>input_sequence_80776
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---------------------------------------------------------------AGCA------GCAGCAG
CTAGCGACACACAACAACTACAGCAAGCACACAGCAGGAGGAGGAAGAAGAAGGCTCCATCTATCTATACTCTATAGTTC
CACACGCATGGGGAACTGCGCCATCACGCACCAGGCCACGTCGTGGGCGGACGACGGCGAGTGGGAGCTGCCGTCGCCGG
G---CGACGACGAGGCGCACGAGGAGCGGAGGAAGGAGCACGCCAGCGAGGTGACCATCCGGATCAGCAAGCGCCAGCTG
CAGGAGCTGGTGGACAAGAGGGCCGACGACGGCG------------TCTGGAAGGGCCGGCGGTCGGCGTCGGAGCTTCT
GGCGGACATCATGAACGCCGGGGAGGTGCACCACCACGTCGACCACTGCAGGGCGGCGCACTGGAAGCCCGCCCTCCAGA
GCATCCCGGAGGCGGTGGAGTCGTGA------------------------------------------------------
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>chr3A_1_TraesCS3A01G327000
CACGAGACGAGCCAGCACGACCAGACAGCTTTCCTACCGCCAATGATAAGTGGCGCACTTGCTCGCGGATATAGCTCGCG
CGTC----CCATCTCCCGGCCCCGGAGTGCGAGTTCACAGAAGGCGGCATCATGATTGCGTTTCTTCGAGGCTACGGCAA
C-ATTTCCACTTGCGAGCACGAA------TTAATCTGCATCTCCAGCTATACCCGGTAGCATGCAGTTGACGGTTGGCCG
TTGCACCAAGTATTAATAACTATTTTCGC---A-----------------------------------------------
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-----------------------------AAAAAAAAGTAGGAGTGC---------------------------------
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------------AATTAATTAACTCGAACTGTCTAATGTATACTACTAAATAAATAAGTAAATCCTTGTATAGTGATTGT
GCAAGATAGCGTCAACCGCAAAACGATGTGAGGCCGCCGACGGGCATGTGTCACCGCGATGCATGCGACCTGCACGCGAC
CAACGTGATGGCCGCTCAACAAGAGGAGGAACCGCGACAGCCGCCAACAGGGTGCGTCCAAAACCGCGGAATTTGCAGCT
CACCGCCCACAAGCATTGGCGGCTAGGCGCTGTCATCTGTCCGACACGAATAAACAAAGCGCACAGCGACGCGCCGAAGG
CACCCAGTTTGCGGCCAGGCGTGCACTGACGAGGCGCCGGACGCACCGCACGCGGCCACGACGCC---------------
--------TC---CCAACCGCCGCGGCTAAGCAATGCCACGCCAGCCACCGGGGCGGTGAGCTGCAGGAGAATCCGCT--
---GAAAAAGCCGCGTTCCCACGGCGACCGTCCGGGCCCCGTCCATGCGAGATCCCGCGCTCCCCCGCGTTCCCACTCGT
CCCACCCACTCGCAACCATCCGGCACGGCGCCCACGTAGGATCCCAT--CCCCACGTCACCGTCCAGCGCGGCCGAAGCG
TCGGCTGTGGCTTTTGCCCGGACGGTACTGCCACCCCCGTTCGCTCCAAGCCTCCCACTATATATCCGCGCCTCTCAGAC
CAGCTGGTCACACAAAGACCACCTAATCTCTCTCTCTAATCCGA---------------CGGAAGCA------GCAGCAG
CTAGCGACACACAACAACTACAGCAAGCACACAGCAGGAGGAGGAAGAAGAAGGCTCCATCTATCTATACTCTATAGTTC
CACACGCATGGGGAACTGCGCCATCACGCACCAGGCCACGTCGTGGGCGGACGACGGCGAGTGGGAGCTGCCGTCGCCGG
G---CGACGACGAGGCGCACGAGGAGCGGAGGAAGGAGCACGCCAGCGAGGTGACCATCCGGATCAGCAAGCGCCAGCTG
CAGGAGCTGGTGGACAAGAGGGCCGACGACGGCG------------TCTGGAAGGGCCGGCGGTCGGCGTCGGAGCTTCT
GGCGGACATCATGAACGCCGGGGAGGTGCACCACCACGTCGACCACTGCAGGGCGGCGCACTGGAAGCCCGCCCTCCAGA
GCATCCCGGAGGCGGTGGAGTCGTGACGCTACGCCCCGTGACGCGTGCCGGCCATGGCTTTCGATCGCCGGGTTTGGGTT
TCTCGCCTCTTTCTTGGTTGCTTCTTCGCCGTGTCT---------------CACAGCTTTTTGGCGGCCTTTTTGTGC--
-TATTCTTTGGTTTGGATCCAACGAACAATGTATATACTCTCCGTTCCAAAATAGATGACCCAACTTTATACTAAGGTCA
GTACAAAGTTGGGTCATCTATTTTGGAACGGAGGGAGTAGTAGGGAAAGT---------------GGTGATGTAAATTGT
AAAGTAGAT----GTTCTACTGTCCATACGGCTTTTTGTGTGTGGAACAACAACAAACCAAACATTCTCAGTTGATCTGC
TGCTTTGTGTGTG------GCACAAACCAAGCA-TTTTCACTTGATCCGCTGTCCAAAAACACGGTACAGACGAGCTTAC
CAGGAAGAGGAGGAAGAAGAAACCTACAAGGGTGCAAAGCAATGTTGGTTGGTTGAACCCAGAAGCCAAACCTGGAAACT
GATGAGGACAGAAGCGATTCTGTA----------------TGCCCTGCAAGGGTGCAAAGCAATGTTGGTTGGTTGATCC
CAGAAGCCAAGTTATGTTCCACTAAAGAAA------------------CAAGTTATGCAATGTAATTATGATTATGAATC
ATTGGGTGTGATCTGCCCTGTAGAGTCGTGGGTACCAATGAA--------------------------------------
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-------------GAAGATTGCACATATGCATTTTCTTTCCTCCACGTTCAGAAGCCCGTGCATTAAAATT-GGCATTCT
TGGTTCG-TCCGCCTGCCGCGAGAGGCATGAAAGACCTGATTCGCTATTATATTAGGATTTTACGATTTATTAGAAATCA
CCTCACCTAATAATATTACAAAAATACTA-TACTATGTATTAGAAATACTGGTAGAGTGGACTTCTCGACTTCTGACTTC
CTTTTGTGTAGTATTTAACCAGGCTACACAATCAATGAGGTTACAACAATCGAAAAAACAAAAATGATA--GAGCAGATA
TGGATTAGGGGGGCCAAGTGCTATTAAAATAGGCTGGGGA
>chr3D_1
CACGAGACGAGCCAGCACGACCAGACAGCTTTCCTGCCACCAATGATAAGTGGCGCA----CTCGCGGATATAGCTCGCA
TGTCCCATCCATCTCCCGGCCCCGGAGTGCGATTTCACACAAGGCGGCATCATGATTGCGTTTCTTCGAGGCTACGGCAA
ATATTTCCACTTGCGAACGTATTACGTACTTAATTTGCATCTCCAGCTATGCTCGGCAGCAAGTAGTTGACGGTTGGCCG
TTGCATCAAGTATAGTGATTGTTGTTCTCTCAA-----------------------------------------------
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-----------------------------AAAAAAAAGTATAGTGATTGTTCAAGA------------------------
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---------------TAATTAACTCGAACTGTTTCATGTAAATAAATAAATCCA------------TGTATAGTGATTGT
GCAAGATAGCGTCAACCGCAAAACGATGTGAGGCCGCCGACGGGCATGTGTCACCGCGATGCATGCAACCTGCACGCGAC
CAACGTGACGGCCGCTCAACAAGAGGAGGAACCGCGACAGCCGCCAACAGGGTGCGTCCAAAACCGCGGAATTTGCAGCT
CACCGCCCACAAGCATTGGCGGCTTGGCGCTGTCATCTGTCCGACACGAATATACAAAGCGCACAGCGACGCGCCGAAGG
CGCCGAGCCTGCGGCCAGGCGTGCACCGACGAGGCGCCGGGCGCACAGCACGCGGCCACGACACCGCGACCTCATCGACC
ACGACGCCTCCCTCCAACCGCCGCGGCTAAGCAATGCCA-----GCCACCGGGGCGGTGAGCTGCAGGGGAAAGAATCCG
CTGGAAAAAGCCGCGTTCCCACCGCGAGCGC-----------CCATGCGAGATCCCGCGCCCCCCCGCGTTCCCACTCGT
CCCACCCACTCGTAACCATCCGCCACGGCGCCCACGTAGGATTCGATCCCCCCACGTCAGTGTCCAGCGCGGCCGATACG
TCGGCTGCGGCTTTTGCCCGGACGGTACTGCCACCCCCGTTCGCTCCAAGCCTCCGACTATATATCCGCACCTCTCAGAC
CAGCTGGTCACACAAAGACCACCTAATCTCTCTCTCTAATCCGAAACCAGAGGCAGCGCCGGAAGCAGCAGCGGCAGTAG
CTAGCGACACACAACAACTACAGCAAGCACACG---GGAGGAGGAAGAAGAAGGCTCTGCAGTTCTACACTTCTAC-TTC
TGCACGCATGGGGAACTGCGCCATCACGCACCAGGCCACCTCGTGGGCGGACGACGGCGAGTGGGAGCTGCCGTCGCCCG
GCGACGAGGACGAGGGGCAAGCGGAGCAGAGGAAGGAGCACGTCAGCGAGGTGACCATCAGGATCAGCAAGCGGCAGCTG
CAGGAGCTGGTGGACAAGAGGGCCGACGACGGCG------------TCTGGAAGGGCCGGCGGTCGGCGTCGGAGCTTCT
GACGGACATCATGAACGCCGGGGAGGTGCACCACCACGTCGACCACTGCAGGGCGGCGCACTGGAAGCCCGCTCTGCAGA
GCATCCCGGAGGCGGTGGAGTCGTGACGCTACGCCCAGTGACGCGTCCCGGCCATGGCTTTCGATCGCCGGGTTTGGGCT
TCTCGTCTCCTTCTTGGTTGCTTCTTCGCCGTGTCGACCTTTGGTAGAACACACAGCTTTTATGCGGCCTTTTTGTGTTA
TTATTCTTTGGTTTGGATCCAACGAACAATGTATATA-------------------------------------------
---------------------------------------GTAGGGAAAGT---------------GGTGATGTAAATTGT
AAAGTAGATCAATGTTCTTCTGTCCATACGGCTTTTTGTGTGTGGAACAA------ACCAAGCATTCTCAGTCGATCTGC
TGCTTTGTGCGCG------GAACAAACCAAGCATTTTTCACTTGATCTGCTGTCCAGAAACACGGTACAGACGAGCTTAC
CAGGAAGAGGAGGAAGAAGAAACCTACAAGGGACCAT--------------------------GGCCAAACTTGGAAACA
GATGAGA----------------A----------------TGCCCTGCAGGGCTGCAAAGCAATGTTGGTTGGTTGAACC
CAGAAGCCAGGTTATGTTCCACTCAAAAAAAGAAAAGAAAAAAGAATCCAGGTTATGCAATGTAATTATGA------ATC
ATTGGGTGTGATCTGCCCAGTAAAGTCGTGGGTACCAT------------------------------------------
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------TACCAATGAAGATTGCACACATGCATTTTCTTTCCTCCACGTTCATAAGCCCGTGCATTAAAAATGGGCAGTCT
TGGTTCG-TTCGCCTGCCGCGAGATGCATGAAAGACCTGATTCGCTATTATACTAGGATTTTACGATTTATTAGAAATCA
CCTCACCTAATAATATTACAAAAATACTACTACTATGTATTAGAAATACTGGTAGAGTGGACTTCTCGACATCTGACTTC
CTTTTGTGTAGTATTTAATCAGGCTACACAATCAAGGAGGTTACAACAATAAAAAATACAAAAATGATA--GAGCAGATT
TGGATTAGGGGGGCCAAGTGCTATTAAAATAGG-------
>chr3B_3
--CGAGACGAGCCAGCACGACCAGACAGCTTTCCTACCGCCAATGATAAGTGGCGCACTTGCTCGCGGATATAGCTCGCG
CGTC----CCATCTCCCGGCCCCGGAGTGCGATTTCACAGAAGGTGGCATCATGATTGCGTTTCTTCGAGGCTACGGCAA
G-ATTTCCACTTGCGAGCACGAA------TTAATTTGCATCTCCAGCGATGTCCGGTAA----CAGTTGACGGTTGGCCA
TTGCATCAGGTAGAAGTAATTAATTATGGGTCACGCTAACTGCCACACGTGTGGCAGGAAGGAAAACGCACCACACGTCT
TTAATGTAAACAGATTGTCACGTCATTGCATGCATGCATGCAGGAATCTTTTTGGATTTTCAATTTTTAAAATGTTTTAT
CTCTTAATCGAAAAATCCGATTGAAAATCCGTTTTCACCATTAAATCCCTCGCGATGAGATCTTCGAAACTAGATCCACA
TGTTGATATGTTTTGATGAATTTTTTTTTGGATTAAAAGTTGCCATGTCTATTGCATATGAATTGTCATGATGTTTACAC
TGAAGTTGCCATGATATGTTTCAGCTATTTTCTTCTACATTTAAAAGTAATTTTTGACATTTATAAAACGGGGAATTAAG
AAACTAGACTTGCCATGAACCATAAACTAAAATTATCATGATACATGCACGTAAAATTGCCATGGTTTATACAAAAAATA
ATTTTCATGATCAAAGTATTGGAGTTGCCATCATCAAAATACTAAAATTGCTATGATCTACAAACTAAAATTGCCACATG
GCAATTTTAGTTTAAGCCCTATGGCAACTGCAGTGTAAACATCGTGGCAACTTCTGGTAAAAAAAATCGTCGAAACATAT
CAACATGGGGTCTAGTTTTGAAGATCTCGTCGAGACGGATTTAATGGTGAAAACGGATTTTTAGTTCGCTTTTTTGTTTA
GGAGATACAACATTTTTAAGCCGAAAACCAAAAAAAATTCTACTGATGTCATCTATTCATACGTGGCAAAATGAGTCGTG
ATGGAGGCATGTGAGCGATGTGCAAACATCCACACGTGTGGGCGTTAACATTTCCATTAATTATATAACTCCTCGCAAAA
TAATACAGTAATAATTAATTAACAACTTGAACGTGGCTCCTGTAAATAAATCCA------------TG--TAGTGATCGT
GCGAGATAGCGTCAACTGCGAAACGATGTGAGGCCGCCGACAGGCATGTGTCACCGCGATGCATGCAACCTGCACGCGAC
CAACGTGATGGCCGCTCAACAAGAGGAGGAACCGCGACAGCCGCCAACAGGATGCGTCCAAAGCCGCGGAATTTGCAGCT
CACCGCCCACAAGCATTGGCGGCTTGGCGCTGTCAGCTGTCCGACACGAATAAACAAAGCGCACAGTGAGGCGCCGAAGG
CACCCAGTTTGCGGCCAGGCGTGCACCGACGAGGCGCCGGACGCACAGCACGCGGCCACGACACCGCGACTTCATCGACC
ACGACGGCTC---CCAACCGCCGCGGCTAAGCAATGCCATGCCAGCCACCGGGACGGTGAGCTGCAGGAGAATCCGCT--
---GAAAAAGCCGCGTTCCCACTGCGAGCGC-----------CCATCGCAGATCCCGCGCTCCCCCGCGTTCCCACTCGT
CCCACCCACTCGCAACCATCCGCCACGGCGCCCACGTAGGATTCGAT--CCCCACGTCAGTGTCCAGCGCGGCCGAAACG
TCGGCTGCGGCTTTTCCCAGGACGGTACTGCCACCCCCGTTCGCTCCAAGCCCCCGACTATATATCCGCGCCTCTCAGAC
CAGCTGGTCACACAAAGACCACCTAATCTCTCTCTG--ATCTGGAAGCAGAGGCAGCGCCGGAAGCA------GCAGCAG
CTAGCGACACACAACAACTACAGCAAGCACACAGC---AGGAGGAAGAAGAAGGCTCTGCAGTTCTACACTTCTAC-TTC
TACACGTATGGGCAACTGCGCCATCACGCATCAGGCCACGTCGTGGGCGGACGACGGCGAGTGGGAGCTGCCGTCGCCCG
GCAACGACGACGAGGGGCGCGCGGAGCAGAGGAAGGAGCACGTCAGCGAGGTAACCATCCGTATCAGCAAGCGGCAGCTG
CAGGAGCTGGTGGACAAGAGGGCCGCCGACGACGGGCACGGTCACATCTGGAAGAGCGGGCGGTCGGCGTCGGAGCTTCT
GGTCGACATCATGAACGCCGGGGAGGTCCACCACCACGTCGAGCACTGCAGGGCGGCGCACTGGAAGCCCGCCCTGCAGA
GCATCCCGGAGGCGGTGGAGTCGTGACGCTACGCCCAGTGACGCGTCCCGGCCATGGCTTTCGCCGGGC----TTGGGTT
TCTCCTCTCTTTCTTGGTTGCTTCTTCGCCGTGTCTTTTGTTAGA-----ACACAGCTTTTACGCGGCCTTTCTGTGTC-
--ATTCTTTGGTTTGGATCCAACGAACAATGTATATTG------------------------------------------
---------------------------------------GTAGGGAAAGTGGTGATACACACCACGGTGATGTAAATTGT
AAAGTAGATCGATGTTCTTCTGTCCATACGGCTTTTTGTGTGTGGAACAA------ACCAAGCATTCTCAGTTGATCTGC
TGTTTTGTGTGTGTGTGTGGAACAAAGCAAGCA-TTTTCACTTGATCCGCTGTCCAAAAACACAGTACAGACGAGCTTAC
CAGGAAGAGGAGGAAGAAGAAACCTGCAAGGGACCAT--------------------------AGCCAAACTTGGAAACA
GATCAGA----------------ACAGAAGCGATTCCATATGCCCAGCAAGGGCTGCA----------------------
---AAGCCAAGTTATGTTCCACTAAAAAAAA----------------CCAAGTTATGCAATGTGATTATGA------ATC
ATTGGGTATGATCTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNGGTACCAACGAAGATTGCACACATACATTTTCTTTCGCCCACGTTCAGAAGCCCTTGCATTAAAAATGGGCATTCT
TGGTTCGTTTCGCCTGCCGCGAGAGGCATGAATGACCTTATTCGCTATTGTTTTAGGATTTTAAACGATTTAAGAAATCA
CCTCACCTAACAATATTACAAAA-------TATTACGTGTTAGAAATACTAGTAGAGTGGACTTCTCGACTTCTGACTTC
CTTTTGTGTAGTATTTAATCAGGCCACACAATCAAGGAAGTTACAACAAAGGAAAACACAAAAATGATACTGAGCAGATT
TGGATTAGGGTGGCCAAGTGCTACTAA-------------
>SNPs
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S---------------------------------S---------------S----------S------------------
-----S-------S-S---S------------------------------------------------------------
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----------------------------------------SSSSSSS---------------------------------
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--------------------------------S-S-------SS-S-----SS-SSSSSSSSSSSS--------------
------------------------------------------------------------------S-------------
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------------------------S-------------------------------------------------------
--------------------------S-------------------S---------------S-----------------
---------------------------------------S----------------------------------------
----------------------S----S--SSSSSSSSSSSS--------------------------------------
----------------------S-------------------S-S--------------SS----------------S--
-------S-----------------------------------------------S------------------------
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-----------------------------------S---------------------SSSSSS----S---SSSSSS---
S-----------------------------------------------------------------------------S-
---------------S-----S-----S--------------S------------------------------S------
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---------------------------------------------------------------------------S----
------------------------------------S---------S---------------------------------
-----S-------------------------------------------------------SS--------------S--
-------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------------------------------
------------------S-------------------------------SSSSSS-----S------------------
--------------------S-----------------------------------------------------------
--------------------------------SS--SSSSSSSSSSSSSSSSSSSSSSSSSSS--------S-------S
------SSSSSSSSSSSSSSSSS------------------------------------------------------S--
--------------------------S--------------------------------------------SSSSSS---
----------------------S--------------SSSSS--------------------------------------
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-------------------------S-------------------------------------------S----------
---------S----------------------------------------------------------------------
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------------------S----------------S--------------S-----S----------------------S
---------------------------------SSSSSSS
>forward_161
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-------------------------------------------------------------TTCTTCGAGGCTACGGCAA
C-------------------------------------------------------------------------------
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>reverse_1994
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-------------------------------------------------------------------------ATAGTTC
CACACGCATGGGG-------------------------------------------------------------------
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>forward_254
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--------------------------------------------------------------------------TGGCCG
TTGCACCAAGTATT------------------------------------------------------------------
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>reverse_2858
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---------------------------------------------------------CCCAGAAGCCAAACCTGGAA---
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