>input_sequence_78965
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----------------------------------------------------------------------------ATGG
CGAAACCCTCCCAATCCCGCCTCCTCCTCGTCTTCCCCGTCGCCGCCGTCCTCGCCGCGGCCTTCCTCCTCCCGCTCGCC
CGCTCCGACGCCTCCGGGCCCAACCCCACCG------CCTACGACGAGCTCCGCCTCCGCGGCTTCCCGCGCGGCCTGCT
CCCGGCCAACGTTCGCGGGTACACGCTCGACGCCGGCTCGGGGGACTTCGCCGTCGACCTCGACTCCAGCTGCCGCATCG
TGCTGCCGGCGGGGAGCTACCTCGCCAACTTCAACGACCACCTCACCGGCCACCTCGACGACCGTCGCATCTCCGGCCTC
AGCGGCATCCGCGTCAGGGCTTTCTTCCGCTGGTGGTCCATCACCGGGATCCGCGCCGATGGAGACGAGCTCGTCTTCGA
GGTGGGCTCCGTCTCCGCCAAGTTCCCCGCCCGCCACTTCAACGCCAGCCTCGAATGCCCCGCCAAGGCCGACTCTTAG-
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>chr3D_1_TraesCS3D01G216200
CGCCGCGGAAGTCGACGAGATACTCGCGTATGTGGATAAGAAAGAGGAGGAGCCAGAGCCCTCCTACGCGCCCATCTACC
CGGCGTCCTGCAACGACGTCGTGGACATATCTGACAATGATGCGTTTTCGTTAGCGTAACATAATATGTAGGTTTATTTT
GCAGCCGGTCACATCCGTGAATGTTCGAGAGGTCGGATTTGCCAATTCCGATTATAGATACTCTTATATTTATCGTAGGC
GGATTCTAGACATGAATACAACTAATATGAATCGGAGAGCCTATAATCCTAGTCTAATCAAAAAGGCCCTTGGCCAAAGG
GCAAAGAAGTGAACCTCAACAGAATCCTCCAGTACTTTATGTTGTGCTATTTTGTGTGCGTGAACTTATGTTGAATCTTA
TGGCTGTGGTGGTTTACTTTATTATTATAAAAAGGTGCCAAAGGAGTGCAGCTATTCGGTGCCCAGACTCATGCACCCAA
TTAGAAAAAAATTCAAAAAAAATACTAGATAAATTCAAAAAATTCAAAAAAAAAATCCATGGTACTGCGTGAGGTTCGCT
CCAAATATTAGCTCATTTGGACATCTGAGTAACTGTCAGCAAAAAAGACAAATCAGGTCAAAACAGTACGTGAACAGTAA
ACTGTTTTAGAGACCTTGAATTTGTCTTTTTTGCTGAAAGTTGCTCAGTTGTCCAAATCATATGAAAATTAGGTCGGACC
TCACACACCAAATTATCTACCATGAGAATTTTTCGAGTATTTGTTTTGAATTTTTTTATTGAGCACGGGTGCAGATGGGC
CCGGAATCAAAAAAGATTTTCGTGCCAAAGGCTTTTTGGGCAAGGGCAAAGAAGTGAAAGGAAAAGTCAACTACCGGCTG
TGTGTGCATGAGGAAGG-AAGAAGCCCGCGTGTTGGTTAACTATGAG---------------------------------
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--CCACCCCTCCCGGCGCGACTCCAGACTCTTCCACAGTTCCACGTCTCCCTTCCGTCCAGGCTTCGCTCACCGAAATGG
CGAAACCCTCCCAATCCCGCCTCCTCCTCGTCTTCCCCGTCGCCGCCGTCCTCGCCGCGGCCTTCCTCCTCCCGCTCGCC
CGCTCCGACGCCTCCGGGCCCAACCCCACCG------CCTACGACGAGCTCCGCCTCCGCGGCTTCCCGCGCGGCCTGCT
CCCGGCCAACGTTCGCGGGTACACGCTCGACGCCGGCTCGGGGGACTTCGCCGTCGACCTCGACTCCAGCTGCCGCATCG
TGCTGCCGGCGGGGAGCTACCTCGCCAACTTCAACGACCACCTCACCGGCCACCTCGACGACCGTCGCATCTCCGGCCTC
AGCGGCATCCGCGTCAGGGCTTTCTTCCGCTGGTGGTCCATCACCGGGATCCGCGCCGATGGAGACGAGCTCGTCTTCGA
GGTGGGCTCCGTCTCCGCCAAGTTCCCCGCCCGCCACTTCAACGCCAGCCTCGAATGCCCCGCCAAGGCCGACTCTTAGT
ACTATAACAAGGTATTACTAGTGCTGAACTGCTGATATATCATGCCTC--TGTTTCCTATTGCTTGCTTGTACCTTA-AA
AGAACAGTGTCTCTACGTTGTAATGATTCCTTGATTTTCAATTCACAGTAGTACACTAGTACTATAGTTGCTTCGATATG
TTGGTTTTTTTTATATAGCTTACCACATATGCCATGTGGTGGTAGTA--------CTATGGTTGCTTAATAGTACTCCCT
CCGTTCCTAAATTTAAGTCTTTTTAGAGATTTCAATGTAACTATATACTGATGTATATAGACGGAGTTTAGAGTGTAGAT
TCACTCATTTTGCTCCGTATGTAGTCCGTAGTGAAATCTCAAAAAAAAAAAAAACTTACATTTAGGATCGGAGGGAGTAC
TAGATTGGAAGGATATGGACATATTAAAGACTAGATGTCGTTGGTGGTA---ATTTGGATTGGTTTAGTGCCAACTGTTT
CGAATTTTGACTAGCTTCAGTAACTACAGAGTGGAAT-------------------------------------------
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--------------------------------TCAACTAAATTTCTTGTTTACAATTGCAGTGCGCTATATCTGGATGCT
TAACTGCTGC-TTTTTTTT-------TTGCATTTCACCTTTTCTTATTGCTTGTTTATTATTCCATTTTCCATAACCAAC
TATAGTCCTTTAATACCAAGATATTTTCCAGACAAACAAAATATAATTTTTGGTATTGCGGTCATTAATTAATAT-TCAG
CTGCTTTCATTACTAGCATTGGAATCAAGTCAAGGCATGCTTGCTTGTGGCAAAGTAGCTTTGCAACTGAAGAATACAAG
CTGTAAAATGCTATGTAACACCTTGGACAGTAGGACAGGGATACAGGGTATAATTCTTGAATAATTTGAGTTAGCTGCCA
TGGAAGAAGTACAAAAATGTGAATCAAATTTCAAATGAAAGGTTGTTAGTTGTGAACCATGATCCTTGCAGTGTAAACTG
AAAGGCTACTATTTTACTGCTGCACAACTCAAGAATTATGAGCTCCCACACTTCAGT
>chr3A_845
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--------------------------------------------GGCAAAGAAGTGAAAGGAAAAGTCAACTACCGGCTG
TGTG--CATGAGGAAGGAAAGAAGCCCGCGTGTTGGTTAACTATGAG---------------------------------
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--CCACCCCTCCCGGCGCGACTCCAGACTCTTCCACAGTTCCACGTCTCCCTCCCCTCCAGGCCTCGCTCACCGAAATGG
CGAAACCCTCCCAATCCCGCCCCCTCTTCGTCTTCCCCGTCGCCGCCGTCCTCGCCGCGGCCTTCCTCCTCCCGCTCGCC
CGCTCCGACGCCTCCGGGCCCACCCCCACCGCCACCGCCTACGACGAGCTCCGCCTCCGTGGCTTCCCGCGCGGCCTACT
CCCGGCCAACGTTCGCGGGTACACGCTCGACGCCGGCTCGGGGGACTTCGCCGTCGACCTGGACTCCAGCTGCCGCATCG
TGCTGCCGGCGGGGAGCTACCTCGCCAACTTCAACGACCACCTCACCGGCCACCTCGACGACCGTCGCATCTCCGGCCTC
AGCGGCATCCGCGTCAGGGCTTTCTTCCGCTGGTGGTCCATCACCGGGATCCGCGCCGATGGAGACGAGCTTGTCTTCGA
GGTGGGCTCCGTCTCCGCCAAGTTCCCCGCCCGCCACTTCAACGCCAGCCTCGAATGCCCCGCCAAGGCCGACTCGTAGT
ACTATAACAAGGTATTACTAGTGCTGAACTGCTGATATATCATGCCTCTTTGTTTCCTATTGCTTGCTTGTACCTTA-AA
AGAACAGAGCCTCTACTTTCTAATGATTCTTTGATTTTCAATTCACAGTAGCACACTAGTACTATAGTTGCTTCGATATG
TTGGTTTTTTT-ATATAGCTTACCACATATGCCATGTGGTGGTAGACTGGTAGTGCTATAGTTGCTTTATAGTG------
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-------------------------------------------------------------------------------C
TAGGTTGGAAGGATATGGACATATTAAAGACTAGATGTCGTTGGTGGTA---ATTTGGATTGGTTTAGTGCCAACTGTTT
TGAATTTTGACTAGCTTCAGTAACTACAGAGTGGAAT-------------------------------------------
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--------------------------------TCAACTAAATTTCTTGTTTACAATTGCACTGCGCTATATCTGGACGCG
TAACTGCTGC--TTTTTTT-------TTGCATTTCACCTTTT-TTATTGCTTGTTTATTATTCCATTTTCCATAACCAAC
TATAGTCCTTTAATATCAAGATATTTTCCAGACAAACAAAATATAATTTTTGGTATTGCGGTCATTAATTAATATCTCAG
CTGCTTTCATTACTAGCATTGGAATCAAGTCAAGGCATGCTTGCTTGTGGCAAAGTAGCTTTGCAACTGAAGAATACAAG
CTGTAAAATGCTATGTAACACCTTGGACAGTAGGACAGGGATACAGGGTATAATTCTTGAATAATTTGAGTTAGCTGCCA
TGGAAGAAGTACAAAAATGTGAATGAAATTTCAAATGAAAGGTTGTTAGTTGTGAACCATGATCCTTGCAGTGTAAAATG
AAAGGCTACTATTTTATTGCTGCACAACTCAAGAATTATGAGCTTCCACACTTCAGT
>chr3B_848
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-----------------------------------------------AAAAAAGTGAAAGGAAAAGTCAACTACCGGCTG
TGTG--CATGAGGACAG-AAGAAGCCCGCGTGTTGGTTAACTATGAGGGCATGTACAATGGTTCTATCTTAGCAATGCCA
CGTAGGATAAATGATGAGGTGGAGGAGAGAGAAATCATAAGAAAGGGCTTGTCTTCTCTTATTTAAGAAAAGATAAGAGG
TGATCTCTTAGCATAATATGTCTCACCACGTTTTTAGGAATAACTAATTATTGAAGATAAGACCAAGAGATGACCCATTG
TAGACATCTTTTTTTGTTATCTCTAAATTACATGCAAGACTTAAGATAAGACTATCTTATCAACCATTGTACATGCCCTG
AGCCACCCCTCCCGGCACGACTCCAGACTCTCCCACAGTTCCACGTCTCCCTCCCCTCCAGGCTTCGCTCACCGAAATGG
CGAAACCCTCCCAATCGCGCCTCCTCCTCGTCTTCCCCGTCGCCGCCGTCCTCGCCTCTGCCTTCCTCCTCCCGCTCGCC
CGCTCCGACGCCTCCGGGCCCACCCCCACCGCCACCGCCTACGACGAGCTCCGCCTCCGTGGCTTCCCGCGCGGCCTGCT
CCCAGCCAACGTTCGCGGGTACACGCTCGACGCTGGCTCGGGGGACTTCGCCGTCAACCTCGACTCCAGCTGCCGCATCG
TGCTGCCGGCGGGGAGCTACCTCGCCAACTTCAACGACCACCTCACCGGCCACCTCGACGACCGTCGCATCTCCGGCCTC
AGCGGCATCCGCGTCAGGGCTTTCTTCCGCTGGTGGTCCATCGCCGGGATCCGCGCCGATGGAGACGAGCTCGTCTTCGA
GGTGGGTTCCGTCTCCGCCAAGTTCCCTGCCCGCCACTTCAACGCCAGCCTCGAATGCCCCGCCAAGGCCGACTCTTAGT
ACTATAACAAGGTATTACTAGTGCTGA--------TATATCATGCCTCTTTCTTTCCTATTGCTTGCTTGTACCTTA-AA
AGAACAGAGCCTCTACGTTGTAATGCTTCCTCGATTTTCAATTCACAGTAGTACACTAGTACTATAGTTGCTTCGATATG
TTGGTTTTTTT-ATATAGCTTACCACATATGCCATGTGGTGGTAGTA--------CTATAGTTGCTTAATAGTA------
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-------------------------------------------------------------------------------C
TAGGTTGGAAGGATATGGACATATTAAAGACTAGATGTCGTTGGTGGTA---ATTTGGATTGGGTTAGTGCCAACTATTT
CGAATTTTGACTAGCTTCAGTAACTACAGAGTGGAAT-------------------------------------------
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--------------------------------TCAACTAAATTACTTGTTTACAATTGCAGTGCGCTATATCTGGACGCC
TAACTGCTGCTTTTTTTTT-------TTGCATTTCACCTTTTCTTATTGCTTGTTTATTATTCCATTTTCCATAACCAAC
TATAGTCCTTTAATATCAAGATATTTTCCAGACAAACAATATATAATTTTCGGTATTGCGGTCATTAATTAATATCTCAG
CTGCTTTCGTTACTAGCATTGGAATCAAGTCAAGGCATGCTTGCTTGTGGCAAAGTAGCTTTGCAACTGAAGAATACAAG
CTGTAAAATGCTATGTAACACCTTGGACAGTAGGACAGGTATACAGGGTATAATTCTTGAATAATTTGAGTTAGCTGCCA
TGGAAGAAGTACAAAAATGTAAATCAAATTTCAAATGAAAGGTTGTTAGTTGTGAACCATGATCCTTGCAGTGTAAACTG
AAAGGCTACTATTTTACTGCCGCACAACTCAAGAATTATGAGCTCCCACACTTCAGT
>chrUn_1378
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-----------------------------------------------------------TGGAGACGAGCTCGTCTTCAA
GGTGGGCTCCATCTCCGTCAAGTTCCTCGCCCGCCACTTCAACACCGGCCTCAAATGCCCCACCA---------------
--TATAACAAGGTATTACTAGTGCTGAACTGCTGATATATCACGCTTCTTTGTTTCCTATTGCTTGCTTCTACCTTA-AA
AGAGCAAAGCCTCTACATTGTAACGATTCCTGAATTT-CAATTCACA---------------------------------
-----------------------------------------GTAGCA--------CTATAGTTGCTTAATAGTA------
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-------------------------------------------------------------------------------C
TAGGTTGGAAGGATATGGACATATTAAAGACTAGATGTCATTGGTGGTACTAATTTGGGTTGGTGTAGTGCCAACTGTTT
CGAATTTTAACTAGCTTCAGCAACTACAGAGTGGTTAATTTGAATTGCAGATTAATTTTTTAGTTCGTTTTCTTTAATTT
GCATTTCTGCCTGGGGCTGATCATGTCTTGGCCATCGGGGTCATATGCAGGTTGTACCAACATTCTTTTCCTCTTAATAT
ATGGGCGGTCAACTGCCAATTGCTCAAAAAAATCAACTAAATTTCTTGTTTACAATTGCAGTGCGCTATATCTGGCCGCT
TAACTTCTGCTTCCTTTTACAATTGCTTGCAGTTCACCTTTTCTTATTTCTTGTTTATTCTTCCACTTTCCATAACCAAT
TACAGTCCTTTAATATCAAAATATTTTCAAGACAAACAAAATATAATTTTTGGTATTGCGGTCATTGATTAATATCTCGG
CTGCTTTCAGTACTAGCATTGAAATTAAGTCAAGGCA----------TGGCAAAGTAGCTTTGCAAATGAAGAATACAAA
CGGTAAAATGCTATGTAACGCCCTGGACAGTAGGACGGGGATATAGGGTATAATTCTTGAATAATTTGAGTTAGCTGCCA
CGGAAGAAGTACAAAAATGGGAAACAAATTTGAAATGGAAGGTTGTTAGTTATGAACCATGATCCTTGCAGT--------
---------------------------------------------------------
>chr6B_1378
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-----------------------------------------------------------TGGAGACGAGCTCGTCTTCAA
GATGGGCTCCATCACCGTCAAGTTCCTCGCCCGCCACTTCAACACCAGCCTCAAATGCTGCACCA---------------
--TATAACAAGGTATTACTAGTGCTGAACTGCTGATATATCACGCTTCTTTGTTTCCTGTTGCTTGCTTCTACCTTAAAA
AGAGCAGAGCCTCTACATTGTAACGATGCCTGAATTT-C-----ACA---------------------------------
-----------------------------------------GTAGCA--------CTATAGTTGCTTAATAGTA------
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-------------------------------------------------------------------------------C
TAGGTTGGAAGGATATGGACATATTAAAGACTAGATGTCATTGGTGGTACTAATTTGGATTGGTGTAGTGCCAACTGTTT
CGAATTTTAACTAGCTTCAGCAACTACAGAGTGGTTAATTTGAATTGCAGATTAATTTTGTAGTTCTTTTTCTTTAATTT
GCATTTCTGCCTGGGGCTGATCATGTCTTGGCCATCGGGGTCATATGCAGGTTGTACCAACATTCTTTTCCTCTTAATAT
ATGG-CGGTCAACTGCCAATTGCTCAAAAAAATCAACTAAATTTCTTGTTTACAATTGCAGTGCGCTATATCTGGCCGCT
TAACTTCTGCTTCCTTTTACGATTGCTTGCAGTTCACCTTTTCTTATTGCTTGTTTATTCTTCCACTTTCCATAACCAAT
AACAGTCCTTTAATATCAAAATAATTTCAAGACAAACAAAATATAATTTTTGGTATTGCGGTCATTGATTAATATCTCGG
CTGCTTTCAGTACTAGCATTGAAATTAAGTCAAGGCA----------TGGCAAAGTAGTTTTGCAAATGAAGAATACAAA
CGGTAAAATGCTATGTAACGCCCTGGACAGTAGGACGGGGATATAGGGTATAATTCTTGAATAATTTGAGTTAGCTGCCA
CGGAAGAAGTACAAAAATGGGAATCCAATTTCAAATGGAAGGTTGTTAGTTGTGAACCATGATCCTTGCAGT--------
---------------------------------------------------------
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------------
----SS--------------------------------------------------------------------------
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----------------------------------------------------S--S------------------------
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----------------------S------------------------------------S--------------------
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-------S-S----------------------------------------------------------------------
-----------S-----------------------------------------------S--------------SSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-
---S----------------------------------------------------------------------------
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---------------S----------------------------------------------------------------
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>forward_481
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-------------------------------------------------------------CCCAGACTCATGCACCCAA
T-------------------------------------------------------------------------------
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>reverse_2090
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---------TTGCTCCGTATGTAGTCCGT---------------------------------------------------
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