>input_sequence_80481
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---ATGGGTCGCGTCCGCACCAAGACCGTGAAGAAGACCTCCCGCCAGGTCATCGAGAAGTACTACTCTCGGATGACCCT
CGACTTCCACACCAACAAGAAGGTGCTAGAGGAGGTCTCCATCCTCCAGTCGAAGCGCCTCCGCAACAAGGTGGCCGGCT
TCACCACCCATCTGATGCGCCGCATCCAGCGCGGCCCCGTGCGCGGCATCTCCCTCAAGCTGCAGGAGGAGGAGCGTGAG
CGCCGCATGGACTTCGTGCCGGAGAAGTCGGCGCTCGAGGTCGACGAGATCCGCGTCGACAAGGAGACCATGGACATGCT
GGCGTTCCTCGGCATGGCTGACCTCCCCGGCGTCGAGCGCGCCCCCGAAACCACCTCTGCCGCCGCCCCCTACCGCCAGC
CCTTCAACGGACCCCGCGGTGGCAACCGCGCCTAG---------------------------------------------
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>chr1D_1_TraesCS1D01G156400
AGGTTCAAATTTTTGAAAAGGTTCATCAATTCAACTTTTGATATAAATTTGATATTTTTCACAAATTTGGAAAAGGTCCT
TAAATTTAAGAACAGTTCGGGGATTCAGAAATAATCGTGGATTTAAAAAATGTT-TGAATTTTTAAAAAGTTTTCATATT
TTAAAAAATATCACTGAATTTCAAAAA--TACA-AAGTTTGGAAAATAAACAAATAAATATATAC---------------
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----TATATAAAAA-ATTGAAGGAAAAAGAGA------------------------------------------------
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----------------------------------------------------AAACCAAAAAACCTGAGAAAAACTCGTT
CCCAAACAAACCTAAAGAAACAAACCCCAAAATTTTGGTGGGGTCCTAGAAGGTTCCAAAAACCGGTGCAAGGAGAGATG
CTACTATGGGCCGACACACTTAAAAACCTAGTGAAGGGACGTGGACGCCCTGTGCAAAGTAAACAGTGCTACATGCACCG
AATAGGAAATGCATTTGCAGCCCT-AGGTAAGGGGAAATAAGAAG---TGTTGATAAGACATAGCTTGATATGATTTCAA
CTCGAGAAACAAACTGATCTTGAGCCAACACTGGCTCGCTCAATTTTCACTCTATATATAATATAATAATTAT-------
--------------------------AATAGATTTT---------------------------TCACTATAAGTTTGCTG
AGC------TCGTTTACAGCCAAGGGGATTTTTTTTGAGTAATCATCCCAAGGGGAAATAAGAAGTGCTGATTAGACATG
GCCTGATACGATTCCAGTCCAGTTCTAT-----TGCTAATGGGCCTAAATCAACCTAAATGAGTACAGAAGAGAGCTTCC
GAACAATGCGAAGCCCAACTAAGGCAATCACGATCTTGTGCGCCCATCGCAACACGAACGGCTGGCATCCGTCCTCCACG
CCGAAACCCTAGCTACCCACGCGGCCGGTACCCATTATAAGAAGTTCCTCCCCTCCCGACGCCCCCAAACCCTACCCCTC
CAGCCCTCGCGCCGCCGCAC----CACCAACCAGCGCCGTCGCCGCCGCCGCCGCCGGAGAAGGAGAGGGAGCAGCCGCA
GCCATGGGTCGCGTCCGCACCAAGACCGTGAAGAAGACCTCCCGCCAGGTCATCGAGAAGTACTACTCTCGGATGACCCT
CGACTTCCACACCAACAAGAAGGTGCTAGAGGAGGTCTCCATCCTCCAGTCGAAGCGCCTCCGCAACAAGGTGGCCGGCT
TCACCACCCATCTGATGCGCCGCATCCAGCGCGGCCCCGTGCGCGGCATCTCCCTCAAGCTGCAGGAGGAGGAGCGTGAG
CGCCGCATGGACTTCGTGCCGGAGAAGTCGGCGCTCGAGGTCGACGAGATCCGCGTCGACAAGGAGACCATGGACATGCT
GGCGTTCCTCGGCATGGCTGACCTCCCCGGCGTCGAGCGCGCCCCCGAAACCACCTCTGCCGCCGCCCCCTACCGCCAGC
CCTTCAACGGACCCCGCGGTGGCAACCGCGCCTAGGTTCCTCCGCATCGTCATCGTACCCCTATATTATGCTTTATGTCT
T------TTAGATCTGTTACTTGTGGCAAGTAATGTTTTGAACTCAAGGCTTAAGTTCGAGGTGTTTTGATCTGCGTATG
GTGGACATGATCTGTTTATCTCACCGTTTATCTGAAGTGATTCGATATATTACTGTTGATCTTTGAAGTTTATGCTCGTT
GCTCGATGATCGATTGATTTATGAGCTATCTACCTATTGTTAATTATATATATGTAAT--CACTGTCATGTTCGTCCAAC
ACTTTCCAACGAATTGGTCTATGCAGGCCGATGATGCTGTCATAACATAGCAATAACGTTCAGTAGTGGTACA-------
-------------------------TGTCTTCTAGGTTTGTGATA-GGTTTAGTGCGTTGTACAATTGTTCCTATTGCTG
TTTAGTGCTGCTATATAAAACCGTTGATTATTGCTT---TTCTGAT-AAACACATATTTTGGTGTTTAAAGCAATTATGC
TATGATAGTGTCTTTCAATTTAGGTAGGTTTACAGGATTGAACTAGATATGAGTTTCTTTGAACTGGCTTTTGGAAATT-
-------GGAACCAGTCCTGCACTGTGAGTATAGTTCCGCCCTGCAGT-CAATTAGAGTGTAGCTCGTAGGCCAGGCTGG
GCGTTCGTAGGTC------------------TTCTGCTGTTTATTTGGTTGTGTTCATGTGAAAATCTTGTTTTCTTGTT
CAACTCCTTAGCAAAATCCGCATTAATGACAGTGGGTTTGCTTTGTTACATTGCACTCTTGCTTGTTTCCCATCCCTGAA
A----TATCTGCAGTGCATTGAGTAGAAACCGGTGATGTTGGTACTGAACTTTTGTGGTGTTTCTCCTCCCTGATTCAAG
GGGATGCAAAAAGATAGTTGAATATCTGAATAGTTACGGTATGATACACTTTGTTGGTTGTCTGCACGGTTTGCCTGCTC
CTTCTGCCGGGCCGCACTCCCGCCCGCCTGTTTATGCACTGTTGGTATGTATGTTGCTTGTACAATTTTTC
>chr1A_1
AGGTTCAAAATTTTGAAAAAGTTAATCAATTCAACTTTTGATGTAAATTTGAT-TTTTTCACAGATTTGGAAAAAGTCCT
TGAATTTAAGAAAAGTTCAGGGATTCAAAAATAATTGCGGATTAAAAAAAGTTCATGAATTTTTGAAAAGTTTACATA-T
TTAAAAAATATTACTGAATTTTAAAAAAATACA-AAGTTTGGAAAATAAACAAATAAATATATAA---------------
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----TATATAGAAAGATTGAACGAAAAAGAGA------------------------------------------------
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----------------------------------------------------AAACCAAAAAACCCGAGAAAAACCCATT
CCCAAACAAACCTAAAGAAACAAACCCTAAAATTTTGGTGGGATCCTAGAAGGTTCCCAAAATAGGTTTAAGGAGAGATG
G-------------CACACTTAAAAACCTAGTGAAGGGACGTGGACACCCTGTACAAAGTAAACAGTGCTACATGTGCCG
AATAGGAAATGCATTTGCAGCCCT-AGGTAAGGG-AAATAAGAAG---TGTTGACAAGACAGAGCCTGATACGATTTTAA
CTC-AGAAACAAACTGATCTTGAGCCAACACTGGCTCGCTCAAATTTAAACCG--ATATAATATAATTATTATAATATTA
AATAATTATGATATATATTATAGGAAAATAGAATTTTAAGTATAAGTTTGCCTTTTTGTAGTCTTAGTATAAATTTGCTG
AGCCTAGTCTCGTTTGCAGCCCTAGGG----------------------AAAGGGAGATAAGAAGTGTTGATTAGACATG
GCCTGATACGATTCCAGTCCAGTTCTATTCTAAT-CTAATGGGCCTAAATCAACCTAAATGAGTACAGAAGAGAGCTTCC
GAACAATGCGAAGCCCAACAAAGGCAATCACGATCTTGTGCGCCCATCGCAACACGAACGGCTGGCATCCGTCCTCCACG
CCGAAACCCTAGCTACCCACGCGGCCGGTACCCATTATAAGAAGTTCCTCCCCTCCCGTCGCCCCCAAACCCTACTCCTC
CTGCCCTCGCGCCGCCGCACCCCGCACCAACCAGCGCCCA-------GCCGCCGCCGGAGAAGGAGACGGAGCAGCCGCA
GCCATGGGTCGCGTCCGCACCAAGACCGTGAAGAAGACCTCCCGCCAGGTCATCGAGAAGTACTACTCTCGGATGACCCT
CGACTTCCACACCAACAAGAAGGTGCTCGAGGAGGTCTCCATCCTCCAGTCGAAGCGCCTCCGCAACAAGGTGGCCGGCT
TCACCACCCATCTGATGCGCCGCATCCAGCGCGGCCCCGTGCGCGGCATCTCCCTCAAGCTGCAGGAGGAGGAGCGTGAG
CGCCGCATGGACTTCGTGCCGGAGAAGTCGGCGCTCGAGGTCGACGAGATCCGCGTCGACAAGGAGACCATGGACATGCT
GGCGTTCCTCGGCATGGCCGACCTCCCCGGCGTTGAGCGCGCCCCCGAGGCCACCTCTGCCGCTGCGCCCTACCGCCAGC
CCTTCAACGGACCCCGCGGTGGCAATCGCGCCTAGGTTCCTCCGCATCGTCGTCGTCGTACCCCTATCATCTTTACATGT
TTTATTATTAGATCTGTTACTTGTGGCAAGTGATGTTTTGAACTCAGAGCTTAAGTTCGAGGTATTTTGATCTGCGTATG
GTGAACATGATCTGTTTATCTCATCGTTTATCTGAAGTGATTCGATATATTACTGCTGAGCTTTGAAGTTTATGCTCGTT
ACTCGATGATTGATTGATTTATGAGCTATCTATCTATTGTTAAT--TATATATGTATT--TACTGTCATGATCTTCCAAC
ACTTGCAA-----------TATGTAGGCCGATGTT-CTGTCCTAACATACCAATAACGTTCAGTAGTGGTACA-------
-------------------------TGCCTTCTAGGTTTGTGATG-GGTTTAGTGCGTTGTACAATTGTT-----TTCTG
ATTAGTGCTGCTATATAAAACTATCGATTGTTGCTTTTGTTCTCAT-AAGCACATATTTTGGTTTG--------TTATGC
TGTGATAGTGTCTTTCAATTTAGGTAAGTTTACATGATTGAATTAGTTATGAGTTTCTTTTAACTGGCTTTAGGAAATAG
TGTCCAAGGAACGACTCCTGCACTGGGAGTATAGTTCTGCCCTGCAATGCAAACAGAGGATGGCTTGTAGGTCAGGCTGG
TATTTGGTTTAACCGAACGAGGTGTAGGGCTTTCTGCTGTTTATTTGGTTGTGGTCATGTGCATAT----TTTTCTTGTT
CGACTCCTTAGCAAAATCCCCATTGAAC-----GGGTTTGCTTTGTTACATTGTGCTCTTGCTGGTTTCCCGTTGCTGAA
ACTACTATCTGCTGTGCATTGACTAGAAACCGCTGATGTTGATACTAAACTGTTGTGGTGTTTCT---------------
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>chr1B_7
-------AAATTTTGAAAAGGTTCATCAATTCAACTTTTTTGTAAAAAAAGGTTTTTTAATT---TTTTGGCAAAGTCCA
CTAAATTAAGAAAAGTATGTGAATTT-------------GAAAAAAAAATGTTCATAGTTTTTTTAG-AGTTTACATA-T
TTAAAAAATGTTCTGAATTTTTAAGAAACCCCACAATTTTGGAAAATACATAAGTATATATATAGGGAAAATCCATCCTA
CCACCCGGTGGTAGTTACCCCATATGTCTCATATACTACCATTTGGTACTATATATACTACTTTATCATTTTAAATATAT
TCGTATATTATATCTAAGATATTTCAAAGCAAATTACATGAAAAAATTGCATATGAGCCCATAGTTTTTATTATATTTCT
GAAATACGTACATA-TTTGTACGTAAAAAAGAGCAGAGTCAAAAGATGGTATATACTACCTAAAAATTAGTATATATACT
ACCTAATCATTATTATATATTACATACTACACGTACATACTACATACAACATACAAAACACAAGTGATGGTAATTACCAC
TGCTTGTAGAAAACATTTATCTTATATATATATTTAAACAAGCAAAAAAGTAAAACCAAAAAACCCGAGGAAAACTCGGT
TCCAAACAAACCGAAAGAAATTAACCCCCAAAATTTGGTGGGATCCTAGAAGATTCCCAAACTGCC--CAAGGCGAGATG
CCAGTATGGGCTGACACACTTGTAGG-------------------CGCCCTGTACAAAGTAAACAATGCTACATGCACCG
AATAGGAAATGTATTTGCAGCCCTTAGGTAGGGGGAAATAAGAAATTTTGTTGGTAAGACAAGGCCTGATACGATTTCAG
CTCGAGAAACGAATTGATCTTGAGCCAACACTGGCTCACTCAATTATAACCTG--ATATAATATAATTAT------ATTA
AATAATTATGATATGTATTGTACGAAAATAGAATTT---------------------------TTAGTATAAGTTTGCTG
AGCCT-----------CAGCCCTAGGG----------------------AAAGGGAAATAAGTAGTGTTGATTA------
---------GATTCCAGTCCAGTTCTAT-----T-CTAATGGGCCTAAATCAACCTAAATGAGTACAGAAGGGAGCTTCC
GAACAATGCGAAGCCCAACTAAGGCAATCTCGATCTCGTGCGCCCATCGCAATACGAACGGCTGGCATCCGTCCTCCACG
CCGAAACCCTAGCTACCCACGCGGCCGGGTACCATTATAAGAAGTTCCTCGCCTCCCGTCGCCCCCAAACC------CTC
CAGCCCTGCCGCCGCCGCCCCCTGCACCAACCAGCGCCCT-GCCGCCGCCGCCGCCGGAGAAGGAGAGGGAGCAGCCGCA
GCCATGGGTCGCGTCCGCACCAAGACCGTGAAGAAGACCTCCCGCCAGGTCATCGAGAAGTACTATTCTCGGATGACCCT
CGACTTCCACACCAACAAGAAGGTGCTCGAGGAGGTCTCCATCCTCCAGTCGAAGCGCCTCCGCAACAAGGTGGCCGGCT
TCACCACCCATCTGATGCGCCGCATCCAGCGCGGCCCCGTGCGCGGCATCTCCCTCAAGCTGCAGGAGGAGGAGCGTGAG
CGCCGCATGGACTTCGTGCCGGAGAAGTCGGCGCTCGAGGTCGACGAGATCCGCGTCGACAAGGAGACCATGGACATGCT
GGCGTTCCTCGGCATGGCCGACCTCCCCGGCGTCGAGCGCGCCCCCGAAGTCACCTCCTCCGCCGCCCCCTACCGCCAGC
CGTTCAACGGGCCCCGTGGTGGCAACCGCGCCTAGGTTCCTCCGCATCGTCGTCGTACCCCTATATTATGCTTTATGTCA
T------TTAGATCTGTTACTTGTGGCAAGTAATGTTTTGAACTCAGAGCTTAAGTTCGAGGTGTTTTGATCTGCGTATG
GTGGACATGATCTGTTTATCTCACCGTTTATCTGAAGTGATTCGATATATTACTGTTTTTCTTTGAAGTTTATGCTCGTT
ACTAGATGATTGATTGATTTATGATCTATCTACATATTGTTAATTATATATATGTATATCCACTGTCATGTTCGTCCAAC
TCTTTGCAAGGAATTGGTCTATGTAAGCAGATGTT-CTGTC-----ATAGCAGTTACGTTCGGTAGTGGTACATGCTTCT
AGGTTTGTGATAGGTTTAGAGTGGGTGCCTTCTAGGTTTGTGATAAGGTTTAGTGCGTTGTACAATTGTTCCTATTTCTG
GTTAGTGCTGCTATATAAAACCGTCGATCATTGCTT---TTCTTATAAAACACATATTTTGGTGTTTAAA----------
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>SNPs
---------S--------------------------------S----------S---------S----------S-----
-S----------S--------------S-------S-S-----S------SS-S----------S--------S----S-
-----------S---------S------------------------------------------S---------------
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----------S----------S----------------------------------------------------------
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-----------------------------------------------------------------S--------------
------------------------------------------S--------------S----SS---S------------
-S-S-------S-----------------------------------------S--------------------------
-------------------------------------------------------------S---S-----S--------
-----------------------------------------------S--S-SSS------------S------------
--------------------------------S-------------------------------S-S-------------
---------------S-----SSS---SSSSSSSSSSSSSSSSSSSSSS--S---------------S------------
----------------------------------S---------------------------------------------
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----------------------------------------------------------S----------------S----
--------------------------------------S-S---------------------------------------
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---------------------------S----------------------------------------------------
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------------------S------------------------------S------------------------------
---------------------------------------------------S----------------------------
----------------------------------------------SS--------------------------------
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S---------S---------------------------------------------S-----------------------
---------S-------------S---------S-S-----S--------------------------------------
---------------------------S------------------------------------------------S---
S-----------------------S------------------S--------------------------SSSS------
-S------------------------S-------S-------S---S-------------S----------S------S-
------------S-S----------S-----------S--------S-----SS----SS-S---S-----S--------
SSS--S--SSSS-----------------------------------------S-------S-S--SSSS----------
-S-----------------S----S-SSSSSSS--------------------SS--------S-------S-SS-----
------------S---------S---------S--------S----S----S-------------SSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1068
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--------CTCGTTTACAGCCAAGGGGA----------------------------------------------------
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>reverse_2561
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GCGTTCGTAGGTCTTCTGCT------------------------------------------------------------
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