>input_sequence_74498
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-----------------CTATAAATAGAGAGCGGCGCCTGGCCAATGAAGGACATCTCTGCACCAGCAGTTCAGCACACA
CCTTGTACTACTACTGCCTAGCTAGATACGCACCGAGCACCTACGTACGT----GTACGCATCTCGTCTCGCAGTTTAAC
GTTAGCTAACTCCATCCATCATCCATGGCGGCCCGCGTCGGCGCTGTCGTGCTCTGCATGCTCTTGATCGTCAGCGCGGG
GCTCGTGGCCACGCCGACCGAAGCTCGCGCCGTGCCGGACGTCGTCTACGCTGCC------------GCGGCCGGCGGTG
GCATCCGTCGGGGCAGGTGGAACAGCGCGAGGAGGCTGGAGGGAGACGCCGCCCGGAAGCGGGAGGTGCCCGGCGGCCCA
GACCCGCAGCACCATCACTAGACACAAGC---GTCAGCTGCATGCGACGTGCCAACCCAACGTATTACGTATTCCGTATA
TGATACGGATTCT----CGTGGAGCGTCGGCTGGATCATACTGTACGACGTAGTACCTCGCTGTTGT-------------
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---ATCTCTGGGATTGTGGATC-GGACCGGAGAGGTAAAATAAGTATAGTTTGCATTTGGTTTAAGTATAGTCCACACAT
ATGGT-ACGACCCAGTTGTA------------------------------------------------------------
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>chr3A_1_TraesCS3A01G293000
TTCTACAACGTCTTATAAAAGTGAACAGGG----TAAATCAAAATGCTGCGGGTGCTGCTTAGGAGGTTC----------
------------------TGTATGTACATATTCTGCCTTTGTTCAATTTGGACGTCAACTCTCCCTTGACCATTGATTTC
AGACGTTATCAAGAAAAGTATTTAATATATGATGGTATGTCATGACTTTTGTTGCCAAATTCGGTACAGTAGCATATTAT
CCATTTGGAAAACTTGAAGAGTTT-CTTTTTTGCATTATTGTCCTCCTTTGACTGGCTTTGGCACATTGGGCTAGTAGAA
TCATCTCAAGTAGCCACAAATGTATGAAGACACGAT-----ATATATGCTACCCACGTTTAAGCATATCTGCGGTCAAAA
GCTTATAAAGATTATGTTCATGCATGC-----ATGTATTCCTAAACGCTGGGCACCATACATTGTCAAATATCATGGAAA
TTCTCAGGAGCACGCATTATTCCAGTTTCCAGAAGCAGACAGTCGACACGTC----AGCTAGCTACTTTCAGTAGTTCAA
ATCGTGGCTTATATCCTTTCATTCTTGGATACATCGTCCACATACACGATGAGAGCTGAGAG--CGGCGGTTGCATCCCT
CCCTGCTTATTGGCGCACTGATGCATGTGGAGTGGATTATTGTGGGCAATTAAGTAAGCAAGAGGCCAGCGTCGACCGGA
ACATAGGAGATGAACATTGGCTGATGGCGTGCGTAGGCAAGCACGGACACGGAGCATATGCTAATGCAGAAAGGGGGAAA
AGAT-GGAGGATCAATTATGATGGACGCA-CATCTTCTTAGCCGGT-GGCAATGGTGGCCACTCGGACAGGATCACACCA
GGTTCATCCAACACTACTCCAACACCACCCCTACGTGGCCCTCTTTGTCCTAGGCAGAGGCAGGCACACAATGCGCGCGG
TGGTTCCACC---CCCACCAATTATCCGCAACAACGGCCGGACCCGGG-CCCACGTTGTAACTGCCGGTATGATCCATCT
CGTCGAGCTC-CTCGTCCTATAAATAGAGAGCGGCGCCTGGCCAATGAAGGACATCTCTGCACCAGCAGTTCAGCACACA
CCTTGTACTACTACTGCCTAGCTAGATACGCACCGAGCACCTACGTACGT----GTACGCATCTCGTCTCGCAGTTTAAC
GTTAGCTAACTCCATCCATCATCCATGGCGGCCCGCGTCGGCGCTGTCGTGCTCTGCATGCTCTTGATCGTCAGCGCGGG
GCTCGTGGCCACGCCGACCGAAGCTCGCGCCGTGCCGGACGTCGTCTACGCTGCC------------GCGGCCGGCGGTG
GCATCCGTCGGGGCAGGTGGAACAGCGCGAGGAGGCTGGAGGGAGACGCCGCCCGGAAGCGGGAGGTGCCCGGCGGCCCA
GACCCGCAGCACCATCACTAGACACAAGC---GTCAGCTGCATGCGACGTGCCAACCCAACGTATTACGTATTCCGTATA
TGATACGGATTCT----CGTGGAGCGTCGGCTGGATCATACTGTACGACGTAGTACCTCGCTGTTGT-------------
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---ATCTCTGGGATTGTGGATC-GGACCGGAGAGGTAAAATAAGTATAGTTTGCATTTGGTTTAAGTATAGTCCACACAT
ATGGT-ACGACCCAGTTGTAATAAACAAGCTCAGGCTGTTGAAACGCGCAGATAATAATACTTCTGTGTAGCAATGATCT
ACTGTGTATCCGTGAAGACTGGATTGTCCTTTTTAGCTTGGTCATCTCCTACGTGGTGTTGGGATAATATTATTCGTTAT
TACGTACGGTGTCGACTGCGATCGTCCACTTGAGAGATCGATCATGGCACCATGCATGCACGATG-AACATCTGCATGCG
GATCTCCTTTTGTGGTCG-GTCGACGCACATTATTTCATTTTGTTTATAATATATTC----AAAAAGTGCGTCTAACTTT
CAAGTGAGTGTGACCGTAAACCGACTGTAATCACGAATCGCCAATGGGATCAGCGGCGCGTCATCTGACTCATCGTGGTA
GGCTCAGAAAGACCAGCAGTGAGTAATGGAGAGATACTTTTCATCAAGCTCGACGAACTGGCGGAACAACGGAACGCGAA
CCTGGGACCGACTACCGACGCCATGCGGCCATGGTGCGGATCGAGCGTAGCGGCCGTCTTTCCTACACGGAATCCCCCGG
TGCCTAGCTCGCTTCCTGCTTGTGCATAACGCATGGCGCGGTGGCGTTCATGCGTGGTTAGAGCATCCACAGCCGGACAT
GAGTTCCTCTTTTTGCTCCCCCTCCCCCTCCCCTCCCCCTCGCGTCGCCTCCCCTCGGGCGGCCCCCGATCCCCCGCCGC
CAGCCCCTCCCCGCTCCTCCATCTCCAGCCGCTGTTGCTGCCGGCAAGAGCCGCGGTGGCGGCAGGCCCTGCATCGCAGA
TTCTGGGCGGGTGGTCGCCGTGGCAGAACCTGTGAGGCGGCGGCGGCATCTCACGCGGGAAGGTCGGGGGCAGCAGTCAG
GGTGGCGCCCCTGCTGCACGGCGGCGATGGGAACCTACATGGCCGGCGGTGTGGCGACCGCGGGTGCATGGGTGGCTTTG
ATGGCTGCGGATCTGGCGTCCTATCCAGATCCGTCTCGGTACGGCCTTGGCCGGCCGGTGGCACGA
>chr3D_2
-TCTACAGCGCCTTATAAAAGTGAATAGGGGGAGTAAATCAAAATGCTGCGGGTGCTGCTTAGGCGGTTCTGTAGTTCCT
GAGAACTTGAGCTATACATGTATGTACATATTCTGCCTTTGTTCAATTTGGACGTCAACTCTCCCTTGACCATTGATTTC
AGACGTTATCACGAAAAATATTTAATATATGATGGTATGTCATGACTTTTGTTGCCAAATTCGGTACAGTAGCATATTGT
CCATTTGGAAAACTTGAAGAGTTTCCTTTTTTGCATTATTGGCCTCCTTTGACTGGCTTTGGCACATTGGGCTAGTAGAA
TCATCTCAAGTAGCCACAAATGTATGAAGACATGGTTGAAAATATATGCTACCCACATTTAAGCATATCTGCGGTCAAAA
GCTTCAAAAGATTATGTTCATGCATGCATTGCATGTATTCCAAAACGCTGGGCACCATACATTGTCAAATATCATGGAAA
TTCTCAGGAGCATGCATTATTCCAGTTTGCAGAAGCAGACAGGCCACACGTCAGCTAGCTAGCTACTTTCAGTAGTTCAA
ATCGTGGCTTATATCCTTTCATTCTTGGATACATCGTCCACATACACGATGATAGCTGAGAG--CGGCGGTGGCATCCC-
CCCTGCTTATTGGCGCACTGATGCATGTGGAGTGGATTATTGCGGGCAATTAAGTAAGCAAGAGGCCAGCGTCGACCGGA
ACATAGGAGAAGAACATTGGCTCATGGCGTGCGTAGGCGAGCACGGACACGGAGCATATGCTAATGCAGAAAGGGAAAAA
AGAT-GGAGGGTCAGTTATGATGGACGCATCATCTTCTTAGCCGGT-GGCAATGGTGGCCACTCGGACAAGATCACGCCA
GGTTCATCCAACATTACTCCAACGCCACCCCTACGTGGCCCTCTTTGTCCTAGGCAGAGGCAGGCACACAATGCGCGCGG
TGGCTCCACTACTCCCACCAATTATCCGCAACAACGGACGGACCCCGGGCCCACGTTGTAACCGCCGGTATGGTCCATCT
CATCGAGCTAGCTCGTCCTATAAATAGAGAGCGGCGCCTGGCCA-TGAAGGATATCTCTCCA-CAGCAGTTCAGCACACA
CCTTGTACTACCACTGCCTAGCTAGATACGCACCGAGCACCTACGTACGTACGTGTAAGCATCTCGTCTCGCGGTTTAAC
GTTAGCTAGCTCCATCCATCATCCATGGCGGCCCGCGTCGGCGCTGTCGTGCTCTGCATGTTCTTGATCGTTAGCGCGGG
GCTCGTGGCCACGCCGACCGAAGCTCGCGCCGTGCCGGACGTCGTCTACTCTGCTGCGGCCGGCAATGCGGCCGGCGGTG
GCATCCGTCGGGGCAGGTGGAACAGCGCGAGGAGGCTGGAGGGAGACGCCGCCCGGAAGCGGGAGGTACCCGGCGGCCCA
GACCCGCAGCACCATCACTAGACACAAGC---GTCAGCTGCATGCGACGTGCCAACCCAACGTATTACGTATACCGTATA
TGATACGGATTCT----CGTGGAGCGTCGGGTGGATCA-----TACGACGTAGTACCTCGCTGTTGT-------------
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---ATCTCTGGGATTGTGGATC-GGACCGGAGAGGTGAAATAAGTATGGTTTGCATTTGGTTTAAGTATAGTCCACACAT
GGTGCA---ACCCAGTTGTAATAAACAAGCTCATGCTGTTGAAACACGCAGATAATAATACTTCTGTGTAGCAATGATCT
ACTGT--ATCAGCGAAGACTGGATTGTCCTTTTAAGCTTGGTCA--TCCTACGTGGTGTTGGGATAATATTATTCC---T
TACGTACGGTGTCGA------TCGTCCACTTGAGAGATCGATCATGGAATCATGCATGCACGATGAAACATCTGCATGCG
GATCTCCTTTTATGGACTTGTCGACGCACATTATTTCATTTT-------ATATACTAAAAAAAGAAGTACGTGCAACTTT
CCAGTGAGTGTGACCGTAAACCGACTGTAATCACGAACCACCAATGGGGTCAGCGGCGTGTCATCTGACTCATCATGGTA
GGCTCAGAAAGACCA---TTGAGTAGT-GAGAGATACTTT----------------------------------------
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>chr3B_67
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------------------TGTATGTACATATTCTGCCTTTGTTCAATTTGGACGTCAACTCTCCCTTGACCATTGATTTC
AGACGTTATCAAGAAAAATATTTAATATATGATGGTATGTCATGACTTTTGTTGCCAAATTCGGTACAGTAGCATATTAT
CCATTTGGAAAACTTGAAGAGTTT-CTTTTTTGCATTATTGGCCTCCTTTGATTGGCTTTAGCACATTGGGCTAGTAGAA
TCATCTCAAGTAGCCACAAATGTATGAAGACACGGTTGAAAATATATGTTACCCGCATTTAAGCATATCTGCGGTCAAAA
GCTTCAAAAGATTACGTTCATGC---------ATGTATTCCAAAACGCTGGGCACCATACACTGTCAAATATTATGGAAA
TTCTCAGGAGCATGCATTATTCCAGTTTCCAGAAGCAGACAGACCACACGTCAGCTAGCTA----CTTTCAGTAGTTCAA
ATCGTGGCTTATATCCTTTCATTCTTGGATACATCGCCCACATACACGATGAGAGCTGAGAGTGCGGCGGTGGCATCCCT
CCCTGCTTATTGGCGCACTGATGCATGTGGAGTAGATTATTGTGGGCAATTAAGTAAGCAAGAGGCCAGCGTCGACCGGA
ACATAGGAGATGAACATTGGCTCATGGCGTGCGAAGGCAAGCACGGACATGGAGCATATGCTAATGCAGAAAGGGAAAAA
AGATGGGAGGATCAATTATGATGGACGCATCATCTTCTTAGCCGGTGGGCAATGGTGGCCACTCGGACAGGATCACGCCA
GGTTCATCCAACATTACTCCAACACCACCCCTACGTGGCCTTCTTTGTCCTAGGCAGAGGCAGGCACACAATGCGCGCGG
TGGTTCCGCCT---CCACCAATTATCCGCAACAACGGCCGGACCCCGGGCCCACGTTGTAACTGCCAGTATGGTCCATCT
CATCGA---C-CTCGTCCTATAAATAGAGAGCGGCGCCTGGCCA-TGAAGGATATCTCTCCATCAGCAGTTCAGTACACA
CCTTGTACTACCACTGCCTAGCTAGATACGCACCGAGCACCTACGCACGT----GTACGCACCTCGTCTCGCAGTTTAAC
GTTAGCTAGCTCCATCCATCATCCATGGCGGCTCGCATCGGTGCTGTCGTGCTCTGCATGGTCTTGATCGTCAGCGCGGG
GCTCGTGGCCACGCCGACCGAAGCTCGCGCCGTGGCGGACGTCGTCTACGCTGCTGCGGCCACCAATGCGGCCGCCGGTG
GCATTCGTCGGGGGAAGTGGAACAGCGCGAGGAGGCTGGAGGGAGACGCCGCCCGGAAGCGGGAGGTGCCCGGCGGCCCA
GACCCGCAGCACCATCACTAGACACACAAGCGGTCAGCTGCATGCGACGTGCCAAGCCAACGTACGTAC-------TACG
TGATGCGAATTCCCGTACGTGGATCATCGGTTGGACCA-----TACATACTACTCCCTCTGTTCCAAATTAGACGATTCA
ACTTTGTACTAGCATTACTATAAAGTTAATATAAAGTTGGGTCATCTATTTTGGAACGAAGGGAATACGTCACTGTTGTA
TACATATCTGGGATTGTGGATCGGGACCGGAGAGGTAAAATAAGTATAGTTTGCATTTGGTTTAAGTATAGTCTACACAT
GGTGCGACGACCTAGTTGTAATAAACAAGCTCAGGCTGTTGAAACACGCAGATAATAATACTTCTGTGTAGCAATGATAT
GCTGT--ATGGGTGAAGACTGGATAGTCCTTTTAAGCTTGGTCA--TCCTACGTGGTGTTGGGATAATAGTATTCT---T
TACGTACGGTGTCGACTGCGATCGTCCACTTGAGAGATCGATCATGGAATCATGCATGCACGATG-AACATCTGCATGCG
GATCTCCTTTTGTGGACG-GTCGACGCACATTATTTCATTTT-------ATATTTGA----AAAAAGTACGTGCAACTTT
GCAGTGAGTGTGACCGTAAACCGACTGTAATCACGAACCGCCAATGGGATCAGCGGCGCGTCATCTGACTCATCGTGGTA
GGCTCAGAAAGACCA---GTGAGTAATGGAGAGATACTTTTCATCAAGATCCGCGAACA----GAACAACGGAACGCGAG
CCTGGGACCGAC---------------GCCATGGTGCGGATCGAGCGTGGCGGCCGTCTTTCCTACACGGAATCCCCCGG
TATCTAGCTCGCTTCCTGCTTGTGCATAACGCATGGCGCGGTGGCGTTCACGCGCGGTTA--------------------
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>SNPs
S------S--S--------------S--------------------------------------S---------------
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-----------------S--------------------------------------------------------------
-----------------------------------------S--------------------------------------
----------------------------------S---------------------S-----------------------
----SS-----------------------------------S--------------------------------------
------------S-----------------------------S-S-----------------------------------
-----------------------------------------------------------------------S--------
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----------------------S----------------------------------------------------SS---
----------------------------------------------------------------------------S---
-------------S------------------------------------------------------------------
---------------------------------------------S--------------------------S-------
-S------------------------------------------S-------S------S--S-----------------
-----------S--------------------------------------------------------------------
--------S---------------------------------------------------S-------------------
------------------------------------------------------S-------------------------
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------------------------------------------------------------------------S-------
------------------------------S-------SSSSS-------------------------------------
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SSS-S----------------------------------------S----------------------------------
-----SS---S----------------------S----------SS-----------------------------SSSS-
-----------------------------------------------S-S------------------------------
---------------S--------------------------SSSSSSS-------S-----------S---SS------
-S-----------------------------------S------------------------------------------
---------------SSS------------------------------S--SS-----SSSSS----------------S
------------SSSSSSSSSSSSSSS---------------------S-------------------------------
-SS-----------------------------------------------S---S-----SSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1042
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--------------------------------------------------------------TGCCGGTATGATCCATCT
CG------------------------------------------------------------------------------
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>reverse_2704
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---------------------------------------------------------------GTGCATGGGTGGCTTTG
ATG---------------------------------------------------------------
