b31907d700c1fe956e4e4c20e64d91de027d7c84 markd Tue May 14 02:03:33 2024 -0700 merge blatHuge implementation diff --git src/blat/test/basic/hCrea.geno src/blat/test/basic/hCrea.geno new file mode 100644 index 0000000..edc0255 --- /dev/null +++ src/blat/test/basic/hCrea.geno @@ -0,0 +1,100 @@ +>hCreaGeno +CATGCCACATCCCCGGGGCGGGAGGGGGCTACATCCCCGGCTTTAGACGCGCGAGTCTCAGGTCCCGCTA +ATTACCTGGCGGGTGCTGCCCACCCCTGCCCTCGCGCACCTAGCGCGTGGCAGCGGGAAGGCGGGGCCTG +GGGGAGCCCCACCCCTGGAGACTGCGGCTGGGGCCTCCCTCTCCTCCGCCCGCCCGCCTGCCACTAGCTC +ATTGCGCCTCTCCTGCAGTCTGATTGGGCACCGGCTCCCATTCCGGCTCCAGCCTCCAATCCGACCCCCA +TTTCGGCTGCAGCCTCGGACCTAGCTCCGGCCCTCGGTCTATCCGGTTGCATCCTCCCTCCCTGTTCCGG +ATCTTATCTTGCGCCAGCGCCTACTCCAGGATCCCGTAGCCAGACCTCAAGCCATGGCTGGTCCCTTCTC +CCGTCTGCTGTCCGCCCGCCCGGGACTCAGGCTCCTGGCTTTGGCCGGAGCGGGGTCTCTAGCCGCTGGG +TTTCTGCTCCGACCGGAACCTGTACGAGCTGCCAGTGAACGACGGAGGCTGTATCCCCCGAGGTAACAGT +GCCTGAGGCGCGGGAGGAGGCGGGGGCAGGAGGTGATGGGAACGAAGGTGCGGGTAGAAGTGAGAATCCG +GGCAACAGAGAAGGGCTATAATCACGAAGGCCCTGGAGCTGGAGGGCTGTGCAGTCTGCAGACCTCAGTG +GGGTGGGGGTGGGGGCCAAAACCATAAAGCAAGAACATTCCTGGGGACCTGCCAAGACCAGCTCTGGCCC +TACGAGTTCTAGCTGCACTGGCTGCCCAAATCCCTAATTGTAAAGCCAGGAACTATCCTTTTCGCTCCCC +TCCATCTCCTTCCCTCATTTCCTCAATTCCTCTCCTTAGGCTTTTCCCCTCCTCCATCCGTAGTGTTGTG +TCATGGGAGGAAAGAACTGAGCAGATCTGAAGAAACTGAGCTGGCCAGCCAGAGGCAACTAGAACTATTA +GGAAAGCATAGACTCTGAAAGTCCCTAAAGAGATTACCAAGGTTTACCCTCTTTCTAATTCCCCTCCTCC +CGCGGAGCAAAGCCAGACATGGCCAACTGGACAGCTCCCAGGTAACTGCACTAGGTCTAGGCGTCTGTGA +CCCTCCCTCCATGGTTACTGGGTACCCCCTCCCCAGCGCTGAGTACCCAGACCTCCGAAAGCACAACAAC +TGCATGGCCAGTCACCTGACCCCAGCAGTCTATGCACGGCTCTGCGACAAGACCACACCCACTGGTTGGA +CGCTAGATCAGTGTATCCAGACTGGCGTGGACAACCCTGGCCACCCCTTCATCAAGACTGTGGGCATGGT +GGCTGGAGATGAGGAGACCTATGAGGTAGGGGGTCCCCAGAGTCTCCCTGATGATCCAATTCATCTTCCC +AGTAATCCCAGCTCCTTTCCCTTAAAGACCTCTCACTTTCCCCCAAGACTCTGAGCCCCCCATACTTAAG +TTTTCTGAACCAGTGAAATCAATGCACAATTGAAGTCTGGGGAGGGATTCCCTCTCCTTAACCATCTCTC +CCTCTTAACTCCCCTTAGGTATTTGCTGACCTGTTTGACCCTGTGATCCAAGAGCGACACAATGGATATG +ACCCCCGGACAATGAAGCACACCACGGATCTAGATGCCAGTAAAGTGAGTTCAAATATCCCACTTCTGAT +TTGCATTGCCTGTGTACAACACTCTGTATCTCCAACCCCTTCACCTTATTTCCTGACTCATGGTCATTAT +ACTGCTGAGCTTTTAATCTTAATGTAAGGAAAGAATCATATCTTAAGGGGCAGCATATATGGAGATGGAA +GGATAGATAAGAATGACCATGACCCAAGGTGGGTGGTTTGGGGACGGGTCTGCAATGCCCCCTTCAATTC +CAGTGCTTTCCCAAAGGGCCTCTTCTTCCAATGCATGCAGGAAGAATGCACACAGAGTCCTCTAATGCCT +AAGGAAGGTCTCTCCTTTCCCAGGGGCCCTCAGTTCCCACCGTGTTTCTGTGACTTACATTCATTTCCCT +TATCTCCCAGATCCGTTCTGGCTACTTTGATGAGAGGTATGTATTGTCCTCTAGAGTCAGAACTGGCCGA +AGCATCCGAGGACTCAGTCTGCCTCCAGCTTGCACTCGAGCAGAGCGACGAGAGGTGGAACGTGTTGTGG +TGGATGCACTGAGTGGCCTGAAGGGTGACCTGGCTGGACGTTACTATAGGCTCAGTGAGATGACAGAGGC +TGAACAGCAGCAGCTTATTGATGTGAGGGCCTTAAGAGGGTGCTGGTTGGTGGGAGCAGATGGGGAAGGC +TGGGCCAGATGAGACATGGGCTCTGAAAGGCCCAGGGGCCACCATGAAGATTCTTAACCCAAGTCCCGTT +ACTCTTCCCAGGACCACTTTCTGTTTGATAAGCCTGTGTCCCCGTTGCTGACTGCAGCAGGAATGGCTCG +AGACTGGCCAGATGCTCGTGGAATTTGGTATGAAGCTGCTCATTACCTCTTTTGTCTTCATGCCCTCATA +AATGCTTTTTTTCCCTCTATCTCTCCCAATTCTTGCCTTGCCTCTTGATCACTGTCCCTCTCCGGCCCTC +AGGCACAACAATGAGAAGAGCTTCCTGATCTGGGTGAATGAGGAGGATCATACACGGGTGATCTCCATGG +AGAAGGGTGGTAACATGAAGAGAGTGTTTGAAAGATTCTGCCGAGGCCTCAAAGAGGTTAGAGAAGACTA +TGTAGGGGAGCTAGGTGGGAGGACATAAGGAAAACCAAAGAGTAGCATAAATAGATTATGTAATTTACCA +ACCAACCCAGGACATGTCTTATAGTAAAAAGGACTATCTAGGACTCACTCCAGGACTAAAGGTGTAAACC +AGCTGGGACCATACTGGGAAAACCAGGACATGTGGTCACACTAAGATTAGGAAAAGAAAGAGTGTCAGGA +ATCTTAGGAAGTGAACAAGGCTTTTGACAGAGAGTGCAAAGAAGGAATAAATGAGATGGCACGTCAGTGC +CTGGGATGTGTGCAGTGGGATGGTGAGGTGTGCAGATAAGGAAAACATTCGAGCTTAGATTGATGTTGGC +GGGGAGAGGTTGCTGTGTTCATGACTCTAATATAACCACCCAGTTCTGAGACAAGGTAGGCCTTGACTCT +GGATTCTATCATTCTTGTTAAAGTTTCGGGTCTAGGCTTTAAGTTGAGAGTTCGGAGAGAGACTGGGGAA +GGTGGAGGATAGAATGGTTCGAGTTCTAGAATATGTGGCTCTAGATGAGAGGTTGAACTGAATCATCAAT +CCTACATGGATTGGGTCTCCGTATTCAAGTCTACATTAGAAATCCCCATAAACTCAATTCAATTCTTACT +GTATGTTCTCAAACATACAGTTCTATTTTAGGTTTGCAAAGAAAAAGAGCTCCTCTTTTAGATTCTGAGA +AGTTTCTACTATTTTTGGCAAGTAATAGATAACATATTCTGACTATGAGTGGGtagggaagtacctttaa +attatatgcctcagtttcctcatctgtaaaattgggataatgagattttctacattttaggttgttgtgg +ggattaagtgaaatacaggtaaagtacttggtccacagtaagtgcttaataagtgttaaagtgttagctg +caatattattCTGGATGGAAGAGTTTCCCCCCATGTTCAGCATGTAAGATATCCCCTATGGCATGGTTCC +TTCTGAACTATAAAGAGGATCCCTTTACTCATGTTGGGTTGTGGTCTTTGTGACCATCATTCTGCTAGAT +CCCTTGTCTCTTGAACTCTAATAGTCATCTTCATGACTACATGGTTAAGTGAAGCCAAACGCCTTCCCCC +CGCCCCCTATTCCTATGAATCTGGCTTTTCTGCTCTGTTTTCATCTTTCTCTGCATTCACACAGGTGCTC +CGTTCACAGCTAACAGAATGTTATCTTACCTCTTCCTGGCAAAGCTTACACCTTCATCTTCTGTCTGAAG +GGACCCTTCTAAGCTCTAGGCTCATTAGCAAAGCAAAGATAATCGATGCATGCAGACCTCATTGAATAAT +CAGTCATCTCTCAGTTCAGTTTACCACCTCTGTTCATTTCCCTAGATCATCCTTAATACACCACTCCTTC +GAGTTTTCTTCTTCCACATAAGATATTTTTTCACAATCTCATTATTATGCACATCATAATTTTGCATCAT +GCATGCATGAAAACAATAACAAACCTTTTTCATTTAAAAAAAGACCAATGTCATTCATTCACAGCCAAGT +TTCTGTTCTAGACATATTTCTAGTGTTCTTGTGGGTCTAGCTAAGGGAGGGTCCAGGGTTAATGAAATAT +CCCTGATTTTTCGTTAACAAAACCTTTGTGGACTCAGGTGGAGAGACTTATCCAAGAACGTGGCTGGGAG +TTCATGTGGAATGAGCGTTTGGGATACATCTTGACCTGTCCATCTAACCTGGGCACTGGACTTCGGGCAG +GAGTGCACATCAAACTGCCCCTGCTAAGCAAAGTAAAGGAGTTGTGGGGTTACAGAGGGGTGTGAGTAAG +GAAGGGTGGGTTGTGGATGGGGAGGGAGTGGACCCTTTGGAAAGGAGCCAAACATGTTGTGGCTAAAGGG +TCAGAGGACAggccaggcacagtggctcatgcctctaatcccaacacttgggaggccaaggcaggcagat +tacttgagcccaggagttcaagaccagcctgggcaacctggtgaaaccccatctctacctacaaatacaa +aagttagctgggtgtagtggaggctgaggtgagaggatcacttaagcctgggaagtcgaggcttcagtga +gctgtgatcactccagcctgggtgacagagagagaccctgtctaaaaaaaattaaaaaagaaaaaagaaa +aaaGGAAAAAAAAAGTTCAGGAGACAGAGCTCTGAGCAGGTTCAGGGCTCTTTCAGGTAGGACCTAGTCT +CTGCCTCTATTGACCCTGCTCCCAATCCCTATCTCCTCTCTAGGATAGCCGCTTCCCAAAGATCCTGGAG +AACCTAAGACTCCAAAAACGTGGTACTGGAGGAGTGGACACTGCTGCTACAGGCGGTGTCTTTGATATTT +CTAATTTGGACCGACTAGGCAAATCAGAGGTGAGATCCTAAGGGATTAGGACAAGGAGAGGTATAGGTCT +GCGAGGGCCGAAATATGGCAGTGAGTGAGCCTCCGGGATGTAACATAATCTGAAATGAAATTCAGGTTGA +GTGGGAGGCAATTGGAAATGAGCAGGCAAGTCAGTCAGTGATAAAGAAAAACTCAGACTGTAGGAAGCAG +ATCAAAGATTAGTGTCCCTTAGGTGGAGCTGGTGCAACTGGTCATCGATGGAGTAAACTATTTGATTGAT +TGTGAACGGCGTCTGGAGAGAGGCCAGGATATCCGCATCCCCACACCTGTCATCCACACCAAGCATTAAC +TCCCCATCGCCAGCTGATGACTCAAGATTCCCAGGAGTTTTGCTCATTCTAATGATGGCCCATTCTACTT +GCTCTGGACCTGCCCCCGCATCCCCTGCCTCCATCCTAGTAAAGACTCCTTGCTATGCTGCAGCTGTCTG +TGTTACTTCTAATGGTGGGGTGAGGAGGGAGCAGCCTTCAGGAAATGAAAAGAGGCAGTGGGATTATTTA +TGATGGAAAGAGACTCCAGATATGGCAACCCAGGAACACTGATTCTCAGGTGGGTGGAAAGCATTAACAT +TTTACCCATATTCCTCATCAGCTTCTGAAAATAATCAGGATGCACTTCTGTTTGCACTTTATTCATTATG +ACTTAAGATTTCTCTCCCCACAATCTCCTTCTACTGTAGAGACAGGCTCATAGCAGGTGGCCAAGGAAGC +TGATAGTCAATACCAGGGACCAGGAAGGTCGTGACCAGTCCTGGAGGCCCCAGGCTGTACTTCGACCTAT +AATAGACAGGGAATGGGAGTAATATCACAACTCAGCTCTCCAGGAGCATTGATACTTGGAAATTAGCGCT +CTGCCTGTAGACTCCTTCACTCCAGGGATCTCCCTGGGTGCACTCTAAGAGCCAGACAGCACCAAATTAG +GGGTTTGATTCTGGGTCAGGAGATGGAGGATCAAGCTGTGCAGCTGGGAACTCACCTTGCTGTTCTGGGC +TCTCCTTTCCCTCATGTTGGGCCCATGCAACTGCTCGTCGCTGCTCAGGACTCAGAAAGGCCATTTGCTC +AGGAGTGACAGCCACAGCCTGAGCACTGGTGAGACTAGATAGTTGGATGGGACTAAACACCACCTGAGGG +CAGGGGTAGGAATCAGTGCATGCATGTAGTCCCCATTGGGCCCTGGCTCTCCTGTGGTCACCCCAGTCCA +TTAATACTTACAGCAAATTTAGGAGGAGGGATGACAGAAATGGCAAGAGGAGTAACGCCCTGGATCTGTC +CCCGCAGCAGTGCTGAAAGAGCCAGGTCTGGGATCCCAGCTGTTGAAGCAAGTGGCATCCAAACATTGTC +TTAGACTGACCTTCCCTCTCTTCAAACCTATAGACCTTCTCTAACTACTCCCAAAGTGCCCTATCATAGA +CCTTCCCCAATATGTCTCTAGCCCCTTATTTAAACACCCTCAGGCCCCCACCTTAAGAATTGCAGGGCAG +TCTTCCATCCAGTCCACCCATGGTATAGAAACCAAACCAACTTGCACCAGCAGTGGCCCAGCTCCCCACC +TGCTATGGTGCCAATTTCAGTGAAGATCTCAGGCCCCCAGTTACTGATTGGGCCAAACCCACCAGGCAGT +ACAAGTAGGTGGGCCAGAACCTCCAGTTGTTCCTCAGAGCACTGCAGATGCAGGGTGCCGAGGAAGAGAG +CTGCTTGGCTGTAGAACAGTGGGAAGGAAGGAAGAA