>input_sequence_71107
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-ATGATGAAGCACCTCACTGCAGTGTTCGCTTCTTTACTCGTGGTCGCCGGCCTCGCCACCACGGCTGCCGGCGTGAGGT
TCGAGGCAACGAACAACGCGTCGACGACCCCCGGCGGGCAGCGCTTCGACGAGGAATACGGCGTGGGCTACGCGGTGCAG
GTCATGTCGGAGGCCTCCTTCTTCGTCTGGAAAATCTTCAACCAGACGGCGCCCGAGGA---------CCGCAGAGCCGC
CATGGACGACCGCGTCAAGCTCGTCGTCAACTTCATAAACACCAACATCCTCGCCTTCGAACGCGACAGCGAGAGCAGCA
TCACGCTCAACGCCGGCTACGTCAACAACATCACCGGCGACGTGAGGACGCTGGTGACGGGGCTGCTGTACCACGAGGTG
ACGCACGTGTGGCAATGGGGGCAGCAGGACACGAACCAGACCCACAGTTGGATCTACGAGGGGGTCGCCGACTTCGTCCG
GCTCCGTGCGGGCTATGCGGCGCCGTACTGGTTGCAGCCGGGGCAGGGGGACAGCTGGGACACGGGCTATGACGTGACGG
CGTGGTTCCTGGACTACTGCGACCAGTTGAG---GCCGGGGTTCGTGGCGGTGCTCAACCAGAGGCTCAAGGA---CGGC
TACAGCGACGACGACTTCCTGCAGATTATGGGCAAATCGGTGCAAGAGCTGTGGAGGGATTACAAGGCCAAGTACGGTGG
CTAG----------------------------------------------------------------------------
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>chr1D_1_TraesCS1D01G441000
CAACAAAGTAGCACAGTTGAGTTGGTTATTGGACCATGGGCAAGCCCCGCGTATTGCTCACACGACATGGGATCGAATCC
ACTTCTCCCAATTTCTATTAAAACTTTTTCCTGGTTTTTCCCGGTTGAATGGCCTGGTTCTTTCACCGGTTTTCTAGAAA
ACCGGCCGGTTCGACCAGTTTTCTCCGGTCTGATTGCAGAACGGTCTTATTAGCTTAAAAAACCGCTGAGGCCGCTGGTG
CTAGTTTTTTCGGTTCGGCCGCCGTCCGGTCAGGTTATTAAAACTAGGGCTTCAAGGTTGATGTCAAACAATCTAACTCA
GACGCCATATTCGTTTGAATGGAGGTTAACCATTAATGGTGTCTTTACCGTAAAAGTATATGTATACGGATCTTATGGAT
TCTGGAT-CTATTTTTCGTTGAAAATATATTTGGAGAACAAAGGTTCCTCCCAAGATCAAAGTTTTTATGTGATTTTTAT
CGATGAAGGTTGTTCTTACCAAAGATAACCTTGCTAAACGTAATTGGCATTGTAGCAAAAATATTGTTTTTGTGATCATG
AGTAGACAATTCACCATTTATTTATGCCATGTCCATTTACTAACTTAATCTGGCCCACAGTTCATGTTACTTACAATTTC
GTACTGCCAGTGAGTATTCAAATTTCTATGTGCCCGTGCGTTTATTCACTTGACAGATGACAGACAATGATCGATCAGTT
GGTAGCCGGTGCATGGGGTGCTACCGGGAGCAATAC--------------------------------------------
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-------------------------------------------------------------------------TACAAAT
GCAGGACAGAGGTGACGAACGCAAGTACGATATGCTGACTGCTAGTAACAGAATAATCAAGAAGATGACGACAACTGGTC
GTTATCACTGCTGAACTCGTCTTAACTGAGGATTCTATCTAGTAC---TATTAGTACAACCTGCCGGCTAGTAGGCCTTA
GTATCACTTGTCAAATGTCAAGGATCTGCCTATAAATTTGAGGCCCATAGACCACTCATCCACTCAGACACAAACTAAAG
CATGATGAAGCACCTCACTGCAGTGTTCGCTTCTTTACTCGTGGTCGCCGGCCTCGCCACCACGGCTGCCGGCGTGAGGT
TCGAGGCAACGAACAACGCGTCGACGACCCCCGGCGGGCAGCGCTTCGACGAGGAATACGGCGTGGGCTACGCGGTGCAG
GTCATGTCGGAGGCCTCCTTCTTCGTCTGGAAAATCTTCAACCAGACGGCGCCCGAGGA---------CCGCAGAGCCGC
CATGGACGACCGCGTCAAGCTCGTCGTCAACTTCATAAACACCAACATCCTCGCCTTCGAACGCGACAGCGAGAGCAGCA
TCACGCTCAACGCCGGCTACGTCAACAACATCACCGGCGACGTGAGGACGCTGGTGACGGGGCTGCTGTACCACGAGGTG
ACGCACGTGTGGCAATGGGGGCAGCAGGACACGAACCAGACCCACAGTTGGATCTACGAGGGGGTCGCCGACTTCGTCCG
GCTCCGTGCGGGCTATGCGGCGCCGTACTGGTTGCAGCCGGGGCAGGGGGACAGCTGGGACACGGGCTATGACGTGACGG
CGTGGTTCCTGGACTACTGCGACCAGTTGAG---GCCGGGGTTCGTGGCGGTGCTCAACCAGAGGCTCAAGGA---CGGC
TACAGCGACGACGACTTCCTGCAGATTATGGGCAAATCGGTGCAAGAGCTGTGGAGGGATTACAAGGCCAAGTACGGTGG
CTAGCTGATCCATCGATGTATTGGTTGT------------------------------GTGC------------------
---------------TTAATATCATCCATGTTTCGTATTTTCCTACCTTTTATGGCCTTTATTTCCAAGGTTTAGAGCAA
ATCTAGTAGATGCCCAATGAGTATAGCCTCAAAAATATGTATTGGAAC----AATCCCTATAAAAATTTATCTTTTGTTT
CTACT----------------------------------------ATTTTAT--TTTATTTGCGCATAGAAACACCATTC
TAACTCCAGTTTCACACCATAATAACTTCAACGTTTGTATTTAAGCACACAA--TTCAACAACATTTCAGATCCATAATT
TTAAAGTTTTCAAATTCAAAATTTAAACACGACATATGATCTAAGAGCAACTCTAACTATTTCCTCCAGATAGTTTGATG
GGTCCGGTTGGGTTGTAGATCGACTGCTAGGTAGTTGGTCGGGATAATAGACGAAGTTGCACATCAGCTACGTAACTGAC
CTGGGTTTCCCCAAATTAGAATTTTGTAGGGGAGCAGTAAGGAAGTTGCACGTCCAAAGTTATACATGCATTGCTAGGCA
GTTGGCCATGGTCACTAGCAGGATAGGTGGGGCAGTCGGCCCTAAACAGGGAAAAGTGTACATTTTTAGGGTAGAGGAAG
GTTCCACATCAATTACGAGGCAATTGGGGGTCAAGTGATAGGAAAAATGTGTACAACAACTATGACACGGTTGCACCTAA
CAAGGCCTAAATTGCATACAAAGTTCATCGAAATATATTCATGTGGGATCTAATTCTGAAGAGCATGTCGCGAGAATTCC
GACAGTGAAAACAGATCTTAATTCCAATGCTTGGTACAAAAGTTATGAATTTTAATTTTTTTTATCATGAAAACTAAATG
TGTTCACACCTGTTCACATGATTATCTATTTTTCTAATTATAGATTACGGGAGACCAGCACTTTCCAAATCTAGCCGGCC
ACTCGATGTTACACACATCTGTTTAATTAATCCCTGGTCAGTTACCTACTCCCTCTGTTTCTTTGTGTAAAGTGT
>chr1B_295
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------------------------------------------------------AGGTGGATGTCAATCAATTAACTCAG
--------ATTCGTTTTAGTGGAGGTTAACTTCTCATGGTGTCTTTACTGTGAAAGTATATGTATACGAATCTTATAGAT
TCTTGAACCTATTTTCCGTTGAAAGTATACTTGGAAAATAAATGTTCCTTTCAAGATCAAAGTTTTTATGTGATTTTTAT
AGATGGAGGTAGTTCTTATCAAAAATAACCTTGCTAAACGTAATTGATATTGTAGCAAAAATATTGTTTCTGTGATCAGG
AGGAGACAATTCACCATTTATTTTTGTCATGTCCATTTACTAACTTGATCTGGCGCACAGTTCATGTTACTTACAATTTA
GTACTGCCAATCAGTATTCAAATTTCTATGTGCCCGTGCGTTTATTCACTTG-------ACAGACAATGATCGATCAGGT
TGTAGCCGGTGCATGGGGTGCTACTGGCGGTACTACAAATGCTGGAGAGAGGTGACGAACGCAAGTACGACATGCTGACA
GCTAGTAACAGAATAATCAAGAAGATGACGACAAGTGTGCGTTATCACTGCTATTATCTATTTGAAAACAATCTTCCATG
ATTAAGAAAAAATATTTTCCTCTTTTTTTACCATTGGAAAAGATTCAGTGTTGCTGCAGACCTGCAATAGCATACACCTC
TTCGCAAACAACTCTACGTCAACATGAAATGCTCCTAAATTAAGCAAAATAATTGGTTTTAGCTCCTGGTTTAAATTGGT
CTTCGCGCCATTTGGCTATGTTTATAGCTACCCTTTTTTTTGAATGCAAGTTTACACCTACTCGGACTTCTAATTGCAGG
CTCAACTATTTGGACCTCTTGATGATCTATTTTGTTGCATCCTTATGTTAAGAAATTTTTTGCATTTATTTCTTGGTTTG
AATTAAAACTTAAAATTATGCCTTCATGTTACTGAAATAACATAAAATTGTATGCATGCTTAAGTATATGCTCCCTCCGT
TCCTAAATATTTGTCTTTCTAGAGATTTCAACAAATGACTACATACGGAGCAAAATGAGTGAATCTACACTCTAAAATAT
GTCCATATGTGGTAGTCCATTTGAAATCTCTAAAAAGATAAATATTTAGAAATGGAGGGAGTATTTTGAAAGATAAGCCA
TTTTTATTTTTTATATATAAAAGGGTTAGCCATGTTATCCTAGGTGTTTTTAAAATCTAAAATTACTAACAAATGCAAAT
ATTTTTAATTCGTACATGGTTTCAAATGGGTCTCTGCGCCATTTGGCACACCGGGTCATCTAGTACTACAAAGTACAAAT
GCAGGACAAAGGTGACGAACGCAAGTACGATATGCTGACTGCTAGTAACAGAATAATCAAGAAGATGATGGCAAGTATTC
GTTGGCACTGTTGAACTAGTCTTAACTAAGGATTCTATCTAGTACTTATATTAGTAAAACCTGCCGGCTAGGTCTTAG--
--------TGTCACTTGTCAAGGATCTGCTTATATATTTGAGGCCGGTCGACCACTCATCCACTCAGACACAAACTAAAG
CATGATGAAGCACTTCACCACAGTGTTGGCTTCCTTACTTGTGGTCGCCGGCCTCGCTGCCACGGCTGCCGGTGTGAGGT
TCGAGGCGACGAACAACGCGTCGACAACCCCCGGCGGACAGCGCTTCGACGAGGAATACGGCGTGGGCTACGCGGTGCAG
GTCATGTCGGAGGCCTCCTTCTTTGTCTGGAAAATCTTCAACCAGACGGCGCCCGAGGA---------CCGCAGAGCCGC
CATGGACGACCGCGTCAAGCTCGTCGTCAACTTCGTAAACACCAACATCCTCGCCTTCGAACGCGACAGCGAGAGCAGCA
TCACGCTCAATGCGGGCTACGTCAACAACATCACCGGCGACGTGAGGACGCTGGTGACGGGGCTGCTGTACCACGAGGTG
ACGCACGTGTGGCAGTGGGGGCAGCAGGACACGAACCAGACCCACAGCTGGATCTACGAGGGGGTCGCCGACTTCGTTCG
GCTCCGTGCCGGCTATGCGGCGCCGTACTGGGTGCAGCCGGGGGAGGGGAGCAGCTGGGACATGAGCTATTCCGTCACGG
CGTGGTTCCTGGACTACTGCGACCAGCTGAG---GCCGGGGTTCGTGGCGGTGCTCAACGAGAGGCTCAAGGA---CGGC
TACAGCGACGATGATTTCCTGCAGATTATGGGCAAGCCCGTGCAGGAGCTGTGGAGGGATTACAAGGCCAAGTACGGCGG
CTAG-----------------------------------GGGACTTGACATCCATTGTGCGCTTTTTTTTTTTGATAATC
CATTGTGCGCTTTTATTAATATCATCCATGTTTCGTACCTC--------TTAGGGGCTTTATTTCCAAGGTTTAGGGCAA
ATCTAGTAG---------------AGCCTCAAAAATTTGTATTGGAACCTTTATTCCCTATAAAAAGTT-TCTTTTGTTT
CTAAGCTTGCAAAAACGTCTTACAATATGGGACGGAGGAAGTATCATTTTAT--TCTTTTTGCGCATAGAAACTTCATTG
TAACTCTACATTCACACAGTAATAATTTCAGGGTTTGCATTTAAGCACACACAGTTCAACAACATTTCAGATCCATAATT
TTGAAGTTTTCAAATTAAAAATTTGAACACG-------------------------------------------------
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>chr1A_722
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--TAGCCGATTTATGGGGTGCTCGTGAGAGCAATAC--------------------------------------------
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-------------------------------------------------------------------------TACAAAT
GCAGGACAAAGGTGACGAACGCAAGTACGATATGCTGACTGCTAGTAACAGAATAATCAAGAAGGTGATGATAAGTATTT
ATTGTCACTGTTGAACTAGTTTCAACTAAGGATTCTATCTAGCA-TTATATTAGTAAAACCTGCCGGCTTGGCCTTAG--
--------TGTCACTTGTCAAGGATGTGCCTATAAATTTGAGGCCGGTCGGCCACTCATCCACTCAGACACAAGCTAAAT
CATGATGAAGCACTTCACGCCAGTGTTGGCTTCCTTACTCGTGGTCGCCGGCCTCGCCACCACGGCAGCCGGCGTGAGGT
TCACGGCAATGAACAACGCGTCGACGACCCCCGGCGGGCAGCGCTTCGACGAGGAATACGGCGTGGGGTACGCGGTGCAG
GTCATGTCGGAGGCCTCCTTCTTCACCTGGAAAATCTTCAACCAGACGGCGCCCGAGGA---------CCGCCGAGCCGC
CATGGACGACCGCGTCAAGCTCGTCGTCAACTTCATAAACACCAACATCCTCGCCTTCGAACGCGACAGCGAGAGCAGCA
TCACGCTCAACGCGGGCTACGTGAACAACATCACCGGCGACGTGAGGACGCTGGTGACGGGGCTGCTGTACCACGAGGTG
ACGCACGTGTGGCAATGGGGGCAGCAGGACACGAACCAGACTCACAGTTGGATCTACGAGGGGATGGCCGACTTCGTCCG
GCTGCGTGCCGGCTATGCGGCGCCGTACTGGTTGCAGCCGGGGCAGGGGGACAGCTGGGACACGGGCTATGACGTGACGG
CGTGGTTCCTGGACTACTGCGACCAGCTGAG---GCCGGGGTTCATGGCGGTGCTCAACCAGAGGCTCAAGGA---CGGC
TACAGCGACGACGACTTCCTGCAGATTATGGGCAAGTCCGTGCAGGAGCTGTGGAGGGATTACAAGGCCAAGTACGGCGG
CTAGCTGACCCATCAATGTATTGGTGCTTCTGCTTCTAGGGGACTTAACATCGATTGCGTGC------------------
---------------TTACTATCATTCATGTTTTGTATTTTCCTACCTTTTAGGGGCTTTATTTCCAAGGTTTAGAGCAA
ATCCAGTAGATGCCCAATAAGTATAACCTCAAAAATATGTATTGGAACCTTTAATCCCTATAAAAGATTATCTTTTGTTT
CTACT----------------------------------------TTTTTATTATTTTTTTGCGCATAGAAACACCATTC
TAACTCCTGTTTCACACCATAATAATTTAAACGTTTGTATTTAGCA----------------------------------
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>chr1A_1060
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------------------------------------------------------------CACGGCCGGCGCCGTCACGT
TCGAGGTGACGAACAACGCGTCGACGACCCCCGGCGGCCAGCGCTTCGACGTGGAGTACGGCGCGGACTACGCGAGGCAG
GTCCTTTCGGAAGCCGCCTCCTTCATCTGGAACGTCTTCAACCAGACGGGCGCCCGCGAGGCCGACCGCAGGCCAGTCGA
CGGCGGCGGCGCCGTCACCCTCGTCGTCGTGGACGACACGGACGGCGGCATCGCCTCCAC------CAGCGGCAGCGCCA
TCGAGCTAAGCGAGGGCTACGTCGCCCGCTTCACCGGCGACCTGAAGGCCGAGCTGACGGGGGTGCTGTACCACGAGGCG
ACCCACGTCTGGCAGTGGGGTCTCCAGGACTACGCGGCG---CACTGGTGGGTCTTCGAGGGGGTCGCCGACTTTGTCAG
GCTCAAGGCCGGGTACGCGCCGGCGCACTGGGTGGCGCCGGGGCAGGGGCGCAGCTGGGACGGAGGTTACGACGTGACGG
CAAGGTTCCTGGACTACTGCGACTCGGTGATCAAGCCCGGGTTCGTCGGGGAGCTCAACGGCAAGATGAAGGACAGCGGG
TACAGCGACGGCTACTTCGTGGAGATCCTGGGTAAGAGCGTGCAGGACCTGTGGAACGACTACAAAGCCAAGTACGGGGG
CT------------------------------------------------------------------------------
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>chr1B_1061
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-------------------------------------------------------------ACGGCCGGCGCCGTCACGT
TCGAGGTGACGAACAACGCGTCGACGACCCCCGGCGGCCAGCGCTTCGACGTGGAGTACGGCGCGGACCACGCGAAGCAA
GTCCTTTCGGAGGCCTCCTCCTTCATCTGGAACGTCTTCAACCAGACGGGCGCCCGCGCGGCCGACCGCAGGCCAGTCGA
TGGCGGCGGCGCCGTCACACTCGTTGTTGTCGACGACACGGACGGCGGCATCGCCTCCAC------CAGCGGCAGCGCCA
TCGAGCTAAGCGAGGGCTACGTCGCCCGCTTCACCGGCGACCTGAAGGCCGAGGTGACGGGGGTGCTGTACCACGAGGCG
ACCCACGTGTGGCAGTGGGGCCTCCAGGACTACGCGGCG---CACTGGTGGGTCTTCGAGGGGGTCGCCGACTTCGTCAG
GCTCAAGGCCGGGTACGCGCCGGCGCACTGGGTGGCACCGGGGCAAGGGCGCAGCTGGGACGGAGGTTACGACGTGACGG
CCCGGTTCCTGGACTACTGCGACTCGGTGATCAAGCCCGGGTTCGTCGGGGAGCTCAACGGCAAGATGAAGGACAGCGGG
TACAGCGACGGCTACTTCGTGGAGATCCTGGGCCGGAGCGTGCAGGACCTGTGGAACGACTACAAAGCCAAGTACGGGGG
CT------------------------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S--------S----SS-SSSSS
SSSSSSSS--------S-S-----------SSS-S-------------S--S----------------S-------S---
---S--S--------S--------S----S-----S--S---S------SS-----------------------------
S----S----S-------S----S----------------------SS---------------------S--------S-
--S--------------------S--S-------------------S-------S------------------------S
---------S-S----------------------------------------SSSSSSS-------------------S-
S-----------------------S-------------------------------------------------------
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--------S-----------------------------------------------------------S-----S-SS--
---S------S------S---------S----------------------------S--------------SSSSSSSSS
SSSSSSSS-----SS------------------------------SS-S-------------------------------
-------------S----SS-------S-----S----------------------------------------------
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-------------S------------------------------------------------------------------
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---------S----------------------------------------------------------------------
--------------------------S-----------------------------------------------------
-----------------------------------S--S-----S--------------------------------S--
--------S-----S----------SS-----------------------------------------------------
----------------------------------------------------S--S------------------------
------------------S-----------------------------------------------S-------------
---------------------------------------------------------S----------------------
-------------------------S-------------------------S----------------------------
--S-------------S-------S------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_74
------------------------------------------------------TGCTCACACGACATGGGATC------
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>reverse_3032
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-----------------------------------------------------------------------AGTTTGATG
GGTCCGGTTGG---------------------------------------------------------------------
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