>input_sequence_66949
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---------------------------------------------------------------------------ATGAC
TGGCATGGCGGTGGCGCGGCTCGCCGTGGCCCTCCTACTGCTGGCGACGGGCTGTGCGGGGCGCGACATCGTCGTCGGCG
GCCGCGGCGGGTGGACGGCGAACCCCGCCGAGCCGTTCAACCACTGGGCCGAGCGCAATCGCTTCCAGGTCAACGACCGC
CTCGGTACGTGTATATAGTACGTCGTGAACTCGTGATCCATGCATGCATGGAGTGATTTGGTTCGTGCA-TGGCTTCTGA
TCTGAGTGGCTTTGGATCGGCGCAGTGTTTAGGTACAAAGGGCAAGAGGACTCGGTGCTGGTGGTGAGCCAGAGCCACTA
CGATGCATGCAACACCAGCGACCCCTTCATGCGCCTCGGCGGTGGCGAATCCGGCTTCGTCCTCTCCCACTCCGGCCCTT
ACTTCTTCATTAGCGGCGACGCCGCACGCTGCCAGGCCGGTGAGCGCCTCATCGTCGTCGTCCTCGCCGTGCG---TACC
CCTTCGCCTGCTCCTTCAACACCGCCGCCACCACCCAAGTCACCCCCCTCGTCGCCGCCTCCCGCTCCGGCAGCTGCGGG
GAATTCTTCTACGTCGCCACCACCGGCGCTAGCTCCGCCGGCTGCGGGAAATTCTTCCACGTCGCCACCACCAGCGCTTG
CGCCGCCGGCTGCGGGAAATTCTTCCACTTCGCCGCCTCCGGCGCTAGCGCCGCCGGCTGCGGGGAATTCTTCCACGTCG
CCACCTCCAGCAATAGCGCCGCCGCCGGTAACGAATGGTACGGTGTCGCCACCGCCGAGTTCGCCATCGTGCGCGTCAGC
CTTGCGGGGCGGTTTCTTGGCGTGCCTCGTGATAGCCGGAACCATAGTGCTAGCTTGA----------------------
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>chr3D_1_TraesCS3D01G140400
CCGGCGACGAGAACGGCCATCGGAGGGGACTGCAGGCGCGGCGACGAGGATCCTGAGCGGGAGTTGCAGATCCAACCCGA
GGAAGAAGAAGACGTGGGCGAACGTTTTTCTTTTTTTGCCCAGATCCATTGGCCAAGCGGCTCGCATCAAACGGCTAGGG
CGGGACCGGCCGAAACTTTCGGCCGGTGCGCCGGCGCCTAGCGTTCGCCTTTAAAGAACTATGAAAGAATCAAACCTAAG
ACTTTTTGATGAAATTACGAAGAATTTTCCCAAAATTGAGATTTTTTTTAGATTTTCTGAAATCATGAACTCATTTTGAA
AGTCCCGAACATTTCCCAAAAATGTGAACATTTTTTAATTTGTGAACAAAATTTGGAAATGGAACCAAATATTTGACAAT
ATTTTTTTTGAAAGCTCGAACATTTTTGTGATTTTTTGTGAAACATGTTCTGAAAATTCACAGGTGCAACCAGACGAAAC
GGCGAATGGCTCGGATGGGCCACAGTGTTGAGGCCTTTCTCTCTCTGACACACTCGCACTAAAGGCATAGTTCGGCCGAG
CAAGAAAATGAAGCCTCTGCGTGACAGTTTGGTCTTGGCAGGTCACATTGGGTCATTATTAGTAGGTTTCTACAGTTCTC
AACCTAAAA-------------------------AAACACGAAAAAGGGTTTCTATAGTTCTCATTTATTTTTAATAGG-
--TTTCTGTAATCGCCAGTCCAATGTGTGGTCGCCGCACGGCAGTATGGCATGCATTGACCGAGCCGCGTGCCCGCCCGC
AGGATGACAACGTTTCTCCAGAGCATTAC--TAGGCAGGAAGTAAAGATTTTGGTAACGGCCGCGGCTGGCACAGCTAAT
TCCTGCATCGTCCATTAATTACTTCCCAACAACGGCAACATTTTACGCCACCATATATACTCGCTGCAGGTT-GCGTTGC
ATACCGCATACACATCCACACACAAGCACATA-CTCTTAGCTGCTAAGGCAGCGCCGTTGGTGAG---TTTGCACATGAC
TGGCATGGCGGTGGCGCGGCTCGCCGTGGCCCTCCTACTGCTGGCGACGGGCTGTGCGGGGCGCGACATCGTCGTCGGCG
GCCGCGGCGGGTGGACGGCGAACCCCGCCGAGCCGTTCAACCACTGGGCCGAGCGCAATCGCTTCCAGGTCAACGACCGC
CTCGGTACGTGTATATAGTACGTCGTGAACTCGTGATCCATGCATGCATGGAGTGATTTGGTTCGTGCA-TGGCTTCTGA
TCTGAGTGGCTTTGGATCGGCGCAGTGTTTAGGTACAAAGGGCAAGAGGACTCGGTGCTGGTGGTGAGCCAGAGCCACTA
CGATGCATGCAACACCAGCGACCCCTTCATGCGCCTCGGCGGTGGCGAATCCGGCTTCGTCCTCTCCCACTCCGGCCCTT
ACTTCTTCATTAGCGGCGACGCCGCACGCTGCCAGGCCGGTGAGCGCCTCATCGTCGTCGTCCTCGCCGTGCG---TACC
CCTTCGCCTGCTCCTTCAACACCGCCGCCACCACCCAAGTCACCCCCCTCGTCGCCGCCTCCCGCTCCGGCAGCTGCGGG
GAATTCTTCTACGTCGCCACCACCGGCGCTAGCTCCGCCGGCTGCGGGAAATTCTTCCACGTCGCCACCACCAGCGCTTG
CGCCGCCGGCTGCGGGAAATTCTTCCACTTCGCCGCCTCCGGCGCTAGCGCCGCCGGCTGCGGGGAATTCTTCCACGTCG
CCACCTCCAGCAATAGCGCCGCCGCCGGTAACGAATGGTACGGTGTCGCCACCGCCGAGTTCGCCATCGTGCGCGTCAGC
CTTGCGGGGCGGTTTCTTGGCGTGCCTCGTGATAGCCGGAACCATAGTGCTAGCTTGATTTGGTCGATCGGTCCCTCCTG
CTGCATTGGATTGTGTTTGATTTGTTTCCATTGGTATATCTCCAAATTTTAGGATTCTGTCGGATCAAATAACATTGTTT
CCTTATTTCATCGTTATAGCGCGAGTAAGGGTATGTAATCTTTCATACTGTAGTATGTAATTCAGCCATTACGCCAGATA
ATTAAGATGGGTGATTTTGCTTGTTGAACAATTTTGCTTTTGCTCGATCGTTATATATATAGTTTTGCTAAAGCACATCT
AGATGTGCTCTAAGTATTGCACATCGAAGTATTGCGTGGGGTTCCCGGAGGCCCGTTCTAGAAGGAGGCGAACCGTCGAC
CTCTCCCGGGAGCTCCTGTCTTCATTGTTTCATCTCCTTTTCTCCAAGACACTCTCTTGGGCCCTGTGGTCGTTCGACCC
TGGGCACCCCATAATCCACTGGCCCGACAGTAGCCCTTGGGCCCATTCTCCGAGCGCGCCCCCGGGTATTCAGAGGAGGA
GCAATAGGGCCATGGACCAGAGGGGGCCCAATATGTGTCGAGGATATTTAATATGAAGACACCGTCACCAAAGGAGAACA
GATCCTTGATTAGCGAGCGGTTTCAGCCCTCGTACCCGTCGAACTTACGTTTCGGGGGAGGGGGGCATAGGCGGCGACAA
CCCAAACCCGTTCTTCTTCCCCAAGCGCACGCCAACTCGCTGCTCCATGGCGCCGAGGAGAAAAAAAATGTGCCGACGAA
GAGAGGGCGAAGCGAAGAAACGCGCCGCTCGGAACCACCTCAGCCGGCCATACCCCACTCGAGGATTATGAATGCCGAGG
GGCTAGACAAAGTCCGCCATCTCGTCGGCGAGCGAAGCAATGAGTGGGGGGAGACTCGACTCAAGGTGGCCGGCACGAGG
GATTCAGATGTCATCCAGGCTCCAATCTTCGTCATCTTCCTCGCCGCGGGCTTTGCTCCCCGTTTTCAGCCTTCCACCGC
GCCGTTCTGGAGCAGTAC
>chr3B_210
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-------------------------------------------------TTTAAAGAACTATGGAAGAATCAAACCTAAG
ACTTTTTGATGAAATTACGAAGAA-TTTCCCAGAATTGAGATTATTTTTAGATTTCCTGAAATCATGAACTTATTTTGAA
AGTCCCGAACATTTCCAAAAAATGCGAACGTTTTTTAATTTGTGAACAAAATTTGAAAATGGGGCCAAATTTTTGATAAT
TTTTTTTAAGCGCAAATT----TTTTTGTGAATTTTTGTGAAACGTGTTCTAAAAATTCACAGGTGTCTCCAGACGAAAC
GGCGAATGGCTCGGATGGGCCACAGTGGCGAGGCCTTTCTTTCTCTGACACACTCGCACC-AAGGCATAGTTCGGCCGAG
CAAGAAAATGAAGCCTCTGCGTGACAGTTTAGTCTTGGCAGGCCACATTGGGTCATTAGTAGTAGGATTCTACAGTTCTC
AACCTAAAA-------------------------AAACACGAAAAAGGGTTTCTATAGTTCTCA------TTTAATAGG-
--TTTCTGTAATCGCCAGTCCAATGTGTGGTCGCCGCACGGCAGTATGGCATGCATTGACCGAGCCGCGTGCCCGCCCGC
AGGATGACAACGTT-CTCCAGAGAATTACTATAGGCAGGAAGTAAAGCTTTTGGTAACGGCCGCGGCTGGCACAGCTAAT
TCCTGCATCGTCCATTAATTACTTCCCAACAACGGCAACATTTTACCCCACCATATATACTCGTTGCAGGCTGGTGTTGC
ATACCGCATACACATACACACACAAGCACATA-C-CTTTGCTGCTAAGACATCGCCGTTGGTGAG---TTTGCACATGAC
TGGCATGGCGGTGGCGCGGCTCGCCGTGGCCCTCCTACTGCTGGCGACGGGCTGTGCGGGGCGCGACTTCGCCGTCGGCG
GCCGCGCCGGATGGACGGCGAACCCTGCCGAGCCGTTCAACCACTGGGCCGAGCGCAATCGCTTCCAGGTCAACGACCGT
CTCGGTACGTAT-----GTACGTCGTGAACTCGTGATCCATGCATGCATGGAGTGATCTGGTTCGTG-CTTGGTTTATGA
TCTGAGTGGC-TTGGATCGCCGCAGTGTTTAGGTACAAAGGGCAAGAGGACTCTGTGCTGGTGGTGAGCCCGAGCCACTA
CGACGCATGCAACACCAGCGACCCCTTCATGCGCCTCGGCGGCGGCGAATCCGGCTTCGTCCTCTCCTACTCCGGCCCCT
ACTTCTTCATTAGAGGCGACGCCGGACGCTGTCAGGCCGGCGAGCGCCTCATCGTCGTCGTCCTCGCCGTGCG---TACC
CCTTCGCCTGCTCCTTCAACACCGCCGCCACCACCCAAGTCACCCCCCTCGTCGCCGCCTCCCGCTCCGGCAGCTGCGGG
GAATTCTTCTACGTCGCCACCACCGGCGCTAGCGCCGCCGGCTGCGGGAAATTCTTCCACGTCGCCACCACCAGCGCTTG
CGCCGCCGGCTGCGGGAAATTCTTCCACTTCGCCGCCTCCGGCGCTAGCGCCGCCGGCTGCGGGGAATTCTTCCACGTCG
CCACCTCCAGCAATAGCGCCGCCGCCGGTAACGAATGGTACGGTGTCGCCACCGCCGAGTTCGCCATCGTCCGCGTCAGC
CTCGCGGGGCGATTTCTTGGCGTGCCTCATGATAGCCGGAGCCATAGTGCTAGCTTGATTTGGTCGATCGGTCCCTCCTG
CTGCATTGGATTGTGTTTGATTTGTTTCCATTGGTATATCTCCAAATTTTAGGATTCTGTCGGATCAAATAACATTGTTT
CCTTATTTCATCGTTATAGCGCGAGTAAGGGTATGTAATCTTTCATACTGTAGTATGTAATTCAGCCATTACGCCAGATA
ATTAAGATGGGTGATTTTGCTTGTTGAACAATTTTGCTTTTGCTCGATCGTTATATATAT--------------------
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>chr3A_514
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---------------------------------CCTTTCTCTCTCTGACACACTCATAGT-AAGGCATTGTTCGGCTCAG
GAAGAAAATGAAGCCTCAGCGTGACATTTTAGTCTTGGCAGGCCACATTGGCTCAT---TAGTAGGTTTCTACAGTTCTC
AACCTAAAAGAAACGATGCTAAAAAAAATTAAAAAAACACAAAGAAAGGTTTGTATAGTTCTCA------TTTTTAGTAG
GTTTTCTATAGTCGCCAGTCCAGTGTGTGGTCGTCGCAAGGCAGTATGGCATGCATTGACCGAGCCGCGTGGCCGCCCGC
AGGATGACAACGTTTCTCCAGAGCATTAC--TAGGCAGGAAGTAAAGCTTTTGGCAACGGCCGCGGCTGGCACAGCTAAT
TCCTGCATCGTCCATTAATTACTTCCCAACAACGGCAACATTTTACCCCGCCATATATACTTGCTGCAGGCTGGCGTTGC
ATACCGCATACACATCCACACACAAGCACATTCC-CTTGGCTGCTAAGGCAGCGCCGTTGGTGAGTAATTTGCACATGAC
TGGCATGGCGGTGGCGCTGCTCGCCGTGGCCCTCCTACTGCTGGCGACGGGCTGTGCGGGGCGCGACTTCATCGTCGGCG
GCCGCGGCGGGTGGACGGCGAACCCCGCTGAGCCGTTCAACCACTGGGCCGAGCGCAATCGCTTCCAGGTCAACGACCGC
CTCGGTACGTGTATATAGTACGTCGTGAACTCGTGATCCATGCATGCATGGAGTGATCTGGTTCGCGCCTGGGTTTCTGA
TCTGAGGGGC-TTGGTTCGCCGCAGTGTTTAGGTATAAAGGGCAAGAGGACTCGGTGCTGGTGGTGAACCAGAGCCACTA
CGACGCATGCAACACCAGCGACCCCTTCATGCGCCTCGGCGGCGGCGAATCCGGCTTCGTCCTCTCCTACTCCGGCCCTC
ACTTTTTCATCAGCGGCGACGCCGGACGCTGCCACGCCGGCGAGCGCCTCATCGTCGTCGTCCTCGCCGTGCGCGCTACC
CCCTCACCTGCTCCTTTAAAACCGTCGCCACCACCCAAGTCATCCCCCTCGTCGCCACCTCCCGCTCCAGCAGCTGCGGG
GAATTCTTCTACGTCGCCACCTCAGGCGCTGGCGCCGCCGGCTGCGGGGAATTCTTCCACGTCGCCACCTCCGGCGCCAG
CGCCGCCGGCCGCGGGGAATTCTTCCACTTCGCCGCCTCCGGAAC-----------------------------------
-------------TAGCGCCGCCGCCGGTAACGAATGGTACGGTGGCACCACCGCCGAGTTCGCCATCGTCCGCGTCAGC
CTTGCGGGGCGGTTTCTTGGCGTGCCTCGTGATAGCCGGAGCCATAGTGCTAGCTTGATTTGGTCGATCAGTCCCTCCTG
CTGCATTGGATTGTGTTTGATTTGTTTCCATTGGTATATCTCCAAATTTTAGTATTCTGCCGGATCAAATAACATTGTTT
CCTTATTTCATCCTTATAGC--GAGTAAGGGTATGTAATCTTTCATACTGTAGTATGTAATTCAGCCATTACGCCACATA
ATTAAGATGGGTGATTTTGCTTGTTGAACAATTTTGCTTTTGCTCGATCGTTATATATAT--------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------S----------------
------------------------S-------S----------S-----------S---------------S--------
----------------S-------S----S-------------------------S------SS------S-----S---
S------SS-SSSSSSSSSSSS---------S------------S------S--------------SSS-----------
---------------------------SS-------------------------------S-------------------
------------------------------S-----------S---------------S---------------------
----------------------------------------------------------------SSSSSS----------
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----------------------------------------------S-----------------------S---------
----------------------------------S---S-----------------------------------------
-------------------------------------------------------------------S------------
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---------------------------------------------------------S----------S----S------
----------S--------S------------------------------------------------------------
---S--------------------------------------S------------------------S------------
------------------------S---------------S---------------------------------------
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----------------------------------------------------------------------S---------
----------------------------------------S---------------------------------------
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------------------------------------------------------------SSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSS
>forward_112
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------------CGTGGGCGAACGTTTTTCTT------------------------------------------------
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>reverse_1258
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---------------------------------------------------------TTGGTTCGTGCATGGCTTCT---
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>forward_603
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-----------------------ACAGTTTGGTCTTGGCAGGT-------------------------------------
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>reverse_2218
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---------------------------------------------------------CTAGAAGGAGGCGAACCGTC---
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