>input_sequence_62980
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CGCACCAGTTCGCTCGTCTCCTCACCGATCCTCGCCGCGGCGCCAGCTCTGCTAC----ATGGACGCCCCGGACGTGACG
CCGGCGTGGTCTCTGGTCCGCGGCTACTTCTCCCCTGCGACGCTCTTCCTCCTCCTCAACGTCGTCATCGGCACCATCGC
GCTCACCTCCCGCTTCCACCGCCGCCGCCACGACCACCACGGCGACGACGACCGCCACCACCAGCAGCACCAGCACAAGG
ACCACGACGACCGGTACGCCCCTCCCCCACCTCCGGCCCCGCTGGCGCGCACGTCGTCCGTGATGGAGCGCCTGCGCTCC
CTCGGCCTCTACCGCTTCCGCTCCGGCGACTTCCCTCCCGAGTACAACTACAACCACTCCGCGGCCGGCAACGTCGGAGG
CGACGACGACGAGGGCAGCAC---GCAGCAGTACAGCAGGAGCCGGTCTGAGCCGGCCGCGAGGAAGCCGGCGAGCAAGA
CGGGCAACGAGGCGGAGAAGGCGGCCAGGGCGAAGGTGGCGAAGAAGCCGGTC------ACGGAGGTGAGGAGGCTGGAG
CGCGCCCCGGTGCCGGCGCCGGCACGGCTGGTGCAACGCGCGCCGAGGGCTCCTGCGGCTCGCGCGGTGCTGACGGAGGC
GAGGCGGCAGGACGCAGGGGCGCCGGAGGCCGCGTGCGTGGACGAGAGGGCGGACGACTTCATCAACAAGTTCCGGCAGC
AGCTGCAGCTGCAGAGGCTCAACTCGCTGCTCAACTACAAGGAGATGCTCAACCGCGGCGCGTAGCCTCCCGCCCGCCCG
GTCGCCGGCACGCGGAGCAGATGCAGATCAGCTTGTGCGGGGTTCGATCTTCGATTAGCTACTAGCTAGTGGTCTTGCCG
TCTGTTCATTGGATTGTTGACTTGTTGTGTAGTTGTGCCGTGTATGAGTC---GCTGCAGGTTAATTTGGATCCTGCTAA
---CGTTACAGAAGAAGCTTCCATTTCCTCTCTTAGATCCGTTTGTCCGGTTAATCTAAACAAAACTCGTACGTATAC--
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>chr3B_1_TraesCS3B01G280300
GAGGCGAGGAACGACGATGTAGGAGAAGGGCCGGCGCAACGGGCGCGACGGCGGCGCCGGTGGAGGCAGCGAAAGGCATC
ATAACCTAAACTGATACCATGTAAAACATAGGATTTGGAAAACTGGCCGAAACCTTAAACGGGGTGTGGCTATCTCATTA
TATAGAATACCAAGGGGTACAATATAATGTATATACAGAGGCTACATACATATAGTCTAACAATGCATATGTTGATCTGT
ACTGGAATCAGTCGACTCTTTGAAAATAGTCAATCTAGCTCAGAGGGTGTTTGGATACTTTCTAGTCATGTGACTAGTAG
TAGTCAGACTAGAAGTTTTTAGTCAGGTCCTGTTTGGAAGGTGACTACTACTAGTCAACATTAAATGTCTCAGTATTAAA
TGTCCCTTGTGCAACACCAATTAGAGAAGAGAGAGGGGGACTTTAGTCAGTAAAAGTCAGGGGTGTTTGAAGGTTTACTG
ACTAAAGGTGACTACTACTAGTCTCTAGTCAGTAAAAGTTAGGGGTGAGGTGACTAGGGACTAAATTAGTTTTAGTCACC
CACTAGTTAGGAGTGTTTGGAGGTTTACTGACTAAAGGTGACTACTACTAGTCACTAGTCTCTAGTTTCTAATGATCCAA
ACATCCTCTCAATGATCGGGAGATGTGGATTGACGAGCTAGAGTGCTATGATGAAACGCAAGGGGCGACGCGATGCTCAA
--------TGGTGGGCCACA------GCAGCTTGCATTGAATTTAGCTCATGGGTCTAGGGATCTCCAACCTGGCACGGT
CCATGGTCGGCTACGGGTGCACGAGGAGGCGGCATTCTTGTACACACGGTTTCTCCCTCCCGAGCAGGCATTCCCACGCT
CCACCACCGGGCACCGGCCTCCGCGCGCCGCGTGGCCTCCGA----CTTCTCCTCGTATATG--TATTCCCTCGCCGGGC
AGCCAAGCAGGCAAACGAAGCATCAACA------------CACCGACGTCTCCTACC--------TGGCTTGGCTACCTC
CGCACCAGTTCGCTCGTCTCCTCACCGATCCTCGCCGCGGCGCCAGCTCTGCTAC----ATGGACGCCCCGGACGTGACG
CCGGCGTGGTCTCTGGTCCGCGGCTACTTCTCCCCTGCGACGCTCTTCCTCCTCCTCAACGTCGTCATCGGCACCATCGC
GCTCACCTCCCGCTTCCACCGCCGCCGCCACGACCACCACGGCGACGACGACCGCCACCACCAGCAGCACCAGCACAAGG
ACCACGACGACCGGTACGCCCCTCCCCCACCTCCGGCCCCGCTGGCGCGCACGTCGTCCGTGATGGAGCGCCTGCGCTCC
CTCGGCCTCTACCGCTTCCGCTCCGGCGACTTCCCTCCCGAGTACAACTACAACCACTCCGCGGCCGGCAACGTCGGAGG
CGACGACGACGAGGGCAGCAC---GCAGCAGTACAGCAGGAGCCGGTCTGAGCCGGCCGCGAGGAAGCCGGCGAGCAAGA
CGGGCAACGAGGCGGAGAAGGCGGCCAGGGCGAAGGTGGCGAAGAAGCCGGTC------ACGGAGGTGAGGAGGCTGGAG
CGCGCCCCGGTGCCGGCGCCGGCACGGCTGGTGCAACGCGCGCCGAGGGCTCCTGCGGCTCGCGCGGTGCTGACGGAGGC
GAGGCGGCAGGACGCAGGGGCGCCGGAGGCCGCGTGCGTGGACGAGAGGGCGGACGACTTCATCAACAAGTTCCGGCAGC
AGCTGCAGCTGCAGAGGCTCAACTCGCTGCTCAACTACAAGGAGATGCTCAACCGCGGCGCGTAGCCTCCCGCCCGCCCG
GTCGCCGGCACGCGGAGCAGATGCAGATCAGCTTGTGCGGGGTTCGATCTTCGATTAGCTACTAGCTAGTGGTCTTGCCG
TCTGTTCATTGGATTGTTGACTTGTTGTGTAGTTGTGCCGTGTATGAGTC---GCTGCAGGTTAATTTGGATCCTGCTAA
---CGTTACAGAAGAAGCTTCCATTTCCTCTCTTAGATCCGTTTGTCCGGTTAATCTAAACAAAACTCGTACGTATACAT
GGGAATGGAGGCGTGGGAGAAGAGCAAAGAATCCAACTGCTCCAGCCTGTTTGTGTGATTTCCTACGATGAACACGCC--
--AATTCGCATATTTCAAAAAGCAAAACGTAAAATATAGGACATCTTGCAAAAAGGAGCCTGGGTGAGGGACGAAAAGAA
GCCCGCTT---GTATTTGCCAACTCTTGCATAACTAGGCCGAGATTCCATCCTCCCATGACTGGGAAAAGAAGCCCGCAG
TTATTCAGTGGACTTTATTATTTTTG--AAAGCTTTGCCTCATTTCATTAATAAAGAAAAA--AATTATTCCGTTATTTA
CGGAAAATCGGACAGAAACCGCTACAACACAGGAAGGGGCACCACCAGCCGACCTAACTATCAACACAAAACCCACACAT
GTCGTCTAGGAGAGCCGCCCTTGTGGCCGCAACGGCCACCAAACTTTAGGGTCGCCGCTCATGATCCAAAGCTTTG----
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---CCTTGATAGCCTTGCTAGTTGTATAAGATATTAGAAGATTGTAATGTGATAGGTAATATTTTTGTATTTTCAGAATA
AATAATAGGTGAAAATAAAAGTGCAAGTAAAAGTTACTCGAAGTGTTTCATTAAGCTCAAAATTGGATCGGGGTTTATAG
GTCACTTAGGGTAATTCTCTATAAGGTAAGTAGTGCATCAAGTAACATAGTCATGTGAAAAAAAGAATGAAATATTTCGT
GCTCATGCTAGATTGTGTGTAATGTGCTGATCTTATATAGTCATTACGTCCATAATTACATAGAACGAGACCCTCCCCGC
GTTTATAGTTATTAATTCACTCTTTTTCTCGCAATAAATAAATAAAAATT-AATTCACTCTTTAACTGAGATTCTCTTTG
CATCATCCAAGTATTGAGTATAAAATGGATAATTTCCTTAAGCAAGATGACACATTGTTGTTTGCATGCTTTAATTAGAG
GCC------GAAAATTTGGGGGGCCAGGGCAAAATGTAAACTGGGTCCCTAAGTTCAGGAAAT
>chr3A_687
TATGATGATG----------------------------------------------------------------------
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-------------------------------------------------------ACGCTAGGGCCGACGCGATGCTCAG
TGAGTCAGTGGTGGGTCACA------GCGGCTTGCATTGAATTGAGCCCATGGGTCTGGGGATCTCCAACCTGGCACGGT
ACATGGTCGGCTATGGGTGCACGAGGAGGCGGCACTCTTGTACACACGGTTTCTCCCTCCCCAGCAAGCATTCCCCCGCT
CCACCGCCGGGCACCGGCCTCCGCGCGCCGCGTGGCCTCCCCCTTCCTTCTCCTCGTATATTATCA---CCGCGCCGAGC
AGCCAAGCAGGCAACCGAAACATCATCAGCACA-CCAACGCACCGACGTCTCCTAGTACCTGGCTTGGCTTAGCTACCTC
CGCACCAGTTCGCCCGTCTCCTCACCGATCCTCGCCGCGGCGCGAGCTCGATCGGACAAATGGACGCCCCGGACGTGACG
CCGGCGTGGTCTCTGGTCCGCGGCTACTTCTCCCCGGCGACGCTCTTCCTCCTCCTCAACGTCGTCATCGGCACCATCGC
GCTCACCTCCCGCTCCCACCGCCGCCGCCACGACCACCACGCCGACGACGACCGCCACCGCCACCAGCACCAGCACAAGG
ACCACGACGACCGGTACGCTCCTCCCCCGCCTCCGGCCCCGCTGGCGCGCACGTCGTCCGTGATGGAGCGCCTGCGCTCC
CTCGGCCTCTACCGCTTCCGCTCCGGCGACTTCCCTCCCGAGTACAACTACAACTCTTCCTCCGCCGGCAACGTCGGCGA
GGACGACGACGAGGGCGGCAAGCAGCAGCAGTACAGCAGGAGCCGGTCTGAGCCGGCCGCGAGGAAGCCGGCGAGCAAGA
CGGGCAACGAGGCGGAGAAGGCGGCCAGGGCGAAGGTGGCGAAGAAGCCGGTAACGGAGACGGAGGTGAGGAGGCTGGAG
CGCGCCCCGGTGCCGGCGCCGGCGCGGCTGGTGCAGCGCGCGCCGAGGGCCCCTGCGGCTCGCGCGGTGCTGACGGAGGC
GAGGCGGCAGGACGCAGGGGCGCCGGAGGCCGCGTGCGTGGACGAGAGGGCGGACGACTTCATCAACAAGTTCCGGCAGC
AGCTGCAGCTGCAGAGGCTCAACTCGCTGCTCAACTACAAGGAGATGCTCAACCGCGGCGCGTAGCCTCCCGCCCGCCCG
CCCGCACGCACGGGGAGCAGATGCAGATCAGCTTGTGCGGGGTTCGATCTTCGATTAGCTACTAGCTAGTGGTCTTGCCG
TTTGTTCATTGGA--------TTGTTGTGTAGTTGTGCCGTGTATGAGAC---GCTGCAGGTCAATTTGGATCCTGCTAA
AAACATTACAGAAGAAGCTTCCATTTCCTCTCTTAGATCCGTTCGTCCGGTGAATCCAAACAATA---GTACGTATAAAT
GGGAATGGAGGCGTGGGAGAAGAGCAAAGAATCCAACTGCTCCAGCCTGTTTGTGTGATTTCCTACGATGAACACGCCAG
CCAATTCGCATATTTCAAAAAGCAAAACGTAAAAAATAGGACATCTTGCAAAAAGGAGCCTGCGTGAGGGACGAAAAGAA
GCCCGCTTGTAGTATTTGCCAACTCTTGCATAACTAGGCCAAGATTCCATCCTCCCATGACTGGGAAAAGAAGCCCGCAG
TTATTCAGTAGACTTTTTC--TTTTACAAAAGCTTTGCCTCATTTCATTAATTGAAAAAAAAGAATTATCCTGTTATTTA
CGGAAAATCGGACAAAAACCGCCAGAACACAGGAAGGGGCACCACCAGCCGACCTAACTATCAACACAAAACCCACACAC
GTCGTCAAGGAGTGCCGCCCTTGCGGCCACAACGGCCATCAAACTTTAGGGTCGTCGCTCATGATCCAAAGCGCCGCCTG
CGCCATAGATTTGCGGGTTACAAGGTTCCTACACCAAATAAAACTTTTCGCTTGTGCCGCAACAACACTAACAAGGGTGT
TAACCTTGATGGCTTTGCTAGTTGTACAAGATATTAAAAGATAGTAATGTGATAGGTAATATTTTTGTAATTTGAGAATA
AATAATAGGTGAAAATAAAAGTGCAAGTAAAAGTTACTGGAAGTGTTTCATTAAGCTCAAAATTGGATCGGGGCTTATAG
GTCACCTAGTGTAATTCTCTATAAGGTAAATAGTGCATCAAGTAACATAGTCATGTGAATAAAAGAATGAAATATTTCGT
GCTCATGCTAGAATGTGTGTAATGTGCTGATCTTATATAGTCATTACGTCCATAATTACATAGAACGAGACCATTCCCGC
GTCTATAGCTATTAATTCACTCTTTTTCTCGCAATAAATAAATAAAAAAACAATTCACTCTTTAACTGAGATTCTCTTTG
CATCATCCAAGTATTAAGTATAAAATGGACAATTTCCTTAAGCAAGATGACACATTGTTGTTTGCATGCTTTAATTAGAG
GCCAGGGCTGAAAATTTGGGGGCCCAGGGCAAAATGTAAACTGGGTCCTTAAGTTCAGGAAAT
>chr3D_688
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-----------------------------------------------ATGATGAAACGCTAGGGCCGACGCGATGCTCAG
TG--------GTGGGCCACAGCACACGCAGCTTGCATTGAATTGAGCTCATGGTTTTGGGGATCTCCAACCTGGCACGGT
CCATGGTCGGCTACGGGTGCACGAGGAGGCGGCACTCTTGTACACACGGTTTCTCCCTCCCCAGCAAGCATTCCCCCGCT
CCACCGCCGGGCACCGGCCTCCGCGCGCCGCGTGGCGTCCGG----CCTCTCCTCGTGTATATTTATCACCTCGCCGAGC
AGCCAAGCAGGCAACCGAAACATCATCAGCACACCCAACACACCGACGTCTCC---TACCTGGCTTGGCTTAGCTACCTC
CGCACCAGTTCGCCCGTCTCCTCACCGATCCTCGCCGCGGCGCGAGCTCGATCAGCCAAATGGACGCCCCGGACGTGACG
CCGGCGTGGTCTCTGGTCCGCGGCTACTTCTCCCCGGCGACGCTCTTCCTCCTGCTCAACGTCGTCATCGGCACCATCGC
GCTCACCTCCCGCTCCCACCGCCACCGCCACGACCACCACGGCGACGACGACCGC---------CACCACCAGCAGAAGG
ACCATGACGACCGGTACGCTCCTCCCCCGCCTCCGGCCCCGCTGGCGCGCACGTCGTCCGTGATGGAGCGCCTGCGCTCC
CTCGGCCTCTACCGCTTCCGCTCCGGCGACTTCCCTCCCGAGTACAACTACAACCCTC------CCGGCAACGTCGGCGA
GGACGACGACGAGGGCAGCAAGCAGCAGCAGTACAGCAGGAGCCGGTCTGAGCCGGCCGCGAGGAAGCCGGCGAGCAAGA
CGGGCAACGAGGCGGAGAAGGCGGCCAGGGCGAAGGTGGCGAAGAAGCCGGCCACGGAGACGGAGGTGAGGAGGCTGGAG
CGCGCCCCGGTGCCGGCGCCGGCGCGGCTGGTGCAGCGCGCGCCGAGGGCCCCTGCGGCTCGCGCGGTGCTGACGGAGGC
GAGGCGGCAGGACGCAGGGGCGCCGGAGGCCGCGTGCGTGGACGAGAGGGCGGACGACTTCATCAACAAGTTCCGGCAGC
AGCTGCAGCTGCAGAGGCTCAACTCGCTGCTCAACTACAAGGAGATGCTCAACCGCGGCGCCTAGCCTCCCGCCCGCCCG
CCCGCCGGCACGCGGAGCAGATGCAGATCAGCTTGTGCAGGGTTCGATCCTCGATTAGCTAGTAGCTAGTGGTCTTGCCG
TTTGTTCATTGGATTGTTG--------TGTAGTGGTGCCGCGTATGAGATGCTGCTGCAGGTTAATTTGGATCCTGCTAA
---CATTACAGAAGAAGCTTCCATTTCCTCTCTTAGATCCGTTCGTCCGGTCAATCCAAACAATA---GTACGTATACAT
GGGAATAGAGGCGTGGGAGAAGAGCAAAGAATCCAACTGCTCCAGCCTGTTTGTGTGATTTCCTACGATGAACACGCCA-
---ATTCGCATATTTCGAAAAGCAAAACGTAAAAAACAGGACATCTTGCAAAAAGGAGCCTGCGTGAGGGACGAAAAGAA
GCCCGCTT---GTATTTGCCAACTCTTGCATAACTAGGCCGAGATTCCATCCTCCCATGACTGGGAAAAGAAGCCCGCAG
TTATTCAGTAAG-TTTTTC--TTTTG--AAAGCTTTGCCTCATTTTATTA----AAAAAAAAGAATTATCCCGTTATTTA
CGGAAAATCGG-CATAAACCGCTACAACACAGGAAGGTGCACCACCAGCCGACCTAACTATCAACACAAAACCCACA---
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>SNPs
S-S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------S----S--------------S
-------------------------------------------S-------------S----------------------
----------------------------------S--------------------------S----S--------S----
-----S-----------------------------------S-------------------S-----SS--------S--
--------------S----S-----S-----------------------------SS--------------S--------
-------------S-----------------------------S-----SSSS-S-------------------------
-----------------------------------S--------------------------------------------
--------------S--------------------------------------------S---S----------------
-------------------S--------S---------------------------------------------------
-------------------------------------------------------SS---S-S--------------S-S
S-------------------S-----------------------------------------------------------
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-----------------------S-----------S--------------S-----------------------------
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SS------------------------------------------------------------------------------
-S-----------------SS---------------------------S-------------------------------
----S--------------------------------------S-------S----S------S-SSS------------
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----------------------------------S---------------------------S-----------------
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---------S------S-SSS-------------------------------SS-S-------------S----------
--------------S----------------------------------------------------------------S
------S-----S----------S----S---------S---------------S-----------------SSS-----
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----------S--S------------S---------S-----S--------------------------S---S------
--------------------------------------S----------------------------------S------
-----S---S-------------------S-----------------------------S--------------------
------------S-----------------------------------------------------------S-S-----
--S-----S---------------------------------------SS------------------------------
---------------S-------------S--------------------------------------------------
----------------------S-------------------------S--------------
>forward_31
-----------CGACGATGTAGGAGAAGGGC-------------------------------------------------
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>reverse_1054
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-------------TCGTCTCCTCACCGATCCTC-----------------------------------------------
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>forward_986
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------GCAGGCAAACGAAGCATCAA------------------------------------------------------
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>reverse_2509
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----------------------------GCAACGGCCACCAAACTTTA--------------------------------
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