>input_sequence_85732
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---------------------------------------------------------------------ATGGATATCTT
CAGCCGCTCCGCAGCTGCGCTCTTCACCTCCTCTTCGGGCATGTATTCAACAGCTCCGTCCGTGATGTCGTCCAGCCAGC
CCTGGAGGTCCGACTCGATCTCTCTTGTGATCGATTCATCAGATGCACGCACGACAAACTTGCATATCATCGTGGTTGTC
TCGTCACCCAGATCAACATTTCGGCTCACCTCACTTGCACCGAAGATCATCATGCCCACAAACCCACCAAACCATGTCTT
TGCGGCGTAA----------------------------------------------------------------------
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>chr4D_1_TraesCS4D01G091100
GCCGAGGCGGATGGCGTCGACGAGGACGGACTCCGCCCGGGCGAGGCCGCCGCCGCGGCAGAGCGCCGCGAGGCAGACGT
TCATGAGCCGCGTGGACAGCCGCGTCCGCGCCCAGGTCATTGCTCCTCCTCCGCCTCCTCCTCGCCGCGAGACTATCTTC
CGGTTCCGGGCTCGCTTCGACTCCCATACAGCTCGCTCGCTGTCCAGACCAGCTTGCCGAGTTCGCGACGAGCAAGGCCG
GCGCCTTGTTATGGGGTAAGCGCTCAGCTGCAGGAGGCGGCGAGAGGTTGGTGGCGGCGACGGCGCCGCCGGGTGGTCGG
GGCTCGGGAGGGAGTTGGGAGTTGGCACTTCGCAGACCGCGCAGCGAGGGACAGACTAGAGAGAGAGGCCAGGTGGGCCA
CGCATGTCATAGGCGGCACGGTCAGACAAGTAGGGTTCATTTCGCCTGACCCAACAGTCAGT------------------
----------GAGCATAATAGGAAAAGGAATTAATTCAGCACCTAAAATCGATGGGATTTCCTTCAAAA-----------
-------------------------------------------ACTGTCGTACGAAAGATTCACAACAAATTGGGGAGGA
AAAAATCATTCTCATTCACACTAATGCTTTGAGCTATGTTACAAAAAGAACGAAACAT-------GGTACAACAATATCT
GTGAATACAATGAACAAATCGGGAAATCGGCAGGATCATACATACTCAAAAATCAAAATGTCAGCCGGCTGAAAAAG--A
AATCAAAATGTGGC-TGAGGAAAAGGCGGATACAAAATTATACAGGTGG----------AGCCAGG-------CTCACTG
TGCCTTCATGGCTTTCTCCTTGCAGAGCTGGTGCCACTCCTGGAGCACGGCTGCTTGGAGCGCACGGTGCTCGGCTTCCT
CCGCCGTGAGCTTGGAGAGCGTCGAGGGGCCCTTGGGGTTCCCAAACCCGTCCAACTCCTCACTCTGCTTCCTCTCCTCT
TCCTCTTCTTGCTCGGTTTTCGCAGGCGGCATCTTAGGTTTGGCTGCCTTGAGTAGCGCTATCCTCTCCATGGATATCTT
CAGCCGCTCCGCAGCTGCGCTCTTCACCTCCTCTTCGGGCATGTATTCAACAGCTCCGTCCGTGATGTCGTCCAGCCAGC
CCTGGAGGTCCGACTCGATCTCTCTTGTGATCGATTCATCAGATGCACGCACGACAAACTTGCATATCATCGTGGTTGTC
TCGTCACCCAGATCAACATTTCGGCTCACCTCACTTGCACCGAAGATCATCATGCCCACAAACCCACCAAACCATGTCTT
TGCGGCGTAACACAACTGTGGAAGATACATGTGTTATA--ACCTTACAAAAATGGTAACTCTGCACAGGATAGAATCAAG
ACCATGTCATGACACCGTCTAAGTGACTATCAGTCAAAAGCTTACCTGGAACCCAGCAACTGTTCGGATGAAATGAGAGC
AGACTTGATGGAAGGGCTTGGAATAAATTGACTTCAACCCACTGAGGAAAGGAGAGCTATCATACTGCTGAGCTGCAGTG
GCCTTGAAACCACTACCTTCATATGTGTATGTGCCAGTGCACTCAACCATGGCTGGCAAGCTTGGCCATAGACGAAAATA
CTCAACTGGAGAGCATTCATATGGCAAGAGAAGTTCGGCGAGAGGGATCTTGTAGGGCTGACACCGCAAAACAACTGGCT
CCCCAAGCTCTGGCCGGAGCGCGCGCTTCTGCCTCGTCATTTGTGAGTCCTCTTCTGCATAATCTCCTTCATAGTCTGCC
GATCCTCCACTTCCGTAGAATGGGTAATACAGGACTTGAACCCAGAGAGAGCATCTCTCAAAATGTGAAACTCCCACAGT
GACACTACTTTGGACTGGATCCTGCAGAATTGACAAAGCATTTTCCAAATAAATTAGATGCGAATATGGATTAGCCAATC
TGAGATGGCAGTACTTACCCAATGATATAA--------------------------------------------------
---------------------------------------------------------------------------TATTT
ATTATCACTATTCTATTTTTATCAATAGCCCACATTTT-TTAGCGCAACTCGTCTGGAAACAAGATACTGTCACTAGTAG
TTAAGTTACTTGAAAGCCACCGCAATGCTAGATGGCCTGGCTCTTAGAAAATCACTTATATTTAACATCATGATCATGAT
AGCGGATTTCATAGTCTCCACTACCACATTATATCTGGTGTGCAATATAATGTGAGCTCAACTGGCTAGACAGG--TGTA
CTACATTGGGAGGTGGTGG-CTTTAAATTTTGCCAGGAAATAGATTGAGAAGTTCACTAGCCAAGGAAGAAAATCTTTCA
CTGTAAACTATATTCAAATAA
>chr4A_1
GCCGAGGCGGATGGCGTCGACGAGGACGGACTCCGCCCGGGCGAGGCCGCCGCCGCGGCAGAGCGCCGCGAGGCAGACGT
TCATGAGCCGCGTGGACAGCCGCGTCCGCGCCCAGGTCATTGCTCCCCCTCCGCCTCCTCCTCGCCGCGAGACTATCTTC
CGGTTCCGGGCTCGCTTCGACTCCCATACAGCTCGCTCGCTGTCCAGACCAACTTGCCGAGTTCGCGACGAGCAAGGCCG
GCGCCTTGTTATGGGGCAAGCGCCCGGCCGCAGGAGGCGGCGAGAGGTTGGTGGCGGCGACGGCGCCGCCGGGTGGTCGG
GGCTCGGGAGGGAGTTGGGAGTTCGCACTTCGCAGACCGCGCAGCGAGGGACAGACTAGAGAGAGAGGCCAGGTGGGCCA
CGCATGTCATAGGCGGCACGGTCAGACAAGTAGGGTTCATTTCGCCTGACCCAACAGTCAGT------------------
----------GAGTATAACAGGAAAAGGAATTAATTCAGCACCTAAAATCGATGGGATTTCCTTCAAAA-----------
-------------------------------------------ACTATCGTACGAAAGATTCACAACAAATTGGAGAGGA
AAAAATCATTCTCATTCACACTAATGCTTTGAGCTATGTTACAAAAAGAACGAAACATCGTTTGTGGTACAACAATACCT
GTGAATACAATGAAAAAATCAGGAAATCGGCAGGATCATACATACTCAAAAATCAAAATGTCGGACGGCTGAAAAAAATA
AATCAAAATGTGGCTCGAGGAAAAGGCAGGTACAAAATTATACAGGCGG----------AGCGCAGACCAGGCCTCACTG
TGCCTTCATGGCTTTCTCCTTGCACAGCTGGTGCCACTCCTGGAGCACGGCTGCTTGGAGGGCACGGTGCTCGGCTTCCT
CCGCTGTGAGCTTGGAGAGCGTGGAGGGGCCCTTGGGGTTCCCAAATCCGTCCAACTCCTCGCTCTGCTTCCTCTCCTCT
TCCTCTT---GCTCGGTTTTCGCGGGCGGCATCTTAGGTTTGGCTGCCTTGAGTAGCGCTATCCTCTCCATGGATATCTT
CAGTCGCTCCGCAGCTGTGCTCTTCACCTCCTCTTCGGGCATGTATTCAACAGCGCCGTCCGTGATGTCGTCCAGCCAGC
CCTGGAGGTCCGACTCGATCTCTCTTGTGATCGATTCATCAGATGCACGCACGACAAACTTGCATATCATCGTGGTTGTC
TCGTCACCCAGATCTACATTTCGGCTCACCTCACTTGCACCGAAGATCATCATGCCCACAAACCCACCAAACCATGTCTT
TGCGGCGTAACACAACTGTGGAAGATACATGTGTTATA--ACCTTACAAAAATGGTAACGCTGCACAGGATAGAATCAAG
ACCATGACATGACACCGTCTAAGTGATTATCAGTCAAATGCTTACCTGGAACCCAGCAACTGTTCGGATGAAATGAGAGC
AGACTTGATGGAAGGGCTTGGAATAAATTGACTTCAACCCACTGAGGAAAGGAGAGCTATCATACTGCTGAGCAGCAGTG
GCCTTGAAACCGCTACCTTCATATGTGTATGTGCCAGTGCACTCAACCATGGCTGGCAAGCCTGGCCATAGACGGAAATA
CTCAACTGGAGAGCATTCATATGGCAAGAGAAGTTCGGCGAGAGGGATCTTGTAGGGCTGACACCGTAAAACAACCGGCT
CCCCAAGCTCTGGCCGGAGCGCGCGCTTCTGCCTCGTCATTTGTGAGTCCTCTTCTGCATAATCTCCTTCATAGTCTGCC
GATCCTCCACTTCCGTAGAATGGGTAATACAGGACTTGAACCCAGAGAGAGCATCTCTCAAAATGTGAAACTCCCACAGT
GACACTACTTTGGACTGGATCCTGCAGAATTGACAAAGCATTTTCCAAATAAATTAGATGCAAATATGGATTAGCCAATC
TGAGATGGCAGTACTTACCCAATGATATAATACTCCCTCCGCCCGGAAATACTTGTCACCAAAATGAATAAAAGAGGATG
TATCTAGACGTCTTTTAGTTCTAGATACATCCCTTTCTATCCATTTTGATGACAAGTATTTTCGGACGGGGGGAGTATTT
ATTATCACTATTCTATTTTTATCAATAGCCCACAT-TT-TTAGCGCAACTCATCTGGAAACAAGATACTGTCACTGGTAG
TTAAGTTACTTGAAAGCCGCCGCAATGCTGGATGGCCTGGCTCTTTGAAAATCACTTATATTTAACATCATGATCAT---
-------------------------------TATCTGGTGTGCAATATAATGTGAGCTCAACTGGCTATACAAG--TATA
CTACATTGGGAGGTGGTGGTCTTTAAATTTTGCCAGGAAATAGATTGAGAAGTTCACTAGCCAAGGAAGAAAATCTTTCA
CTGTAAACTATATTCAAATAA
>chr4B_1
GCCGAGGCGGATGGCGTCGACGAGGACGGACTCCGCCCGGGCGAGGCCGCCGCCGCGGCAGAGCGCCGCGAGGCAGACGT
TCATGAGCCGCGTGGACAGCCGCGTCCGCGCCCAGGTCATTGCTCCTTCCCCGCCTCCTCCTCACCGCGAGACTATCTTC
CGGTTCCGGGCTCGCTTCGACTCCCATGCAGCTCGCTCGCTGTCCAGAACAACTTGCCGAGTTCACGACGAGCAAGGCCG
GCGCCTTGTTATGGGGTAAGCGCTCGGCTGCAGGAGGCGGCGAGAGGTTGGTGGCGGCGACGGCGCCGCCGGGTGGTCGG
GGCTCGGGAGGGAGTTGGGAGTTCGCACTTCGCAGACCGCGCAGAGAGGGACAGACTAGAAAGAGAGGCCAGGTGGGCCA
TGCATGTCATAGGCCGCACGGACAGACAAGTAGGGTTCATTTCGCCTGACCCAACAGTCAGTGAGCACGAATCTAAAAAA
AACAGTCAGTGAGCATAATAGGAGAAGGAATTAATTCAGCAC-----ATGGATGGGATTTCCTTCAAATACTCCCTCCGT
TTCAATAATGCTAGATACATCCATTTGAGCAACAAGAGGGAGTACTATTGTACAAAAGATTCACAACAAATTGGGAAGGA
AAAAATCATTCTCATTCACACTAATGCTTTGGGCTATGTTACAAAAAGAAAGAAACATCATTCGTCATACAACAATATCT
GTGAATACAATGAACAAATCAGGAAATCGGCAGGATCATACATACTCAAAAATCAAAATGCCGGCCGGCTGAAAAGG--A
AATCAAAATGTGGCTTGAGGAAAAGGCGGATACAAAATTATACATGTGGAGCGCAAACCAGCCAGG-------CTCACTG
TGCCTTCATGGCTTTCTCCTTGCAGAGCTGGTGCCACTCCTGGAGCACGGCTGCTTGGAGCGCACGGTGCTCGGCTTCCT
CCGCCGTGAGCTTGGAGAGCGTCGAGGGGCCCTTGGGGTTCCCAAACCCGTCCAACTCCTCGCTCTGCTTCCTCTCCTCT
TCCTCTTCTTGCTCGGTTTTCGCGGGCGGCATCTTAGGTTTGGCTGCCTTGAGTAGCGCTATCCTCTCCATGGATATCTT
CAGCCGCTCCGCAGCTGTGCTCTTCACCTCTTCTTCGGGCATGTATTCAACAGCGCCGTCCGTGATGTCATCCAGCCAGC
CCTGGAGGTCCGACTCGATCTCTCTTGTGATCGATTCATCAGATGCACGCACGACAAACTTGCATATCATCGTGGTTGTC
TCGTCACCCAGATCAACATTTCGGCTGACCTCACTTGCACCGAAGATCATCATGCCCACAAACCCACCAAACCATGTCTT
TGCAGCGTAACACAACTGTGGAAGATACATGTGTTATATAACCTTACAAAAATGTTAACTCTGCACAGGATAGAATCAAG
ACCATGTCATGACACCGTCCAAGTGACTATCAGTCAAATGCTTACCTGGAACCCAGCAACTGTTCGGATGAAATGAGAGC
AGACTTGATGGAAGGGCTTGGAATAAATTGACTTCAACCCACTGAGGAAAGGAGAGCTATCATACTGCTGAGCTGCAGTG
GCCTTGAAACCACTACCTTCATATGTGTATGTGCCAGTGCACTCAACCATGGCTGGCAAGCTTGGCCATAGACGAAAATA
CTCAACTGGAGAGCATTCATATGGCAAGAGAAGTTCAGCGAGAGGGATCTTGTAGGGCTGACACCGTAAAACAACCGGCT
CCCCAAGCTCTGGCCGGAGCGCGCGCTTCTGCCTCGTCATTTGTGAGTCCTCTTCTGCATAATCTCCTTCATAGTCTGCC
GATCCTCCACTTCCGTAGAATGGGTAATACAGGACTTGAACCCAGAGAGAGCATCTCTCAAAATGTGAAACTCCCACAGT
GACACTACTTTGGACTGGATCCTGCAGAATTGACAAAGCATTTTCCAAATAAATTAGATGCAAATATGGATTAGCCAATC
TGAGATGGCAGTACTTACCCAATGATATAATA------------------------------------------------
-----------------------------------------------------------------------------TTT
ATTATCACTATTCTATTTTTATCAATTGCCCACAT-TTTTTAGCGCAACTCGTCTGGAAACAAGATACTGTCACTAGTAG
TTAAGTTACTTGAAAGCCGCCGCGATGCTAGA-----TGGCTCTTTGAAAATCACTTATATTTAACATCATGACCATGAT
AGTGGATTTCATAGTCTCCACTACCACATTATATCTGGTGTGCAATATAATGTGAGCTCAACTGGCTAGACAGGTATACA
CTACATTGGGAGGTA-TGGTCTTTAAATTTTGCCAGGAAATAGATTGAGAAGTTCATTAGCTAAGGAAGAAAATCTTTCA
CTGTAAACTATATTCAAATAA
>SNPs
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--------------------S-----------------------------------------S-----------------
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-----------------------S--------------------------------------------------------
-----------------S------------------------------------S-------------------------
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------------------------------------------------------------------S--------S----
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-------------------------------------------------------------S------------------
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-----------------------------------S--------------------------------------------
------------------S--------------------------S----------------------------------
--S--------------------------------------------------------------------------S--
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>forward_1022
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------------------------------------------CAAACCCGTCCAACTCCTCA------------------
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>reverse_2259
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------------------ACCGCAATGCTAGATGGCC-------------------------------------------
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