>input_sequence_86249
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--------------------------------------------------------------------------ATGGGA
AGAGCGGAGCTCGCAGGTGTAGGAAGGGGATCGAGGTCGTCATGGCCGGAGGCGGTGGGGCTGCCGGTGGCCACCGCGGC
ACACCTGATCAACGGGGACAGGCCAGATGTCGCGGTGGCGTTAATCATGGAAAGGGAACCCAACAGGCAGCCAGGGCGCC
CTGACCCTAGGCGTGTCATCATCATCTCCGACGCAGCTGGCATCGTCGTCAAGACCCCCGTCGTCGGCTAG---------
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>chr1B_1_TraesCS1B01G028400
ACTCGCTTCAGTGCTTGTAGTCATCGCTAGGTGCTCTACTGATCTGGATGTAGTTTTTGTTATTTCTAGGGTTC---GTA
CTACCATGATTGAAGATGAATAGATTGGAAATTTTCTCAAAAAAATAATAATTCTGTAGCAATAATCTTATTATAATATT
TTATCTTTCTGGATATTATGGTCAATTTATTTTTT-AGATATCAAGTCAGTGTTCAAAACACAAATATTTGAAGACTTGA
TGTAGTAGCGAGCCTAGACTCTGAAAGCAGGTCCTCTGACTTTGGTTCAG------------------------------
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---------------------------------------ACTTATGGGCTGACCTGTTAGGGGGCCCACATGTCAGCTAA
TGCGAACAGTCTAGCCAGCAA--------GGTTGCTTATTAGA-GGCCTAAAGTTTGATGTACATACTTAGTACGTATAG
CCCGCAAAAAACAATACTCCTTAATA-TACAATTTTGAAAATTGGAACTGAGCCACA-ATACTAG----GTAAGCTTCAT
AACACCTAACAATTGTTTGTATTTCCACAACTGGCTACTTCTAAGTCAGTTTGCGTTAAGTCAAGAGAATCTCAACGCCT
CGAACCCTACACAACTATTCTGGCAAGCTGCTCTCGGATAGCTCAAACACA-----------------------------
-----------------------------------------------------ATACTACTAATCTCATGAAACTTTG--
--------------TACATAGCTAGTTCACACTAGCGATTAATAAACTGAAACTTTGTTTTATGCCCGGAACAATCAGAC
ACTTTGCAACGTTGATTCCTGCACTTGGCAACGGTGTGGACGATGCACCCGTGAAACAGACGGTTGCATATTCAGCTCTA
CCAAGCGAGGCCGGTGTACCCGATGCACCCTCTCATTATCAAGCGTCAGCTTGTCACACTCACAGAGATTCAAAGAATAA
AAAGGAAGCATCTCACACTCACAAATGCTCACCGTGTCCACCTCACGCTCAGTCACAAATACTCCTACAAG--------T
ACCGCCTGATCTCCTATACTTGCTTCACATCCTACAAACGCAGACCACAAGTCAAACACATCTTCCTCGAAACTATGGGA
AGAGCGGAGCTCGCAGGTGTAGGAAGGGGATCGAGGTCGTCATGGCCGGAGGCGGTGGGGCTGCCGGTGGCCACCGCGGC
ACACCTGATCAACGGGGACAGGCCAGATGTCGCGGTGGCGTTAATCATGGAAAGGGAACCCAACAGGCAGCCAGGGCGCC
CTGACCCTAGGCGTGTCATCATCATCTCCGACGCAGCTGGCATCGTCGTCAAGACCCCCGTCGTCGGCTAGCTTAAAACG
CCCCGGCGTGTAGTGCAACTCCAATATACACGGATGTTGTGCATGTATCCCAGTATTCCAAATCCCTACGGCCT------
------------ATAAATCTGTGATGATATGCTGCTCAGTCGCATTACTGATAATCTATAGCTCGTGTACTTTGAATATT
CTGCGGGAATAAGAAAAGCATATATG----------------TGAATGGTCGCCTTCTCCACAAAATGAAATAAAATATG
AATGATCGCC------TGTCTGAAATGGGGTGACTCAAAGGTGTAACGATGTAACCCTACCGCTGTTACCATTCTCTAGG
ATGGGTCCAGAAATTTTCCCAGACGGCAATCTGAACGCAACTCCAACGGGCCTACTCATTTCATTTGCCCGTGTTCTCTT
CATGGATCATGACCTCGAGAAAGCGAGAAATATGAAACTGATTTTATCAGCATTTGAGCAACTCTCAAATCTTCAGATCA
ATTTTCATAAAAGTGGATTGTTTTGCTTTGGAGACGCTCAAGACGAGGCCAACCTATTTGCTTTGGGGATGTCGTGATCG
CTTTAGGTTGTCTAAATGTGTAACCCTACCATATTTGGTACTCCACACTGATTATGGGACATTCACGAGGATACCATGGG
GGCCATGGGGTATTGGACATTTGAGTAATTTGGGCCAACTTGTACACATATATTCTCTTACATTTTAGGGCTAGGCCAGT
CCATGCCCATGGGCCCTCCTCAGCCGTTAATTCAAAGAGATCGATGATAGCGGGTGCTCCCCTATGGGCGGACGAACATC
GGCTGGCCCAGTAACTGGGCTTTCAAGGGCTGTTTATTTATTTTTATTTTGGGTGGGAACTAGTTTTTTCATGATTTTGG
TAGGTTTTTTCAAGAATCGGGTGTTATATGTTTTACACGTTTTCCCTTTACTTATATTGTATTTTCTTTTGTATGATATT
CCCTTTCTATTTTTATTTTATTTTTTCATTTTCATTTCTATTTGTTAAAAAATATAAAAGAATTTAGAAAA
>chr1B_1
ACTCGCTTTAGTGCTTGTAGTCATTGCTAGATGCTCTACTGATCTGGATGTAGTTTTTGTTATTTCTAGGGTTC---GTA
CTACCACGATTGAAGATGAATAGATTGGAAATTTTCTCGAAAAAATAATAATTCTGTAGCAATAATCTTATTATAATATT
TGGTCTTTCTGGATATTATGGTCAATTTATTTTTT-AGATATCAAGTCAGTGTTCAAAACACAAATATTTGAAGACTTGA
TGTAGTAGCGAGCCTAGACTCTGAAAGCAGGTCCTCTGACTTTGGTTCAG------------------------------
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---------------------------------------ACTTGTGGGCTGACCTGTTAGGGGGCCCACATGTCAGCTAC
TGCGAACAGTCTAGCCAGCAA--------GGTTGCTTATTAGA-GGCCTAAAGTTTGATGTACATACTTAGTACGTATAG
CCCGCAAAAAA-AATACTCCTTAATA-TACAATTTTGAAAATTGGAACTGAGCCACA-GTACTAG----GTAAGCTTCAT
AACAGCTAACAATTGTTTCTATTTCCACAACTGGCTATTTTTAAGTCAGTTTGCCTTAAGTCAAGAGAATCTCAACGCCT
CGAACCCTACACAACTATTCTGGCGAGCTGCTCTCGGATACCTCAAACGCA-----------------------------
-----------------------------------------------------ATACTACTAATCTCATGAAACTTTG--
--------------TA----------------------------------------------------------------
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>chr1B_1
ACTCGCTTCAGTGCTTGTAGTCATCACTAGGTGTTGTTTGGATCTGGATGTAGTTTTTGTTATTTCTAGTGTCCATTGTA
CTACCATGATTGAAGATGAATAGATTGGAAATTTTCTCGA---AAAAATGATTCTGTAGCAATAATTTTATTACAGTATT
TTGCCTTTCTAGATATTATGGTCAATTTATTTATTTAGATATCACGTCAGTGTCGTAAACAGAAATTTTTGAAGACTTGA
TGTAGTAACGAGCCTAGACTCTGAAAGCAAGTCCTCTTACTTTGGTTCAGACTCCGGGGCTGGCAATAAGGATTACCCAG
GCGGGTATTGGACCCCCATCCCCGGCCCCGCAACAACCTTCCCATGCCCGTCCTCGTACCCATACCCGTCCGTGGGGATA
AAAATATTCTCATCCCCATCCCCGTCGGTTTTTTATCCCCGTGGGGAAACCCATACACGCAATCAACAACAACCTTTAGT
AACATTTATGTAGAGAAAAATAGAATTTTAGCACAATAAATAATATGTTGTGGCTAGGTTAGGGTTTTCTTATGTATTTT
TGGCCAAAGGTTTGGGATGGGTGGAAATTTGGGTGGGTAAGGGTGGGAATTATATGGGGTCTACTTATTTTAATCCCCAC
ATGTAAGGCCTTCATAGGTAAGGAGGGTAACGGGCACAGGTAATGCTATCACATCCCCATCCCCATGTTACACACTGGGT
AAGGTATTTGACCCACCAGCTTCCCCGTGGCTATTAACGCTAGCACATCCCCGTCCCCTGATAGAGTAATTACCCACGAG
GATGCGGGTAACCTTTAACCATTACCGGCTTGAGTTCAAACTTGTGGGCTGACCTGTTAGAGGGCCCACATGTCAGCTAT
TGCGAACGATATAGCCAGCAATCTAACAAGGTTGCCTGTTAGAGGGCCTAAAGTTTGATGTACATACTTAGTACATATAG
CCCGCAAAAAACAATACTCCTTAGTA-TACAATTTTTAAAATTGGAACTGAGCCGCATATACTAG----GTAAGCTTCAG
AACACCTAACAATTGTTTCTATTTCCACCACTGGCTGCTTCTAAGTCAGTTTGCCTTAAGTCAAGAGAATATCAACGCCT
GGAACCCTACACAACCATTCTGGCGAGCTGCTCTCGGATAGCGCAAAAGCTTTGGGAAGGGCCATCAAAGTTG-CCATAA
TTTAGCTTGATATATGCTTATGACACAAACTCTCATAACGTCTGCACCAATTGATCCTTCTAATGTCATGATGGTCTTCC
CTAAAAGACAATGCTACTTAGCTAGTTCACACTAGCGATTAATAAACTCAAACTTTGTTTTATGCCCGGAACAATCAGAC
ACTTTGCAACGTTGATTCCTGCACTTGGCAACGGTGTGGACGATGCACCCGTGAAACAGACGGTTGCATATTCAGCTCTA
CCAAGCGAAACCGGCGTACCCGATGCACCATCTCATTATCAAGCGTCAGCCTGTCACACTCACAGAGTTCCAAAAAATGA
AAAGGAAGCATCTCACACTCACAAATGCTCATCGTGTCCACCTCACGCTCAGTCACAAATGCTCCTACAAG--------T
ACCGCCTGATCTC--ATCGTTGCTTCACATCCTACAAACGCAGACCACAAGTTGAGCACATCCTCCTTGAAACTATGGGA
AGAGCGGAGCTCGCAGGATTAGGAAGGGGATCGAGGTCGTCATGGCCAGAGGCGGTGGGGCTGCCGGTGGCCACCGCGGC
ACACCTGATCAACCGGGACAGGCCAGATGTCGAGGTGGCGTTAATCATGGAAAGGGAACCCAACAGGCAGCCAGGGCGCC
CTGACCCTAGGCGTGTCATCCTCATCTCCAATGCAGCTGGCATTGTCGTCAAGACCCCCATCGTCGGCTAGCTTAAAACG
CCCCGGCGTTTAGTGCAACTCCAATATACATCGATGTTGCGCATGTATCCCAGTATTCCCAATCACTACGGCTTATACTA
TATAAGTATATAATAAATCTGTGATGATGTGCCGCTCAGTCGGGTTACAGGTAATCTATAGCTCGTGTACTTTGAATATT
CTGCTGGAATAAGAAAAGCATTTGGTCGATGCTCGTGTACTATGAATGGTCGCCTTCTCCAGAAAATGACATAAAATATG
AATGATCGCCTCAGGTTGTCTGAAATGGGGTGACTCAAAGGTGTAACGGTGTAACCCTACCGCGGTCACCATTCTCTAGG
ATGGGTCCA-----------------------------------------------------------------------
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>chrUn_1
ACTCGCTTCAGTCCTTGTAGTCGTTGGTAGGTGCTCTTCGGGTCTTGATGTAGTTTTTGTTATTTCTAGTGTTTGTTGTG
CTACCATGATTGAAGATGAATAGATTGGAAAATTTCTCGA---TAAAATGATTCTGTAGCAATAATTTTATTATCATAAT
TTGTCTTTCCGGATATTTCGGTCAATCTATTTTTT-AGATAGATTGTCAGTGTCCAAAAGACAAATATTTGAAGACTTGA
TGTAGTAGCGAGCCCAGACTCTGAAAGCAGGTCCTCTGACTTTGGTTCAG------------------------------
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---------------------------------------ACTTGTGGGCTGACCTGTTAGACGGCCCACATGTCAGCTAC
TGGGAACGGTCTAGCCAGCAATCTGACAAGGTTGCCTGTTAGAGGGCCTAAAGTTTGATGTACATAATTAGTACATATAG
CCCGCAAAAAATAATACTCCTTAGTAATACAATTTTGAAAATTGGAACTGAGCCACATATACTAGCTAGGTAAGCTTCAT
CACACCTAAAAATTGTTCTTATTTCCTGGT-----TACTTCTAAGTCAGTTTGCGTTAAGTCAAGAGAATCTCAATGCCT
AGAACCCTACACAACTATTCTGGCGAGATGCTCTCGGATAGCTCAAAAGCTTTGGGAAGGGCCATCAAAGTTGCCCATAA
TTTAGCTTGATATATGCTTATGACATAAACTCTCATAACGTCTACACCTTTTGATCCTTCTAATGTCATGATGGTCTTCC
CTGAAAGACAATACTACATAGCTATTTCACACTAGCGATTAATAAACTGAAATTTTGTTTTATACCCGGAACAATCAGAC
ACTTTGCAACGTTGATTCCTGCACTTGGCAACGGTGTGGATGATGCACCCGTGAAACAGACGGTTGCATATTCAGCTCTA
CCAAGCGAGGCCGGTGTACCCGATGCACCCTCTCATTATCAAGCGTCAGCTTGTCACACTCACAGAGTTTCAAAAAATAA
AAAGGAAGCATCTCACACTCACAAATGCTCACCGTGTCCACCTCACGCTCAGTCACAAATGCTCCTACAAG--------T
ACCGCCTGATCTCCTATCCTGGCTTCACATCCTACAAATGCAGACCACAAGTTGAGCACATCCTCCTTGAAACTATGGGA
AGAGCGGAGCTCGCAGGTGTAGGAAGAGGATCGAGGTCGTCATGGCCGGAGGCGGTGGGGCTGCCGGTGGCCACCGCGGC
ACACCTGATCAACCGGGACAGGCCAGATGTCACGGTGGCGTTAATCATGGAAAGGGAACCCAACAGGCAGCCAGGGCGCC
CTGACCCTAGGCGTGTCATCCTCATCTCCAATGCAGCTGGCATCGTCGTCAAGACCCCCGTCGTCGGCTAGCTTAAAACG
CCCGGCCGTGTAGTGCAACTCCAATATAAATCGATGTTGCGCATGTATCCCAGTATTCCCAATCACTACGGCTTATACCA
TATAAGTATATAATAAATCTGTGATGATGTGCCGCTCAGTCGGGTTATAGATAATCTATAGCTCGTGTACTTTGAATATT
CTGCTGGAATAAGAAAAGCATTTGGTCGATGCTCGTGTACTATGAATGGTCGCCTTCTCCACATAACGAAATAAAATATG
AATGATCGCCTCAGGTTGTCTGAAATGGGGTGACTCAAAGGTGTAACGGTGTAACCCTACCG-GGTCACCATTCTCTAGG
ATGGGTCTAGAAATTGACCCAGACGGCAATCTTAAGGCAACTCCAACGGGCCTATGAATTTCGTTCGCCCGTGTTTGCTT
C-------------------------------------------------------------------------------
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>chr1D_629
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--------------TACTTGGCTAGTTCACACTAGCAATTAATAAACAGAAACTTTGTTTTACGCCCAGAACAATCAGAC
ACTTTGCAACGTTCATTCCTGCACTTGGCAACGGTGTGGACGATGCACCTGCGAAAAAGACGTCTGCTGATTCAGCTCTA
CCAAGAGAGGCCGGTGTACCCGATGCACCCCCTCGTTCTCAAACGTCAGATTGTCACACTCACAGAGTTTCAGAAAATAA
AATGGAAGCTTCTCACTCTCACAGATGCTCACGCTGTCCACATCACACTAAATCACAAATGCCCCTACAAGGCTACAAGT
AGCGCCTGATCACCTATCGTGGAATCACATCCAACAAACACAGATCGCAAGTAGAG----TCCTCCTTGATACTATGGGA
AGAGCGGAGCTTGCAGGTGTAGGCAGAGGCTCGAGGTCGTCATGGCCCGAGGCAGTGGGGCTGCCGGTGGCCACCGCGGC
GCTCCTCATCAACGGGGACAGGCCCGACGTTGCGGTCATGTTAATCGTGAAAACGGAACCCACTATAGGGACAGGGCACC
CCGACCCTAAGCGCGTCATCCTCGTCTACGATGCGGCCGGCGTTGTCAGCGAGACACCCGTCGTCGGCTAGCTTAACATG
CCCGACC-TGTACTGCAACTCCTATATACA--------------------------------------------------
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>SNPs
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--------------------------------------S-----------------------------------------
--S-----------------------------------------------------------------------------
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-------------------------------------------S-----------------------------------S
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------------------S-------------------------------------------------------------
------------------------S-----------------------S-------------------------------
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-------------------------------------------------------------------S------S-----
------------------------------------------------------------S-------------------
-----------------S----------------------------------SS-S------S----S------------
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--------------------S----------S------------------------------------------------
------------------------------SS-------S-------------------S----S-------S-------
----------------------------S---S---------SS----S-------------------------------
----S----------------S-SSS------------------------------------------------------
------------------------------------------------S--------------S--S-------------
---------------SS---------------S--S------------------SSS-----S--S---------SS---
-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1653
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---------------------------------ACAAACGCAGACCACAAGTC---------------------------
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>reverse_2653
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------------GCCCTCCTCAGCCGTTAATT------------------------------------------------
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