>input_sequence_79499
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--ATGGCGACCCCCGAGGCGATGATGCCGCCGATGTTCATCAGGCCGAGGATGATGGCGCCCATCAGCGCGGCGTCGCTA
CCGAACCCTATGGTCCGGAAGAGTATCGGCGAGAAGAAGGCCGACACGGTCACGCCGGTGAGGTTCAGGAACACGGGGAA
CGCCACCGCCATCACCAGGTACGGCCGGTACTCCCGCCGCAGGATCCGCCGGAACGCGCCCTCCTGGTTCCGCCGGTCGT
GCTCCACGGCGGCGAGTATGTCGCTGAACTCCGCGTCGACGTCCACGCCCTTGCCGCGGACGCGCTGGAGCGCGGCGCGG
GCGTGGTCGTGCTTCCCGCGCAGGACGAGGCTGCTCGGGGTGTCCGTGATGAGCACGGCGCCCAGCACCATGACGGCGGC
GGGGACAGCCGCGAGGCCGAGGGACAGGCGCCAGCCCCATTCCGGAATCCGCGACGTGCCGTAG----------------
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>chr2B_1_TraesCS2B01G338800
AGGCGGATTAAATGTTTTTGGACAAGGGAGCATCGCTCAGGCTAAAAGGTTTACTCCCTCCGTCTCAGTTTACAAATCCT
ACGTATAAATCTAGGTTGCCAATTTTATCGCCCTAATATAAACAATATAACACAAAAATTATACCTTTTGAAAATAGAAC
ATCTGAAGTTTATATTGGTATATTTTTTGTAATATATAACTTGCATTAGGTTGGTCAAATTGACGACTTAGGGATACGCG
CACGCCCTGTAAACTGAAAGAGAGGGAGTATATTTTTGTGGCTTGGTTTAAGGGTGCAGCAAAGCGCGCCCTTTTGATTC
TACTAGCATTTTAATTTCGAGT------------------------------------------TATACATCCATCACAC
AATGCGAAACCAATCCATATGCCAAGGACGCACGCAGACGCAGGTCAGGTGGACTCATTTCCGAACTTGTGGTCCTTGAC
GAACCTGCCCCAGTACCAGTGGCGCGCGAAGACGTGGCCCATGGAGTCGAGCGGCACGCCCTTGGTCTCCGGCACCAACG
CCATGGCGAAGGCGGTCATGACGACGAGCCAGAACGCGTAGAAGAGGAAGACGCCGTACTTGAGGCTGCAGAGCATCGCC
AGGAAGCACTGCGCCTGCACGAAGTTGAGGCCCAGGTTGAGCGCCACCGCCGTGCCCTGCCCCGCCGACCGCACCTCCAC
CGGGTATATCTCGCCGGGGATGGTCCAGTACAGCGCGCCCCACGACCAGCTGAAGCTGGCGGAGAAGACGCACGTGAGAA
CCAGCACGGCCACCGCGTACCCCTTGGGCATCTTGCTGCCGTGCCCCAGGTGCGTCCCCGCAATGCTCGCCATTGCCACC
TGCAAGCAAACGAAAAGCCAAGGCCGCGCGCGCGTCATTAGTGTCGCTGCAATGCATACGCCGGAATATATACGTAGGTC
TTTGTTGTATGCATTGCATGCCTGGCAGGTGAACATGAGTGCGCCGCCGATCGCGAAGAGCAGCTTCCGGCCGTAGCGGT
CCATGGCGACCCCCGAGGCGATGATGCCGCCGATGTTCATCAGGCCGAGGATGATGGCGCCCATCAGCGCGGCGTCGCTA
CCGAACCCTATGGTCCGGAAGAGTATCGGCGAGAAGAAGGCCGACACGGTCACGCCGGTGAGGTTCAGGAACACGGGGAA
CGCCACCGCCATCACCAGGTACGGCCGGTACTCCCGCCGCAGGATCCGCCGGAACGCGCCCTCCTGGTTCCGCCGGTCGT
GCTCCACGGCGGCGAGTATGTCGCTGAACTCCGCGTCGACGTCCACGCCCTTGCCGCGGACGCGCTGGAGCGCGGCGCGG
GCGTGGTCGTGCTTCCCGCGCAGGACGAGGCTGCTCGGGGTGTCCGTGATGAGCACGGCGCCCAGCACCATGACGGCGGC
GGGGACAGCCGCGAGGCCGAGGGACAGGCGCCAGCCCCATTCCGGAATCCGCGACGTGCCGTAGTTGATCAGGTTGGCGA
CGAGGTACCCGACGCTGATGAACAGAGGGAACGCGGAGATGAACCCGCCGCGCCACCGCGGGGGCGACATCTCGGCGAGG
TAGACCGGCGTGGCCTGGCCGGAGAACCCGAGGCCAAGGCCGAGCATCATCCGCCCGACGATGAGCATGGCGAGGTTGGC
CGCGGCGGCGTTGACGAGCGAGCCGACGAGGAACATGCTCCCCCCGATGACCATGATGGCCTTGCGCCCGACCCGCCGGG
TGACCCGGCTCGCCACCAGCGTCCCCACCATGCCGAAGGCGTAGAGCGAGGAGGTGAAGGCCGTGAGCGCCTGGTCGTTG
TACATGCAGTACACGTCCTTACTCGCGTGCCTCGTCGTCTTGAGTAAGCCCGGGAAGAACTTCTTCAGGAAAGACTCCAT
CTCCGACACACCGCCTGATCGAT-GACGTTAGTGCCATGAACAAGATTAAGTTCAAGTGAAGAAAAA---TAAATCATTT
GCGGAGTTAGTT-GTATAAGTACGATAAAATGTCATCTTGC---TAACTGGAACGAGCGTGATTTAGCTTTTCTGTTA--
---TTATTATTAACTGCGGATGACTGTAAACCCA--------TATTTACTGTATTCTTCATATTCCTTGAACCAAATTAG
TCAGATAACCGATTCTCAGTGGATTCTCGCACTGCTTAGAGTTGGTGACACTCTGGACCACTCATCATAATTCTCGTTTG
ATTGTAGCTCCTTTACTTTTAAAGATTGGAGAGCTTAGTGTTCAATTTTCCTCTTTTGTTATTCAACATGTAAACAGGTC
AGCTAATCTCCCGGCTCATTTGTGTGCAAAGCGTGCTTGCACACTTAATGTGACCGATAGTTGGCTTGACAAGACCCCTG
GCTTCTTGGTGTCCAGCCTTCTGGCTGATTGTTCCAAGAATGCATTTACTCAATAAAGCTCTCTGAATTTCCCCGCAAAA
AAAAAAACGATTCTTAGTACAACACTATTCTTTCTGGCAACCGGA
>chr2D_269
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----------------------------TATATTTTTGTCGCTTGGTTTAAGGGTGCAGCAAAGCGCGCCCTTTTGATTC
TACTAGCATTTTAATTTCGAGTTATACCGGAATACGAGTACCAATCTAGCGCTAATAGGAGTAGTATACATCCATCACAC
AATGCGAAACCAAGCCATATGCCAAGGACGCACGCAGACGCAGGTCAGGTGGACTCATTTCCGAACTTGTGGTCCTTGAC
GAACCTGCCCCAGTACCAGTGGCGCGCGAAGACGTGGCCCATGGAGTCGAGCGGCACGCCCTTGGTCTCCGGCACCAACG
CCATGGCGAAGGCGGTCATGACCACGAGCCAGAACGCGTAGAAGAGGAAGACGCCGTACTTGAGGCTGCAGAGCATCGCC
AGGAAGCACTGCGCCTGCACGAAGTTGAGGCCCAGGTTGAGCGCCACGGCCGTGCCCTGCCCCGCCGACCGCACCTCCAC
CGGGTATATCTCGCCGGGGATGGTCCAGTACAGCGCGCCCCACGACCAGCTGAAGCTGGCGGAGAAGACGCACGTCAGCA
CCAGCACCGCCACCGCGTACCCCTTGGGCATCTTGCTCCCGTGCCCCAGGTGCGTCCCCGCGATGCTCGCCATTGCCACC
TGCAACCAAACGCAAAGCCATTAGTGTCCCAGAACATACGTACGCTGGGATGGAAAATGTA------------GTAGGTC
TTTGCTGTATGCATTGCATGCCTGGCAGGTGAACATGAGCGCGCCGCCGATCGCGAAGAGCAGCTTCCGGCCGTAGCGGT
CCATGGCGACGCCCGAGGCGATGATGCCGCCGATGTTCATCAGGCCGAGGATGATGGCGCCCATCAGCGCGGCGTCGCTA
CCGAACCCTATGGTCCGGAAGAGTATCGGCGAGAAGAAGGCCGACACGGTCACGCCGGTGAGGTTCAGGAACACGGGGAA
CGCCACGGCCATCACCAGGTACGGCCGGTACTCCCGCCGCAGGATCCGCCGGAACGCGCCCTCCTGGTTCCGCCGGTCGT
GCTCCACGGCGGCCAGTATGTCGCTGAACTCCGCGTCGACGTCCACGCCCTTGCCGCGGACGCGCTGGAGCGCGGCGCGG
GCGTGGTCGTGCTTCCCGCGCAGGACGAGGCTGCTCGGGGTGTCCGTGATGAGCACGGCGCCCAGCACCATGACGGCGGC
GGGGACGGCCGCGAGGCCGAGGGACAGGCGCCAGCCCCATTCGGGGATCCGCGACGTGCCGTAGTTGATCAGGTTGGCGA
CGAGGTAGCCGACGCTGATGAACAGAGGGAACGCGGAGATGAACCCGCCGCGCCACCGCGGGGGCGACATCTCGGCGAGG
TAGACCGGCGTGGCCTGGCCGGAGAACCCGAGGCCCAGGCCGAGCAGCATCCGCCCGACGATGAGCATGGCGAGGTTGGC
CGCGGCGGCGTTGACGAGCGAGCCGACGAGGAACATGCTCCCCCCGATGACCATGATGGCCTTGCGCCCGACGCGCCGGG
TGACCCGGCTCGCCACCAGCGTCCCCACCATGCCGAAGGCGTAGAGCGAGGAGGTGAAGGCCGTGAGCGCCTGGTCGTTG
TACATGCAATACACGTCCTTGCTCGCGCGCCTCGTCGTCTTGAGTAAGCCCGGGAAGAACTTCTTCAGGAATGACTCCAT
CTCCGACACACCGCCTGATCGATC-ACGTTAGCGCCATGAACAAGATTCACTTAAAGTGAAGAAAGATACTAAATCATTT
GCAAAGTTAGTACGTATACGTACGATAAAATGTCATTTTGCTAATAACTGGAACGAGCGTGATTTAGCTTTTCTGTTA--
---TTATTATTAACTGCGGATGACTGTAAACCCAACTGTTGATATTTACTGCATTCTTCATATTCCTTGAACCAAATTAG
TCAGATAACCGATTCT----------------------------------------------------------------
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>chr2A_342
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---------------------T------------------------------------------TATATATCCATGACAC
AATGCGAAACCAAGCCATATGCCAAGGACGCACGCAGACGCAGGTCAGGTGGACTCATTTCCGAACTTGTGGTCCTTGAC
GAACCTGCCCCAGTACCAGTGGCGCGCGAAGACGTGGCCCATGGAGTCAAGCGGCACGCCCTTGGTCTCCGGCACCAACG
CCATGGCGAAGGCGGTCATGACGACGAGCCAGCACGCGTAGAAGACGAAGACGCCGTACTTGAGGCTGCACAGCATCGCC
AGGAAGCACTGCGCCTGCACGAAGTTGAGGCCCAGGTTGAGCGCCACCGCCGTGCCCTGCCCCGCCGACCGCACCTCCAC
CGGGTATATCTCGCCGGGGATGGTCCAGTACAGCGCACCCCACGACCAGCTGAAGCTGGCCGAGAAGACGCACGTCAGCA
CCAGCACCGCCACCGCGTACCCCTTGGGCATCTTGCTGCCGTGCCCCAGGTGCGTCCCCGCGATGCTTGCCATTGCCACC
TGCAATCAAACGCAAAGCCATCAGTGTCCCAGAGCATACGTACGCTGGGATGGAAAATGTAGTACT-------GTAGGTC
TTTGTTGTATGCATTGCATGCCTGGCAGGTGAACATGAGCGCGCCGCCGATCGCGAAGAGCAGCTTCCGGCCGTAGCGGT
CCATGGCGACGCCCGAGGCGATGATGCCGCCGATGTTCATCAGGCCGAGGATGATGGCGCCCATCAGCGCCGCGTCGCTA
CCGAACCCTATGGTCCGGAAGAGTATCGGCGAGAAGAAGGCCGACACGGTCACGCCGGTGAGGTTCAGGAACACGGGGAA
CGCCACGGCCATCACCAGGTACGGCCGGTACTCCCGCCGCAGGATCCGCCGGAACGCGCCCTCCTGGTTCCGCCGGTCGT
GCTCCACGGCGGCCAGTATGTCGCCGAACTCCGCGTCAACGTCCACGCCCTTGCCGCGGACGCGCTGGAGCGCGGCGCGG
GCATGGTCGTGCTTCCCGCGCAGGACGAGGCTGCTCGGTGTGTCCGTGATGAGCACGGCGCCCAGCACCATGACGGCGGC
GGGGACGGCCGCGAGGCCGAGGGACAGGCGCCAGCCCCATTCGGGAATCCGCGACGTGCCGTAGTTGATCAGGTTGGCGA
CGAGGTACCCCACGCTGATGAACAGAGGGAACGCGGAGATGAACCCGCCGCGCCACCGCGGTGGCGACATCTCGGCAAGG
TAGACCGGCGTGGCCTGGCCGGAGAACCCGAGGCCCAGGCCGAGCAGCATCCGCCCGACGATGAGCATGGCGAGGTTGGC
CGCGGCGGCGTTGACGAGCGAGCCGACGAGGAACATGCTCCCCCCGATGACCATGATGGCCTTGCGGCCGACCCGCCGGG
TGACCCGGCTCGCCACCAGCGTGCCCACCATGCCGAAGGCGTAGAGCGAGGAGGTGAAGGCCGTGAGCGCCTGGTCGTTG
TACATGCAGTAGACGTCCTTGCTCGCGTGCCTCGTCGTCTTGAGTAAGCCCGGGAAGAACTTCTTCAGGAAAGACTCCAT
CTCCGAGACGCCCCCTGATCCCAAGACGTTAGTGCCATGAACACGATTCACT------------------TAAATCATTT
GCAGAGTTAGTACGTAC---TACGATAAAATGACAC---GC---AAATTGGAACGAGCGTGATTTAGCTTCTCTATTAGT
ATATTATTATTAACTGCGGATGACCGTAAACCCAAGTGTTGATATATACTCTATTC------TTCCTCGAACCAAAATAG
TCAGATAACCGATTCT----------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------S----------------------------------------
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-------------S------------------------------------------------------------------
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---------------------------------------------------------------------------S--S-
-------S-----------------------------------------------------S------------------
-----S------S-------SSSSS-SS-SS-S-SSSSSSSSSS-SSS-SSSSSS-SSSSSSSSSSSSSSSSS-------
---------------------------------------S----------------------------------------
----------S---------------------------------------------------------------------
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------S-------------------------------------------------------------------------
-------------S------------------------------------------------------------------
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------S-----------------------------------S-------------------------------------
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-----------------------------------S----------S---------------------------------
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--------------------S-----------------------------------------------------------
------------------------------------------------S-S--S-----------S--------------
--S--------S------S-----------------S-------------------------------------------
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----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1000
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--------------------CCTGGCAGGTGAACATGAGT----------------------------------------
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>reverse_2331
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----------CCGGCTCATTTGTGTGCAAA--------------------------------------------------
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---------------------------------------------
