>input_sequence_83954
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-----------------------------------------------ATGGTGACGACGATGGGGCACGTGGTGGCGCTC
CTCTCCGCTGCCCTCTCCGGC------------GGCGTGGTCGGCTGCAGTCGCCACGACGACCACTACCACTCGGGCGG
CTGCTGCGTGTGCATATCAAGGTTCCGCGACGGGGAGGACATACGCAGCCTGCCGTGCGGCCACGCCTTCCACCGGCAAT
GCGTCGACAGGTGGTTGGCGCTGTGCCGCCGGACCTGCCCGCTCTGCCGCCTGCACGTCGGCGGCGTGACAGATGAGCAC
CAGCTCAGCGACGACCTCGTCATCTGGTTCTCTTCTCTCTTCGTCGCCGGCTTGTAG-----------------------
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>chr1B_1_TraesCS1B01G156500
CAGTATGCATTGTTGTTGTCTCGACTAGGCCTTGATGTTGTGTCGTCGTTGATGTAAGTGTTATAGCTTGATATTAATAT
GTTGGTCTTTCACAAAAAAATCACTCCTTCTGATTCACAATAAATGTCGCAGTTTTAAACTAATGTTGAGGGAGTATCCA
CTGGCACATAATTGACCAGATTACATGAAACTTAAAACGATCCATTGGTACAGGAGTGATGTGACACGTTACGGGCAGAG
CTATGATGAATGACCGCTCACCTTCGCCCGCATTCCGCCTGCAGCTCCAGTCAGTGTACCTAACCACTGATCACTCACTC
ATTTCCTGCGGTTAATCCCATCCATTGCAGGTTACCTGGGTTGCTTAGCCATGGGAGAAGCTCCCCTGCTTTTGTGCGGA
TGAAGCAACAGGCAGGCGGCATAGCTCGGCCGACCGACACATATGGTTGGCTACAGCCGACGAACCCATGCAGGCCCTAA
CTAAACATATTTTTTTAGG-AAAAAACATTACTGTGGGAGTATTAAAATTCTACGTACATAGTGTAGTTCTTGATGTTAC
TCAGGTTGCTTTTTGATCGATCTACCTATCAATGTACGTATACCCTCCCCGT-AAAAAAGTACGTATACCCTCCGCAATT
CCGCATGTACG---TAGTATACCTCATGAAACCTTGCGGTTGGTCAGACTGACATACACGAATGATCGACGTTGCCGCTC
AATTAGTTAGCTTTCGCGTCGCACAAGCTTTGTATCCACGGAAAGGGAAACGGCACTGGGGTTTCTAGGTGCGCCTTCTC
CATCACTCCCATTCCTAATCATTCCATGCAACATCCAGAGAAAATGAAAATGATTCCACGCACACACACACATT--ACAC
ACACTCGCCTTATATATAAGCCATCGCAGTCCATCTTGGACGCTGATCCACTCGCATCAAATCTTGGCACACGCACATAC
ATTTATATGTAATCTGCATCGCGATTTTGATTCAGATAGATAGATAGATGGTGACGACGATGGGGCACGTGGTGGCGCTC
CTCTCCGCTGCCCTCTCCGGC------------GGCGTGGTCGGCTGCAGTCGCCACGACGACCACTACCACTCGGGCGG
CTGCTGCGTGTGCATATCAAGGTTCCGCGACGGGGAGGACATACGCAGCCTGCCGTGCGGCCACGCCTTCCACCGGCAAT
GCGTCGACAGGTGGTTGGCGCTGTGCCGCCGGACCTGCCCGCTCTGCCGCCTGCACGTCGGCGGCGTGACAGATGAGCAC
CAGCTCAGCGACGACCTCGTCATCTGGTTCTCTTCTCTCTTCGTCGCCGGCTTGTAGCCTGTAGGAACATCAGTCCATCG
CTGCTCTGCGGTGTAGGCTCTTAGTCGATGAGCATGTCAAGCATTTCTCATGGAGAAATCTCACCGCTCGTGGCGGGCCC
TACTTCTACCCCTTGTTCTAGGCTTTGCTTCACTGATATAAGTGATAAACAGTTCAATATGGAGGCTCATGGCACCAAAA
AGT---------------------------------------------TAAATTATGTCAAACAGACAGACGTCCTTCTC
ATTATACAACATGGGTGAAGTGTGCCAACAGTTATTCTAGTTGTCCCGACAGTTATTCATGT-----ATACATTCTTTGC
GGCCGCAAGTTGGTTGCTTCAAAACAACAAGTTACTGTAACTAATTCACTACGCTACACTAGTTGTCAACTGAAGAACTG
CGACAGGCATCACCTGACCTCCAGGATCCATCGGACGCAGTCCTGGAGTAGCTCGAACTTCTGGCTCACCGCGACGTTCA
GGAAGACCCGCATCTTGCCAAGGAACTGCGGCGCCTCCTCCTTGCACCGGAACGAACCTCCACAGTTGCACTGCTCCGAC
ACATGGGCCGCCTTCACCTGCCTGCACCGGACGCACACCAGGTCCTGCAGGTGGTACAGCCTCTCTCGCTGCCGCACAAT
CTGCAGGAGCGCGTTCTCCATCTCCTCGCGGTGGTACGGCTGCCCACACTGCGGCACCGCGCACCTCCACTCGTGGCCTT
GCAGCGTCGAGTCGCGGCAGAGGTCAAGGTCCCGGCAATCGTTGCAATAGCTGCCAACATCACTCTATTTGTAAGAGACA
GGGTGACGCTAACATAACAACATCAAGGGGAAACAAAAGCGGCTCGGTTCAAAGTTGCAATACCTGCAAATCACGTTCGG
GAGAATGAATGAGGCACAGGGGTCTTGGAACTGTGCTTCTGGAGCAAATTCCTTTACACGGACCAACTTTAACAAGTTCT
TTCGCATTCTCTGTCATAGATATATTGGATAATGAGAATAT---TAGTAATAATAATAATAATAATAATA---
>chr1D_1
CAGTATGCATTATTGTTGTCTCGCCTAGGCCTTGATGTTGT---GTCGTTGATGTAATTGTTATAGCTTGATATTAATAT
ATTGGTCTTTGTCAAAAAAATCACTCCTTCTGATTCATAATAAATGTCGCAGTTTTAAACTAATGTTGAGGGAGTATCCA
CTGGCACATAATTGACCAGATTACATGAAACTTAAAACGATCCATTGGTACAGGAGTGATGTGACACGTTACGGGCAGAG
CTATGATGAGTGACCGCTCACCTTCGCCTGCATTCCGCCTGCAGCTCCAGTCAGTGTACCTAACCACTGATCACTCACTC
ATTTCCTGCGGTTAATCCCATCCATTGCAGGTTACCTGGGTTGCTTAGCCATGGGAGAAGCTCCCCTGCTTTTGTGCGGA
TGAAGCAACAGGCAGGCGGCATAGCTCGGCCGACCGACACATATGGTTGGCTACAGCCGACGAACCCATGCAGGCCCTAA
CAAAACACATTTTTTTAGGAAAAAAACATTACTGTGGGAGTATTAAAATTCTACGTACATAGTGTAGTTCTTGATGTTAC
TCAGGTTGCTTTTTGATCGATCTACCTATCAATGTACGTATACCCTCCCCGCAAAAAAAGTACGTATACCCTCCGCAATT
CCGCATGTACGAAGTAGTATACCTCATGAAACCTTGCGGTTGGTCAGACTGACATACACGAATGATCGACGTTGCCGCTC
AATTAGTTAGCTTTCGCGTCGCACAAGCTTTGTATCCACGGAAAGGGAAACGGCACTGGGGTTTCTAGGTGCGCCTTCTC
CATCACTCCCTTTCCTAATCATTCCATGCAACATCCAGAGAAAATGAAAATGATTCCACGCACACACACACAGTACACAC
ACACTCGCCTTATATATAAGCCATCGCAGTCCATCTTGGACGCTGATCCACTCGCATCAAATCTTGGCACACGCACATAC
ATTTATATGTAATCTGCATCGCTATTTTGATTCAGATAGATAGATAGATGGTGACGACGATGGGGCACGTGGTGGCGCTC
CTCTCCGCTGCCCTCTCCGGCTCCGGCTCCGGCGGCGTGGTCGGCTGCGGTCGCCACGACGACCACTACCACTCGGGCGG
CTGCTGCGTGTGCATATCGAGGTTCCGCGACGGGGAGGACATACGCAGCCTGCCGTGCGGCCACGCCTTCCACCGGCAAT
GCGTCGACAGGTGGTTGGCGCTGTGCCGCCGGACCTGCCCGCTCTGCCGCCTGCACGTCGGCGGCGTGACAGATGAGCAC
CAGCTCAGCGACGACCTCGTCATCTGGTTCTCTTCTCTCTTCGTTGCCGGCTTGTAGCCTGTAGGAACATCAGTCCATCG
CTGCTCTGCGGTGTAGGCTCTTAGTCGATGAGCATGTCAAGCATTTCTCATGGAGAAATCTCACCGCTCGTGGTGGGCCC
TACTTCTACCCCTTGTTCTAGGCTTTGCTTCACTGATATAAGTGATAAACAGTTCAATATGGAGGCTCACGGCACCAAAA
AGT---------------------------------------------TAAATTATGTCAAACAGACAGACGTCCTTCTC
ATTATACAACATGGGTGAAGTGTGCCAACAGTTATTCTAGTTGTCCCGACAGTTATTCATGT-----ATACATTCTTTGC
GGCTGCAAGTTGGTTGCTTCAAAACAACAAGTTACTGTAACTAATTCACTACGCTACACTAGTTGTCAACTGAAGAACTG
CGACAGGCATCACCTGACCTCCAGGATCCATCGGACGCAGTCCTGGAGTAGCTCGAACTTCTGGCTCACCGCGACGTTCA
GGAAGACCCGCATCTTGCCGAGGAACTGCGGCGCCTCCTCCTTGCACCGGAACGACCCTCCACAGTTGCACTGCTCCGAC
ACATGGGCCGCCTTCACCTGCCTGCACCGGACGCACACCAGGTCCTGCAGGTGGTACAGCCTCTCTCGCTGCCGCACAAT
CTGCAGGAGCGCGTTCTCCATCTCCTCGCGGTGGTACGGCTGCCCGCACTGCGGCACCGCGCACCTCCACTCGTGGCCTT
GCAGCGTCGAGTCGCGGCAAAGGTCAAGGTCCCGGCAATCGTTGCAATAGCTGCCAACATCACTCTATTTGTAAGAGACA
GGGCAACGCTAACATAACAACATCAAGGGGAAAGAAAAACGGTTCGGTTCAAAGCTGCAATACCTGCAAATCACGTTCGG
GAGGATGAATGAAGCACAGGGATCTTGGAACTGTGCTTCTGGAGCAAATTCCTTTACGCGCACCAACTTTAACAAATTCT
TTCGCATTCTCTGTCATATATATATTGGATAATGAGAATAGTAGTAGTAATAATAATAATAATAATA------
>chr1A_181
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--------------------TTACATGAAACTTAGAATGATCCATTGGTACATGAGTGATGTGACACGTTATGGGCAGAG
CTATGATGAGTGACCGCTCACCTTCGCCCACATTCCGCCTCCAGCCCCAGTCAGTGTACCTAACCACTGATCACTCACTC
ATTTCCTGCGGTTAATCCCATCCCTTGCAGGTTACCTGGGTTGCTTAGCCATGGGAGAAGCCCCCCTGCTTTTGTGCGGA
TGAAGCAACAGGCAGGCAGCATAGCTCGGCCGACCGACACATATGGTTGGCTGCAGCCGACGAACCCATACAGGCCCTAA
CTAAACATATATTTTTAGG-AAAAAACATTACTGTAGGAGTATTAAAATTCTACGTACATGGTGTAGTTCTTGAGGTTAC
TCAGGTTGCTTTTTGATCGATCTACCTATCAACCTAGGTATACCCCGCAAACAAGAAAAGAAGAAAGGCTGCACC-----
-------TACGAGGTAGTATACCTCATGAAACCTTGTGGTTGGTCAGACTGACATACACGAATGATCGACGTTGCCGCTC
AATTAGTTAGCTTTCGCGTCGCACAAGCTTTGTGTCCACGGAAAGGGAAACGGCACTGGGGTTTCTAGGTGCGCCTTTTC
CATCACCCCCTTTGCTAATCATTCCATGCAACATCCAGAGAAAATAAAAATGATTCCACACACACACAC-----------
----TCGCCTTATATAAAAGCCATCGCAGTCCATCTTGGATGCTGATCCACTCGCAGCAAATCTTGGCACACGCACATAC
ATTTATATGTAATCTGCATCGCGATTTTGATTCAGATAGATAGATAGATGGTGACGACGATGGGGCACGTGGTGGCGCTC
CTCTCTGCTGCCCTCTCCGGCTCCAGCTCCGGCGGCGTGGTCGTGGTGCACTC----------------------GGCGG
CTGCTGCGTGTGCATATCGAGGTTCCGCGACGGGGAGGACATACGGAGGCTGCCGTGCGGCCACGCCTTCCACCGGCAAT
GCGTCAACAGGTGGTTGGCGCTGTGCCGCCGGACGTGCCCGCTCTGCCGCCTGCACGTCGGCGGCGTGGCAGATGAGCAC
CAGCTCAGCGACGACCTCGTCATCTGGTTCTCTTCTCTCTTCGTCGCCGGCTTGTAGCTTGTAGGAAGATCAGTCCATCG
CTGCTCTGCAGTGTAGGCTCTTAGTCGATGAGCATGTCAAGCATTTCTCATGGAGAAATCTCACCGCGCGTGGTGGGCCC
TACTTCTACCCCTTGTTGTAGGCTTTGCTTCACTGATAAGTCAGAAGCAGT---------------TCATGGCACCAAAC
TACTCCCTCCGTTTTAAAATAGATGACTCAACTTTGTACTAAGGAATATAAATTATGTCAAACAGACAGACATGCTTCTC
ATTATACGACATGGATGTAGTGTGCCAACAGTTATTTTAGTTGTCCCGACAGTTATTCATGTAATAAATACATTCTTTGC
GGCTGCAAGTTGGTTGCTTCAAA-CAAAAAGTTACTGTAACTAATTCACTATGCTACACTAGGTGTCAACTGAAGAACTA
CGGCAGGCATCACCTGACCTCCAGGATCCATCGGACGCAATCCTGGAGCAGCTCGAACTTCTGGCTCACCGCGACGTTCA
GGAAGACCCGCATCTTGCCAAGGAACTGCGGCGCCTCCTCCTTGCACCGGAACGACCCTCCACAGTTGCACTGCTCTGAC
ACATGGGCCGCCTTCACCTGCCTGCACCGGACGCACACCAGGTCCTGCAGGTGGTACAGCCTCTCTCGCTGCCGCACAAT
CTGCAGCAGCGCGTTCTCCATCTCCTCCCGGTGGTACGGCTGCCCGCACTGCGGCACCGCGCACCTCCACTCGTGGCCTT
GCAGCGTCGAGTCGCGGCAGAGGTCAAGGTCCCGGCAATCGTTGCAATAGCTGCCAACATCACTCTATTTGTAAGAGACA
GGGTGACGCTAACATAACAACATCAAGGGGAAACAAAAGCGGTTTGGTTCAAAGTTGCAATACCTGCAAATCACGTTTGG
AAGGATGAATGAGGCATAGGGATCTTGGAACTGTGCTTCTGGAGCAAATTCCTTTACGCGCACCAACTTCAACAAGTTCT
TTCGCATTCTCTGTCATATATATATTG----ATGAGAATAGTAATAGTAATAATAATAATAATAATAATAATA
>SNPs
-----------S-----------S-----------------SSS-------------S----------------------
S---------SS-------------------------S------------------------------------------
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---------S----------------------------------------------------------------------
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---------------------------------------------------S----------------------------
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----------S-------------------------------------------------------------S-------
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------------------S-------------------------------------------------------------
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---S----------------------------------------------------------------------------
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-------------------------------------------------------S------------------------
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---------------------------------------------S----------------------------------
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------------------------------------------S-------------------------------------
---S-----------------S-----------------------------------S--S-------------------
------------------S---------------------S--------------------------------
>forward_612
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--------------------------------TGTACGTATACCCTCCCCGT----------------------------
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>reverse_2244
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---AATGAATGAGGCACAGGGGT---------------------------------------------------------
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