCGCCUGGAGGCCGCGGUCGGCCUGGGGCUUCUCCGGAGGUUCCCGCUGCCGCCGCGAAGAGUUGGGCUCUGUCAGCCGCGGGUCCCGCGGGAACCAAGGGCGAGGCUGGGGCCUCCUGAACGCAGGGAGAGAAACGGAGCGGUUCCCCGCGUGCGUGCGCUUCCCUGAGUUGUGGGAUGUGCGCUCGGGGCUCAGCUCCGACAGGU hit 11 : 115 549 (fwd) 372.46 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 U +GCCCGGG: GGG:GG +GUC+GUU U UUCUAACCCUAA +GA A+GGGCGUAG+CG 115 UACGCCCGGGA-GGGCGGUGGUCUGUUCUGUUCUAACCCUAACUGAUAAGGGCGUAGGCG 173 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 C+GUGCUUUUG+UCCCCGC+CG:UGUUUUUCUCGCUGACUUUCA:CG+GCGGGAAAAGCC 174 CCGUGCUUUUGUUCCCCGCGCGUUGUUUUUCUCGCUGACUUUCAGCGGGCGGGAAAAGCC 233 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 CGG+CUACCGCCGUC ACCG +AG CUGGAGC+A+CAAAAAAAUGUCAGCCGC+GGCC 234 UCGGUCUACCGCCGUCUACCG-AUAGCCUGGAGCAAACAAAAAAAUGUCAGCCGCCGGCC 292 >.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<------ 181 c.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUggA 236 + UC:CCCC:CCCGGG++CCUGC:G+GGC CGCCCGCCCAG CCCG CCCGCCUGGA 293 GcUCGCCCCUCCCGGGAACCUGCAGUGGCUCGCCCGCCCAG-CCCCGcucCCCGCCUGGA 351 ---<<<<<-<<<<__________________________>>>>>>>>>------------ 237 GGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCU 296 GGCCGCGGUCGGCC+GGGGCUUCUCCGGAGG+ CCC+CUGCCGCCGCGAAGAGUU G+CU 352 GGCCGCGGUCGGCCUGGGGCUUCUCCGGAGGUUCCCGCUGCCGCCGCGAAGAGUUGGGCU 411 ---------->>>>----->>>>>>.---->>>>->>>>-------------->>>>>>, 297 CUGUCAGCCucGGGuCcCGcgGggg.ccgagggccaggcgcGGgGgcucuGGccgCaGGG 355 CUGUCAGCC+CGGGUCCCGCGGG CC+AGGGC+AGGC +GGG+++ CUG :GCAGGG 412 CUGUCAGCCGCGGGUCCCGCGGGA-aCCAAGGGCGAGGCUGGGGCCUCCUGAACGCAGGG 470 ,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>-- 356 AGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccC 415 AGAG AACGGAGC GG::CCC+ +++ G:GCGCUUCCCUGAG UGUGGGA+GUGC:C+C 471 AGAGAAACGGAGC-GGUUCCCCGCGUGCGUGCGCUUCCCUGAGUUGUGGGAUGUGCGCUC 529 -->>>--->>>>:::::::: 416 GGgacuCGGcUCcgACAcgC 435 GG::CUC GCUCCGACA G+ 530 GGGGCUCAGCUCCGACAGGU 549 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16809,sp|AF221936.1|AF221936 Bos taurus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCCCCGGGUUGGUGGCAGCCAUUUCUCAUCUAACCCUAAUUGAGACAGGCGUAGGCGCUGUGCUUUUGGUUACCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGCCUACCGCCAUCCACCAUCCAGUCUGCAACAAACAAAAAAUGUCAGCCGCUGGCUCGCUCACCUCUCCCGGGAACCUGCGGUGGUCCGCCCGCCCAGCCCCAGUGCCCCGCCUGAGGCCGCGGUCGGCCCGGUGCUUCUCCGGAGGUGUCCAUUGCCGCCGUGAAGAGUUGGGCUCUGUCAGCCGCGGGUCGCUCGGUGGGCCGAGGCAUGGCUGUAACCGCAGGGAAAGGAACGGAGUGGGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCACCCGGGACUCGGCUCAGACAUCC hit 12 : 111 540 (fwd) 368.66 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 UGGGCCC+GG :GG:GG+:G:C:+UU U+ UCUAACCCUAAU+GAGA GGCGUAGGCG 111 UGGGCCCCGGGUUGGUGGCAGCCAUUUCUCAUCUAACCCUAAUUGAGACAGGCGUAGGCG 170 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 CUGUGCUUUUG+U+ CCGC+CGCUGUUUUUCUCGCUGACUUUCAGCG+GCG GAAAAGCC 171 CUGUGCUUUUGGUUACCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCG-GAAAAGCC 229 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 CGGCCUACCGCC+UCCACC UCCAGUCUG A+C+A+CA AAAAAUGUCAGCCGC:G: C 230 UCGGCCUACCGCCAUCCACCAUCCAGUCUGCAACAAACA-AAAAAUGUCAGCCGCUGG-C 287 >...>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<---- 181 c...uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUg 234 : UC:CC: CC+GGG++CCUGCGG+GG +CGCC GCC AGCC C:G CCCGCCUG 288 UcgcUCACCUCUCCCGGGAACCUGCGGUGGUCCGCCCGCCCAGCCCCAGugcCCCGCCUG 347 -----<<<<<-<<<<__________________________>>>>>>>>>---------- 235 gAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGU 294 AGGCC CGGUCGGCCCGG GCUUCUCCGGAGG+G+CCA+UGCCGCCG GAAGAGUU G+ 348 -AGGCCGCGGUCGGCCCGGUGCUUCUCCGGAGGUGUCCAUUGCCGCCGUGAAGAGUUGGG 406 ------------>>>>----->>>>>>---->>>>->>>>-------------->>>>>> 295 CUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGG 354 CUCUGUCAGCC+CGGGUC C C:G GG+C + GGC GGC U U CCGCAGG 407 CUCUGUCAGCCGCGGGUCGCUCGGUGGGCCGAGGCAUGGC--------UGUAACCGCAGG 458 ,,,,,,,,,,<<<<.--<<<----------<<<<---<<<<________>>>>--->>>> 355 GAGAGcAAcGGAgC.GGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCac 413 GA AG AACGGAG: GGGUCCCCG+GCGCGGUGCGCUUCCCUGAGCUGUGGGAC UGCAC 459 GAAAGGAACGGAGUgGGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCAC 518 ---->>>--->>>>:::::::: 414 cCGGgacuCGGcUCcgACAcgC 435 CCGGGACUCG:CUC+GACA +C 519 CCGGGACUCGGCUCAGACAUCC 540 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16810,sp|AF221939.1|AF221939 Felis catus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCCUGGGAGGGGAAGCGGUCAGUUUUUGUCUAACCCUAACUGAGAAGGGCGUAGGCGCCGCGCUUUUGUUUCCCGCACGCUGUUUUUUUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGCCUACCGCCGUCCACCGUACAGUUUGGAGCAAACAAAAAAUGUCAGCUGCUGACUUGCUCGCCCCUCCCAGGACCCUGCGGUGGCUCGCCUCCUUAGCCCCCGCGUCCCGCCUAGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCACCCAUUGCCGUCGCGAAGAGUUGGGCUCUGUCAGCCGCGGGUCCCUUGGGGGGGCCGAGGGCGAGGCUCUGACCGCAGGGAGAGAAACGGGAGCAGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCACCCGGGACUGGGCUCAGACACAU hit 13 : 112 544 (fwd) 398.05 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 UGGGCC:GGG:GGGG::G+: :C:GUUUUU+UCUAACCCUAA +GAGA+GGGCGUAGGCG 112 UGGGCCUGGGAGGGGAAGCGGUCAGUUUUUGUCUAACCCUAACUGAGAAGGGCGUAGGCG 171 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 C+G+GCUUUUG+U+CCCGC:CGCUGUUUUU UCGCUGACUUUCAGCG:GCG GAAAAGCC 172 CCGCGCUUUUGUUUCCCGCACGCUGUUUUUUUCGCUGACUUUCAGCGGGCG-GAAAAGCC 230 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 CGGCCUACCGCCGUCCACCGU CAGU+UGGAGC+A+CA AAAAAUGUCAGC+GC:G:C 231 UCGGCCUACCGCCGUCCACCGUACAGUUUGGAGCAAACA-AAAAAUGUCAGCUGCUGACU 289 >..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<----- 181 c..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUgg 235 : U::CCCC:CCC:GG+CCCUGCGG+GGC CGCC: C::AGCCCCC+ CCCGCCU G 290 UgcUCGCCCCUCCCAGGACCCUGCGGUGGCUCGCCUCCUUAGCCCCCGcguCCCGCCUAG 349 ----<<<<<-<<<<__________________________>>>>>>>>>----------- 236 AGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUC 295 AGGCCGCG:UCGGCCCGGGGCUUCUCCGGAGGC CCCA+UGCCG:CGCGAAGAGUU G+C 350 AGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCACCCAUUGCCGUCGCGAAGAGUUGGGC 409 ----------->>>>----->>>>>>..---->>>>->>>>-------------->>>>> 296 UCUGUCAGCCucGGGuCcCGcgGggg..ccgagggccaggcgcGGgGgcucuGGccgCaG 353 UCUGUCAGCC+CGGGUCCC +GGGGG CCGA::G +:GGC UCUG CCGCAG 410 UCUGUCAGCCGCGGGUCCCUUGGGGGggCCGAGGGCGAGGC--------UCUGACCGCAG 461 >,,,,,,,,.,,<<<<--<<<----------<<<<---<<<<________>>>>--->>> 354 GGAGAGcAA.cGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCa 412 GGAGAG AA GGAGC GGUCCCCG+GCGCGGUGCGCUUCCCUGAGCUGUGGGAC UGCA 462 GGAGAGAAAcGGGAGCAGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCA 521 >---->>>--->>>>:::::::: 413 ccCGGgacuCGGcUCcgACAcgC 435 CCCGGGACU GGCUC+GACAC + 522 CCCGGGACUGGGCUCAGACACAU 544 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16811,sp|AF221941.1|AF221941 Bos taurus telomerase RNA pseudogene. ----isReversed: 0 ----hitSequence: UGGGCCCCGGGUUGGUGGCAGCCAUUUCUCAUCUAACCCUAAUUGAGACAGGCGUAGGCGCUGUGCUUUUGGUUACCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGCCUACCGCCAUCCACCAUCCAGUCUGCAACAAACAAAAAAUGUCAGCCGCUGGCUCGCUCACCUCUCCCGGGAACCUGCGGUGGUCCGCCCGCCCAGCCCCAGUGCCCCGCCUGAGGCCGCAGUCGGCCCGGUGCUUCUCCGGAGGUGUCCAUUGCCGCCGUGAAGAGUUGGGCUCUGUCAGCCGCGGGUCGCUCGGUGGGCCGAGGCAUGGCUGUAACCGCAGGGAAAGGAACGGAGUGGGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCACCCGGGACUCGGCUCAGACAUCU hit 14 : 267 696 (fwd) 364.72 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<<<<<<- 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcguaggcG 60 UGGGCCC+GG :GG:GG+:G:C:+UU U+ UCUAACCCUAAU+GAGA GGCGUAGGCG 267 UGGGCCCCGGGUUGGUGGCAGCCAUUUCUCAUCUAACCCUAAUUGAGACAGGCGUAGGCG 326 ----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>>- 61 CuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGCc 120 CUGUGCUUUUG+U+ CCGC+CGCUGUUUUUCUCGCUGACUUUCAGCG+GCG GAAAAGCC 327 CUGUGCUUUUGGUUACCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCG-GAAAAGCC 385 --->>>>>->>>------------------------------------------->>>-> 121 gcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggcc 180 CGGCCUACCGCC+UCCACC UCCAGUCUG A+C+A+CA AAAAAUGUCAGCCGC:G: C 386 UCGGCCUACCGCCAUCCACCAUCCAGUCUGCAACAAACA-AAAAAUGUCAGCCGCUGG-C 443 >...>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<---- 181 c...uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUg 234 : UC:CC: CC+GGG++CCUGCGG+GG +CGCC GCC AGCC C:G CCCGCCUG 444 UcgcUCACCUCUCCCGGGAACCUGCGGUGGUCCGCCCGCCCAGCCCCAGugcCCCGCCUG 503 -----<<<<<-<<<<__________________________>>>>>>>>>---------- 235 gAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGU 294 AGGCC C:GUCGGCCCGG GCUUCUCCGGAGG+G+CCA+UGCCGC:G GAAGAGUU G+ 504 -AGGCCGCAGUCGGCCCGGUGCUUCUCCGGAGGUGUCCAUUGCCGCCGUGAAGAGUUGGG 562 ------------>>>>----->>>>>>---->>>>->>>>-------------->>>>>> 295 CUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGG 354 CUCUGUCAGCC+CGGGUC C C:G GG+C + GGC GGC U U CCGCAGG 563 CUCUGUCAGCCGCGGGUCGCUCGGUGGGCCGAGGCAUGGC--------UGUAACCGCAGG 614 ,,,,,,,,,,<<<<.--<<<----------<<<<---<<<<________>>>>--->>>> 355 GAGAGcAAcGGAgC.GGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCac 413 GA AG AACGGAG: GGGUCCCCG+GCGCGGUGCGCUUCCCUGAGCUGUGGGAC UGCAC 615 GAAAGGAACGGAGUgGGGUCCCCGCGCGCGGUGCGCUUCCCUGAGCUGUGGGACUUGCAC 674 ---->>>--->>>>:::::::: 414 cCGGgacuCGGcUCcgACAcgC 435 CCGGGACUCG:CUC+GACA ++ 675 CCGGGACUCGGCUCAGACAUCU 696 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #16812,sp|AF221942.1|AF221942 Sus scrofa telomerase RNA pseudogene. ----isReversed: 0 ----hitSequence: GGCCGGGAGAGGAGUGGCCAUUUUUAAAAUCUGACCCUAACUGAAACAGGUGUAGGCACUGCACUUUUGCUUCCUCGAGCGCUGUUUUUCUUGCUGACUUUCAGCGGAUGGAAGAGCCACCAUCCAGUCUGAAACAAACAAAAAAUGUCAGCCACUGGCUCGGUCACUGCUCCCGGGAACCUAAGAGUCUCGCCCGCCCAGCCCCCCGCUUCUCCCAAAGGGCCCACUGCCUCCGCGAAGAGUUGGGCUGUGUCAGCCGCGGGUUUCUCGGGGCCAAGGCGAGGCUCUGACCGCAGGGAAAGGAAGAGUUCCCUAAGCUGUGGCAUGUGCAGCCAGGACUUGGCUCAGAUACUU hit 15 : 106 459 (fwd) 86.72 bits ::::<<<<<<<<<<<<<<-<<<<<------..--------------------.-<<<.<< 1 uggGcccgggggggggggggguccguuUuU..uUCUAACCCUAAUggaGaGg.ggcg.ua 56 G CCGGG:G::G G G :C:+UUUU UCU ACCCUAA +GA A G++ ++ 106 ---GGCCGGGAGAGGAGU-GGCCAUUUUUAaaAUCUGACCCUAACUGAAACAgGUGUaGG 161 <<<-----<<<<<-------.<<<<<<<<<_________________>>>>>>>>>---> 57 ggcGCuGuGCUuUUgcuccC.cGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAA 115 CUG+:CU UUGCU+CC C :+CGCUGUUUUUCU GCUGACUUUCAGCG+: G GAA 162 C--ACUGCACUUUUGCUUCCuCGAGCGCUGUUUUUCUUGCUGACUUUCAGCGGAUG-GAA 218 >>>>----.>>>>>->>>------------------------------------------ 116 aAGCcgcG.gccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCG 174 AG:C C UCCAGUCUG A+C+A+CA AAAAAUGUCAGCC 219 GAGCCACCa------------------UCCAGUCUGAAACAAACA-AAAAAUGUCAGCCA 259 ->>>->>..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<<<<<-- 175 Cgggccc..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcgCCCgCC 232 C:G:C C C C::C:CCCGG ++CCU::G G+C CGCCCGCC AG CCC CCCGC 260 CUGGCUCggUCACUGCUCCCGGGAACCUAAG-AGUCUCGCCCGCCCAG-CCC--CCCGCU 315 -------<<<<<-<<<<__________________________>>>>>>>>>-------- 233 UggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUC 292 U C C:: GGCCC ACUGCC ::G GAAGAGUU 316 UCU----CCCAAAGGGCCC---------------------ACUGCCUCCGCGAAGAGUUG 350 -------------->>>>----->>>>>>---->>>>->>>>-------------->>>> 293 GUCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCa 352 G+CU UGUCAGCC+CGGGU C C GGGGCC+ GGC+AGGC UCUG CC::A 351 GGCUGUGUCAGCCGCGGGUUUCUC-GGGGCCA-AGGCGAGGC--------UCUGACCGCA 400 >>,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>> 353 GGGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCa 412 GGGA AG AA GAG :UCCC U GC UG C UGU CA 401 GGGAAAGGAA--GAG---UUCCC--UAAGCUGUGG-C-A--------UGU-------GCA 436 >--.-->>>--->>>>:::::::: 413 ccC.GGgacuCGGcUCcgACAcgC 435 CC GGA:U GGCUC+GA AC++ 437 GCCa-GGACUUGGCUCAGAUACUU 459 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #9663,sp|AF047387.1|AF047387 Mus musculus telomerase RNA (terc) gene, promoter and complete sequence. ----isReversed: 0 ----hitSequence: GGUCGAGGGCGGCUAGGCCUCGGCACCUAACCCUGAUUUUCAUUAGCUGUGGGUUCUGGUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCCAGGAAAGUCCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCUCAAAAACAAACGUCAGCGCAGGAGCUCCAGGUUCGCCGGGAGCUCCGCGGCGCCGGGCCGCCCAGUCCCGUACCCGCCUACAGGCCGCGGCCGGCCUGGGGUCUUAGGACUCCGCUGCCGCCGCGAAGAGCUCGCCUCUGUCAGCCGCGGGGCGCCGGGGGCUGGGGCCAGGCCGGGCGAGCGCCGCGAAGGACAGGAAUGGAACUGGUCCCCGUGUUCGGUGUCUUACCUGAGCUGUGGGAAGUGCACCCGGAACUCGGUUCUCACAACC hit 16 : 1535 1956 (fwd) 259.65 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 G :C+:G:G :+::: G :C + CUAACCCU AU+ A GC: ::GG: 1535 ---GGUCGAGGGCGGCUA-GGCCUCGGC--ACCUAACCCUGAUUUUCAUUAGCUgUGGGU 1588 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 +CUG :CUUUUG+UC C+GCCCGCUGUUUUUCUCGCUGACUU CAGCGGGC+ G+AAAG: 1589 UCUGGUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCCAGGAAAGU 1648 ---->>>>>->>>----------------------------..--------------->> 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAA..AAAAAuGUCAGCCGCgg 177 C++G:CC::C:GC G+CCACCG +C +UC+ GAGCC CAA A AAA+GUCAGC GC G 1649 CCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCU-CAAaaACAAACGUCAGC-GCAG 1706 >->>..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<..<<<<--- 178 gccc..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg..CCCgCCU 233 : C :::+: C:C:+G: GC:::GCGGCG+CG G CCGCCCAG :CCCG CCCGCCU 1707 GAGCucCAGGUUCGCCGGGAGCUCCGCGGCGCCG-GGCCGCCCAG-UCCCGuaCCCGCCU 1764 ------<<<<<-<<<<__________________________>>>>>>>>>--------- 234 ggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCG 293 AGGCCGCGG CGGCC+GGGG UCU GGA +CC+CUGCCGCCGCGAAGAG UCG 1765 ACAGGCCGCGGCCGGCCUGGGG--UCUUAGGA---CUCCGCUGCCGCCGCGAAGAGCUCG 1819 ------------->>>>----->>>>>>---->>>>->>>>-------.------->>>> 294 UCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGg.cucuGGccgCa 352 CUCUGUCAGCC+CGGG+C C CGGG:GC G GGGCCAG C +GG C++ +GCCGC: 1820 CCUCUGUCAGCCGCGGGGCGC-CGGGGGCUG-GGGCCAGGC----CGGgCGAGCGCCGCG 1873 >>.,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->> 353 GG.GAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGC 411 :: GA AG AA+GGA:C GGU:CCCGUG++CGGUG: CUU:CCUGAGCUGUGG:A GU:C 1874 AAgGACAGGAAUGGAACUGGUCCCCGUGUUCGGUGU-CUUACCUGAGCUGUGGGAAGUGC 1932 >>---->>>--->>>>:::::::: 412 accCGGgacuCGGcUCcgACAcgC 435 ACCCGG:ACUCGG:UC ACA +C 1933 ACCCGGAACUCGGUUCUCACAACC 1956 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #15813,sp|AF221922.1|AF221922 Mus musculus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GGUCGAGGGCGGCUAGGCCUCGGCACCUAACCCUGAUUUUCAUUAGCUGUGGGUUCUGGUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCCAGGAAAGUCCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCUCAAAAACAAACGUCAGCGCAGGAGCUCCAGGUUCGCCGGGAGCUCCGCGGCGCCGGGCCGCCCAGUCCCGUACCCGCCUACAGGCCGCGGCCGGCCUGGGGUCUUAGGACUCCGCUGCCGCCGCGAAGAGCUCGCCUCUGUCAGCCGCGGGGCGCCGGGGGCUGGGGCCAGGCCGGGCGAGCGCCGCGAGGACAGGAAUGGAACUGGUCCCCGUGUUCGGUGUCUUACCUGAGCUGUGGGAAGUGCACCCGGAACUCGGUUCUCACAACC hit 17 : 70 490 (fwd) 264.01 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 G :C+:G:G :+::: G :C + CUAACCCU AU+ A GC: ::GG: 70 ---GGUCGAGGGCGGCUA-GGCCUCGGC--ACCUAACCCUGAUUUUCAUUAGCUgUGGGU 123 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 +CUG :CUUUUG+UC C+GCCCGCUGUUUUUCUCGCUGACUU CAGCGGGC+ G+AAAG: 124 UCUGGUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCCAGGAAAGU 183 ---->>>>>->>>----------------------------..--------------->> 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAA..AAAAAuGUCAGCCGCgg 177 C++G:CC::C:GC G+CCACCG +C +UC+ GAGCC CAA A AAA+GUCAGC GC G 184 CCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCU-CAAaaACAAACGUCAGC-GCAG 241 >->>..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<..<<<<--- 178 gccc..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg..CCCgCCU 233 : C :::+: C:C:+G: GC:::GCGGCG+CG G CCGCCCAG :CCCG CCCGCCU 242 GAGCucCAGGUUCGCCGGGAGCUCCGCGGCGCCG-GGCCGCCCAG-UCCCGuaCCCGCCU 299 ------<<<<<-<<<<__________________________>>>>>>>>>--------- 234 ggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCG 293 AGGCCGCGG CGGCC+GGGG UCU GGA +CC+CUGCCGCCGCGAAGAG UCG 300 ACAGGCCGCGGCCGGCCUGGGG--UCUUAGGA---CUCCGCUGCCGCCGCGAAGAGCUCG 354 ------------->>>>----->>>>>>---->>>>->>>>-------.------->>>> 294 UCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGg.cucuGGccgCa 352 CUCUGUCAGCC+CGGG+C C CGGG:GC G GGGCCAG C +GG C++ +GCCGC: 355 CCUCUGUCAGCCGCGGGGCGC-CGGGGGCUG-GGGCCAGGC----CGGgCGAGCGCCGCG 408 >>,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>> 353 GGGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCa 412 ::GA AG AA+GGA:C GGU:CCCGUG++CGGUG: CUU:CCUGAGCUGUGG:A GU:CA 409 AGGACAGGAAUGGAACUGGUCCCCGUGUUCGGUGU-CUUACCUGAGCUGUGGGAAGUGCA 467 >---->>>--->>>>:::::::: 413 ccCGGgacuCGGcUCcgACAcgC 435 CCCGG:ACUCGG:UC ACA +C 468 CCCGGAACUCGGUUCUCACAACC 490 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #28383,sp|AY058900.1|AY058900 Mus musculus castaneus telomerase RNA, genomic sequence. ----isReversed: 0 ----hitSequence: ACCUAACCCUGAUUUUCAUUAGCUGUGGGUUCUGGUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCCAGGAAAGUCCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCUCAAAAACAAACGUCAGCGCAGGAGCUCCAGGUUCGCCGGGAGCUCCGCGGCGCCGGGCCGCCCAGUCCCGUACCCGCCUACAGGCCGCGGCCGGCCUGGGGUCUUAGGACUCCGCUGCCGCCGCGAAGAGCUCGCCUCUGUCAGCCGCGGGGCGCCGGGGGCUGGGGCCAGGCCGGGCGAGCGCCGCGAGGACAGGAAUGGAACUGGUCCCCGUGUUCGGUGUCUUACCUGAGCUGUGGGAAGUGCACCCGGAACUCGGUUCUCACAACC hit 18 : 1 397 (fwd) 238.16 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 CUAACCCU AU+ A GC: ::GG: 1 ------------------------------ACCUAACCCUGAUUUUCAUUAGCUgUGGGU 30 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 +CUG :CUUUUG+UC C+GCCCGCUGUUUUUCUCGCUGACUU CAGCGGGC+ G+AAAG: 31 UCUGGUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCCAGGAAAGU 90 ---->>>>>->>>----------------------------..------------.---. 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAA..AAAAAuGUCAGC.CGC. 175 C++G:CC::C:GC G+CCACCG +C +UC+ GAGCC CAA A AAA+GUCAGC C + 91 CCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCU-CAAaaACAAACGUCAGCgCAGg 149 .>>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<..<<<<- 176 .gggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg..CCCgC 231 G++CC+ ++ C+CC+ GG+GC:::GCGGCG+CG G CCGCCCAG :CCCG CCCGC 150 aGCUCCAgGUUCGCCG---GGAGCUCCGCGGCGCCG-GGCCGCCCAG-UCCCGuaCCCGC 204 --------<<<<<-<<<<__________________________>>>>>>>>>------- 232 CUggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUU 291 CU AGGCCGCGG CGGCC+GGGG UCU GGA +CC+CUGCCGCCGCGAAGAG U 205 CUACAGGCCGCGGCCGGCCUGGGG--UCUUAGGA---CUCCGCUGCCGCCGCGAAGAGCU 259 --------------->>>>----->>>>>>---->>>>->>>>-------.------->> 292 CGUCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGg.cucuGGccg 350 CG CUCUGUCAGCC+CGGG+C C CGGG:GC G GGGCCAG C +GG C++ +GCCG 260 CGCCUCUGUCAGCCGCGGGGCGC-CGGGGGCUG-GGGCCAGGC----CGGgCGAGCGCCG 313 >>>>,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>---> 351 CaGGGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUG 410 C:::GA AG AA+GGA:C GGU:CCCGUG++CGGUG: CUU:CCUGAGCUGUGG:A GU: 314 CGAGGACAGGAAUGGAACUGGUCCCCGUGUUCGGUGU-CUUACCUGAGCUGUGGGAAGUG 372 >>>---->>>--->>>>:::::::: 411 CaccCGGgacuCGGcUCcgACAcgC 435 CACCCGG:ACUCGG:UC ACA +C 373 CACCCGGAACUCGGUUCUCACAACC 397 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #54145,sp|U33831.1|MM33831 Mus musculus telomerase RNA component gene. ----isReversed: 0 ----hitSequence: GGUCGAGGGCGGCUAGGCCUCGGCACCUAACCCUGAUUUUCAUUAGCUGUGGGUUCUGGUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCCAGGAAAGUCCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCUCAAAAACAAACGUCAGCGCAGGAGCUCCAGGUUCGCCGGGAGCUCCGCGGCGCCGGGCCGCCCAGUCCCGUACCCGCCUACAGGCCGCGGCCGGCCUGGGGUCUUAGGACUCCGCUGCCGCCGCGAAGAGCUCGCCUCUGUCAGCCGCGGGGCGCCGGGGGCUGGGGCCAGGCCGGGCGAGCGCCGCAAGGACAGGAAUGGAACUGGUCCCCGUGUUCGGUGUCUUACCUGAGCUGUGGGAAGUGCACCCGGAACUCGGUUCUCACAACC hit 19 : 66 486 (fwd) 264.95 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 G :C+:G:G :+::: G :C + CUAACCCU AU+ A GC: ::GG: 66 ---GGUCGAGGGCGGCUA-GGCCUCGGC--ACCUAACCCUGAUUUUCAUUAGCUgUGGGU 119 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 +CUG :CUUUUG+UC C+GCCCGCUGUUUUUCUCGCUGACUU CAGCGGGC+ G+AAAG: 120 UCUGGUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCCAGGAAAGU 179 ---->>>>>->>>----------------------------..--------------->> 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAA..AAAAAuGUCAGCCGCgg 177 C++G:CC::C:GC G+CCACCG +C +UC+ GAGCC CAA A AAA+GUCAGC GC G 180 CCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCU-CAAaaACAAACGUCAGC-GCAG 237 >->>..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<..<<<<--- 178 gccc..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg..CCCgCCU 233 : C :::+: C:C:+G: GC:::GCGGCG+CG G CCGCCCAG :CCCG CCCGCCU 238 GAGCucCAGGUUCGCCGGGAGCUCCGCGGCGCCG-GGCCGCCCAG-UCCCGuaCCCGCCU 295 ------<<<<<-<<<<__________________________>>>>>>>>>--------- 234 ggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCG 293 AGGCCGCGG CGGCC+GGGG UCU GGA +CC+CUGCCGCCGCGAAGAG UCG 296 ACAGGCCGCGGCCGGCCUGGGG--UCUUAGGA---CUCCGCUGCCGCCGCGAAGAGCUCG 350 ------------->>>>----->>>>>>---->>>>->>>>-------.------->>>> 294 UCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGg.cucuGGccgCa 352 CUCUGUCAGCC+CGGG+C C CGGG:GC G GGGCCAG C +GG C++ +GCCGC: 351 CCUCUGUCAGCCGCGGGGCGC-CGGGGGCUG-GGGCCAGGC----CGGgCGAGCGCCGCA 404 >>,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>> 353 GGGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCa 412 ::GA AG AA+GGA:C GGU:CCCGUG++CGGUG: CUU:CCUGAGCUGUGG:A GU:CA 405 AGGACAGGAAUGGAACUGGUCCCCGUGUUCGGUGU-CUUACCUGAGCUGUGGGAAGUGCA 463 >---->>>--->>>>:::::::: 413 ccCGGgacuCGGcUCcgACAcgC 435 CCCGG:ACUCGG:UC ACA +C 464 CCCGGAACUCGGUUCUCACAACC 486 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/phg.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----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/rod.dat.fasta.gz ----sequence: #4877,sp|AF221909.1|AF221909 Microtus ochrogaster telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GGGCGGACGGGCGACGCGCGCCUCUUCUAACCCUAAAAACUGGAGCUGUAGGUGUUGCUCUUUCAGCGUCGCCCGCUGUUUUUCUCGCUGGCUUUCAGCGGGCCAGAAAGUUCAGACCUCUCAGCAGAUCGUCGCGUCGUUCUCAACCACAAAAAAUGCCAGCGCAAAGCGCGUCAGCCUAGAACCUUGCGGCCCCGGGCCGCCCAGCCCCGCACCCGCCUUGAGGCCGCGGUUGGCCUGGAGUUCUCCGGACUCCGCUGCCGCCGCGAAGAGUUCGUCUCUGUCAGCCGCGGAGUAUCAGGGGCUGGGGCCAGGCCCGGACAGCGUCGCAAGUACAGUAACGGAGCUGGUCCUUGUUCGGUGGCUUCCCUGAGCUGUAGGAAGUACACCCAGAGCUCGGCUCCUACAACC hit 20 : 86 496 (fwd) 241.53 bits ::::<<<<<<<<...<<<<<<-<<<<<---------------------------<<<.<< 1 uggGcccggggg...ggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.ua 56 GGG +: GG+ G:+G :C ++U UUCUAACCCUAA A GG GC: A 86 -GGG------CGgacGGGCGACGCGCGCCUC--UUCUAACCCUAAA-AACUGGAGCUgUA 135 <<<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->> 57 ggcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAa 116 GG:G UG+:CUUU + C+ +GCCCGCUGUUUUUCUCGCUG CUUUCAGCGGGC+ +AA 136 GGUGUUGCUCUUU-CAGCGUCGCCCGCUGUUUUUCUCGCUGGCUUUCAGCGGGCC-AGAA 193 >>>---->>>>>.->>>----------------------------------------.-- 117 AGCcgcGgccua.CcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGC.CG 174 AG: ++G:CCU C:GC G C CG ++ GU++ A+CCA CA AAAAAUG CAGC C 194 AGUUCAGACCUCuCAGCAGAUCGUCGCGUCGUUCUCAACCA-CA-AAAAAUGCCAGCgCA 251 ->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<..<<<<- 175 Cgggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg..CCCgC 231 G: C :C +CC: +G++CC:UGCGGC +CG G CCGCCCAG CCC+G CCGC 252 AAGC-GCgUCAGCCU----AGAACCUUGCGGCCCCG-GGCCGCCCAG-CCCCGcaCCCGC 304 --------<<<<<-<<<<__________________________>>>>>>>>>------- 232 CUggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUU 291 CU+GAGGCCGCGGU:GGCC+ GG UUCUCCGGA +CC+CUGCC:CCGCGAAGAGUU 305 CUUGAGGCCGCGGUUGGCCU-GGAGUUCUCCGGA---CUCCGCUGCCGCCGCGAAGAGUU 360 --------------->>>>----->>>>>>---->>>>->>>>-------------->>> 292 CGUCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgC 351 CGUCUCUGUCAGCC+CGG + C+GGGGC G GGGCCAG C+CGG++ + +G CGC 361 CGUCUCUGUCAGCCGCGGAGUAU-CAGGGGCUG-GGGCCAGGCCCGGAC---AGCGUCGC 415 >>>,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->> 352 aGGGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGC 411 A:G A AG+AACGGAGC GG::C UG++CGGUG CUUCC UGAGCUGU GGA GU C 416 AAGUACAGUAACGGAGCUGGUCCU--UGUUCGGUGG-CUUCCCUGAGCUGUAGGAAGUAC 472 >>--.-->>>--->>>>:::::::: 412 accC.GGgacuCGGcUCcgACAcgC 435 ACCC G::CUCGGCUCC+ACA +C 473 ACCCa-GAGCUCGGCUCCUACAACC 496 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----sequence: #4878,sp|AF221916.1|AF221916 Rattus norvegicus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GGGACAAGGGCCGCGCGACUUCUGCGUCUAACCCUAUUGUUAUAGCUGUGGGUUCUGUUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUUCAGCGGGCCUGGAAAGUUCAGACCUGCAGCGGGUCACCGCGCAUUCUGGAACCUCAAAAAAUGUCAGCGUAGGAGCUCUGGUGCCAGAGCUCCGCGGCGCUGGGCCGCCCAGCCCGGUACCCGCCUGGAGGCCGCGGACGGCCUGGGGUCUUAGAACUCCGCUGCCGCCGUGAAGAGCUAGUCUCUGUUAGCUACGGGGCACCGGGCGCUGGGGUCAGGCCGGGAGAGCGCCGCAAGGACAGUAACGGAACUGGUCCCUGAGUUCGGUGGCUUUCCUGAGAUGUGGGAAGUGCACCUGGAACUCAGUUCCUACAACC hit 21 : 69 481 (fwd) 245.54 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 GGG:C :G :+: :+G :: +U +UCUAACCCUA UG + GC: ::GG: 69 -GGGACAAGGGCCG--CGCGACUUCUGC--GUCUAACCCUAUUGUUAUA--GCUgUGGGU 121 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 +CUGU:CUUUUG+UC C+GCCCGCUGUUUUUCUCGCUGACUUUCAGCGGGC+ G+AAAG: 122 UCUGUUCUUUUGUUCUCCGCCCGCUGUUUUUCUCGCUGACUUUCAGCGGGCCUGGAAAGU 181 ---->>>>>->>>------------------------------------------->>>- 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggc 179 ++G:CC::C:GC G+ CACCG +CA+UCUGGA+CC CA AAAAAUGUCAGC :: 182 UCAGACCUGCAGCGGGUCACCGCGCAUUCUGGAACCU-CA-AAAAAUGUCAGCGU-AGGA 238 >>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<..<<<<------ 180 cc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg..CCCgCCUggA 236 C : :+: C: G:GC:::GCGGCG+ G G CC+CCCAG CCC G CCCGCCUGGA 239 GCuC---UGGUGCCAGAGCUCCGCGGCGCUG-GGCCGCCCAG-CCCGGuaCCCGCCUGGA 293 ---<<<<<-<<<<__________________________>>>>>>>>>------------ 237 GGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCU 296 GGCC CGG CGGCC+GGGG UCU G A +CC+CUGCCGCCG GAAGAG U GUCU 294 GGCCGCGGACGGCCUGGGG--UCUUAGAA---CUCCGCUGCCGCCGUGAAGAGCUAGUCU 348 ---------->>>>----->>>>>>---->>>>->>>>-------------->>>>>>,, 297 CUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGGGA 356 CUGU AGC CGGG+C C GGG +C +GGG+CAG C++GG+G + +GCCGC:::GA 349 CUGUUAGCUACGGGGCA--CCGGGCGCUGGGGUCAGGCCGGGAG---AGCGCCGCAAGGA 403 ,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>--- 357 GAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccCG 416 AG+AACGGA:C GGU:CC+G G++CGGUG CUU:CCUGAG UGUGG:A GU CACC G 404 CAGUAACGGAACUGGUCCCUGAGUUCGGUGG-CUUUCCUGAGAUGUGGGAAGUGCACCUG 462 ->>>--->>>>:::::::: 417 GgacuCGGcUCcgACAcgC 435 G:ACUC G:UCC+ACA +C 463 GAACUCAGUUCCUACAACC 481 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----sequence: #4879,sp|AF221928.1|AF221928 Cricetulus griseus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GCGACCUGGCGGGCGGCUGCCAGUCUAACCCUGAAUUCUGAGAGCUGUGGGUACUGUGCUUUCGUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCGGGAAAGUCCAGACCUGCAGCGGGCCAUCGCGCGUUUUCCACCACAAAAAAAUGUCAGCGCUGGGCUCAUGUGCCUGGAGCCUUGCGGCCGGCCGCCCAGCCCCGCACCCGCCUGAGGCCGCGGUCGGCCUGGAGUCCUCGGGCUCCGCUGCCGCCGCGAAGAGCUAGACUCUGUCAGCCGCGGGGCGUCAGGGGCUGGGGCGAGCCCCGGCAGCGCCGCAAGCAGAGAAACGGAGCUGGUCCCGUGAACGGUGACUUCCCUGAGUUGUGGGAAAUGCACCAGGAACUCGGUUCCCACAACC hit 22 : 73 476 (fwd) 249.94 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 G+G:CC GG : : GG + G:C: +UCUAACCCU A + +G GC: ::GG: 73 -GCGACCUGGCGGGCGG-CUGCCA------GUCUAACCCUGAAUUCUGAGAGCUgUGGGU 124 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 CUGU CUUU ++UC CCGCCCGCUGUUUUUCUCGCUGACUU CAGCGGGCG G+AAAG 125 ACUGUGCUUU-CGUCUCCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGGCG-GGAAAGU 182 ---->>>>>->>>------------------------------------------->>>- 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggc 179 C++G:CC::C:GC G+CCA CG +C +U+U +CCA CAAAAAAAUGUCAGC GC:G:+ 183 CCAGACCUGCAGCGGGCCAUCGCGCGUUUU-CCACCA-CAAAAAAAUGUCAGC-GCUGGG 239 >>>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<..<<<<------- 180 ccuccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg..CCCgCCUggAG 237 C C : : CC GG:GCC:UGCGGC G+CCGCCCAG CCC+G CCCGCCUG AG 240 CU--CAUGUGCCUGGAGCCUUGCGGCC----GGCCGCCCAG-CCCCGcaCCCGCCUG-AG 291 --<<<<<-<<<<__________________________>>>>>>>>>------------- 238 GCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCUC 297 GCCGCGGUCGGCC+ GG U CUC GG +CC+CUGCCGCCGCGAAGAG U G CUC 292 GCCGCGGUCGGCCU-GGAGUCCUCGGG----CUCCGCUGCCGCCGCGAAGAGCUAGACUC 346 --------->>>>----->>>>>>---->>>>->>>>-------------->>>>>>,,, 298 UGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGGGAG 357 UGUCAGCC+CGGG+C C+GGGGC G GGGC+AG+C+CGG + +GCCGCA:G AG 347 UGUCAGCCGCGGGGCGU-CAGGGGCUG-GGGCGAGCCCCGG----CAGCGCCGCAAGCAG 400 ,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>---- 358 AGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccCGG 417 AG AACGGA C GGU:CC GUG CGGUG: CUUCCCUGAG UGUGGGA U:CACC GG 401 AGAAACGGAGCUGGUCCC-GUGAACGGUGA-CUUCCCUGAGUUGUGGGAAAUGCACCAGG 458 >>>--->>>>:::::::: 418 gacuCGGcUCcgACAcgC 435 :ACUCGG UCC ACA +C 459 AACUCGGUUCCCACAACC 476 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----sequence: #4880,sp|AF221929.1|AF221929 Cavia porcellus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCCGGGAGGGGUGGUGGUCUUCCCUGUCUAACCCUAAGGUGAAGAGGACGUGGGUGCCGUGUUUUUCGCUCCCGCACGCUGUUUUUCUCGCUGACUUUCAGCGUGCAGAAAAGCCUUGGCCUACCGUCGGUUAUUGUCUAAUUAGAAGCAAACAAAAAAUGUCAGCGUGGCCGGGCCGCCCCUCCCGGAUACCUGCGGCGGCUCGUCCACCGGCCCCCGAGCCCCGCCUAGGCCGCGGCCGGCGCGGGGCUUCCCUGGAGGCGCCCAUGGCCGCCGCGAAGAGUUCGUCUCUGUCAGCUGCGGGUCGCCCGGGGGCCGCGGGAGAGUCCCAGGCCUUGGCCGCAGGGAGAGAAACGGAGCAGGUCCUCGCGCGGUGCACUCCCCUGAGCUGUGGGAAGUGCACCGGGACGGGCUCCUACAAGC hit 23 : 92 517 (fwd) 319.11 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------.-<<<<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg.ggcguaggc 59 UGGG CCGGG:GGGG:G: : ::C+U +U+UCUAACCCUAA G AG G:CGU:GG: 92 UGGG-CCGGGAGGGGUGG-UGGUCUUCCCUGUCUAACCCUAAGGUGAAGAgGACGUGGGU 149 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 GC+GUG:UUUU++ +CC GC:CGCUGUUUUUCUCGCUGACUUUCAGCG:GC GAAAA:C 150 GCCGUGUUUUUCGCUCCCGCACGCUGUUUUUCUCGCUGACUUUCAGCGUGCA-GAAAAGC 208 ---->>>>>->>>------------------------------------------->>>- 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCgggc 179 C +G:CC:ACCG:CG+ A GUC+A U+ G AGC+A+CA AAAAAUGUCAGC G::C 209 CUUGGCCUACCGUCGGUUAUUGUCUAAUUAGAAGCAAACA-AAAAAUGUCAGCGU-GGCC 266 >>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<----- 180 cc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCUgg 235 : :C:CCCC:CCCGG+ +CCUGCGGCGGC CG:C :CC+GCCCCCG CCCGCCU 267 GGgCCGCCCCUCCCGGAUACCUGCGGCGGCUCGUC-CACCGGCCCCCGagcCCCGCCU-- 323 ----<<<<<-<<<<__________________________>>>>>>>>>----------- 236 AGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUC 295 AGGCCGCGG CGGC CGGGGCUUC+C GGAGGCGCCCA+ GCCGCCGCGAAGAGUUCGUC 324 AGGCCGCGGCCGGCGCGGGGCUUCCCUGGAGGCGCCCAUGGCCGCCGCGAAGAGUUCGUC 383 ----------->>>>----->>>>>>---->>>>->>>>-------------->>>>>>, 296 UCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaGGG 355 UCUGUCAGC +CGGGUC C CGGGGGCCG GG: +AG:C+C+GG++ UGGCCGCAGGG 384 UCUGUCAGCUGCGGGUCGCCCGGGGGCCGCGGGAGAGUCCCAGGCC--UUGGCCGCAGGG 441 ,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>>-- 356 AGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccC 415 AGAG AACGGAGC GGUCC +GCGCGGUGC CU:CCCUGAGCUGUGGG: GUGCACC 442 AGAGAAACGGAGCAGGUCCU--CGCGCGGUGCACUCCCCUGAGCUGUGGGAAGUGCACC- 498 -->>>--->>>>:::::::: 416 GGgacuCGGcUCcgACAcgC 435 GGGAC GGCUCC+ACA GC 499 GGGACG-GGCUCCUACAAGC 517 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----sequence: #4881,sp|AF221930.1|AF221930 Geomys breviceps telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GUGCCUGGGAGGGGGGGCUGGUCCCACUCUUCUAACCCUAAGGGUGUCGGCUGUAGGCGCCGUGCUUUUUACUUCCCCGCGCGCUGUUUUUCUGGCUGGCUUUCAGCGAGCGGAAAAAGCUUUGGUCUACAGGCCACUCACUUUGUAUCCCGAAACCAAAUUGAAAAAAAAAAAUGCCAGCUCCGGCCGGUCCACCCCUCCCGGGGUCCUGCGGCCCGGCCGCCCGCCCGAACCCCCCGCGACCCGCCUGAGGCCACGGCCGGCCCGGGGCCUCUGCGGAGGUGCCCAUUGCCGCCGCGAAGAGUUAGGCUCUGUCAGCCGCGGGAUCCGCGCGGGCCGGGCCGCGGCCGGACGCCGAUCCGCAGGGACAGCAACGGAACCGGCCCCUUCGCCCUGUGCGCUUCCCGGAGCUGUGGGAUGAGCACCCGGGGUCGGCUCCUACAGUU hit 24 : 101 546 (fwd) 302.72 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 G GCC:GGG:GGGG G:+: ::C++ U+UUCUAACCCUAA GG G G:C: UAG+C 101 -GUGCCUGGGAGGGGGGGCUGGUCCCACUCUUCUAACCCUAAGGGUGUC-GGCUgUAGGC 158 -----<<<<<.-------.<<<<<<<<<_________________>>>>>>>>>--->>> 60 GCuGuGCUuU.UgcuccC.cGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaA 117 GC+GUGCUUU U CU+CC CGC CGCUGUUUUUCU+GCUG CUUUCAGCG GCGG AAAA 159 GCCGUGCUUUuUACUUCCcCGCGCGCUGUUUUUCUGGCUGGCUUUCAGCGAGCGGAAAAA 218 >>---->>>>>->>>-.------------------------.......------------ 118 GCcgcGgccuaCcgcC.GuCCACCGUccAgUcUGGagccag.......CAAAAAAAuGUC 169 GC +GG+CUAC:G:C + CAC U++A+ C+G A+CCA+ AAAAAAAUG C 219 GCUUUGGUCUACAGGCcACUCACUUUGUAUCCCGAAACCAAauugaaaAAAAAAAAUGCC 278 ------>>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--...<<<<< 170 AGCCGCgggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaG...cccCc 225 AGC+ CG::C : :C CCCC:CCC:GGG CCUGCGGC + GC +C::+ C G CCC C 279 AGCUCCGGCCGGuCCACCCCUCCCGGGGUCCUGCGGCCCGGCCGCCCGCCCGaacCCCCC 338 <...<<<<---------<<<<<-<<<<__________________________>>>>>>> 226 g...CCCgCCUggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCG 282 G CCCGCCUG AGGCC:CGG CGGCCCGGGGC+UCU CGGAGG+GCCCA+UGCCGCCG 339 GcgaCCCGCCUG-AGGCCACGGCCGGCCCGGGGCCUCUGCGGAGGUGCCCAUUGCCGCCG 397 >>---------------------->>>>----->>>>>>---->>>>->>>>-------. 283 CGAAGAGUUCGUCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGg. 341 :GAAGAGUU G+CUCUGUCAGCC+CGGG CCGCG GGGCCG+G +:C:G+ GG 398 CGAAGAGUUAGGCUCUGUCAGCCGCGGGAUCCGCGCGGGCCGGGCCGCGGCC-----GGa 452 ------.->>>>>>,,,,,,,,,,<<<<--<<<----------<<<<---<<<<______ 342 cucuGG.ccgCaGGGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCU 400 C+C G CCGCAGGGA AGCAACGGA:C G+:CCC+ +GC C GUGCGCUUCCC GAGCU 453 CGCCGAuCCGCAGGGACAGCAACGGAACCGGCCCCUUCGCCCUGUGCGCUUCCCGGAGCU 512 __>>>>--->>>>---->>>--->>>>:::::::: 401 GUGGGAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 GUGGGA+G GCACCCGGG:++ GG:UCC+ACA ++ 513 GUGGGAUGAGCACCCGGGGUC-GGCUCCUACAGUU 546 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----sequence: #4882,sp|AF221937.1|AF221937 Chinchilla brevicaudata telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGGGCCGGGAGGGGAGGUGGGCAUGUUUUGUCUAACCCUAACUAGGAGGAGGACGUAGGCGCCGUGCUUUUGUUCCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGUGCGGAAAAGCCUUGGCCUGCCGUCGACCACUGUCUAAUUAAAAGCAAACAAAAAAUGUCAGCGUGGCCGGUCCGCCCCUCCCGGGUACCUGCGGCAGCUCGCCCGGCUGGCCCCCGAGCCCCGCCCAGGGCCACGGCUGGCGCGGGGCUUCUCCGGGAGCGCCAUGGCCGCCGCGAAGAGUUCGUCUCUGUCAGCCGCGGGUCGCGCGGGGGCCGCGGGGGAGUCCUAGGCCGAGUGGCCGCAGGAAGAGAAACGGAGCCUGUCCCUGUGCACGGGGCGCUUCUCUGAGCUGUGGGAAGUGCCCCGAGACUCGGCUCCUACAAGC hit 25 : 112 545 (fwd) 333.86 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------..-<<<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg..ggcguagg 58 UGGGCC GGG:GGGG:G: +G C:+ UUUU+UCUAACCCUAA + GAGG G:CG:AGG 112 UGGGCC-GGGAGGGGAGGUGGGCAUGUUUUGUCUAACCCUAACUAGGAGGagGACGUAGG 170 <-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>> 59 cGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAG 118 CGC+GUGCUUUUG+UCCCCGC CGCUGUUUUUCUCGCUGACUUUCAGCG GCG GAAAAG 171 CGCCGUGCUUUUGUUCCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGUGCG-GAAAAG 229 >---->>>>>->>>------------------------------------------->>> 119 CcgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCGCggg 178 CC +GGCCU:CCG:CG CCAC GUC+A U+ AGC+A+CA AAAAAUGUCAGC G :G 230 CCUUGGCCUGCCGUCGACCACUGUCUAAUUAAAAGCAAACA-AAAAAUGUCAGC-G-UGG 286 ->>..>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<...<<<<--- 179 ccc..uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg...CCCgCCU 233 CC+ :C:CCCC:CCCGGG +CCUGCGGC+GC CG CC C:+GCCCCCG CCCGCC+ 287 CCGguCCGCCCCUCCCGGGUACCUGCGGCAGCUCGCCCGGCUGGCCCCCGagcCCCGCCC 346 ------<<<<<-<<<<__________________________>>>>>>>>>--------- 234 ggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCG 293 GGCC:CGG :GGC CGGGGCUUCUCCGG+ GCGCC A+ GCC:CCG:GAAGAGUUCG 347 A-GGGCCACGGCUGGCGCGGGGCUUCUCCGGGAGCGCC-AUGGCCGCCGCGAAGAGUUCG 404 ------------->>>>----->>>>>>---->>>>->>>>-------------->>>>> 294 UCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGgcucuGGccgCaG 353 UCUCUGUCAGCC+CGGGUC CGCGGGGGCCG :G +AG C+ +GG++ UGGCCGCAG 405 UCUCUGUCAGCCGCGGGUCGCGCGGGGGCCGCGGGGGAGUCCUAGGCCGAGUGGCCGCAG 464 >,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>--->>>> 354 GGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCac 413 G AGAG AACGGAGC GUCCC+GUGC CGG:GCGCUUC:CUGAGCUGUG:GA GUGC:C 465 GAAGAGAAACGGAGCCUGUCCCUGUGCACGGGGCGCUUCUCUGAGCUGUGGGAAGUGCCC 524 ---->>>--->>>>:::::::: 414 cCGGgacuCGGcUCcgACAcgC 435 C G GACUCGGCUCC+ACA GC 525 C-GAGACUCGGCUCCUACAAGC 545 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----sequence: #8894,sp|AY058901.1|AY058901 Mus spretus telomerase RNA, genomic sequence. ----isReversed: 0 ----hitSequence: ACCUAACCCUGAUUUUCAUUAGCUGUGGGUUCUGGUCUUUUGUUCUUCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGACCAGUAAAGUCCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCUCAAAAACAAACGUCAGCGCAGGAGCUUCAGGUUCGCCGGGAGCUCCGCGGCGUCGGGCCGCCCAGUCCCGUACCCGCCUACAGGCCGCGGCCGGCCUGGGGUCUUAGGACUCCGCUGCCGCCGCGAAGAGCUCGCCUCUGUCAGCCGCGGGGCGCCGGGGGCUGGGGCCAGGCCGGGCGAGCGCCGCGAGGACAGGAAUGGAACUGGUCCCCGUGUUUGGUGUCUUACCUGAGCUGUGGGAAGUGCACCCGGAACUCGGUUCUCACAACC hit 26 : 1 397 (fwd) 224.84 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 CUAACCCU AU+ A GC: ::GG: 1 ------------------------------ACCUAACCCUGAUUUUCAUUAGCUgUGGGU 30 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 +CUG :CUUUUG+UC +G CCGCUGUUUUUCUCGCUGACUU CAGCGG C+ G AAAG: 31 UCUGGUCUUUUGUUCUUCGCCCGCUGUUUUUCUCGCUGACUUCCAGCGGACCAGUAAAGU 90 ---->>>>>->>>----------------------------..------------.---. 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAA..AAAAAuGUCAGC.CGC. 175 C++G:CC::C:GC G+CCACCG +C +UC+ GAGCC CAA A AAA+GUCAGC C + 91 CCAGACCUGCAGCGGGCCACCGCGCGUUCCCGAGCCU-CAAaaACAAACGUCAGCgCAGg 149 .>>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<..<<<<- 176 .gggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcg..CCCgC 231 G+++C+ ++ C+CC+ GG+GC:::GCGGCG+CG G CCGCCCAG :CCCG CCCGC 150 aGCUUCAgGUUCGCCG---GGAGCUCCGCGGCGUCG-GGCCGCCCAG-UCCCGuaCCCGC 204 --------<<<<<-<<<<__________________________>>>>>>>>>------- 232 CUggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUU 291 CU AGGCCGCGG CGGCC+GGGG UCU GGA +CC+CUGCCGCCGCGAAGAG U 205 CUACAGGCCGCGGCCGGCCUGGGG--UCUUAGGA---CUCCGCUGCCGCCGCGAAGAGCU 259 --------------->>>>----->>>>>>---->>>>->>>>-------.------->> 292 CGUCUCUGUCAGCCucGGGuCcCGcgGgggccgagggccaggcgcGGgGg.cucuGGccg 350 CG CUCUGUCAGCC+CGGG+C C CGGG:GC G GGGCCAG C +GG C++ +GCCG 260 CGCCUCUGUCAGCCGCGGGGCGC-CGGGGGCUG-GGGCCAGGC----CGGgCGAGCGCCG 313 >>>>,,,,,,,,,,<<<<--<<<----------<<<<---<<<<________>>>>---> 351 CaGGGAGAGcAAcGGAgCGGgucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUG 410 C:::GA AG AA+GGA:C GGU:CCCGUG++ GGUG: CUU:CCUGAGCUGUGG:A GU: 314 CGAGGACAGGAAUGGAACUGGUCCCCGUGUUUGGUGU-CUUACCUGAGCUGUGGGAAGUG 372 >>>---->>>--->>>>:::::::: 411 CaccCGGgacuCGGcUCcgACAcgC 435 CACCCGG:ACUCGG:UC ACA +C 373 CACCCGGAACUCGGUUCUCACAACC 397 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----sequence: #36726,sp|AF147806.1|AF147806 Gallid herpesvirus 2 terminal repeat long (TRL) region, partial sequence; unique long (UL) region, complete sequence; and internal repeat long (IRL) region, partial sequence. ----isReversed: 0 ----hitSequence: CGUGGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAUCGGAGGUAUUGAUGGUACUGUCGCCGCGCUCCCUCCGCCCGCUGUUUACUCGCUGACUUUCAGCGGGCUAGGGGAGCCGCCCCAGGGGGCGCCGCGGGGGGGAGGGGGUGGGGCGGACGCGGGAGAAAGGACCGAAAGGGGCUCCACGGCAAACAAAAAAAAAAAAACGUCAGCGAGGGGUCCUCUCGCCCCCAUCCGCCCUGGGGUCCUCGCCCGCAGGCCGCGGUCGGCCGGCACCCGCCAUUGCCGCCGCGAAGAGUUCGCCUCUGUCAGCCUCGGCGGGGCCCGGGAGAUGCGGAGCGCGGCCCCGCGCCCCCAGCAGAGCAACACGGGAGCGGCGCCCCCGGGGCAACCCCCGCGCCCCCCUGCGCCGUGGGGCGCGCGGACGGCGUCGCUCCCACACGC hit 27 : 250 692 (fwd) 156.09 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------......-<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg......ggcg 54 C:: G:GGG:G : GG::C+ U U+UCUAACCCUAAU + GAGG G+ 250 ----CGU-GGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAU-CGGAGGuauugaUGGU 303 .<<<<<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>-- 55 .uaggcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggG 113 :++:CGC+G+GCU:: C GCCCGCUG UUU CUCGCUGACUUUCAGCGGGC G 304 aCUGUCGCCGCGCUCCCUC----CGCCCGCUG-UUUACUCGCUGACUUUCAGCGGGCUAG 358 ->>>>>----...>>>>>->>>-----------------..................... 114 AAaAGCcgcG...gccuaCcgcCGuCCACCGUccAgUcU..................... 149 +::AGCCGC G:++:C 359 GGGAGCCGCCccaGGGGGC--------------------gccgcgggggggagggggugg 398 .....................................--------...------------ 150 .....................................GGagccag...CAAAAAAAuGUC 169 G A+ CA+ AAAAAAA+GUC 399 ggcggacgcgggagaaaggaccgaaaggggcuccacgGCAAACAAaaaAAAAAAAACGUC 458 ------>>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<<< 170 AGCCGCgggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcgCC 228 AGC +G::+CC : C:CCC:C +::G CC::G+G+ +C:C C 459 AGCGAGGGGUCCuCUCGCCCCCAUCCGCCCUGGGGU-----------------CCUCGCC 501 <<---------<<<<<-<<<<__________________________>>>>>>>>>---- 229 CgCCUggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGA 288 CGC AGGCCGCGGUCGGCC GG CC+ CCA+UGCCGCCGCGAAGA 502 CGC----AGGCCGCGGUCGGCC--GGC----ACCC------GCCAUUGCCGCCGCGAAGA 545 ------------------>>>>----->>>>>>.---->>>>->>>>------------- 289 GUUCGUCUCUGUCAGCCucGGGuCcCGcgGggg.ccgagggccaggcgcGGgGgcucuGG 347 GUUCG CUCUGUCAGCCUCGG G:G+ ++GAG +C GG GCG+GG+C C +G 546 GUUCGCCUCUGUCAGCCUCGGC-----GGGGCCcGGGAGAUGC-GGAGCGCGGCCCCGCG 599 ->>>>>>,,,,,,,,.,,..<<<<--<<<--....--------<<<<---<<<<______ 348 ccgCaGGGAGAGcAA.cG..GAgCGGgucCC....cgugcgCgguGCgCUUCCCUGAGCU 400 CC+C::G AGAGCAA GAGCGG::CCC G+ C ::GCGC :CCCUG GC 600 CCCCCAGCAGAGCAAcACggGAGCGGCGCCCccggGGCAACCCCCGCGCCCCCCUGCGCC 659 __>>>>--->>>>---->>>--->>>>:::::::: 401 GUGGGAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 GUGGG:CG GC:: C GG::UC GCUCC ACACGC 660 GUGGGGCGCGCGGAC-GGCGUC-GCUCCCACACGC 692 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----sequence: #36726,sp|AF147806.1|AF147806 Gallid herpesvirus 2 terminal repeat long (TRL) region, partial sequence; unique long (UL) region, complete sequence; and internal repeat long (IRL) region, partial sequence. ----isReversed: 1 ----hitSequence: CGUGGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAUCGGAGGUAUUGAUGGUACUGUCGCCGCGCUCCCUCCGCCCGCUGUUUACUCGCUGACUUUCAGCGGGCUAGGGGAGCCGCCCCAGGGGGCGCCGCGGGGGGGAGGGGGUGGGGCGGACGCGGGAGAAAGGACCGAAAGGGGCUCCACGGCAAACAAAAAAAAAAAAACGUCAGCGAGGGGUCCUCUCGCCCCCAUCCGCCCUGGGGUCCUCGCCCGCAGGCCGCGGUCGGCCGGCACCCGCCAUUGCCGCCGCGAAGAGUUCGCCUCUGUCAGCCUCGGCGGGGCCCGGGAGAUGCGGAGCGCGGCCCCGCGCCCCCAGCAGAGCAACACGGGAGCGGCGCCCCCGGGGCAACCCCCGCGCCCCCCUGCGCCGUGGGGCGCGCGGACGGCGUCGCUCCCACACGC hit 28 : 138426 137984 (rev) 156.09 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------......-<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg......ggcg 54 C:: G:GGG:G : GG::C+ U U+UCUAACCCUAAU + GAGG G+ 250 ----CGU-GGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAU-CGGAGGuauugaUGGU 303 .<<<<<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>-- 55 .uaggcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggG 113 :++:CGC+G+GCU:: C GCCCGCUG UUU CUCGCUGACUUUCAGCGGGC G 304 aCUGUCGCCGCGCUCCCUC----CGCCCGCUG-UUUACUCGCUGACUUUCAGCGGGCUAG 358 ->>>>>----...>>>>>->>>-----------------..................... 114 AAaAGCcgcG...gccuaCcgcCGuCCACCGUccAgUcU..................... 149 +::AGCCGC G:++:C 359 GGGAGCCGCCccaGGGGGC--------------------gccgcgggggggagggggugg 398 .....................................--------...------------ 150 .....................................GGagccag...CAAAAAAAuGUC 169 G A+ CA+ AAAAAAA+GUC 399 ggcggacgcgggagaaaggaccgaaaggggcuccacgGCAAACAAaaaAAAAAAAACGUC 458 ------>>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<<< 170 AGCCGCgggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcgCC 228 AGC +G::+CC : C:CCC:C +::G CC::G+G+ +C:C C 459 AGCGAGGGGUCCuCUCGCCCCCAUCCGCCCUGGGGU-----------------CCUCGCC 501 <<---------<<<<<-<<<<__________________________>>>>>>>>>---- 229 CgCCUggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGA 288 CGC AGGCCGCGGUCGGCC GG CC+ CCA+UGCCGCCGCGAAGA 502 CGC----AGGCCGCGGUCGGCC--GGC----ACCC------GCCAUUGCCGCCGCGAAGA 545 ------------------>>>>----->>>>>>.---->>>>->>>>------------- 289 GUUCGUCUCUGUCAGCCucGGGuCcCGcgGggg.ccgagggccaggcgcGGgGgcucuGG 347 GUUCG CUCUGUCAGCCUCGG G:G+ ++GAG +C GG GCG+GG+C C +G 546 GUUCGCCUCUGUCAGCCUCGGC-----GGGGCCcGGGAGAUGC-GGAGCGCGGCCCCGCG 599 ->>>>>>,,,,,,,,.,,..<<<<--<<<--....--------<<<<---<<<<______ 348 ccgCaGGGAGAGcAA.cG..GAgCGGgucCC....cgugcgCgguGCgCUUCCCUGAGCU 400 CC+C::G AGAGCAA GAGCGG::CCC G+ C ::GCGC :CCCUG GC 600 CCCCCAGCAGAGCAAcACggGAGCGGCGCCCccggGGCAACCCCCGCGCCCCCCUGCGCC 659 __>>>>--->>>>---->>>--->>>>:::::::: 401 GUGGGAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 GUGGG:CG GC:: C GG::UC GCUCC ACACGC 660 GUGGGGCGCGCGGAC-GGCGUC-GCUCCCACACGC 692 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----sequence: #51700,sp|AF243438.1|AF243438 Gallid herpesvirus 2 serotype 1 isolate Md5, complete genome. ----isReversed: 0 ----hitSequence: CGUGGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAUCGGAGGUAUUGAUGGUACUGUCGCCGCGCUCCCUCCGCCCGCUGUUUACUCGCUGACUUUCAGCGGGCUAGGGGAGCCGCCCCAGGGGGCGCCGCGGCGGGGAGGGGGUGGGGCGGACGCGGGAGAAAGGACCGAAAGGGGCUCCACGGCAAACAAAAAAAAACGUCAGCGAGGGGUCCUCUCGCCCCCAUCCGCCCUGGGGUCCUCGCCCGCAGGCCGCGGUCGGCCGGCACCCGCCAUUGCCGCCGCGAAGAGUUCGCCUCUGUCAGCCUCGGCGGCGCCCGGGAGAUGCGGCGCGCGGCCCCGCGCCCCCAGCAGAGCAACACGGGAGCGGCGCCCCCGGGGCAACCCCCGCGCCCCCCUGCGCCGUGGGGCGCGCGGACGGCGUCGCUCCCACACGC hit 29 : 1679 2117 (fwd) 158.88 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------......-<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg......ggcg 54 C:: G:GGG:G : GG::C+ U U+UCUAACCCUAAU + GAGG G+ 1679 ----CGU-GGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAU-CGGAGGuauugaUGGU 1732 .<<<<<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>-- 55 .uaggcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggG 113 :++:CGC+G+GCU:: C GCCCGCUG UUU CUCGCUGACUUUCAGCGGGC G 1733 aCUGUCGCCGCGCUCCCUC----CGCCCGCUG-UUUACUCGCUGACUUUCAGCGGGCUAG 1787 ->>>>>----...>>>>>->>>-----------------..................... 114 AAaAGCcgcG...gccuaCcgcCGuCCACCGUccAgUcU..................... 149 +::AGCCGC G:++:C 1788 GGGAGCCGCCccaGGGGGC--------------------gccgcggcggggagggggugg 1827 ....................................------------------------ 150 ....................................GGagccagCAAAAAAAuGUCAGCC 173 GG + +++ AAAAAAA+GUCAGC 1828 ggcggacgcgggagaaaggaccgaaaggggcuccacGGCAAACAAAAAAAAACGUCAGCG 1887 -->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<<<<<-- 174 GCgggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcgCCCgCC 232 +G::+CC : C:CCC:C +::G C::G+G G:C+:C+ CCGC 1888 AGGGGUCCuCUCGCCCCCAUCCGC-CCUGGG-------GUCCUCG---------CCCGC- 1929 -------<<<<<-<<<<__________________________>>>>>>>>>-------- 233 UggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUC 292 AGGCCGCGGUCGGCC GG CC+ CCA+UGCCGCCGCGAAGAGUUC 1930 ---AGGCCGCGGUCGGCC--GGC----ACCC------GCCAUUGCCGCCGCGAAGAGUUC 1974 -------------->>>>----->>>>>>---->>>>-.>>>>-------------->>> 293 GUCUCUGUCAGCCucGGGuCcCGcgGgggccgagggcc.aggcgcGGgGgcucuGGccgC 351 G CUCUGUCAGCCUCGG G+G+ C+G+ +G: +G:CGCG+GG+C C +GCC+C 1975 GCCUCUGUCAGCCUCGGC-----GGCGCCCGGG-AGAUgCGGCGCGCGGCCCCGCGCCCC 2028 >>>,,,,,,,,.,,..<<<<--<<<--....--------<<<<---<<<<________>> 352 aGGGAGAGcAA.cG..GAgCGGgucCC....cgugcgCgguGCgCUUCCCUGAGCUGUGG 404 ::G AGAGCAA GAGCGG::CCC G+ C ::GCGC :CCCUG GC GUGG 2029 CAGCAGAGCAAcACggGAGCGGCGCCCccggGGCAACCCCCGCGCCCCCCUGCGCCGUGG 2088 >>--->>>>---->>>--->>>>:::::::: 405 GAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 G:CG GC:: C GG::UC GCUCC ACACGC 2089 GGCGCGCGGAC-GGCGUC-GCUCCCACACGC 2117 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----sequence: #51700,sp|AF243438.1|AF243438 Gallid herpesvirus 2 serotype 1 isolate Md5, complete genome. ----isReversed: 1 ----hitSequence: CGUGGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAUCGGAGGUAUUGAUGGUACUGUCGCCGCGCUCCCUCCGCCCGCUGUUUACUCGCUGACUUUCAGCGGGCUAGGGGAGCCGCCCCAGGGGGCGCCGCGGCGGGGAGGGGGUGGGGCGGACGCGGGAGAAAGGACCGAAAGGGGCUCCACGGCAAACAAAAAAAAACGUCAGCGAGGGGUCCUCUCGCCCCCAUCCGCCCUGGGGUCCUCGCCCGCAGGCCGCGGUCGGCCGGCACCCGCCAUUGCCGCCGCGAAGAGUUCGCCUCUGUCAGCCUCGGCGGCGCCCGGGAGAUGCGGCGCGCGGCCCCGCGCCCCCAGCAGAGCAACACGGGAGCGGCGCCCCCGGGGCAACCCCCGCGCCCCCCUGCGCCGUGGGGCGCGCGGACGGCGUCGCUCCCACACGC hit 30 : 139941 139503 (rev) 158.88 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------......-<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg......ggcg 54 C:: G:GGG:G : GG::C+ U U+UCUAACCCUAAU + GAGG G+ 37934 ----CGU-GGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAU-CGGAGGuauugaUGGU 37987 .<<<<<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>-- 55 .uaggcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggG 113 :++:CGC+G+GCU:: C GCCCGCUG UUU CUCGCUGACUUUCAGCGGGC G 37988 aCUGUCGCCGCGCUCCCUC----CGCCCGCUG-UUUACUCGCUGACUUUCAGCGGGCUAG 38042 ->>>>>----...>>>>>->>>-----------------..................... 114 AAaAGCcgcG...gccuaCcgcCGuCCACCGUccAgUcU..................... 149 +::AGCCGC G:++:C 38043 GGGAGCCGCCccaGGGGGC--------------------gccgcggcggggagggggugg 38082 ....................................------------------------ 150 ....................................GGagccagCAAAAAAAuGUCAGCC 173 GG + +++ AAAAAAA+GUCAGC 38083 ggcggacgcgggagaaaggaccgaaaggggcuccacGGCAAACAAAAAAAAACGUCAGCG 38142 -->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<<<<<-- 174 GCgggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcgCCCgCC 232 +G::+CC : C:CCC:C +::G C::G+G G:C+:C+ CCGC 38143 AGGGGUCCuCUCGCCCCCAUCCGC-CCUGGG-------GUCCUCG---------CCCGC- 38184 -------<<<<<-<<<<__________________________>>>>>>>>>-------- 233 UggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUC 292 AGGCCGCGGUCGGCC GG CC+ CCA+UGCCGCCGCGAAGAGUUC 38185 ---AGGCCGCGGUCGGCC--GGC----ACCC------GCCAUUGCCGCCGCGAAGAGUUC 38229 -------------->>>>----->>>>>>---->>>>-.>>>>-------------->>> 293 GUCUCUGUCAGCCucGGGuCcCGcgGgggccgagggcc.aggcgcGGgGgcucuGGccgC 351 G CUCUGUCAGCCUCGG G+G+ C+G+ +G: +G:CGCG+GG+C C +GCC+C 38230 GCCUCUGUCAGCCUCGGC-----GGCGCCCGGG-AGAUgCGGCGCGCGGCCCCGCGCCCC 38283 >>>,,,,,,,,.,,..<<<<--<<<--....--------<<<<---<<<<________>> 352 aGGGAGAGcAA.cG..GAgCGGgucCC....cgugcgCgguGCgCUUCCCUGAGCUGUGG 404 ::G AGAGCAA GAGCGG::CCC G+ C ::GCGC :CCCUG GC GUGG 38284 CAGCAGAGCAAcACggGAGCGGCGCCCccggGGCAACCCCCGCGCCCCCCUGCGCCGUGG 38343 >>--->>>>---->>>--->>>>:::::::: 405 GAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 G:CG GC:: C GG::UC GCUCC ACACGC 38344 GGCGCGCGGAC-GGCGUC-GCUCCCACACGC 38372 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----sequence: #64083,sp|AF331499.1|AF331499 Gallid herpesvirus 1 telomerase, arg-rich protein (MDV002), and vIL8 (MDV003) genes, complete cds. ----isReversed: 0 ----hitSequence: CGUGGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAUCGGAGGUAUUGAUGGUACUGUCGCCGCGCUCCCUCCGCCCGCUGUUUACUCGCUGACUUUCAGCGGGCUAGGGGAGCCGCCCCAGGGGGCGCCGCGGCGGGGAGGGGGUGGGGCGGACGCGGGAGAAAGGACCGAAAGGGGCUCCACGGCAAACAAAAAAAAACGUCAGCGAGGGGUCCUCUCGCCCCCAUCCGCCCUGGGGUCCUCGCCCGCAGGCCGCGGUCGGCCGGCACCCGCCAUUGCCGCCGCGAAGAGUUCGCCUCUGUCAGCCUCGGCGGCGCCCGGGAGAUGCGGCGCGCGGCCCCGCGCCCCCAGCAGAGCAACACGGGAGCGGCGCCCCCGGGGCAACCCCCGCGCCCCCCUGCGCCGUGGGGCGCGCGGACGGCGUCGCUCCCACACGC hit 31 : 229 667 (fwd) 158.88 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------......-<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg......ggcg 54 C:: G:GGG:G : GG::C+ U U+UCUAACCCUAAU + GAGG G+ 229 ----CGU-GGCGGGUGGAAGGCUCCGCUGUGUCUAACCCUAAU-CGGAGGuauugaUGGU 282 .<<<<<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>-- 55 .uaggcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggG 113 :++:CGC+G+GCU:: C GCCCGCUG UUU CUCGCUGACUUUCAGCGGGC G 283 aCUGUCGCCGCGCUCCCUC----CGCCCGCUG-UUUACUCGCUGACUUUCAGCGGGCUAG 337 ->>>>>----...>>>>>->>>-----------------..................... 114 AAaAGCcgcG...gccuaCcgcCGuCCACCGUccAgUcU..................... 149 +::AGCCGC G:++:C 338 GGGAGCCGCCccaGGGGGC--------------------gccgcggcggggagggggugg 377 ....................................------------------------ 150 ....................................GGagccagCAAAAAAAuGUCAGCC 173 GG + +++ AAAAAAA+GUCAGC 378 ggcggacgcgggagaaaggaccgaaaggggcuccacGGCAAACAAAAAAAAACGUCAGCG 437 -->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<--<<<<<<<<<<-- 174 GCgggccc.uccccccccccggggcCCuGcggCggCgcgcccgcccaGcccCcgCCCgCC 232 +G::+CC : C:CCC:C +::G C::G+G G:C+:C+ CCGC 438 AGGGGUCCuCUCGCCCCCAUCCGC-CCUGGG-------GUCCUCG---------CCCGC- 479 -------<<<<<-<<<<__________________________>>>>>>>>>-------- 233 UggAGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUC 292 AGGCCGCGGUCGGCC GG CC+ CCA+UGCCGCCGCGAAGAGUUC 480 ---AGGCCGCGGUCGGCC--GGC----ACCC------GCCAUUGCCGCCGCGAAGAGUUC 524 -------------->>>>----->>>>>>---->>>>-.>>>>-------------->>> 293 GUCUCUGUCAGCCucGGGuCcCGcgGgggccgagggcc.aggcgcGGgGgcucuGGccgC 351 G CUCUGUCAGCCUCGG G+G+ C+G+ +G: +G:CGCG+GG+C C +GCC+C 525 GCCUCUGUCAGCCUCGGC-----GGCGCCCGGG-AGAUgCGGCGCGCGGCCCCGCGCCCC 578 >>>,,,,,,,,.,,..<<<<--<<<--....--------<<<<---<<<<________>> 352 aGGGAGAGcAA.cG..GAgCGGgucCC....cgugcgCgguGCgCUUCCCUGAGCUGUGG 404 ::G AGAGCAA GAGCGG::CCC G+ C ::GCGC :CCCUG GC GUGG 579 CAGCAGAGCAAcACggGAGCGGCGCCCccggGGCAACCCCCGCGCCCCCCUGCGCCGUGG 638 >>--->>>>---->>>--->>>>:::::::: 405 GAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 G:CG GC:: C GG::UC GCUCC ACACGC 639 GGCGCGCGGAC-GGCGUC-GCUCCCACACGC 667 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12293,sp|AF221908.1|AF221908 Xenopus laevis telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: AAUGUGGACGGAGGUCUCUGUUUCGCUAACCCUAAUACACUGGCUUCAGGGCGAUGGCUCUUCGCGGCGGUGCCUGUUGUUUUACUUGCUGACUUUCAGCGGGCACGGAGAGCAAGCGUAGACGACGACUAAAAAACGUCAGCUGGGAGACUCCUCCGUUCGCACAGCCCGACCUGCUCCAUUGCCCAAGAGCCCCGGGUUUUCUCUGUGGAAUGUAUCAGGCGCUCCCCGGUCUGUCUGUCUGGGGCCGCGGUCGGCAUCAUCUGCUGUCGCGAAGAGUUCGUCUCUGUUAGCCCUUGGGGGCCCUGGUGCGGAGUGGAGAGUCCGGGUCUGGGGGGUCGGGAGAACAAAAGGGGGCGCGCUGGUGCUCAGGCUCAGUCAUGCUUUCCCUUAGUUGUGGGAUAUGCGUGUUCAGCCAGUCCCCGACAUGU hit 32 : 154 584 (fwd) 153.03 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------..-<<<.<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg..ggcg.uag 57 :::G:G :+GG G: : :C GUUU CUAACCCUAAU +A GG + G ++G 154 ----AAUGUGGACGGAGG-UCUCUGUUU--CGCUAACCCUAAUACACUGGcuUCAGgGCG 206 <<.-----<<<<<-------..<<<<<<<<<_________________>>>>>>>>>--- 58 gc.GCuGuGCUuUUgcuccC..cGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGA 114 ++ GCU:UU++ +C :GCC:G:UGUUUU CU GCUGACUUUCA:C:GGC: G+ 207 AUg-----GCUCUUCGCGGCggUGCCUGUUGUUUUACUUGCUGACUUUCAGCGGGCACGG 261 >>>>>---->>>>>->>>-------------------------....------------- 115 AaAGCcgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccag....CAAAAAAAuGUCA 170 A:AGC G + ++G C AAAAAA+GUCA 262 AGAGCAAGC---------------------------GUAGACGacgaCUAAAAAACGUCA 294 ----->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------............<<<<<<< 171 GCCGCgggccc.uccccccccccggggcCCuGcggCggCgc............gcccgcc 217 GC+G G:+ : :C CC+: C:C:::GCCC::C++ +C+ :CC+G : 295 GCUG-GGAGACuCCUCCGUUCGCACAGCCCGACCUGCUCCAuugcccaagagcCCCGGGU 353 <..................--<<<<<<<<<<.-----.......----<<<<<-<<<<__ 218 c..................aGcccCcgCCCg.CCUgg.......AGGCCGCGgUCgGCCC 251 AG+C C: CCC CUG GGCCGCG:UC:GC 354 UuucucuguggaauguaucAGGCGCUCCCCGgUCUGUcugucugGGGCCGCGGUCGGCA- 412 ________________________>>>>>>>>>----------------------..>>> 252 GGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCUCUGUCAGCCu..cGG 309 UC CUGC:G:CGCGAAGAGUUCGUCUCUGU AGCC GG 413 --------UCAU----------CUGCUGUCGCGAAGAGUUCGUCUCUGUUAGCCCuuGGG 454 >----->>>>>>----.....>>>>->>>>-------------->>>>>>,,,,,,,,., 310 GuCcCGcgGgggccga.....gggccaggcgcGGgGgcucuGGccgCaGGGAGAGcAA.c 363 G+CCC :G G+++++ : CC GG: C GGGG +G::GGGAGA CAA 455 GGCCC-UGGUGCGGAGuggagAGUCC-GGGUCUGGGG-------GGUCGGGAGAACAAaA 505 ,<<<<.--<<<--........--------<<<<---<<<<________>>>>--->>>>- 364 GGAgC.GGgucCC........cgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCacc 414 GG:G G G:: +U+ G ::GC+ UCCCU AG UGUGGGA+ UGC:: 506 GGGGGcGCGCUG-gugcucagGCUCAGUCAUGCUU-UCCCUUAGUUGUGGGAUAUGCGUG 563 -.-->>>--->>>>:::::::: 415 C.GGgacuCGGcUCcgACAcgC 435 ::C+ G C:CCGACA G+ 564 Uu-CAGCCAGUCCCCGACAUGU 584 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12294,sp|AF221910.1|AF221910 Typhlonectes natans telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UUCCGGAGAGGGGCGUUUUCUUCUUUCUCUAACCCUAAUGUAUUGCUUGGGCAGCAGCUCUCUCGGUAUGCUCGCUGUUUUGCUGGCUAACUUUCAGCGAGCAGAGGGCGAAGUCGAAUUUCGGACAAGGGAGAAAAAAUGUUAGCCGGGGAACGCCCCUUUCCCGAAUGCCCGUGCCGUCCUUCCUCUCCUCUGGGCCCGUUGGCGAUAGCCCCCGGCCUCCCUCGCUCCUUAGGCCGCGGUCAGUCCGGGCCCUUGCUCUGGCAUGAGGUCCAUUGCUGCCGCGAAGAGUUCGUCUCUGUCAGCCUUGAGGUGGCCAGCAUGGAAUUGGCGGGCUUGUGGCGGCGCGCGGGAAAAAGCAAAUGGUGAACUAGGUGCGUGUUGUGGUCGUGUUCCUGAAGCGUGGAAUGUGCGAUCUGUGCGCUAGUUCAUACACAC hit 33 : 117 554 (fwd) 206.28 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------..-<<<.<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg..ggcg.uag 57 :C+GG:::GGGG G :U:C+U UUU UCUAACCCUAAUG A G GG++ +++ 117 ----UUCCGGAGAGGGGCGUUUUCUUCUUUCUCUAACCCUAAUGUAUUGCuuGGGCaGCA 172 <<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>> 58 gcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaA 117 GC :U C :GC:CGCUGUUUU CU+GCU ACUUUCAGCG:GC: G A: 173 -------GCUCUCUCGGUAUGCUCGCUGUUUUGCUGGCUAACUUUCAGCGAGCA-G-AGG 223 >>---->>>>>->>>-------------------------...----------------- 118 GCcgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccag...CAAAAAAAuGUCAGCCG 174 GC +G UC A U+U G++C+AG A AAAAAUGU AGCCG 224 GCGAAG------------------UCGAAUUUCGGACAAGggaGA-AAAAAUGUUAGCCG 264 ->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------.............<<<<<<<<.. 175 Cgggccc.uccccccccccggggcCCuGcggCggCgc.............gcccgccc.. 218 G:G : CCCC:::CC+G: CC:G:G CG+C+ GCCCG::+ 265 -GGG-AAcGCCCCUUUCCCGAAUGCCCGUGCCGUCCUuccucuccucuggGCCCGUUGgc 322 ...--....<<<<<<.<<<<.-----.----<<<<<-<<<<__________..____.._ 219 ...aG....cccCcg.CCCg.CCUgg.AGGCCGCGgUCgGCCCGGGGCUUC..UCCg..G 264 AG ::CC: CC:: C + AGGCCGCGGUC:G:CCGGG C+U UC G 323 gauAGccccCGGCCUcCCUCgCUCCUuAGGCCGCGGUCAGUCCGGGCCCUUgcUCUGgcA 382 ___________>>>>>>>>>----------------------.>>>>----->>>>>>-- 265 AGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCUCUGUCAGCCu.cGGGuCcCGcgGgggcc 323 G +G+CCA+U:C:GCCGCGAAGAGUUCGUCUCUGUCAGCCU ::GG :GG:: +C 383 UGAGGUCCAUUGCUGCCGCGAAGAGUUCGUCUCUGUCAGCCUuGAGG-----UGGCCAGC 437 --.....>>>>->>>>...-------------->>>>>>.,,,,,,,,.,,..<<<<.-- 324 ga.....gggccaggc...gcGGgGgcucuGGccgCaGG.GAGAGcAA.cG..GAgC.GG 370 + +::C+ GGC +G+GG+ +C:C:GG A AGCAA +G GA:C G 438 AUggaauUGGCG-GGCuugUGGCGGC------GCGCGGGaAAAAGCAAaUGguGAACuAG 490 <<<----------<<<<---<<<<________>>>>--->>>>--.-->>>---.>>>>: 371 gucCCcgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccC.GGgacuCG.GcUCc 428 G::C +GU ++ G::G: U:CCUGA GUGG:A+GU:C::+C G::C C G:UC+ 491 GUGCGUGUUGUGGUCGU-G-UUCCUGAAGCGUGGAAUGUGCGAUCu-GUGCGCUaGUUCA 547 ::::::: 429 gACAcgC 435 +ACAC C 548 UACACAC 554 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12295,sp|AF221911.1|AF221911 Chelydra serpentina telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UGCGGCGGCAGGUGGGGGCUCAGUCUUUCUAACCCUAAGCGAAAUGUGACCCCUCCCCGCUGCAGCCGUCCGCUGUUUUACUCGCUGACUUUCAGCGGACGGGGGGAGCGGGUGGAGACGCCAACCAAAAAACGUCAGCGAGGGGCCCUCCCCUCCCACGCCGACCUGGGCCUGUGGUGGGGCCCGCCAGCGAAGUCCCCGCCGCCCCGCCCCGGUGAGGCCGCGGUCAGCCGGCUCGCGCCACUGCUGCCGCGAAGAGUUCGUCUCUGUCAGCCUCGGGGGCGGCCGGGGUGGAAGGGCGGGUCCCGAGCCCGUCGGCCGGGAGAGCAAACGUGAGCGGCAGCCCCUGCGCCACCGCCCUCCCCUAAGCUGUGGGGCCCGCGGUCGGGGCUGCGCUCAGACACGC hit 34 : 108 513 (fwd) 225.04 bits ::::<<<<<<<<.<<<<<<-<<<<<---------------------------<<<.<<<< 1 uggGcccggggg.ggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uagg 58 :CG +GG :GG:GGGGG::C U+UUUCUAACCCUAA GA A G G + 108 ----UGCGGCGGcAGGUGGGGGCUC-AGUCUUUCUAACCCUAAGCGAAAUGUGACc---- 158 <-----<<<<<-------...<<<<<<<<<_________________>>>>>>>>>---> 59 cGCuGuGCUuUUgcuccC...cGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAA 115 CU:: ++ ++C CG:CCGCUGUUUU CUCGCUGACUUUCAGCGG:CGGG+: 159 ------CCUCCCCGCUGCagcCGUCCGCUGUUUUACUCGCUGACUUUCAGCGGACGGGGG 212 >>>>---->>>>>->>>-------------------------....-------------- 116 aAGCcgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccag....CAAAAAAAuGUCAG 171 :AG G G++ ++G C AAAAAA+GUCAG 213 GAGCGGGU---------------------------GGAGACGccaaCCAAAAAACGUCAG 245 ---->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------...<<<<<<<<.....--<< 172 CCGCgggccc.uccccccccccggggcCCuGcggCggCgc...gcccgccc.....aGcc 222 C G::+CC UC:CC:CC+ CG: G+CC:G C G G G+CC:+CC AG:C 246 CGA-GGGGCCcUCCCCUCCCACGCCGACCUGGGCCUGUGGuggGGCCCGCCagcgaAGUC 304 <<<<...<<<<.-----...----<<<<<-<<<<__________________________ 223 cCcg...CCCg.CCUgg...AGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcU 275 CCCG CCC: CC+ G AGGCCGCGGUC:GCC GG UC + CCACU 305 CCCGccgCCCCgCCCCGgugAGGCCGCGGUCAGCC--GGC----UCGC------GCCACU 352 >>>>>>>>>----------------------.>>>>----->>>>>>----.>>>>->>> 276 GCcGcCGCGAAGAGUUCGUCUCUGUCAGCCu.cGGGuCcCGcgGgggccga.gggccagg 333 GC:GCCGCGAAGAGUUCGUCUCUGUCAGCCU :GGG+C CGGGG:+++A GG+:+ G+ 353 GCUGCCGCGAAGAGUUCGUCUCUGUCAGCCUcGGGGGCGGCCGGGGUGGAAgGGCGG-GU 411 >.-------.------->>>>>>,,,,,,,,.,,.<<<<.--<<<----------<<<<- 334 c.gcGGgGg.cucuGGccgCaGGGAGAGcAA.cG.GAgC.GGgucCCcgugcgCgguGCg 388 C +++G+++ + C C:GGGAGAGCAA CG GAGC G ::CCCC ++ C ::GC 412 CcCGAGCCCgU-----CGGCCGGGAGAGCAAaCGuGAGCgGCAGCCCCUGCGCCACCGCC 466 --<<<<________>>>>--->>>>--.-->>>--->>>>:::::::: 389 CUUCCCUGAGCUGUGGGAcgUGCaccC.GGgacuCGGcUCcgACAcgC 435 CU:CCCU AGCUGUGGG:C GC::+C GGG:: C GCUC+GACACGC 467 CUCCCCUAAGCUGUGGGGCCCGCGGUCgGGGCUGC-GCUCAGACACGC 513 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12296,sp|AF221913.1|AF221913 Bufo japonicus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: UUAGAGGGAUUGGAAGGUUCCGCUUAUGCUAACCCUAAUAUUGGGGGUCUGUUGAAAACCUCUUUAAGAUAUGCGUGUUGUUUUAUUGGCUGACUUUCAGCGCGCAUUGAGAGGAGUUGCUGCCCAGGACUAAAAAAUGUCAGCUGGGAGUCCUUCCUCUCCCUUAUUUCUGCCUCACAACCUGGACUCUUUAUUUAGCGGUGCCCCAUUUGUCGAGGCCGCAGUCAGUCUUGUUCUUAUACGCUGCUGUUGCGAAGAGUUCGUCUCUGUCAGCCUCCGGGGCAACGCCUUGAAUUUGGAGAGCCUGGGAAUGUAACAAGGGGUAGGGAAAAUAACGAGAGCUGAGUUGGCUUCUCCUGUGCUGUUCCUGAGCUGUGGAACUUGCAAUCGCAGUCGGCUCUGACACUU hit 35 : 113 520 (fwd) 170.74 bits ::::<<<<<<<<..<<<<<<-<<<<<--------------------------.-<<<.<< 1 uggGcccggggg..ggggggggguccguuUuUuUCUAACCCUAAUggaGaGg.ggcg.ua 56 :::+:GG: ::G: G G::CCG+UU U CUAACCCUAAU G GG ++G :: 113 ----UUAGAGGGauUGGAAG-GUUCCGCUUA-UGCUAACCCUAAUAUUGGGGgUCUGuUG 166 <<<.-----<<<<<-------.<<<<<<<<<_________________>>>>>>>>>--- 57 ggc.GCuGuGCUuUUgcuccC.cGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGA 114 ::+ +CU:UU :GC+:G:UGUUUU U+GCUGACUUUCA:C:+GC: + 167 AAAa-----CCUCUUUAAGAUaUGCGUGUUGUUUUAUUGGCUGACUUUCAGCGCGCAUUG 221 >>>>>---->>>>>->>>------------------------------------------ 115 AaAGCcgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccagCAAAAAAAuGUCAGCCG 174 A:AG+ G+ ::::C + A C AAAAAAUGUCAGC+G 222 AGAGGAGUU-GCUGC---------------------CCAGGA-CUAAAAAAUGUCAGCUG 258 ->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------..<<<<<<<<.....--<<<<<< 175 Cgggccc.uccccccccccggggcCCuGcggCggCgc..gcccgccc.....aGcccCcg 226 GG:+:C U :C:::CC:+::: :CU:C++C++ C G :C:C:: AG C: :G 259 -GGAGUCcUUCCUCUCCCUUAUU-UCUGCCUCACAACcuGGACUCUUuauuuAG-CGGUG 315 <<<<.-----..----<<<<<-<<<<__________________________>>>>>>>> 227 CCCg.CCUgg..AGGCCGCGgUCgGCCCGGGGCUUCUCCgGAGGcGCCCAcUGCcGcCGC 283 CCC: UG AGGCCGC::UC:G:C+ G CUU U CG CU:C:G::GC 316 CCCCaUUUGUcgAGGCCGCAGUCAGUCUUGUUCUUAUACG----------CUGCUGUUGC 365 >----------------------..>>>>----->>>>>>----....>>>>->>>>--- 284 GAAGAGUUCGUCUCUGUCAGCCu..cGGGuCcCGcgGgggccga....gggccaggcgcG 337 GAAGAGUUCGUCUCUGUCAGCCU :GGG C: :G C + ::G:+ : C+ G 366 GAAGAGUUCGUCUCUGUCAGCCUccGGGG-----CAACGCCUUGaauuUGGAG-AGCCUG 419 ----.------..->>>>>>,,,,,,,,,,.<<<<.--<<<----------<<<<---<< 338 GgGg.cucuGG..ccgCaGGGAGAGcAAcG.GAgC.GGgucCCcgugcgCgguGCgCUUC 392 GG U+ + ++G:AG:GA A +AACG GAGC G +:: C U++ C UGC+ U: 420 GGAAuGUAACAagGGGUAGGGAAAAUAACGaGAGCuGAGUUGGCUUCUCCUGUGCUG-UU 478 <<________>>>>--->>>>---->>>--->>>>:::::::: 393 CCUGAGCUGUGGGAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 CCUGAGCUGUGG:AC UGCA +CG ::++ GGCUC GACAC++ 479 CCUGAGCUGUGGAACUUGCAAUCGCAGUC-GGCUCUGACACUU 520 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12297,sp|AF221914.1|AF221914 Dasyatis sabina telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: CCAGCUGCGGGGGAGACAGUGUCGCUCUCUAACCCUAAUGUGGGGGCAACGCGGGCCCUUUGUUUAAAGUCCCGCUGUCGGGAGCCCUCGCUGUUUUCUUGGCUAACUUUCAGCGAUGGCGAAAGGGCCCAGCAAAGGUUGGGAAGCGUGAUUUAUUGUUGGUGGGCAGAGAGAAAAAAGUUUAAGCCGCGGCCUCCUCCCCGGCGGCCCAGGACCCCCUGUUGCAACGUGCGGAAUGGCGGCCUCGGCCCCCCUGCUGCACGCCCAGCCGUUUAGGCCGCGGUCAGCGCCGGUUUCCACGCCAGUGUGGGGCUUGAUGCUGUCGCGAAGAGUUCGUCUCUGUUAGCCUGGCAGGGUGUGCUACGCAGGGUCGGGGUGCGGAGGGCAGGGAGAUUAAAUAGCUUGACCAGACGCUAUGGCCUGUACUGCAUUUCCCAGAGCUGUGGGACCUGCAAAUCUGCGCUGGUCAUACAUUU hit 36 : 114 589 (fwd) 163.84 bits ::::<<<<<<<<.<<<<<<-<<<<<--------------------------..-<<<.<< 1 uggGcccggggg.ggggggggguccguuUuUuUCUAACCCUAAUggaGaGg..ggcg.ua 56 :+:G+:G: GGG:G :: ++ U UCUAACCCUAAUG G GG +++ ++ 114 ----CCAGCUGCgGGGGAGACAGUGUCGCU-CUCUAACCCUAAUGUGGGGGcaACGCgGG 168 <<<-----<<<<<-------.................<<<<<<<<<______________ 57 ggcGCuGuGCUuUUgcuccC.................cGCcCGCUGUUUUUCUcGCUGAC 99 +C:UUUG+U+ C+::CGCUGUUUU U+GCU AC 169 --------CCCUUUGUUUAAagucccgcugucgggagCCCUCGCUGUUUUCUUGGCUAAC 220 ___>>>>>>>>>--->>>>>---->>>>>->>>-----------------.......... 100 UUUCAGCGgGCggGAAaAGCcgcGgccuaCcgcCGuCCACCGUccAgUcU.......... 149 UUUCAGCG::+G GAAA:G+C+C 221 UUUCAGCGAUGGCGAAAGGGCCCA--------------------------gcaaagguug 254 ....................--------.------------..------>>>->>.>>>> 150 ....................GGagccag.CAAAAAAAuGUC..AGCCGCgggccc.uccc 185 G +G CAG A AAAAA GU AGCCGC ::C U:CC 255 ggaagcgugauuuauuguugGUGGGCAGaGAGAAAAAAGUUuaAGCCGCGGCCUCcUCCC 314 >>>>>>>>>>,,....<<<<<<-------.............<<<<<<<<.......--< 186 cccccccggggc....CCuGcggCggCgc.............gcccgccc.......aGc 221 C :C:+C:+:G CCUG::GC+ CG ::C++CCC + : 315 CGGCGGCCCAGGacccCCUGUUGCAACGUgcggaauggcggcCUCGGCCCcccugcuGCA 374 <<<<<<<<<---------<<<<<-<<<<______________.....____________> 222 ccCcgCCCgCCUggAGGCCGCGgUCgGCCCGGGGCUUCUCCg.....GAGGcGCCCAcUG 276 C CC+::C: U+ AGGCCGCG:UC:GC C GG UUC+ CG G GG+GC + UG 375 CGCCCAGCCGUUU-AGGCCGCGGUCAGCGC-CGGUUUCCACGccaguGUGGGGCUUGAUG 432 >>>>>>>>---------------------->>>>----->>>>>>----....>>>>->> 277 CcGcCGCGAAGAGUUCGUCUCUGUCAGCCucGGGuCcCGcgGgggccga....gggccag 332 C:G:CGCGAAGAGUUCGUCUCUGU AGCCU:G:: +GG G:+C A GGG+C G 433 CUGUCGCGAAGAGUUCGUCUCUGUUAGCCUGGCA-----GGGUGUGCUAcgcaGGGUC-G 486 >>-------------->>>>>>,,,,,,,,.,,....<<<<.--<<<--..--------< 333 gcgcGGgGgcucuGGccgCaGGGAGAGcAA.cG....GAgC.GGgucCC..cgugcgCgg 384 ::G G+GG +::CAGGGAGA +AA + GA:C G ::C G+++G 487 GGGUGCGGA------GGGCAGGGAGAUUAAaUAgcuuGACCaGACGCU-auGGCCUGUAC 539 <<<---<<<<________>>>>--->>>>.--.-->>>--->>>>:::::::: 385 uGCgCUUCCCUGAGCUGUGGGAcgUGCac.cC.GGgacuCGGcUCcgACAcgC 435 UGC UUCCC GAGCUGUGGGAC UGCA +C G::+ G:UC++ACA ++ 540 UGCAUUUCCCAGAGCUGUGGGACCUGCAAaUCu--GCGCU-GGUCAUACAUUU 589 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12298,sp|AF221915.1|AF221915 Rhizoprionodon porosus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: CAUUGCUGCGGGGUGGAGGCGUUUUUAACUAACCCUAAUGCAGAGUAAGUGGCUGGGCCUUCCUCACACUGCCUCCCGCUGCGUGAAACCUCGCUGUUUUCUUGGCUAACUUUCAGCGAGGUGAGGCAAGGCGGCAAAAAAAAGUUGGGAGCAGCAACGGCAAGCAAAAAAAAAGUUCCAGCCGAGGCCUCCUCACCACGCGGCCUGGGUCUGAGGGUAACAUGGCCCUGCGGGAGAGAGCCAACACGGGGGGGCCCCGGUCCGGCUAACAGGGCAGGAGGUCGGCCCCAAUUGCCUCAGGCCCAGCCACUCCGGGCCGCGAUCAGCCCGGGCUUUCCCUACUUUGGGGCCCAAUGCUGUCGCGAAGAGUUCGGCUCUGUCAGCCCGGCUGGGUCCGGGUGGGGGCCGGCACAGAGGGACACACCGGGCCGGGGCGCCGAGGAUAGCUACCGCCCGCAGGGAUAGUAAAUAUCCGUGACCAGUGGCCUCGGUGGCUGCGUCUCCCGGAGCAAUGGGACCCGCAAGGCUGCCCUGGUCAUACACGC hit 37 : 123 667 (fwd) 155.79 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------..-<<<.<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg..ggcg.uag 57 :::: + G GG G GG : CGUUUUU CUAACCCUAAUG+AGAG G++G U+G 123 ----CAUUGCUGCGGGGUGGAGGCGUUUUUAACUAACCCUAAUGCAGAGUaaGUGGcUGG 178 <<-----<<<<<.-------..................<<<<<<<<<_____________ 58 gcGCuGuGCUuU.UgcuccC..................cGCcCGCUGUUUUUCUcGCUGA 98 GC:UU C C C :+C:CGCUGUUUU U+GCU A 179 -------GCCUUcCUCACACugccucccgcugcgugaaACCUCGCUGUUUUCUUGGCUAA 231 ____>>>>>>>>>---..>>>>>---->>>>>->>>-----------------....... 99 CUUUCAGCGgGCggGA..AaAGCcgcGgccuaCcgcCGuCCACCGUccAgUcU....... 149 CUUUCAGCG:G+:G + AA:GC GC 232 CUUUCAGCGAGGUGAGgcAAGGCGGCA--------------------------aaaaaaa 265 .............-----------.---------..------>>>->>.>>>>>>>>>>> 150 .............GGagccagCAA.AAAAAuGUC..AGCCGCgggccc.ucccccccccc 192 +GC+AGCAA AAAAA GU AGCCG G :C C C CC C + : 266 guugggagcagcaACGGCAAGCAAaAAAAAAGUUccAGCCGAGGCCUCcUCACCACGCGG 325 >>>,,..................<<<<<<-------........................ 193 ggggc..................CCuGcggCggCgc........................ 210 :::G CCUGCGG +G G 326 CCUGGgucugaggguaacauggcCCUGCGGGAGAGAgccaacacgggggggccccggucc 385 .................<<<<<<<<--........<<<<<<<<<<---------<<<<<- 211 .................gcccgcccaG........cccCcgCCCgCCUggAGGCCGCGgU 245 G:C+GCCC :: CC+::C: CU GGCCGCG:U 386 ggcuaacagggcaggagGUCGGCCCCAauugccucAGGCCCAGCCACUCCGGGCCGCGAU 445 <<<<______________...____________>>>>>>>>>------------------ 246 CgGCCCGGGGCUUCUCCg...GAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCUCUGUCA 302 C:GCCC GGGCUU +CC GG+GCCCA UGC:G:CGCGAAGAGUUCG+CUCUGUCA 446 CAGCCC-GGGCUUUCCCUacuUUGGGGCCCAAUGCUGUCGCGAAGAGUUCGGCUCUGUCA 504 ---->>>>----->>>>>>..---->>>>->>>>.......................... 303 GCCucGGGuCcCGcgGggg..ccgagggccaggc.......................... 334 GCC :G:: +GG :: + G+GGGCC G:C 505 GCCCGGCU-----GGGUCCggGUGGGGGCC-GGCacagagggacacaccgggccggggcg 558 ..-------.------.->>>>>>,,,,,,,,.,,.....<<<<--<<<----------< 335 ..gcGGgGg.cucuGG.ccgCaGGGAGAGcAA.cG.....GAgCGGgucCCcgugcgCgg 384 G GG+ CU+ +G CCGCAGGGA AG+AA + GA:C G:: CC +G++ G 559 ccGAGGAUAgCUACCGcCCGCAGGGAUAGUAAaUAuccguGACC-AGUGGCCUCGGUGGC 617 <<<---<<<<________>>>>--->>>>---->>>--->>>>:::::::: 385 uGCgCUUCCCUGAGCUGUGGGAcgUGCaccCGGgacuCGGcUCcgACAcgC 435 UGCG UCCC GAGC UGGGAC GCA G ::C+C G:UC++ACACGC 618 UGCGUCUCCCGGAGCAAUGGGACCCGCAAG-GCUGCCCUGGUCAUACACGC 667 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12299,sp|AF221924.1|AF221924 Anodorhynchus hyacinthinus telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: GCGUGGCGGAUGGGGAGGCUCCAGUCUCACUAACCCUAAUGGCUGCCGCCGUGCUCCCCGCACCCGUCCGCUGUUUUAUUCGCUGACUUUCAGCGGACGGGGGGAGCCGCCUGGGGGGGAAGGGGUUUGCAAUCAAAAAACGUCAGCGACGGGUCUCCCCAGCCCAGCCCGCCCUGGGGUCUCCGUCCCCCCACGCAGCCGGGGGCCUGCCGCGGAGGCUCCCUCCGCCGCACUUCACGGAGGCCGCGGUCGGCCGGUGUCCGCCACUGCCGCCGCGAAGAGUUCGUCUCUGUCAGCCUCGGCGGCGGUGGGGAGCGAGAGGGCUCGUCCCCGCGCCGGGGACCCCAGCAGAGCAAAACGGAGCGGCGUCCUCGGCACAGCCGCCGCGCUUCCCUCAACCGUGGGAUGCGCGGACGGCGCCGCUUCGACACCC hit 38 : 106 538 (fwd) 208.26 bits ::::<<<<<<<<<<<<<<-<<<<<---------------------------<<<.<<<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uaggc 59 GC::G GG:: GG: :G::C+ U+U CUAACCCUAAU G++ +: 106 ---GCGUGGCGGAUGGGGAGGCUCCAGUCUCACUAACCCUAAU--------GGCu--GCC 152 -----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>>>> 60 GCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaAGC 119 GC+GUGCU:: ++ CCCG:CCGCUGUUUU UCGCUGACUUUCAGCGG:CGGG+::AGC 153 GCCGUGCUCCCCGCACCCGUCCGCUGUUUUAUUCGCUGACUUUCAGCGGACGGGGGGAGC 212 ---->>>>>->>>-------------------------...........----------- 120 cgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccag...........CAAAAAAAuGU 168 CGC :+ G+G +AG CA AAAAA+GU 213 CGCCUGGG-----------------------GGGGAAGggguuugcaauCA-AAAAACGU 248 ------->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------................. 169 CAGCCGCgggccc.uccccccccccggggcCCuGcggCggCgc................. 210 CAGC CG::+C: :CC ::CC C::G CC::G+G+C +CG 249 CAGCGACGGGUCUcCCCAGCCCAGCCCGCCCUGGGGUCUCCGUccccccacgcagccggg 308 <<<<<<<<.....--<<<<<<..<<<<-----.....----<<<<<-<<<<_________ 211 gcccgccc.....aGcccCcg..CCCgCCUgg.....AGGCCGCGgUCgGCCCGGGGCUU 258 G+CC:+CC +G :CCC: CCGC ++ AGGCCGCGGUCGGCC GG 309 GGCCUGCCgcggaGGCUCCCUccGCCGCACUUcacggAGGCCGCGGUCGGCC--GGUG-- 364 _________________>>>>>>>>>---------------------->>>>----->>> 259 CUCCgGAGGcGCCCAcUGCcGcCGCGAAGAGUUCGUCUCUGUCAGCCucGGGuCcCGcgG 318 UCCG CCACUGCCGCCGCGAAGAGUUCGUCUCUGUCAGCCUCGG + C G:GG 365 -UCCG-------CCACUGCCGCCGCGAAGAGUUCGUCUCUGUCAGCCUCGGCGGCGGUGG 416 >>>----...>>>>->>>>......-------------->>>>>>,,,,,,,,..,,<<< 319 gggccga...gggccaggc......gcGGgGgcucuGGccgCaGGGAGAGcAA..cGGAg 367 G: +CGA GG+:C G+C +CGGGG C+C::G AGAGCAA CG AG 417 GGAGCGAgagGGCUC-GUCcccgcgCCGGGGA-------CCCCAGCAGAGCAAaaCGGAG 468 <--<<<--....--------<<<<---<<<<________>>>>--->>>>---->>>--- 368 CGGgucCC....cgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccCGGgacuCG 423 CGG:::CC C + + CG::GCGCUUCCCU A C GUGGGA+G GC:: C G:::+C 469 CGGCGUCCucggCACAGCCGCCGCGCUUCCCUCAACCGUGGGAUGCGCGGAC-GGCGCC- 526 >>>>:::::::: 424 GcUCcgACAcgC 435 GCU CGACAC+C 527 GCUUCGACACCC 538 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12300,sp|AF221926.1|AF221926 Ceratophrys ornata telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: ACAGUGGGAAUAGGAGGGAGUCUAUAUUUCUAACCCUAAUAUACCCGGUUCAGGGCUCUUAUGUGGCGCUCGUUGUUUUGCCGGUUGCCUUUCAGCGGGCGAAAGAGCUCAGAGAAGCGAGGACCAAAAAACGGCAGCCGCGGGCCCUCCUGUUCCCACCAUCCCAGCUUUUCCACACUGCGCCUGGGUUCUCACUCAAGUGUUCGGCAGCUUCCACUUACGAGGCCGCGGUCUACCGCUGUCACUGGUAGUCGCGAAGAGUUCGUCUCUGUCAGCCUUGGGAGCCGCGGACGGAGUAUGAGGUCCAGUAAUGAGAGCAGGGAAGAGUAAAGCGAGCCGCGCUACUUGUCCUAUCUGCCGCUCCUAAGCUGUGGGGCGUGUAGGGUACACAAGGCUCCGACAUUC hit 39 : 103 507 (fwd) 157.32 bits ::::<<<<<<<<..<<<<<<-<<<<<---------------------------<<<.<<< 1 uggGcccggggg..ggggggggguccguuUuUuUCUAACCCUAAUggaGaGgggcg.uag 57 :+:+:GG: :::G:G GG: ++U U UUUCUAACCCUAAU A GG+++ ++ 103 ----ACAGUGGGaaUAGGAG-GGAGUCUAUAUUUCUAACCCUAAUAUACCCGGUUCaGG- 156 <<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>> 58 gcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaA 117 GCU:UU + ++ CGC:CG:UGUUUU C +G UG CUUUCA:CG:GCG AA:A 157 -------GCUCUUAUGUGGCGCUCGUUGUUUUGCCGGUUGCCUUUCAGCGGGCG-AAAGA 208 >>----.>>>>>->>>-------------------------...---------------- 118 GCcgcG.gccuaCcgcCGuCCACCGUccAgUcUGGagccag...CAAAAAAAuGUCAGCC 173 GC ++G GA+ C + C AAAAAA+G CAGCC 209 GCUCAGa---------------------------GAAGCGAggaCCAAAAAACGGCAGCC 241 -->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------<<<<<<<<.............. 174 GCgggccc.uccccccccccggggcCCuGcggCggCgcgcccgccc.............. 218 G + :+CC U:C::::CC:+:+: CCC GC:++ +C C:C:+ CC 242 G-CGGGCCcUCCUGUUCCCACCAUCCCAGCUUUUCCACACUGCGCCuggguucucacuca 300 --....<<<<<<<<<<.-----..----<<<<<-<<<<__________....________ 219 aG....cccCcgCCCg.CCUgg..AGGCCGCGgUCgGCCCGGGGCUUC....UCCgGAGG 267 AG C :C:GC::: CU+ AGGCCGCG:UC::CC UC + 301 AGuguuCGGCAGCUUCcACUUAcgAGGCCGCGGUCUACC---------gcugUCAC---- 347 ________>>>>>>>>>----------------------..>>>>----->>>>>>.--- 268 cGCCCAcUGCcGcCGCGAAGAGUUCGUCUCUGUCAGCCu..cGGGuCcCGcgGggg.ccg 324 + G::G:CGCGAAGAGUUCGUCUCUGUCAGCCU :::G C:G: G C+G 348 ------UGGUAGUCGCGAAGAGUUCGUCUCUGUCAGCCUugGGAG-----CCGCGGaCGG 396 -......>>>>->>>>-------------->>>>>>.,,,,,,,,.,,<<<<.--<<<-- 325 a......gggccaggcgcGGgGgcucuGGccgCaGG.GAGAGcAA.cGGAgC.GGgucCC 375 A GG C :G: +UG +:GC GG AGAG+AA GAGC G +: C 397 AguaugaGGUCC-AGU--------AAUGAGAGCAGGgAAGAGUAAaGCGAGCcGCGCUAC 447 .--------<<<<---<<<<________>>>>--->>>>.--.-->>>--->>>>::::: 376 .cgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCac.cC.GGgacuCGGcUCcgACA 432 +GU+C+ :U C ::CCU AGCUGUGG::CGUG A: :+ GGCUCCGACA 448 uUGUCCUAUCUGCCG-CUCCUAAGCUGUGGGGCGUGUAGgGUa-CACAA-GGCUCCGACA 504 ::: 433 cgC 435 +C 505 UUC 507 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12301,sp|AF221927.1|AF221927 Herpele squalostoma telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: CUCUGGAGCGGGGCGAUUUCUCUUCCUUCUAACCCUAAUGCGGUGCUUAGGCGACAGUUCUCCGGGUGCGCUCGCUGUUUUUCUGGCUAACUUUCAGCGAGCGGAGAGAGCGAAGCCGUGGUUUACGACGAUAGAGGAGAAAAAAUGUUAGCUGGGGAACGUCCCUUUCCCGAGAGCCCGCGCCAUCCUCUUCCUCGGGCCCAUUGGCGAUAGCCCCCGGCCUCCCUCGCUCACCAGGCCGCGGUCAGCCCGGGCCCUGGCUCUGCUAGGGCGUCCAAUGCUGCCGCGAAGAGUUCGUCUCUGAUUGCCUUGAGGUAGCCGGGCUCGAAUAGGUGGGCUCGCGGCGAUGCGCAGGAAAGAGCAAAACAGUGAACUGGGCGUGUGCUGGGGUCGCGUCCCUGAAGUGUGGGAUGUGCGAUCUGUCCGCUUGUUCAGACAUUG hit 40 : 116 556 (fwd) 210.41 bits ::::<<<<<<<<<<<<<<-<<<<<--------------------------..-<<<.<<< 1 uggGcccgggggggggggggguccguuUuUuUCUAACCCUAAUggaGaGg..ggcg.uag 57 ::+:GG : :GGG:G::U:C++UU++UUCUAACCCUAAUG+ G G G++ ++ 116 ----CUCUGGAGCGGGGCGAUUUCUCUUCCUUCUAACCCUAAUGCGGUGCuuAGGCgACA 171 <<-----<<<<<-------<<<<<<<<<_________________>>>>>>>>>--->>> 58 gcGCuGuGCUuUUgcuccCcGCcCGCUGUUUUUCUcGCUGACUUUCAGCGgGCggGAAaA 117 G:U:U ++ CGC:CGCUGUUUUUCU+GCU ACUUUCAGCG:GCGG +A:A 172 -------GUUCUCCGGGUGCGCUCGCUGUUUUUCUGGCUAACUUUCAGCGAGCGGAGAGA 224 >>---->>>>>->>>-------------------------....---------------- 118 GCcgcGgccuaCcgcCGuCCACCGUccAgUcUGGagccag....CAAAAAAAuGUCAGCC 173 :C +G CCGU+ +U +G G AG A AAAAAUGU AGC+ 225 GCGAAG---------------CCGUGGUUUACGACGAUAGaggaGA-AAAAAUGUUAGCU 268 -->>>->>.>>>>>>>>>>>>>>,,<<<<<<-------.........<<<<<<<<..... 174 GCgggccc.uccccccccccggggcCCuGcggCggCgc.........gcccgccc..... 218 G G:G :: :CCC: : CC:+::G CC:GCG C++C+ GCCC::: 269 G-GGGAACgUCCCUUUCCCGAGAG-CCCGCGCCAUCCUcuuccucggGCCCAUUGgcgau 326 --<<<<<<.<<<<.-----.....----<<<<<-<<<<__________...____..___ 219 aGcccCcg.CCCg.CCUgg.....AGGCCGCGgUCgGCCCGGGGCUUC...UCCg..GAG 266 AG +CCCG CC:: C +G AGGCCGCGGUC:GCCC GGGC+ UC G +G 327 AGCCCCCGgCCUCcCUCGCucaccAGGCCGCGGUCAGCCC-GGGCCCUggcUCUGcuAGG 385 _________>>>>>>>>>----------------------.>>>>----->>>>>>---- 267 GcGCCCAcUGCcGcCGCGAAGAGUUCGUCUCUGUCAGCCu.cGGGuCcCGcgGgggccga 325 GCG+CCA UGC:GCCGCGAAGAGUUCGUCUCUG GCCU ::GGU C CGGG+ C++A 386 GCGUCCAAUGCUGCCGCGAAGAGUUCGUCUCUGAUUGCCUuGAGGUAGC-CGGGCUCGAA 444 .>>>>->>>>..-------.------->>>>>>.,,,,,,,,.,,...<<<<.--<<<-- 326 .gggccaggc..gcGGgGg.cucuGGccgCaGG.GAGAGcAA.cG...GAgC.GGgucCC 375 :::+ GGC GCGG+G CGC:GG AGAGCAA GA:C GGG+: 445 uAGGUG-GGCucGCGGCGAuG------CGCAGGaAAGAGCAAaACaguGAACuGGGCGUG 497 --------<<<<---<<<<________>>>>--->>>>--.-->>>---.>>>>:::::: 376 cgugcgCgguGCgCUUCCCUGAGCUGUGGGAcgUGCaccC.GGgacuCG.GcUCcgACAc 433 +G+ +G G::GC UCCCUGA UGUGGGA+GUGC::+C G:+C C G:UC+GACA 498 UGCUGGGGUCGC-G-UCCCUGAAGUGUGGGAUGUGCGAUCu-GUCCGCUuGUUCAGACAU 554 :: 434 gC 435 + 555 UG 556 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----sequence: #12302,sp|AF221933.1|AF221933 Mustelus canis telomerase RNA gene, sequence. ----isReversed: 0 ----hitSequence: CACAUUGCUGCGGGGUGGAGGCGAUUUUAACUAACCCUAAUGCAGAGUAAGUGGCUGGGCCUUCCUCACACUGCCUCCCGCUGCGCGAAACCUCGCUGUUUUCUUGGCUAACUUUCAGCGAGGUGAGGAGAGGCGGCAAAAAAAAAAGGUUGGGAGCAGCAGCGGCAAACAAAAAAAAAAGUUCCAGCCGAGGCCUCCUCACCCCCGCGGCCUGGGUCUGAGGGUAACACGGCCCUGCGGGAGAGAGGCAACACGGGGGCCCCCGGUCCGGCGAACAGGGCAGGAGGUCGGUCCCAAUCGCCUCACAGGCCCAGCCACUCCGGGCCGCGGUCAGCCCGGGGCUUUCCCCCCCACCAUGGGGGCCCAAUGCUGCCGCGAAGAGUUCGGCUCUGUCAGCCCGGCUGGGCCAGGGUGGGGGCCGGCACAGAGGGACACACCGGGCCGGGGCGCCGGGGAUAGCUACCGCCCGCAGGGAUAGCAAAUAUCCGUGACCAGUGGUCUCGGUGGCUGCGUCUCCCGGAGCAAUGGGACCCGCAAGGCUGCCCUGGUCAUACACAU hit 41 : 122 679 (fwd) 169.90 bits ::::<<<<<<<<..<<<<<<-<<<<<--------------------------..-<<<.< 1 uggGcccggggg..ggggggggguccguuUuUuUCUAACCCUAAUggaGaGg..ggcg.u 55 C:+:::G: +GGGG:GG : CG UUUU CUAACCCUAAUG+AGAG G++G U 122 ----CACAUUGCugCGGGGUGGAGGCGAUUUUAACUAACCCUAAUGCAGAGUaaGUGGcU 177 <<<<-----<<<<<-------..............<<<<<<<<<________________ 56 aggcGCuGuGCUuUUgcuccC..............cGCcCGCUGUUUUUCUcGCUGACUU 101 +G GC+ U CU: CU CC :+C:CGCUGUUUU U+GCU ACUU 178 GG--GCCUUCCUCACACUGCCucccgcugcgcgaaACCUCGCUGUUUUCUUGGCUAACUU 235 _>>>>>>>>>--->>>>>----.>>>>>->>>-----------------........... 102 UCAGCGgGCggGAAaAGCcgcG.gccuaCcgcCGuCCACCGUccAgUcU........... 149 UCAGCG:G+: GA :AG GCG 236 UCAGCGAGGU-GA