>input_sequence_69342
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-----------------------------------------------------------ATGGCTATTGTCGCACGCACT
CTTTCCATTCCTTTCTTGCTTGCATTATTCTTCGTGGTACCTCTCTCTCCCTCTCTCTCTCTCTCTCG------------
----------------CAATATATCAAATGTTGATGAAAACATATGTTTAACCATGAGTTGCGATCA-TTTTTTAGGCTG
AGGTATCCGGGAGCATGAACGTAGAATCATACAAACCGGTATGTTTAATGTACTATTTCCATGGTGCTGGTGAAACGGAA
AATAAGTCGCAAGCATTATGTCGTACTTGTATCAAAACACTGATTTTGGTATTTGAATTTCTGATCTAGGCTGGTGCAGA
AGGATCTGTTCCTTTAAAAGGTAAC-AAATCTAAGTCTACATTTGTCAAATCATTATACAACAAAATTCTAAGTCCATGC
ATGTCAATAATTATAAAGTCATTGTAAAATTAAGAAAACATTCTTCAAATATTCCACATAACATGAGCATTCTAGGAGGA
AAGACATGGAACT-TTTTTTTGTTGAAGCATAAAAAGTAATATGCATGATGGTGTCAGAATAATGTCAAATATAACTGCC
ATTCTTTAGTTTTTAATATGTTGCGCACGATGAACAGAATGCCCAGTGAAATGCAAGATCCGTTGCTCAGCTACGTCACA
CAAGAAACCATGCAATTTCTATTGTAACTACTGTTGCAAGAGGTGCCTGTGTGTTCCGTCCGGCACGGTGGGCAACAAGG
AAGAATGCCCGTGCTACAACAACTTGAAGACCCAAGATGGCAAGCCTAAGTGCCCGTGA---------------------
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>chr1D_1_TraesCS1D01G389400
CTGTACTTACATTGGTTTTATTTTGTGCGGCATCGGTTGAGATTGT--AAAAAAGTCAATAGAAATTTCGGTGGGGA--G
GG---------------GGGAGGAGGTGAGGCGGACCTACTAGGCAAGCTCATTGCCCGTGTGTTGCAATGAGGCATACA
TATTCTAGTGGTTCAACACCAATCATATCCAACATATACGTCACACCTAGTATATTCTAGATCTTGGTAAGAATTGATTT
GATCTGAGTTTGGATAGGAGAAGACTAGTAAATTTTTGATTTAGTTGAGGTTTTGGTAAGATTTGATCTGATATGGGTAT
GGGTAGAGGAAGGGAAGGAAAGTTTTGTTTTGGTTGAGATTTTGGAAATATTTTATTTGATTTAATTGAGTTAATGCAAT
ATGTGAATTAGAGAAAAATACTGATATGGGTTAGATTATTCAAAGTTACTCTATTTACATTGGTTTTTAATTTTGTGCGG
CATCGGTTAAGATTACCAAAAAAATCAAAGAAAACCAAGGAGAGCAGGAGCGTGGGGAGGAAAAAACCAGGAAGGACGTG
AAGAGAATCTACCAACTCCTCTTTAATAATACAGATAATAGTAGAGATGAAAGTGTGGACACTAATTTTGACTGGCTTGT
TAATATTTGGATACTGACCGTATTCCCTATCTAGTTTAAAAGATATCTATGAATTAATAGGTCGTCACTAGTTGCATGTC
AAATATATCACATTATGGATCCTTTTGGATCGCATAATTATCTTCTACTCCATACCAGACTTCTAAATTTAGATTTTGGT
ATCTATCTATTAAATGATTTGATCACCAAACGGGTATATCAATAGATAAGTTGGTGAACAATAATGTCAAAATTTGGAAG
ATTTTAATTTTAATTGCCAGTTAAAACTAAAATCTAGAATGCTTCTAAATATATCATAATTGAATATTATATATACCAAG
GTCAGCAACATGTTTCCCCAAGATCAGATCCTCATTCCATACCTGTGCAACTAAGAAGCATGGCTATTGTCGCACGCACT
CTTTCCATTCCTTTCTTGCTTGCATTATTCTTCGTGGTACCTCTCTCTCCCTCTCTCTCTCTCTCTCG------------
----------------CAATATATCAAATGTTGATGAAAACATATGTTTAACCATGAGTTGCGATCA-TTTTTTAGGCTG
AGGTATCCGGGAGCATGAACGTAGAATCATACAAACCGGTATGTTTAATGTACTATTTCCATGGTGCTGGTGAAACGGAA
AATAAGTCGCAAGCATTATGTCGTACTTGTATCAAAACACTGATTTTGGTATTTGAATTTCTGATCTAGGCTGGTGCAGA
AGGATCTGTTCCTTTAAAAGGTAAC-AAATCTAAGTCTACATTTGTCAAATCATTATACAACAAAATTCTAAGTCCATGC
ATGTCAATAATTATAAAGTCATTGTAAAATTAAGAAAACATTCTTCAAATATTCCACATAACATGAGCATTCTAGGAGGA
AAGACATGGAACT-TTTTTTTGTTGAAGCATAAAAAGTAATATGCATGATGGTGTCAGAATAATGTCAAATATAACTGCC
ATTCTTTAGTTTTTAATATGTTGCGCACGATGAACAGAATGCCCAGTGAAATGCAAGATCCGTTGCTCAGCTACGTCACA
CAAGAAACCATGCAATTTCTATTGTAACTACTGTTGCAAGAGGTGCCTGTGTGTTCCGTCCGGCACGGTGGGCAACAAGG
AAGAATGCCCGTGCTACAACAACTTGAAGACCCAAGATGGCAAGCCTAAGTGCCCGTGATATGCTTGCAAGTCGTGTGTG
GCCTCCAAGTTTTACAGTCTTGTTGTATTCAACAAAGTATTGATAATAAAGTTGACTTGTTTAATACAAGATCTGTGTTA
TTATTGGAGACAAAATAGGAGATAGGCCAAAATGTCTTCATGAATTTATCATTCTATGTGTACCAATCTATGGGTCGTTT
GCTTGTCAACCATACTTTGTCACACATCTTATAGACAAGTTTGACAAGCGGTATGGATACTATTTTTTTCAGATTTTACT
ATTAATGCTGGGATCATAAGAGTCAAACTCAGATGGGAACTTTCCAACACTTTTTTCATGAATGAAAACCACATGCACAT
ATAGGTGATGTTTTTCTGAACATTTTGATTTTTTTTGCATATTTCCGAGTTTGTATGAATTTTTTATGAGGTTTTCAAAG
TGACGGTCAAAAGGCAAAATCATAAGAGTGAAGTGGCTTGGGTAGAACAAGTGCTTTCTGAAAATTAAGGGTAAAACAAC
CGAGTGAGATACAACTAGGGGCATAAAATTAATTATGCCTATAAAAAATTGCAAACATTTTATGGAATTCATGAATATAT
TTTTAATTTAAAAAATATTTAGTAGAAACAGGCCAAAATATATATAACTGATTGAAAATCTGTTTTGCAAAAGAAAAAAA
TCATCAAAAAACCGATAAAACAAACACCAGAGAACCAGGGTGTGTGTTTGGTCGGTCCCCACCGCGTTACTCTCTCTCTC
TCTCTGTAGCATCCGTTTGCCCATTTGGTCTTTTGGACTCAAAAAAGAAAAAGTTTTCCCTTTTGGTCACCCCTTTTGAC
TTCTTCCTATTTTCTAAAACTCCGCTGGCTTATTAATTTCAATGGTCCTCCGCAAGAAGTCAAAGTTTGCAACCTACTCT
TGGACGGAGGGAGTAGCTTTTAAATTCCAGTTATTAACCAAACATCATAAAAATATTATTAACCAAACATATTCTCCTGC
AATTTTCGTTACTTAAATA
>chr1B_1
CTGTACTTACATTGGTTTTATTTTGTGTGGCATCGGTTGAGATTGT--AAAAAAGTCAATAGAAATTTCGGTGGTATGGG
GGGGGAGGAAAAAAACAGGGAGGAGGTGAGGCGGACCTACTAGGCAAGCTTACTGCCCGTGTGTTGCAATGAGGCATACA
TATTCTAGTGGTTCAACACCAATCATATCCTACATATACGTCACACCTAGTATATTCTAGATCTTGGTAAGAATTGATTT
GATCCGAGTTTGAATGGGAGAGGACAAGTAAAATTTTGATTTAGTTGAGGTTTTGGTAAGATTTGATCTGATATGGGTAT
GGGTAGAGAAAGGGAAGGAAAGTTCTGTTTTAGTTGAGATTTTGGAAAGATTTGATTTGATTTAATTGAGTTAATGCAAT
GTCTGAATTTGACAAAAATACCGATTTGGGTTAGATTATTCAAAGTTATTCTATTTGCATTGGTTTTT-ATTTTGTGCGG
CATCGGTTGAGATTACCAAAAAA-TCAAAGAAAACCAAGAAGAGGAGGAGCGTGAGGAGGAAAAAACCAGGAAGGATGTG
AAGAGAATCCACCAACTCCCCTTTAATAATACAGATAATAGTAGAGATAAAAGTGTGGACACTAATTTTAACTGGCTTGT
TAATCTTTGGATATTGACCGTATTCCCTAGCTAGTTTAAAAGATATATATGAATTAATAGGTTGTCACTAGTTGCATGTC
AAATATATTGCATTATGGATCCTTTTGGATGGCATAGTTATCTTCTACTCCATACCAGACTTCTAAATTTAGATTTTGGT
ATCAATCTATTAAATGATTTGATCACCAAACAGGTATATCAATAGATAAGTTGGTGAACAATAATGTCAAAATTTGGAAG
ATTTCAATTTTAATTACCAGTTAAAACTAAAATCTAGAATGCATCTAAATATATCATAATTGAATATTATATATACCAAG
GCCAGCAAGAGGTTTCCCTAAGATCAGATCCTCATTCCATACCAGTGCAACTAAGAAGCATGGCTTGTGTCGCACGCACT
CTTCCCATTCCTTTCTTGCTTGCATTATTCTTCGTGGTAGCTCTCTCTCTCTCTCTCCCTCCCTCCCTCTCTCTCTCTCT
CTCACACACACACACACAATATATCAACTGTTGATGGAAACATATGTTTAACCATGAGTTGCAATCATTTTTTTAGGCTG
AGGTATCCGGGAGCATGAACGTAGAATCATACAAACCGGTATGTTTGTTGTACTATTTCCATGGCGTTGGTGAAATGGCA
AATAAGTCGCAAGCATTATG-CGTACTTGTATCAAAACACTGATTTTGGTATTTGAATTTCTGATCTAGGCTGGTGCAGA
AGGATCTGTTCCTTTAAAAGGTAAAAAAATCTAAGTCTACATTTGTCAAATCATTATACAACAAAATTCTAAGTCCATGC
ATGTCAATCGTTATAAAGTCATTGTAAAATTAAGAAAACATTCTTCAAATATTCCACATAACATGAGCATTCTAGGAGGA
AAAACATGGAACT-TTTTTTAGTTGAAGCATAAAAAGTAATATGCATGATGGTGTCATAATAATGTCAAATATAACTGCC
ATTCTTTA-TTTTTAATATGTTGCGCACGATGAACAGAATGCCCAGTGAAATGCAAGATCCGTTGCTCAGCTAAGTCACA
CAAGAAACCATGCAATTTCTATTGTAACTACTGCTGCAAGAGGTGCCTGTGTGTTCCGTCCGACACGATGGGCAACAAGG
AAGAGTGCCCGTGCTACAACAACATGAAGACCCAGGATGGCAAGCCTAAGTGCCCCTGATATGCTTGTAAGCCGTGTGTG
GCCTCCAAATTTTACAGTCTTGTTGTATCGAACAAAGTATTGATAATAAAGTTGACTTGTTTAATACAAGATCTGTGTTA
TTCTTGGAGACAAAATAGGAGATAGGTCAAAATGTCTTCATGAATTTATCATTCTATTTGTAGCAATCTATGTGTTGTTT
GCTTGTCAGCCATACTTTGCCACACATCATATAGACAAGTCTGGCAAG--------------------------------
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>chr1A_2
-TGTACTTACATTGGTTTTATTTTGTGCGGCATCGGTTGAGATTGT--AAAGAAGTCAATAGAAATTTTGGTGGGGA--G
GGGGGAGGAAAAAACCAGGGAGGAGGTGAGGTGGACCTACTAGGCAAGCTCATTGCCTGTGTGTTGCAATGAGGCATACA
TATTCTAGTGGTTCAACACCAATCATATCCAACATATACGTCACACATTGTATATTCTAGATCTTAGTAAGAATTGATTT
GATCTGAGTTTGTATAGGAGAAGACTAGTAAAATTTTGATTTAGTTGAGGTTTTGGTAAGATTTGATCTGATATGGGTAT
GGGTAGAGGAAGGGAAGGAAAGTTTTGTTTTAGTTGAGATTTTGGAAATATTTTATTTGATTTAATTGAGTTAATGCAAT
ATGTGAATTTGAGAAAAACACTGATTTTGGTTAGATTATTCAAAGTTACTCTACTTACATTGGTTTTT-ATTTTGTGCGG
CATCGGTTGAGATTACCAAAAAA-TCGAAGAAAACCAAGGAGAGCAGGAGTGTGGGGAGGAAAAAACCAGGGAGGACGTG
AAGAGAATCTACCAACTCCCCTTTAATAATATAGATAATAGTAGAGATCAAAGTGTGGACACTAATTTTGACTGGCTTGT
TAATCTTTGGATACTGACCGTATTCCCTAGCTAGTTTAAAAGATATCTATGAATTAATAGGTCGTCCCTAGTTGCATGTC
AAATATATCGCATTATGGATCCTTTTGGATCGCATAATTATCTTCTACTCCATACCAGCCTTCTATATTTAGATTTTGGT
ATCAATCTATTAAATGATTTGATCTCCAAATAGGTATATCAATAGATAAGTTGGTGAACAATAATGTCAAAATTTGGAAG
ATTTTAATTTTAATTGCTAGCT-AAACTAAAATCTAGAATGCATCTAAATATATCATAATTGAATATTATATATACCAAG
GTCAGCAATAGGTTTCCCCAAGATCAGATCCTCATTCCATACGTATGCAACTAAGAAGCATGGCTTGTGTTGCACGCACT
CTTTCCATTCCTTTCTTGCTTGCATTATTCTTCATGGTACCTCTCTCTCTCTCTCTCAATAA------------------
----------------------ATCAATTGTTGATGGAAATGTATGTTTAACCATGAGTTGCAATCAT--TTTTAGGCTG
AGGTATCCGGGAGCATGAACGTAGAATCATACAAACCGGTATGTTTACTATACTATTTCCATGGCGTTGGTGAAATGGCA
AATAAGTCGCAAGCATTATGTTGTACTTGTATCAAAACACTGATTTTGGTATTTGAATTTCTGATCTAGGCTGGTGCAGA
AGGATCTGTTCCTTTAAAAGGTAAC-AAATCTAAGTCTACATTTGTCAAATCATTATACAACAAAATTCTAAGTCCATGC
ATGTCAATCATTATAAAGTCATTGTAAAATTAAGAAAACATTCTTCAAATATTCCACATAACATGAGC-------GAGGA
AAGACATGGAACTCTTTTTT-GTTGAAGCATAAAAAGTAATATGCATGATCGTGTCATAATAATGTCAAATATAACTCCC
ATTATTTA-TTTTTAATATGTTGCGCACGATGAACAGAATGCCCAATGAAATGCAAGATCCGTTGCTCAGCTACGTCACA
CAAGAAACCATGCAATTTCTATTGTAACTACTGCTGCAAGAGGTGCCTGTGTGTTCCGTCCGGCACGGTGGGCAACAAGG
AAGAATGCCCGTGCTACAACAACTTGAAGACCCAGGATGGCAAGCCTAAGTGCCCGTGATATGCTTGCAAGTCGTGTGTG
GCCTCTAAGTTTTACA----------------------------------------------------------------
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>chr1A_30
-----------------------------GCATAGGTTGAGATTGTAAAAAAAAGTCAATAGAAATTTCGGTGAGGA--G
GGT----------------------GTGAGGTGGACCTACTAGGCAAGCTCATTTCCCGTGTGTTGCAATGAGGCATACA
TATTCTAGTGGTTCAACACCAATCATATCCAACATATATGTCACACCTAGTATATTCTAGATCTTGGTAAGAATTGATTT
GTTTCGAGTTTGGATAGGAGAAGACTAGTAAAAATTTGATTTAGCTGAGGTTTTGGTAAGATTTGATCTGATATGGGCAT
GGGTAGAGGAAGGGAAGGAAAGTTTTGTTTTAGTTGAGATTTTGGAAATATTTTATTTGATTTAATTGAGTTAATGCAAT
ATGTGAATTTGAGAAAAATACTGATTTGGGTTAGATTATTCAAAGTTACTCTA-TTACATTGGTTTTT-ATTTTGTGCGG
CATTGGTTGAGATTACCAAAAAA-TCAAAGAAAACCAAGGAGAGCAGGAGTGTGGGGAGGAAAAAACTAGAAAGGGGGTG
AAGAGAATCTACCAACTCCCCTTTAATAATACAGATAATAGTAGAGATGAAAGTGTGGACACTAATTTTGACTGGCTTGT
TAATCTTTGGATACTGACCGTATTCCTTAGCTAGTTTAAAAGATATCTATGAATTAATAGGTCG-----------ATGTC
AAATATATCACATTATGGATCCTTT-GGATCGCGCAATTATCTTCTACTCCATACCAGACTTCTAAATTTAGATTTTGGT
ATCAATCTATTAAATGATTTTATCACCAAACAGGTGTATCAATAGATAAGTTGGTGAACAATAATGTCAAATTTTGGAAG
ATTTTAATTTTAATTGCCAGTTAAAACTAATATCTAGAATGCATCTAAATATATCATAACTGGATATTATATATACCAAG
GTCAGCAACAGGTTTCCCCAAGATCATATCCTCATTGCATACATGTGCAACTAAGAAGCATGGCTTGTGTCGCACGCACT
CTTTCCATTCCTTTCTTGCTTGCATTATTCTTCGTGGTACCTCTCTCTCTCTCTCAATAT--------------------
------------------ATATATAAACTGTTGATGGAAACATATGTTTAACCATGAGTTGCAATCATTTTTTTAGGCTG
AGGTATCCGGGAGCATGAACGTAGAATCATACAAACCGGTATGTTTACTGTACTATTTCCATGGCGCTGGTGAAACAGCA
AATAAGTCACAAGAATTATGTCGTACTTGTATCAAAACACTAATTTTGGTATTTGAATTTCTGATCTAGGCTGGTGCAGA
AGGATCTGTTCCTTTAAAAGGTAAC-AAATCT--GTCTACATTTGTCAAATCATTATACAACAAAATTCTAAGTCCATGC
ATGCCAATCATTATAAAGTCATTGTAAAATTAAGAAAACATTCTTCAAATATTCCACATAACATGAGCATTCTAGGAGGA
AAGACATGGAACT-TTTTTT-GTTGAAGCATAAAAAGTAATATGCATGATCTTGTCATAATAATGTCAAATATAACTGCC
ATTCTTTA-TTTTTAATATGTTGCGCACGATGAACAGAATGCCCAGCGAAATGCAAGATCCGTTGCTCAGCTACGTCACA
CAAGAAACCATGCAATTTCTATTGTAACTACTGCTGCAAGAGGTGCCTGTGTGTTCCGTCCGGCACGGTGGGCAACAAGG
AAGAATGCCCGTGCTACAACAACTTGAAGACCCAGGATGGCAAGCCTAAGTGCCCGTGATATGCCTGCAAGTCGTGTGTG
GCCTCCAAGTTTTACAGTCTTGTTGTATCGAACAAAGTATTGATAATAAAGTTGACTTGTTTAATACAAGATTTGTGTTA
TTATTGGAGACAAAATAGGAGATAGGCCAAAATATCTTCATGAATTTATCATTCTATTTGTAGCAATCTATGTGTTGTTT
GCTTGTCAGCCATACTTTGCCACACATCTTATAGACAAGTCTGGCAAG--------------------------------
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>SNPs
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--------------------------------S-----------------------------------------------
-------------------------------S------------------------------------------------
---------S---------------S------------------------------------------S-----------
--------S--------------S--------------------------------------------------------
-------------------S------------------------------------------------------------
----S------------------------S--------------------------------------------------
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---S---------------------------S------------------------------------------------
------------------------------------------S-------------------------------------
----------S------------------------------------------------------SS-------------
-------------------------------------------------S-----------S---S-S------------
---------------------------S--------S-------------------------S-----------------
-----------------------------------------------S----------------S-------------S-
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--------S-----------------------------------------------------------------------
--------------------S------------------------------------S----------------------
--------S-----------------------------------------------------------------------
---------------------------------S----------------------------------------------
----------------------------------S---------------------------------------------
----------------------------SS--------------------------------------------------
---------------------------------------------------------S----S---------S--S----
--------S----------S--------------------S--S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSS
>forward_489
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---------------------------------------------------------------------ATTTTGTGCGG
CATCGGTTA-----------------------------------------------------------------------
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>reverse_2513
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--------------------------------AACCAGGGTGTGTGTTTGGT----------------------------
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