>input_sequence_75312
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---------------------------------------------------ATGCTTCCCAGATCCCAAATGGCCATACA
ACTCACGCTTCTACTCATTTCGTGTAGCCTTTACAGTATGTATTCCTCTTCTTCTTTCTCCACGTCCTCCTCTCTTGCAT
TGCTGGTGCTGGTTATCTCCACCTGCCTCTCCTTGCTCTTCTCGAACCTCAGACAACTGATGAGAACCAGCAGCCACAAA
ACTTCCATGGAGGTGGTTGCTCATCAGGAGAAGAGCACTGTGCCACAAGATGAGGTGTCCGAGGATGCGCCGGTGGATTC
GGCTGGAAGCCTGTCAGGGTCGTCAGATTGCCAGGTGAGTGAAGAGTGGACTGATGAAGTCTCGGTGTCTG---ACGACG
ACGACGAGAGTCTTATTGAGATCTCCCTTGTTGATGGGTACTATGTGGGGCAAGAGGAGCAATGCCTCTGGAAGAAGGAG
CAAGACCTCCTCGTTGACTTCCTGCCGGAGTTCGTTCTCGACAGGAGGGACTTCATAGACATCTTGCCGGAGATCGGTGA
GGAGGAAAACATGATCGAGATTGACATTGCAAGGGGCTCCATCAAGTGCGCAAACTTCAGCGTCAAAGCATGA-------
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>chr1B_1_TraesCS1B01G272300
TGGACAACATAGGATACCATTTTTTTTTCAACAGCGGTGATTCTGAGATCTTATCTTGTTCCGCGAAATGACTACTGAAA
ATACTTGAACTATTAGAGAATAGAAGGATACCAAAACTT-CAACATGTTTATGTTGATGACTGACGGTGCCGGGATTATT
AGTGCATCCAGCTCTGTCAGCGACTTTTAG----TAATCAGTAAACACAAAGCAGCAAGTTGCTGTATTTATCGTAGTAC
ATAATTTTGTGACGAAAGGGAGGATTGGAGCAAATCATGAACATCGGGCAGCTTTAATTGCAGAGGGGAGGGCAAGAGAA
GGGGGGGGGGGGGATTCATTACGGTCTCACCTTCCATGAAAAAAGGTAAAACGCTGCTTTTGATAAGGTAAAAAA-GAGT
GGAAGAGACGAATTGTCTAGTGGAGGCCCATGTGGTAAACTTTAATTAACCCCATGCACATGGCCACCCTCTTGTTAAAC
ACAACCCAACCCTGCCTTACTTGTTGCCATCCTATAGAACCATGGATGGACCACGCCTTAAATATTTCTGTCAAGCAGCA
CTTAACAACTCTCTGACCATGATGCCAAGCCAACAGTTACCTCTTAATAACTTAACCTACAGCTTCACAAAAGGACATGG
GGTGTGCACTGCAGCACTGGTAACAGTTCACCAGAAAGTTTCAGTTTTCTAAGCATTA----ACTGTTGCAATTACCTTT
ACGTCCATCAGTCTCAGATTAAATATTTGCGGCATACGCGTCCTACATGGTGAGCCCTACTCCTCCTCCCTCTCTGGTCT
C-CTTTTCCTCTTTGTGTCAATTCACAAATCCATTTGGTAGACAAGCACACAACCTTTGCTTTCCCTGTGCAGGTTTGTT
ATTGTAAAGGAAGCAGCAGCAATTCCTTGTTCCATGCTGTGCCTCATCATGGCTTCTTTCTTCTTTAGCATCGCTGCATC
ATTTGGGCCACTAAAGCTCTTCCTGCCCTTGTGATTGTGAGCAAGTTCTTGATGCTTCCCAGATCCCAAATGGCCATACA
ACTCACGCTTCTACTCATTTCGTGTAGCCTTTACAGTATGTATTCCTCTTCTTCTTTCTCCACGTCCTCCTCTCTTGCAT
TGCTGGTGCTGGTTATCTCCACCTGCCTCTCCTTGCTCTTCTCGAACCTCAGACAACTGATGAGAACCAGCAGCCACAAA
ACTTCCATGGAGGTGGTTGCTCATCAGGAGAAGAGCACTGTGCCACAAGATGAGGTGTCCGAGGATGCGCCGGTGGATTC
GGCTGGAAGCCTGTCAGGGTCGTCAGATTGCCAGGTGAGTGAAGAGTGGACTGATGAAGTCTCGGTGTCTG---ACGACG
ACGACGAGAGTCTTATTGAGATCTCCCTTGTTGATGGGTACTATGTGGGGCAAGAGGAGCAATGCCTCTGGAAGAAGGAG
CAAGACCTCCTCGTTGACTTCCTGCCGGAGTTCGTTCTCGACAGGAGGGACTTCATAGACATCTTGCCGGAGATCGGTGA
GGAGGAAAACATGATCGAGATTGACATTGCAAGGGGCTCCATCAAGTGCGCAAACTTCAGCGTCAAAGCATGAGCTTTGC
AGAGGTTTGGTGAAGTTAAAATCATTGTATGAATTGCTCCGGAGCTTTCGTCGGGGCAAGGGAGTAGTAGTAGGTTGTAC
TACTGGACTACATGTGGTTTATTGCCTTGCC--TTTTTTTCACAAAGAGCTCAGTTTTCATTAGTGATTCTTCAGTGGAA
GCCTT-GCTGCATCTCTTTTCTTGTGCTTTCTGAATGTTACTAGAGAAGAAATAAAGCGCGTGCACATATTTTGCTCGAA
GATATTTAAGGAAATAATATGCGTGTGCATGGCCCTTCTTTTCATACCTAGTGTTTTAGACTTGAGTAGATTCTAATAAT
TATGTTAGGGCTAGCAT---------------------------------------------------------------
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-------------------------------------------------------------TATCAATCTCAAGGTGGGG
TATACTTAAGTTACTTTATACAGGTTAGTGCACTA-TACAGGACCTCATTGCAATTAAAAAACTGAACATGAATTGTAAG
CTACTTGATGTGGTTTTAGAAATTAAGCTCAACCTTTTGTCATTCTGAATCAAAAACTC---------------------
---GGCACATGGTTCAACAGTCTAGAATAATCGGTCTTTTAGTTTGTGCAGCTGGATGCTTTTAGCGGCTGATGTTTGAT
TTGGAAAAAGGCTCTGAGATCATCATGATTTGCACCTCTATTAGTAGCT------TCTAGTGCTGTTCATAACAAATGTA
GTTTTGGGGATCCCTTGTTTATTGGAAGATACTGAGAAGATAGAGGAAAACATTTTAGCGTACTACTGTTTTTGGGGTTT
AGGTAGCTGAACAAAAGATACACGGGAATGCTTATTTTAACTCCACTTTGGATTC-TTTCTCCTTGTTTTAAGTACAAAA
ATCGAAGATAATGAATGTGAACATTTTTTTATCTGACATGCTGACACTTGACACTTGAGATAAGTGTGCACATGCCTCCA
TTCACTGCTGGAAACAGGCAATTTCATGATTAACTAGCGGCTAACGCTCACCTTGCCGCGCCGTTTTTCACATATGATAC
TCCCTCCGTTCCAAAATCTAATGCGCATAATG
>chr1A_1
TGGACAACATAGTATACCATTTATTTTCCAACAGCTGTGATTCTGAG-----ATCTTGTGCCGCCAAATGACTACTGAAA
ACACTTGAACTATTAGAGAATAGAAGGATACCAAAACTTTCAACATGTTTGCGTTGATGATTGCCGGTGCCGAGATTATT
AGTGCATCCAGCTCTGTCAGCCAGTTTTATGTGATAATCAGTAAACACAAAGCAGCAAGTTACTGTATTTACTTCAGTAC
ATAATTTTGTGACGAAAAGGAGGGCTGGAGCAAGTCATGAACATCGGGCAGCTTTAATTGCAGATGGGAGGGCAAGAGAA
A----GGGGGGGAATTCATTACGGTCTCACCTTCCATGAAAAAAGGTAAAACGCTGCTTTTGATAAGGTAAAAAAAGAGT
GGAAGAGACGAATTGTCTAGTGGAGGCCCATGTGGTAAACTTTAATTAACCCCATGCACATGGCCACCCTCTTGTTTCAC
GCAACCCAACCCTGCTTTACTTGTTGCCATCCTATAGAACCATGGATGGACCACGCCTTAAATATTTCTGTCAAGCAGCG
CTTAACAACTCTCTGACCATGATGCCAAGCCAACAGTTACCTC-TAATGACTTAACCTACAGCTTCACAAGAGGACATGG
GGTGTGCACTGCAGCACCGGTAACAGTTCACCAGAAAGTTTCAGTTTTCTAAGCATTAATTAACTGTTGCAGTTACCTTT
ACGTCCATCAGTTTCAGATTAAATATTTGCGGCATACGCGTTCTACATGGTGAGCCCTACTCCTCCTCCCTCTCTGGCCT
C-CTTTTCCTCTTTGTGTCAATTCACAAATCCATTTGATAGACAAGCACACAACCTTTGCTTTCCCTGTGCAGGTTTGTT
ATTGAAAAGGAAGCAGCAGCAATTCCTTGTTCCATGCTGTGCCTCATCATGGCTTCTTTCTTCTTTAGCATCGCTGCATC
ATTTGGGCCACTAAAGCCCTTCTTGCCCTTGTGATTGTGAGCAAGTTCTTGATGCTTCCCAGATCCCAAATGGCCATACA
ACTCACGCTTCTACTCATTTCGTGTAGCCTTTACAGTATGTATTCCTCTTCTTCTTTCTCCACGTCCTCCTCTCTTGCAT
TGCTGGTGCTGGTTATCTCCACCTGCCTCTCCTTGCTCTTCTCAAACCTCAGACAACTGGTGAGAACCAGCAGCCACAAA
GCTTCCATGGAGGTGGTTGCTCATCAGGAGAAGAGCACTGTGCCACAAGATGAGGTGTCCGAGGATGCGCTGGAGGATTC
GGCTGGAAGCCTGTCGGGGTCTTCAGATTGCCAGGTCAGCGAAGAGGGGACTGATGAAGTCTCGGTGTCTGATGACGACG
ACGATGAGAGTCTTATTGAGATCTCCCTTGTTGATGGGTACTATGTGGGGCAAGAGGAGCAATGTCTCTGGAAGAAGGAG
CAAGACCTCCTCGCCGACTTCCTGCCGGAGTTCGCTCTTGACAGGAGGGACTTCATAGACATCTTGTCGGAGATCAGTGA
GGAGGAAAACATGATTGAGATTGACATTGCAAGGGGCTCCATCAAGTGCGCAAACTTCAGCATCAAAGCATGAGCTTTGC
AGAGGTTTGGT---------------CTATGAATTGCTCCGGAGCTTTCGTCAGGGCAAGGGAGTAGTAGTAGGTTGTAC
TACTGGAATACATGTGGTTTATTGCCTTGCC--TTTTTTTCACAAAGAGCTCAGTTTTCATTAGTGATTCTTCAGTGGAA
GCCTT-GCTGCATCTCTTTTCTTGTGCTTTCTGAATGTTACTAGAGAAGGAATAAAGCGCGTGCACATATTTGGCTCGAA
GAGATTTAAGGAAATCATATGTGTTTGCTTGGCCCTTCTTTTCATACCTAGTGTTTTAGACTTGAGTAGATGCTAATAGT
TATGTCAGGGCTAGCTATATCAATCTCAAGGTGGGGTATACTTAAGTTACTTTATACAGGTTAGTGCACTAATACAGAAC
TGCATTGCAATTAAAAAACTGAATATGATTTGTAAGCTACTTGATGTGGTTTTAGAAATTAAGCTCAACCTTTTGTCATT
CTCAATGAAAAACTGGACATTCATCCAATCAAAGGTAGCGGCATATGGTTCAACAATGTAGAATAATCGGTCTTTTAGTT
TGTGCAGCTGGGTGCTTTTAGCGCTGATGTTTGATATGGAAAAAGGTTATGAGATCTTAATGATTTGCACAGTAGCTTCT
AGTGCTGTCCATAACAAATGTAGTTTTGGGGATCCCTTGTTTATTGGAAGATACTGATAAGATATAGGAAAACATTTCAG
CGTACTACTGTTTTAGAGGTTTAGGGCATGTACAATGGTTGATAAGATAGTCTTATTTTAAGTTTTGCATGTAATTTAGA
GACGACAAAGAAAAATGTCTACAATGGATCATCTCTTAGCCTTATCTTCAATAACTAGCAATTCCTAAAAATGTGGTGAG
ACATATTGTGCTAAGAGATCATCTCTTGTCTTATCTTAAATAAGAGAAGACAAGCCTTCTCTTATGAGTTCTCTCTCCTC
CCCCTCATCATTTATCCTACGTGGCACCCCTAAGATAGCACCATTGTACATGCCCTTAGGTAGCTGAACAAAAGATACAC
AGGAATGCTTGTTTTAACTCCACCTTGGATTCTTTCTCCTTGTTTTAAGTACAAAAATTGAAGATAATGAGTGTGAGCAT
TTGTAATCTGACATGCTGACACTTGACACATGCACATGCCTCCATTCACTGTTGGAAATAGGCAAAAAAAAGCGGGAAAC
AGGGAGGTTTACTATTGTAAGATAATGTCTTTACAATCAAAATTGAGCAACTCAGCAACAAACAAAGGGGCCTCTAGGAG
CCAAACATTGGCCGTTACACCCCTCCTAGCAGCTTGAGCAGGTTCATGAGCTACTCTGTTGCCTCCCCTGTTCACAAAAC
TGCACCGAAATTCAGGAAGCTCTGCCACAACATCTCTAATACCTTCCAATTGTGGCTGCCCAATCCATCAATCAGAACTT
CACAGTCTGACTCCAGGATTGTTCACAAAACAAACAGATTGTGTAACTGATGCCTCCCCCTTGCCCTGGACTCCATCATT
CCTCAAATGCCATGAGCGCCAAAAAAGGACATTTGCTCGGTTATCAACATTTACTGAATTTAAGAGCACCTGGAGCCAAA
AGAGGGCCCGAATACCTGAACTCCTCTGTGGGCAATTCCCACGCCTCCCTGATTGCTGCTCAGGAGGGGTGTATTTTTTG
TTCAGTTACCTAAACCTCTAAAATAGTAGTGATTCTTCTGTGGAAGCCTTGCTGCATGTCTTTTCTTGTGCTTTCTGAAT
GTTGCTATAGAAGAAATAAAGTGCATGCACATATTTTGCTCGAAGATATTTAAGGAAATAATATGTGTGTGCATGGCCCT
TCTTTACATACCTAGTGTTTTATACTTGAGTAGATGCTAATAATTATGTCAGGGCTAGCTATATCAATCTCAAGGTGGGG
TATACTTAAGTTACTTTA--CAGGTTAGTGCACTAATACAGAACTTCATTGCAATTAAAAAACTGAGTACGGTTTGTAAG
CTACTTGATGTGGTTTTAGAAATTAAGCTCAACCTTTTGTCATTCTGAATCAAAAGCTCGGCATTTATCCAATGAAAGGT
AGTGGCATATGGTTCAACAATCTAGAATAATCGGTCTTTTAGTTTGTGCAGCTGGGTGCTTTTAGCGGCTGATGTTTGAT
TTGGAAAAATGCTACGAGATCTTCATGATTTGCACCTCTATTAGTAGCT------TCCTGTGTTGTCCATAACAAATGTA
GTTTTGAGGATCCTTTGTTTTCTGGAAGATACTGAGAAGATATAGGAGAACATTTGAGTGTACTATTGTAACTGATGTTT
AGGTAACTGAACGAAAAATACACAGGAATGCTTATTTTAACTCCCCTTTGGATTC-TTTCTCCTTGTTTTAAGTACAAAA
ATCGAAGATAATGAGTGTGAACATTTGTA-ATCTGACATGCTGACACTTGGCACTT---ATAAGTGTGCACATGCCTCCA
TTCACTGTTGGAAATAGGCAATTTCATGATTAACTAGCGGCTAACGCTCGCCTT--------------------------
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>chr1D_2
-GGACAACATAGGATACCATTTATTTTTCAACAGCTGTGATTCTGAGATCTCATCTTGTGCCGCGAAATGACTACTGAAA
ACACTTGAACTATTAGAGAATAGAAGGATACCAAAACTT-CAACATGTTTATGTTGACGACTGACGGTGCCGGGATTATT
AGTGCATCCAGCTCTGTCAGCCAGTTTTAG----TAATCAGTAAACACAAAGCAGCAAGTTGCTGTATTTATCGTAGTAC
ATAATTTTGTGACGAAAAGGAGGATTGGAGCAAATCATGAACGTCGGTCAGCTTTAACTGCAGGGGGGAGGGCAAGAGAA
A----GGGGGGGAATTCATTACGGTCTCACCTTCCATGAAAAAAGGTAGAACGCTGCTTTTGATAAGGT-AAAAAAGAGT
GGAAGAGACGAATTGTCTAGTGGAGGCCCATGTGGTAAACTTTAATTAACCTCATGCACATGGCCATCTTCTTGTTTCAC
ACAACCCAACCCTGCCTTGCATGTTGTCATCCTATGGAACCATGGATGGACCACGCCTTAAATATTTCTGTCAAGCAGCA
CTTAACAACTCTCTGACCATGATGCCAAGCCAACAGTTACCTCTTAATAACTTAACCTACAGCTTCACAAAAGGACATGG
GGTGTGCACTGCAGCACTGGTAACAGTTCACCAGAAAGTTTCAGTTTTCTAAGCATTAATTAACTGTTGCAGTTACCTTT
ACGTCCATCAGTTTCAGATTAAATATTTGCGGCATACGCGTCCTAGATGGTGAGCCCTACTCCTCCTCCCTCTCTGGTCT
CTCTTTTCCTCTTTGTGTCAATTCACAAATCCATTTGATAGACAAGCACACAACCTTTGCTTTCCCTGTGCAGGTTTGTT
ATTGTAAAGGAAGCAGCAGCAATTCCTTGTTCCATGCTGTGCCTCATCATGGCTTCTTTCTTCTTTAGCATCGCTGCATC
ATTTGGGCCACTAAAGCCCTTCTTGCCCTTGTGATTGTGAGCAAGTTCTTGATGCTTCCCAGATCCCAAATGGCCATACA
ACTCACACTTCTACTCATTTCGTGTAGCCTTTACAGTATGTATTCCTCTTCTTCTTTCTCCACGTCCTCCTCTCTTGCGT
TGCTGGTGCTGGTTATCTCCACCTGCCTCTCCTTGCTCTTCTCGAACCTCAGACAACTGATGAAAACCAGCAGCCACAAA
ACTTCCATGGAGGTTGTTGCTCATCAGGAGAAGAGCACTGTGCCACAAGATGGGGTGTCCGAGGATTCGCCGGTGGATTC
GGCTGGAAGCCTGTCGGGGTCTTCAGATTGCCAGGTGAGCGAAGAGGGGACTGATGAAGTCTCGGTGTCTGATGATGACG
ACGACGAGAGTCTTATTGAGATCTCCCTTGTTGATGGGTACTATGTGGGGCAAGAGGAGCAATGTCTCTGGAAGAAGGAG
CAAGACCTCCTCGCCGGCTTCCTGCCGGAGTTCGTTCTTGACAGGAGGGACTTCATAGACATCTTGTCGGAGATCAGTGA
GGAGGAAAACATGATCGAGATTGACATTGCAAGGGGCTCCATCAAGTGCGCAAACTTCGGCGTCAAAGCATGAGCTTTGC
AGAGGTTTGGTGAAGTTAAAATCATTCTATGAATTGCTCCTGGGCTTTCGTCAGGGCAAGGGAGTAGTAGTAGGTTGTAC
T---GGACTACATGTGGTTTATTGCCTTGCCTTTTTTTTTCACAAAGAGCTCAGT-TTCATTAGTGATTCTTCAGTGGAA
GCCTTTGCTGCATCTCTTTCCTTGTACTTTCTGAATGTTGCTATAGAAGAAATAAAGCGCGTGCACATATTTTGCTCGAA
TATATTTAAGGAAATAACATGTGTGTGGATGGCCCTTCTTTTCATACCTAGTGTTTTAGACTTGAGTAGATGCTAATAAT
TATGTCAGGGCTAGCTATATCAAGCTCAAGGTGGGGTATACTTAAGTTACTTTATGA---TTAGTGCACTAATACAAAGC
TGCATTGCAATTAAAAAACTGAATATGATTTGTTAGCTACTTGATGTGGTTTTT--------------------------
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------------------GAAATTAAGCTCAACCTTTTGTCATTCTGAATAAAAAACTCAAAGAAAAA----------GT
AGTGGCATATGGTTCAACAATCTAGAATAATCGGTCTTTTAGTTTGTGCTGCTGGGTGCTTTAAGCGGCTGATGTTTGAT
TTGGAAAAAGGCTATAAGATCTTCATGATTTGCACCTCTATTACTGTAGTAGCCCTCTAGTGCTGTCCATAACAAATGTA
GATTTGGGGATCCTTTGTTTATTGGAAGATACTGAGAAGATATAGGAAAACATTTTAGCGTACTACTGTTTTTGTGTTTT
AGGTAACTGAACAAAAGATACACATGAATGCTTATTTTAACTCCACTTTGGATCTTTTTCTCCCTGTTTTAAGTACAAAA
ATCAAAGATATTGAGTGTGAACATTTGTA-ATCTGACATGCTGACACTTGACACTTCAGATAAGTGTGCACATGCATCCA
TTCACTGTTGGAAATAGGCAATTTCATGATTAACTAGCGGCTAACGCTCGCCT---------------------------
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>SNPs
----------------------S------------S---------------S-------S--------------------
-S------------------------------------------------------------------------------
---------------------S-S--------------------------------------------------------
-----------------S--------------------------------------------------------------
SSSSS-------S-------------------------------------------------------------------
----------------------------------------------------------------------------SS--
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-----------------------------------------------------------------------S--------
------------S-------------------------------------------------------------------
-------------------------------------S------------------------------------------
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-----------------S----S---------------------------------------------------------
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---------------S-----S-----------------S------S---------------------------------
----------------------------------------------------------------S---------------
-------------SS-----------------------S---------------------------S--------S----
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--------------------------S-------------------------S---------------------------
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---------------------S-------------------------------------------------S--------
-----S---------SS---------------------------------------------------------------
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------------------SS---------------------S--S---------------------SS-S-SS-------
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-------S-----------S-----------------------------------S------------------------
-------------S-------S--------------------------------------------S-------------
-------------S----------------------------S-------------------------------S-----
-----S-----------------S--------------------------------------------------------
--------------S-----------S-SS--------------------------S-----------------------
-------S------S----------------------------------S----SSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_983
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---TGGGCCACTAAAGCTCTTCC---------------------------------------------------------
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>reverse_4136
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-------------------------------------------------------CCGCGCCGTTTTTCACATAT-----
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