>input_sequence_81884
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-------------------------------------------------------------------------------A
TGGCGTCGCTGTCAATGAGCGCGGCCGGGAGGGCTGGGTGGACGCCGCAGCAGAACAAGCTGTTCGAGCAGGCACTGGCA
GTGCACGACCGGGACACGCCTGACCGCTGGCACAACGTCGCTCGTGCCGTTGGTGGCGGCAAGTCGGCCGATGATGTCAA
ACGCTACTATGAGCTGCTCGTCCACGACATCGCCCGCATCGAGGCCGGCAAGGTGGCCTTCCCCGCCTACCGTTCCCCGT
GCCCAGGCCCCGGCCACAACGCCGGCTACGAGGCCGACAGGTACGACCGG----CTTTACCGTGTTTCT---T-------
-----------------ATCAAATTATGTGTGGACTTCAAAGCTGGGGTTAATCTTGTAATTTTGATGA-TTAGGTTGAA
GCACTTGAAGATCTAG----------------------------------------------------------------
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>chr1B_1_TraesCS1B01G449200
GCAAGATATATCCTGGTTCGTATGGCCAACACGCACCTGAATTTTGGTGATGGAATCCAAATTTTGCAACTAGCTCTTTG
TAAATAGTGACTAGATGCTCTTAACTATATAGCTAGCTCCTTGACAAAGAAATAACTGATTAATTTTCTTTATACTCGAT
GTTATCATCTATGAATATTACAAAGGATGG-AACTTAGATTTTCTTTTAAAAATAACTGAAAATTTTAAGGTACACTCAA
GAGAGTAACAACCCAACGCAACCACAGTAAATATGTTAGTGGTAGAACCAAGATCATCATTTACGCAAGGAGTTAGTTGA
ACCAAAATACTAGTATTTTTTTAGATTTTTGATATTTGTGGTCTAAATAAGAAGTCAAGACATGCACGTTGTAGCACTTG
CATAATTTGGTGTGACAAATAGTTTTGATTGTTGTCTTTAAACAAAGCACACATAGCCATAGATTTGA------------
-----------TTCGTATTGAGAGAAGACAACCCTCTTTCAGCCTCTGCATATTGCATATGAATATGCATCTGTCTTCAC
ATG-AACTATGAGAACGTATATGCATGTATATAGACACATATTTACATTTTTTTGCGTGGACATATATTTCCA--TTTTT
ACTTTGAATCTTTGAGCAGGAGGAGGTCGAGAAAGGATGCAGAGCCGATTCGTGACGGGACTACGCCGAAGAGATAGAAA
GGTAGATCCCCCACTTCCAAGGGACAGAAAA-TTTTGTTCCTTCTCCAGCTGACCCCCCTCCTCACTCC---GGTGGCGG
CTGGCTGCTTCAAATATTCC--------TTTTTTTTACCTCCACCCGTATGCACATTATTCTC-----------------
----------------------CA---------------TCTTCTCCGGCCCCACAGAGCTGAATCCTTCCTCTCCATTG
TCTAGTCCGGCCGGCTATAAGTAGCACCCCTTCTCACACCCTTCTTCCTCATCCATCTCAGAAGCAGCC-TGTGCAACCA
ACGAGTTCACGGTA-CCAACATCATAAGC------------------------CCAATCGTAGCTAGGTAGATCGAGCAA
TGGCGTCGCTGTCAATGAGCGCGGCCGGGAGGGCTGGGTGGACGCCGCAGCAGAACAAGCTGTTCGAGCAGGCACTGGCA
GTGCACGACCGGGACACGCCTGACCGCTGGCACAACGTCGCTCGTGCCGTTGGTGGCGGCAAGTCGGCCGATGATGTCAA
ACGCTACTATGAGCTGCTCGTCCACGACATCGCCCGCATCGAGGCCGGCAAGGTGGCCTTCCCCGCCTACCGTTCCCCGT
GCCCAGGCCCCGGCCACAACGCCGGCTACGAGGCCGACAGGTACGACCGG----CTTTACCGTGTTTCT---T-------
-----------------ATCAAATTATGTGTGGACTTCAAAGCTGGGGTTAATCTTGTAATTTTGATGA-TTAGGTTGAA
GCACTTGAAGATCTAG----GAAGC--------AATGGACAATGAATGATACACACCGCATAGATCGATGGAACTG-GAA
GCATGTGCATGTGCATGAGATAAGTCT--------------CGTGCATGGTGTCCATGTCAACGTACGCATGCAATGCAA
GGC---------------------------TATGTAGATGCATGCATGTTCATAATACTGCAGTAGCAAGTGGTCTATGG
C---------CTGTCTCCTTCCTC-CATGGATTTAACTTATCTCGTATGTATTCTAATGTACAATATTGATATCGTCTGC
ACATGTAACCATATGTGCATACCAATCAAAAGAGAAAAGAAATTGATGATAATGCAGATATGTTATACACACATACTACC
AAAAACAAATCTAAACAAATACAGTGCGTTTCAAGCTTCATGGATTCCTTTTGTTATATCATCGTGGTGATACGGCAGAG
GTGGCGGAGATCACGAATGGGCAGGGGCGGAGTTGGGCCCCAGGCAACCAAGGCCAAGCATGGCATTTGTTCTTTCTTCC
TATTAACCACCACCATTCCTCGCAAAAAAAATAAACTACCAAACATTTCTATATTGGCCCGGGGTTAAGGCCACACAACA
CAGCTCCAACACAAGCTCCCTTCTTAACGCACGCACATTCCCGTGACCCAGACCACGACTTAAAAGGAAACGCGGAAACT
CATTTCTCCCATGTATGTCTAGACCGGATGGTCCAGATAATTTTGGGCCTGCAAAGCTATCCCTCGATTGTCCGAGGACC
GGATCGGACTTCCAAAATCCCCCTACTATGTCCCCAAATCGAGGGAAGGAACATGGTAGTCCGGATAATCCTCGCGGACC
ACGTCTCCCCATGATGCACGTCTCTCCACTAATCTCTTTCTCCTCT--TAGTTGATGTCCAGCCCACTGATAGTTACACC
TCACGGTCCAAAAAATGAGGGATACCGCTGGAGGGCCTGAGCCCGATCAGCTATTCGCGGACACGCCTATGGACATTTGA
GGGCGTCCGTTCAAGGGATAGCGGTGAAGATGTCCCAACACT
>chr1D_1
GCAAGATATATCCTGGTTCATATGGCCAACGCGCATCTGAATTTTTGTGATGGAATCCAATCTTTGCAACTAGCTATTTG
TAAATAGCGACTAGATGCTCTTAACTATGTAGCTAGCTCCTTGAGAAAGGAATAATTGACTAATTTTCTGTATACTTGAT
GTTATCATCTCTGAATATTACAAAGAATGGGAACTTAGATTTTTTTTCAAAAA-AACTGAAACTTTTAAGGTACACTCAA
GATAGTTACAACCCAACGCAACCCCAGTAAATATGTCAGTGGTAGAACCAAGATCATCATGCACGGCAGGAGTTAGTTGA
ACCAAAATA-TAGTAAAAATTATTTTTCGATAT-TTTGTGGTGTAAATAATAATTCAAGACATCCACGCTGTAGAACTTG
CATAATTTGGTGTAACAAATAGGTTGTATCTTCTTTTAGAACAATGTC---CATAGGCATAGCTTTGATTCATTAAACAT
GGATTGCATTTTTCAAAATGAGAGAAGAGAACCC-CTTTCGGCCTCTGCATATTGCATATGAATATGCACATGTCTTAAC
ATAAAACTATGAAAACGTATATGCATGTATTTAGAGTTATTATAGAC-------------ACATATATTTACA--TTTTT
ACTTTGAATCTTTGAGCAGGAGGAGGTCGAGGAAGGATGCCGAGCCGATTCGCGACGGGACTACACCGAGGAGATAGAAA
GGTAGATCCCCCACTTCCAAGGGACAGAAAA-TTTTGTTCCTTCTCCAGCTGACCCCCCTCCTCACTCCTCTGGTGGTGG
CTGGCTGCTTCAAGTATTCCTCTCTTTTTTTTTTTTACCTCCACCCGTATGCACATTATTCTC-----------------
----------------------CA---------------TCTTCTCCGCCCCCACAGAGCTGAATCCTTCCTCTCAATTG
TCTAGTCTGGCGGGCTATAAGTAGCACCCCTTCTCACACC--TCTTCCTCATCCATCTCAGAAGCAGCC-TGTGCAACCA
ACGAGTTCACGGGGGCCAACATCATAAGC------------------------CCAACCG----TAGGTATATCGAGCAA
TGGCGTCGCTGTCAATGAGCGCGGCCGGGAGAGCTGGGTGGACGCCGCAGCAGAACAAGCTGTTCGAGCAGGCACTGGCA
GTGCACGACCGGGACACGCCCGACCGCTGGCACAACGTCGCTCGTGCCGTTGGTGGCGGCAAGTCGGCCGACGATGTCAA
ACGCTACTACGAGCTGCTCGTCCACGACATCGCCCGCATCGAGGCTGGCAAGGTGGCCTTCCCCGCCTACCGTTCCCCCT
GCCCAGGCCCCGGCCACAA---CGGCTACGAGGCCGACAGGTACGACCGGCCGGCTTTACCGTGTTTCTTATCAAATTAT
GTGTGCTTTGTAGAAAAATCAAATTATGTGTGGACTT--AAGCTGGCGCTAATCTTGTAATTTCTGTCGGTTAGGTTGAA
GCACTTGAAGATCTAG----GCGGC--------AATGGACAATGAATGATACACACTACATAGATCGATGGAACTG-GAA
GCATGTGCATGTGCATGAGATAAGTCT--------------TGTGCATGGTGTCCATGTCAACGTACGCATGC-----AA
GGC---------------------------TATGCAGATGCATGCATGTTCATAATACTTCAGTAGCAAGTGGTCTATGG
CGGGATCGACCTGTCTCCTTCCTC-CATGGATTTAACTTATCTCGTATGTATTCTAATGTACAATATCTATATCCTCTGC
ACATGTAACCATATGTCCATACCAATCAAAAGAGAAAAGAAATTGATGATAATGCAGATATGTGATACACACATACTACT
AAAAACAAATCTGAACAAATACAGTACGTTTCAAGTTTCATGGATTCCTTTTGTTATATCATCGTGGTGACACGGCAGAG
GTGGCGGAGATCACGAATATGCAAGGGCGGAGTTGGGCCCCAGGCAACCAGGGCCAAGCATGGCATTTCTTCT-------
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>chr1A_1
GCAAGATATATCCTGGTTCGTATGGACAACA-GCATCTGAAATTTGGTGATGGAATCCAATCTTTGCAACTAGCTATATG
TAGATAGCGATTAGATGCTCTTAACTATATAGCTAGCTCCTTGACAAAGAAATAATTGATTAATTTTTTTTAG--TCGAT
GTTATTATCTGTGAATGTTAGAAAGAATGGGAACTTAGATTGAAAAAAAGGAG---CTGAAACATTTAAGGTACACTCAA
GAGAGTAACAACCCAACGCAACCCCAGTAAATATGTTGGTGGTAGAACCAAGATCATCACGCACGTAAGGAGTTAGTTGA
ACCAGAATGCTAGTAAAAAACATTTTTCCATAT-TTTGTGGTGTAGATAAGAAGTCAAGACATGCAAGCTGTAAAC----
-----------------------------------------------------------------------------CAT
GGATTGCATTTTTCAAAATGAGAGAAGAGAACCCTGTTTCGGCCTCTCCATATTGCATATGAATATGCACATGTCTTAAA
TTAAAACTATGAGAACGTATATGCTTGTATATAGACACATAT--------------------ATATATTTACAT-TTTTT
ACTTTGAATCTTTGAGCAGGAGGAGGTCGAGGAAGGATGCCGAGCCGATTCGCGACGGGACTACACCGAGGAGATAGAAA
GGTAGATCCCCCACTTCCAAGGGACAGAAAA-TTTTGTTCCTTCTCGAGCTGACCCCCTTCCTCACTCCTCTCGCGGTGG
C----------------------------------------------------CATTATTCTC-----------------
----------------------CA---------------TCTTCTCCGCCCCCACAGAGCTGAATCCTTCCTCTGAATTG
TCTAGTCTGGCCGGCTATAAGTAGCACCCCTTCTCACACCCTTCTTCCTCATCCATCTCAGAAGCAGCCCTGTGCAACCA
ACGAGTTCACGGTA-CCAACATCATAAGC------------------------CCAATCGCAGCTAGGTAGATCGAGCAA
TGGCGTCGCTGTCAATGAGCGCGGCCGGGAGGGCTGGATGGACGCCGCAGCAGAACAAGCTGTTCGAGCAGGCACTGGCA
GTGCATGACCGGGACACGCCCGACCGCTGGCACAACGTCGCTCGTGCCGTTGGTGGCGGCAAGTCGGCCGACGATGTCAA
ACGCTACTACGAGCTGCTCGTCCACGACATCGCCCGCATCGAGGCCGGCAAGGTGGCCTTCCCCGCCTACCGTTCCCCCT
GCCCAGGCCCCGGCCACAACGCCGGCTACGAGGCCGACAGGTACGACCGG----CTTTACCGTGTTCCTTACT-------
-----------------ATCAAATTATGTGTGGACTTGAAAGCTGGGGTTAATCTTGCAATTTTGATGA-ATAGGTTGAA
GCACTTGAAGATCTAG----GCGGC--------AATGGACAATGAATGATACACACCACATAGATCGATGGAACTG-GAA
GCATGTGCATGTGCATGAGATAAGTCT--------------CGTGCATGGTGTCCATGTCAACGTACGCATGC-----AA
GGC---------------------------TATGCAGATGCATGCATGTTCATAATACTTCAGTAGCAAGTGGTCTATGG
CGGGATCGTCCTGTCTCCTTGCTG-CATGGGTTTAACTTATCTCGTATGTATTCTAATGTACAATATTTATATCGTCTGC
ACATGTAACAATATGTCCATACCAATCAAAAGAGAAAAGAAATTGATGATGATGCAGATATGTTATACACACATACTACT
AAAAACAAATCTGAACAAATACAGTGCACTTCAAACAAATC--------------------------TGATACGGCAGAG
GTGGCGGAGATCACGAATATGCAGGGGCGGAGTTGGGCCCCAGGCAACCAGGGCCAAGCATGGCATTTTTTCTTTCTTCC
TATTAACCACC------------------------------AACATTTATATATTGGCCTGGAGTTAAGCCCACACAACA
CAGC-CCAACCCAAGCTCCCTTCTTAACGCACGCACATTCCCGCGA----------------------------------
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>chr1A_598
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--------------------------------------------------------------ATATATTTACATTTTTTT
GCTTTGAATCTTTGAGAGGGAGGAGGT-GAGGAAGGATGCCGAGGCGATTCACGACGCAAAAGGGACGAAAAGATAGAAA
GGTAGATCCCCCACTTCCAGGGGACAGAAATGTTTGTTCCTTTCTCCAATCGACCCCCCTCCTCAGTCCTCTCGTGCTGG
C----------------------------------------------------CTGCTGCTTCAAAATTCCTCTAGTTTT
TCGCCCTCCACTCGTATGCACATCATCGATCGTCCATCTTCTTCCACCCCCCCACAAAGCTGAACCCTCCTCGACT----
-------------GCTATAAGTAGCACCTCTTCTCACAG-CTTCTTCCCCATCCATCTCACCAGCAGCCAACATCCAAGC
GTAGTTCAGGTCATAAGTTAAGGTATATAGCAGCTTAATTATCGTTCGAGAAACCAATCGTCGAGCGA------GATCAA
TGGCTTCCCTGTCAATGAGCGCGGT------------GTGGACGCCGATGCAGAACAAGCTGTTCGAGCAGGCGTTGGCG
GTGCACGACAGGGACACGCCCGACCGCTGGCACAACATCGCCCGGGCTGTCGGCGGCGGAAAGTCGGCGGACGATGTCAG
GCGCTACTACGAGCTGCTCGTCCACGACATCGCCCGTATCGAGGCCGGCAAGGTGCCCTTCCCCGCGTACCGTCCCCCAT
GCCCCGGCCCCGGCCACAACGGTAGCTACGAGGCCGACAGGTAAGACCGC----CATCACTGTGTTTCT---T-------
-----------------ATCAG-TTATGCATGGGCTT--AAGCTGGAGTTAAGCGGCTAATTTGTGTGA-TCAGGTTGAA
GCACTTGAAGATCTAGCTAGGCGGTAATCGGGTAATGGGCAAGGGATGATACACACTACACAGATGGACTGAACGAAGAA
GCATGTGCGTGCATGGG--------------CTCATAAGCGCGTGCATGGTGTCCATG----------------------
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>chr1D_609
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---------------------------------------------------------------------------TTTTT
TCTTTGAATCTTTGAGAGGGAGGAGGT-GAGGAAGGATGCCAAGGCGATTCAAGACGCAAAAGGGCCTAAAGGATTGAAA
GGTAGATCCCCCACTTCCAAGGGACATAAATGTTTGTTCCTTTCTCCAATCGACCCCCCTCCTCACTCCTCTCGTGCTGG
C----------------------------------------------------CTTCTGTTTAAAAATTCCTCTAGTTTT
TC-CCCTCCACTCGTACATTATCA---------------TCCATCCCCCCCCCCCAAAGCTGAATCGTCCTCTAGT----
-------------GCTATAAGTAGCACCTCTTCTCACAA-CTTCTTTGCCATCCATCTCACAAGCAGCCAACATCCAAAC
GTAGTTCAGGTCATAAGTTAAAGTATATAGCAGCTTAATTGTCGATCGAGGAACCAATTGTCGAGTGA------CATCAA
TGGCTTCTCTGTCGATGAGCGTG------------GGGTGGACGCCGAAGCAGAACAAGCTGTTCGAGCAGGCGCTGGCG
GTGCATGACAGGGACACGCCCGACCGCTGGCACAACATTGCCCGTGCTGTCGGCGGCGGCAAGTCGGCGGATGACGTCAG
GCACTACTACGAGCTGCTCGTCCACGATATTGCCCGGATCGAGGCCGGCAAGGTGCCTTTCCCCGCCTACCGTCCCCCAT
GCCCCGGCCCCGGTCACAACGGCAGCTACGAGGCCGACAGGTACGACCGC----CATCACTGCATTTCT---T-------
-----------------ATCAG-TTATGCATGGCTTT--AGGGTTGACTTAAGCTGGTATT---TGTGA-CCAGGTTGAA
GCACTTGAAGATCTAG----GCGGTAATCGAGTAATGGACAAGGAATGATACACACTACACAGATGGATTGAACGGAGCA
TCTGCATGGTGCATGGGGGTACCTTGTAATACTTATAAGCGTGTTCATGGTGTCTATGACTCCATGTCAATGTATATATG
CACGACTAGCGGGCAGAAAAGTTGGCCCATTATGCAGATGCATGCATGTTCATAATACTCTAGTGTCTAGATGTAC---G
TGCGATCGACTTGTCTCCTTACTCACATGGGTTTAACGTATCTCGTATGTATTCTAATGTACAATATTAATAT-------
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>chr1D_1857
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-----------------------------------------------------------------------CTTTCTTCC
TATTAACCACCATCATTCCTCGCAAAAAAAACTACC-----AACATTTCTATATTGGCCCGGGGTTAAGCCCACACAACA
CAGC-CC------AGCTCCCTTCTTAACGCACGCACATTCCCGTGACCCAGACCATAACCTAAAAGGGAACGCGGAAGCT
CATTTCTCCCATATATGTCTAGACCGGATGGTCCAGACACTTTTGGGCTTCCAGTGCTATCCCTTGATTGTTCGAGGACC
GGACCGGACTTTCAGAATTCCCCCACTATGTCCCGAGATCAAGGGAAGGAACACGATAGTCCTGATAATCC-CGTGGACC
ACGTCTCCCCACGACGTACGTCTCTCCATTCATCTCTTTCTCCTCTATTAGTCGATGTCCAACCCACTGACAGTCACATC
CCATGGTCCAAAAAATGGGGGATACCATTGGAGGGCCTCAACCCGGTCGGCTATCTGTGGACACACCTATGGACATTTGA
GGGCGTCCGTTCCAGAGATAGCGGTGTAGATGGCCTAACACT
>SNPs
-----------------------------------S------------------------SS-------------S----
-------S-----------------------------------------------S------------------------
----------S--------------S-----------------S---S-----S--------S-----------------
-----------------------S------------------------------------SS---S--------------
---------------SSSS--SSSS--SSSS--S--------S-------------------------S-----S-----
-------------S--------S--SS--SS-SS-S-SS--SS-SSS-SSS-----S-----S-----------------
--------------SS-S----------S-----------S----------------------------SS------S--
--S----------------------------------------SSSSSSSSSSSSSSSSS----------S---------
-------------------------------S--------S-----------S---------------------------
-----------------------------------------------------------------------------S--
-------------S------------------------------------------------------------------
------------------------------------------------S--------------------------S----
-------S------------------------------------------------------------------------
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--------------------S-----------------------------------------------------------
---------S--------------------------------------------------------------------S-
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-------------------------------------S------------------------------------------
---------------------SS----------------------------------S----------------------
--------------------------------------------------------------------------SSSS--
----------------------------------S------------------------S--------------------
--------------------------------------------------------------------S-----------
----------------S--------------------------------------------------------------S
------------S-------------------------------------------------------------------
------------------SS------------------------------S-----------------S-----------
------------S------------------SS-S-SSSSS----------------------------S----------
----S-----S--------------------------------------------SS--S-------S---------S--
------------S------------------------S-S--------S-S--SS---------S------S--------
---S-------S--S---S----S----------S-S---S------------S-S------S--------S--S-----
-----------S--S-S-----------S-S---------------------S--------S--------S---S---S-
S--S-------------S--------SS----------S-S----S--S-----SS-S------S---------------
------------S--S----------S-----S--S------
>forward_681
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---------------------GGAGGTCGAGAAAGGATGCA---------------------------------------
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>reverse_2538
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---------------------------------------------------------CGGACACGCCTATGGACATT---
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