>input_sequence_84868
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--------------------------------------------------------ATGGCGCCATCCGCGCGAGTGTCG
CTGATGCTCGCCGTGGTGCTCGCGTGCGCGCTGCTCGCC------------------A---CCGGCGGCCTCGTGTGCAA
TCCGCTCCAGGACAAGACGTGCAAGCCGGGGGACCCCAAGGCGCCCGAGAACACGGAGGAGGGGGGCGGGTTCGGCGCGA
GGCTGTCATCGCCGC---------CCATTCCGGGCCACGGTATGATCGACGGAGACATC------------------GAC
GACGAGTTGCCGTCGTTCAGCACCCACAAGACCATCCTCGGCCACTGGGAGGATCCGGTGCTCGAAGTCTGA--------
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>chr3A_1_TraesCS3A01G021400
TTTTCTCTAATTGTGAAAAATTCTGGTTTTGGAGATACGCCCTTTAAATTGTGATGAAGGAAGTATGATACTCAAGCCTC
TCTTTCTTCATTTAATTCTATGTCACATCATCAAACTTGCTTAGTTGACATGTATGATACTACCTATGATACTCCCATTA
CGGGCAGCCTCAGGGGCGGCCGGCCGGCCTATCGGGACGATTCTGCTTTATTACTGCATACACCACGTTTTGTTTATTCA
GTAATTCTGTCGTGTTACGGTTAATCGTCGACCATAAGGGAGTACCAGTTTATTAGTCCTCCGTTTGAAGCTAATTACTC
CAGTATATATATAACAATAATTTTATTTTTACTATATTAAAGTTGCTAAGCTAGGAGCCCCCTCCTTTTTTGAATTTTTT
AGTGCTTCACGAAGTTGACACTCACACGTGACAGCAATGAAACAGTACCCCAAGAATGAATAGTACATCCACATCCGCCT
CTACCCGTCGCGTTGTCCATCGGCCCGCGGCAATCGCTGGATTTAGCTGCCATCACTCTCCCTCGCGCTTGGTCGGTCTG
CAGCAAACCCTTTGTTGCAGCCGAGCCAGATGAAAAAAGGTCCAAATTGAAAATTTTGAACTGGGTAGAGATTGCTCGTC
CACAGAGGGGGTCAAGACATGCAGAAAAATCAATTGGTTGAGCCATAGTCTTTCCGTTATTGTATAGAAATAGAAAGTTG
TGTTGGCGTCCTAGCATGCGAAGACACATCCATCGTCTATTTCAGGTATGTCGTTGATCAGCTCATGAACACCCGCTCCC
A----------------GCGTAACCATGGGGACGGTGCCCAGCCACACAAACCGAGCAGCCTCCGCAACCATCGCATCTC
TCGGCTAAATCCAGCATCCCATCGCCGCCTTTTAAAGCGCATGCCGCCGCGCCTCTCCTCCTGCTCACCAGACACGCACC
TGCATCTGTGCCGCCTCCACACACCACCCGCCGTGCATAGTAGAACCAACATGGCCATGGCGCCATCCGCGCGAGTGTCG
CTGATGCTCGCCGTGGTGCTCGCGTGCGCGCTGCTCGCC------------------A---CCGGCGGCCTCGTGTGCAA
TCCGCTCCAGGACAAGACGTGCAAGCCGGGGGACCCCAAGGCGCCCGAGAACACGGAGGAGGGGGGCGGGTTCGGCGCGA
GGCTGTCATCGCCGC---------CCATTCCGGGCCACGGTATGATCGACGGAGACATC------------------GAC
GACGAGTTGCCGTCGTTCAGCACCCACAAGACCATCCTCGGCCACTGGGAGGATCCGGTGCTCGAAGTCTGACATCTAAG
TGCATGCTTGTG---TCTTCTTGCATTCCCATTGCTTGTGTAGTTGTGTTGTTGTCCGGAAGAAAGAATGGGACAAAG--
------G--AAGAGATGAGAGAGTGAGCGTGTCACGATAATCGATCCACGCTAGCTGATGACTAAATTTGCCAGTTGTC-
------CCTGTTAATATCGTGGACATTCAGGAAGAAGCTATAGTTTCTAGTAATCGATTTGGCCTAGTTTTGGTCTTCCT
ATTGTTGGCCTTGTGATTTTTGGAGTGGGAGTTACCGACTCACTGTTTCGCCTTGGTCCTTCATTTCTTCAGTTTTATTT
TGTTTCCTTTTAGC-TTTTACTTGG-TTTTTCTTTTTTACTTTTTTATTCAACACATGTCTATGTTTTTTTCAAACACGT
AGCTTTTTGTATACATCAAGAACAAATTTTTGTATATGTTTAATATTTTTTGAATACGCGCTTAACGTTATTTTAGAATA
AATGTTTTGATGTCTACTCCTATTTTCAACACAAGTCTATATTTTCATACATATCGTACATTTCTTATATACGTCAAGAA
CATGTTTTTATACTTC-AAAAGGTTCAAGTGCATAAATAGAATGCTTGTTTACATATATGTATTGATGTATTTTCATACA
CATTATACAATTTCCGTAAACATAAGGAGCATTTTTTAAGGATATGACTAACATTTTTTAAGAACATGA--------TGT
TTTGATTTCTACCT-TTTTCATATATATTATACATTTTTCGTTTACATATGAAAAATATACACATTATTTAAGTATATGT
TTTGTTGTCTAATCTGTTTATACATATTTTGTATATACGTGAAACATTTTTATACATGTTTAGCTTTCTTTCTTCATATA
AATGATTAAAAAGTTTCAAACACATATTTTTTTTACATTTTCTGAATGCTATCGATATTTATTAATTGTAATAAACTTTT
AAAAATGTTATTGATATTTTTAAAAGTTATGCAATGATATTTTTAATGTACGTCAACATATTTT
>chr3D_640
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-------------------------------------------------------------------------------C
CACAAAGTGGGTCGAGACATGTAGAAAAATCAACCGGCCGAGTCATAGTCTTTCCGTTATTGTATAGAAATAGAAAGTTG
TGTTGGCATCCTAGCATGCGAAGACACATCCAGCGTCTATTTCAGGCTTGTCGTTGATCAGCTCCTGAACACCCGCTCCC
ATCGTCTATTTCAGGCAGCGTAACCGTGGGGACGGTGCCCAGCCACACAAACCGAGCAGCGTCCGCAACCATCGCACCTC
TCGGCTAAATCCAGCATCCCATCGCCGCCTTTTAAAGCGCATGCCGTCGCGCCTCTCCTCCTGCTCACCAGACACGTACC
TGCATTTCTGCCGCCTC--CACACCACCCGACGTGCATAGTACAACCACCATGGCCATGGCGCCATCCGCGCGCGTGTCG
CTGATGCTCGCCGTGGTGCTCGTGTGCGCGCTGCTCGCCGCCAGGCCTGCAGAGGCGA---CCGGCGGCTTGGTGTGCAA
TCCGCTCCAGGACAAGACGTGCAAGTCGGGGGACCCCAAGGCGTCTGAGAACACGGAGGAGGGGGGCGGGTTCGGCGCGA
AGCTGCCATCGCCGC---------CCGTTCCGGGCCACGGTATGATCGACGGAGACATC------------------GAC
GATGAGTTGCCGTCGTTCAGCACCCACAAGACCATCCTCGGTCACTGGGAGGATCCGGTGCTCGAAGTCTGACATCTACG
TGCATGGTTGTG---TCTTCTTGCATTCGCATTGCTTGTGTAGTTGTGTTGTTGTCCAGAAGAAAGAATGAGACAAAG--
------G--AAGAGATGAGAGAGTGAGCGTGCCACGATAAATG----------------------ATTTGCCACTTGTC-
------CCTGTTAATATCGTGGACGCTCAGGAAGAAGTTATAGATTCTAGTAATTGATATGGCCTAGTTTTGGTCTTCTT
ATTGTTGGCCTTGGGATTTTTGGAGTGGGAGGTACCGACTCACTGATTCGCCTTGGTCCTTCATTTCTTCAGTTTTATTT
TGTTTCTTTTTAGGTTTTTACTTGG-TTTTTC-TTTTTACTTTTTTATTCAACACATGTCTATGTTTTTT-CAAACACGT
AGTTTTTTGTATACATCAAGAACTAATTTTTGTATATGTTTAATATTTTTTTAATACGCGATTAACATTATTTTGGAATA
AATGTTTTGATGTCTACTTCTATTTTCAACACAAGTCTATATTTTCATACACATCGTACATTTATTATATACATCAAGAA
CATGTTTTTATACTTC-AAAAAATTCAAGTCCATAAATAGAATGTTTATTTAAATATATGTATTGACGTCTTTTCATACA
CATTATACAATTTCTGTAAACATAAGGAACATATTTTAAGGACATCACTAACATTTTTTAAGAACATGACTAATTTATGC
TTTGATTTCTACTT-TTTTCATATATATTATACATTTTTGGTTTACATATGAAAAAATATACACGTT-------------
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>chr3B_645
GAGGGGGAC-----------------------------------------------------------------------
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------------CGAGACATGCAGAAAAATCAACCGGCTAAGCCATAGTGTTTCCCTTATTTTATAGAAATAGAAAGTTG
TTTTGGCGTCCTAACATGCGTAGACACATCCAGCGTCTATTTCAGGTTTGTCGTTGATCAGCTCTTGAACAC--------
------------------CGTAACCGCGGGGACGGTGCCCAGCCACACAAACCGAGCAACGTCCGCAACCATCGCACCTC
ACGGCTAAATCCAGCATCCCATCGCCGCCTTTTAAAGCGCACGCCGCCGCGCCTCTCCTCCTGCTCACCGGACACGCACC
CGCATCTGTGCCGCCTC--CACACCACCCGCCGTGCATAGTACAACCAACACGGCCATGGCGCCATCCGCGCGCGTGTCG
CTGATGCTCGCCGTGGTGCTCGCGTGCGCGCTGCTCGCCGCCAGGCACGCAGACGCCGCCGCCGGCGGCCTCGCGTGCAA
TCCGCTCCAGGACAAGACGTGCAAGCCGGCGGACCCCAAGGCGCCCGAGAACACGGAGGAGGGCGGCGGGTTCGGCGCGA
GGCTGCCATCGCCGC---------CCATTCCGGGCCACGGTATGATCGACGGGGACATC------------------GAC
GATGAGTTGCCGTCGTTCAGCACCCACAAGACCATCCTCGGTCACTGGGAGGATCCGGTGCTCGAAGTCTGACATCTAAG
TGCATGGTTGTG---TCTTCTCGCATTCGCGTTGATAGTGTAGTTGTGATGTTGCCCAGAAGAAAATATGAGACAAAGGA
AGAGCCG--AAGAGATGAGAGAGTGAGCGT------------------------------------------------C-
------CCTGTTAATATCGTGGACGTTCGGGAAGAAGTTGTAGATTCTAGTAACCGATCTGGCCTAGTTTTGGTCTTCCT
AGTGTTGGCCTTGGGATTTTTGCAGTGGGAGGTACCGACTCACTGTTTCGCCTTGGTCCTTCATTTCTTCACTTTTATTT
ACTTTCTTTTTAGC-TTTTACTTGGTTTTTTCTTTTTTACTTTTTTATTCAACACATGTCTATGTTTTTT-CAAACGCGT
AGTTTTTTGTATACATCAAGAACAAATTTTTGTATATGTTTAATATTTTTTGAATACGTGGTTAACATTATTTTGGAATA
AATGTTTTGATCTCTACTTCTAATTTCAACACAAGTCTGTATTTTCATACACATCGTACATTTCTTATATACATCAAGAA
CATGTTTTTATACTTTGAAAAAATTCAACTGCATAAATAGAATGTTTGTTTAAATATATGTATTGACGTATTTTCATACA
CACTACACAATTTCTGTTAACAAAAGGAACATATTTTAAGGACATGATAAATC-TTTTTAAGAACGTGACTAATATATGC
TTTGATTTCTACTTTTTTTCATATATATTATACATTTTTGGTTTACATATGAAAAA------------------------
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>chr6A_1060
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-----------------------------------CGCC------------------C---CCGGCGGCTTCGCCTGCAA
CCCACTCAAGGACAAGACGTGCAAGCTGGGGGAACCCAAGGCGCCGGAGGACACGGAGGAGGAGGGCGGGCTCGGCACGA
AGCTGCCGTCCCTGACGTCCATCTCCATTCCTGGCGCCGGCAAGGTCGACCGCGACGGCGATGGAGACACCGACGAGGAC
GACGAGCTGCCGTCGTTCGACACCCACATGACCATCCTCGGCCACTGAGAGGATCC--------AAGCCTGACTTCTAAG
CACATGGTTGTAGTATCTTCTTGCATTTGCGTTGCTTGTGTAGTTGTGTTGCTGCCCAGAAGAAAGAAACAGAAAAAAGG
AAAAAAGGAAAGAGATGAGAGAGTGAGCGTGTCACGAT----GATCCCCGCTAGCTGATGACGAAATTTGCCAGTTGCTC
TTGTTTCTTGTTAATATCGTTCAAGTTCAGATATTAGTTCTAAATTCTAG---TCGATTTGGCCTCGTTTTGGTCTTCAT
ATTATTGGCATTG-------------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-
----S--S-----S-------------------SS--S------------------------------------------
--------------------------------S--------------S----------------S---------------
-------------------------S----------------------------------S---------------S---
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-----------------SS-----------------------S------------------------------S------
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-----S--------------------------------------------------------------------------
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------S---------------------S----------------------------S------------S---------
----------------------------------------SS-----S--------------S-----------------
------------------------S------------S-----S------------------------------------
-------------S-----------------S------------------------------------------------
------S---------------------------------------------------------------S---------
--S---------------------------------------------------------S-----S-------S-----
------------------S--------------------------------S--------------------S-------
---------------------SS---------------------S-------S-------------S-------------
--------------S-------------S---S---------S------------------------------------S
------------S--------------------------S----------------SSSSSSSSS-SSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_543
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-------------------------------------------TAGCTGCCATCACTCTCCCT-----------------
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>reverse_1481
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----------------------------------------TCGATCCACGCTAGCTGATG--------------------
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