>input_sequence_77521
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------------------------------------------------ATGACGAAGGACGGCAGCAGCCAGGCGGGCGG
GTGCCTCTGCATCGGCGCGCCGATGCGCGCGCTGTCGCGGGCGTGCGACTCGGCGTGCGACCTCTACGTGCGCGGCATGT
CCGGGTGCGCCACCCGCGTGCCGGCGGGGGCGGTCGCGGGCGGCCGCGGCTCCGGCTTTGTCAGATCGGCCACGACCGTG
CACCTGTGGACGAGCTCGGACCGCGCCGACGACCTCGGCCGCGCCGCGTCGTCGAAGCAGCGCCGCGTGGCGACGCTCGA
TCAGCCGGCGGATGTCGGGGCAGCAAAGAAGGGCCGCCTTGGCCCGGTGGCGCCGGCGATCGTGCCGGCTCGGAGGAAGG
GTCCGGCTATGGCGACCATCGCCGAGAACGGGCCGTGCGACTTCGGTGCCTGCGCACTGACGCCACCGGAGCTGAGGAGG
CGCACCCC-GGCGGTCGCCGGGCAGGGCGCGCCTCGCGGTGGGTTTGTCGCCGTCATGGCGGGGGGCGAGGCCTTCGCGT
CTCGATCTTGA---------------------------------------------------------------------
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>chr3B_1_TraesCS3B01G336400
CATCCAAGGACCTTTATGCACAAAGAAAGGACAAGTGCCTAATTTTATATTTCTGTAGGGTCCTTGGAATAGTTGTGCAG
TAACCACTTCTACCTAGGTCCTTCGGCACCCTCCTTGATGTTAAAAAGGAAATGCATTACTTGCTTGCATTGCACAAAAC
ACTAGTGCTAAGTTCTTCATTACTATTTTTTTTGCGGGGA----ATAACTTCATGACTTAACGCGGTCACTCTCTATTTT
GCTTAAGCATGGTGTACTGATATGACGGTGGCGGGGTTCGTGTCTTGCTATTTTCACTTTCTCTCTTTCCTAGTTGCCAC
CATTGTC--------AAGTTTAATTTTTTTTATTAAAATTGCCATCATTGTCCATTTTCCAAAGA-------AAAATGAC
ACCATTGTCAGAATTAACGGCTGACTCACGGCCAGCGCTTCTGTCAGGGAACACGATTAGTCGGGAAAAAGTCGCTGTCT
TTCCCGCGGTTGCTCGCTCGCTCTCTTTTACAATTGCATCGTTGACACGAGCAACGGCGATTGCTAAGCTTAATTAGCAC
GTCAAAATCCCAAGTTAGTAGGCCGACTGGTTTTGTTAACAGCAAAACAAATGGTATCAACT-CCGGCTTACATATGCGT
GCACCCGGCAC--------CACCCGATGCAGCGCGTCTGCGCTCGTGAGACTTGGCCGGCTCAACTCCCCTATCACCCTA
A--CCCCAAAACACATCACATACATGTGCATCCTGACCATTTCGCCCTTACCGCCGGTATTAAAAACCGCTTACGCCATG
GTTAACCAAGC----------AAATCTCTAATATTCAAAACCTGCAGGCACCTCGAGTGCACAAGCAACCCGGTGTGAAC
ATTATCATCGGGTGCTCGATTCTCAACC------CAGAGATAACGGAGACGTCCGTCGAGTTGGCTCTATAAAGAGCAA-
GAAACCTCGACGACCTAGCTAGTAA-------------------------------------------------------
--------------------------------------------------TACCAGGAG---------CGGTCTGTCGGT
GTTTCTTTGTCG----GAAGCCATCTCCACGAGC---GTGCGCAGCAGATGACGAAGGACGGCAGCAGCCAGGCGGGCGG
GTGCCTCTGCATCGGCGCGCCGATGCGCGCGCTGTCGCGGGCGTGCGACTCGGCGTGCGACCTCTACGTGCGCGGCATGT
CCGGGTGCGCCACCCGCGTGCCGGCGGGGGCGGTCGCGGGCGGCCGCGGCTCCGGCTTTGTCAGATCGGCCACGACCGTG
CACCTGTGGACGAGCTCGGACCGCGCCGACGACCTCGGCCGCGCCGCGTCGTCGAAGCAGCGCCGCGTGGCGACGCTCGA
TCAGCCGGCGGATGTCGGGGCAGCAAAGAAGGGCCGCCTTGGCCCGGTGGCGCCGGCGATCGTGCCGGCTCGGAGGAAGG
GTCCGGCTATGGCGACCATCGCCGAGAACGGGCCGTGCGACTTCGGTGCCTGCGCACTGACGCCACCGGAGCTGAGGAGG
CGCACCCC-GGCGGTCGCCGGGCAGGGCGCGCCTCGCGGTGGGTTTGTCGCCGTCATGGCGGGGGGCGAGGCCTTCGCGT
CTCGATCTTGACGCGTGCGTGCATGA----CGCGCGTAGCGGCTGTGTACAAAACTAGCTTCTAGAAGTCCAGAGGTCGA
TTTCACCCAACACACCAGTTTTCTCTCGCGTTCTCGTGATTTCTTCATGATGTGTAAACACTTTGACAAGTAGTGCAAAT
ACTATTATCATCCGCACAGAACATAGTGCGGACATAATGGCAAAGTCTGTTTCAAGCCATGTCTTTGTAGTGAGCTAGTG
ATAATCTGACATGGACACCAATCTCCTGATCCGTGAAATCAGGATAAAGCTTGTCAAAAACACGATTATATCATGTGC--
--------------------------------------------------------------------------ATGTGC
AAACATTCTTATCTGACAAGCTTGGAGTGTAAGGGCATCTCCACCACCGTCCATAGTANNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAATTATATAGCAATGTTCGTCCC
TGTTTTGTTCTCCTATATTCTGAGCACTTAAAACAATTAAAGATAAATATTATCTTTCGTTCATAGTCCGTTGT-GCAAA
TATTTCAATACAACAATAATTCAAATGTAATTATTACAACCAAACATGAAGTTTTTCAATAAAATAGTTTAAATTTGAAT
TCAACTTATTCAAACATATTTTTTAGTTTTTTGCTCGACCAGATCTAA-----------AGTTGCTCATGAGTTGCTCGA
TGACGAATCTGTTGATGCATTTGGATAAAATCCTCAAATGTTGCCGGGTTCTGCTTTGGAAGT
>chr3A_1
CATCCAAGGATCTTTATGCATAAAGGAAGGACCGGTGCCTAATTTTATATTTCTGTAGGTTCCTTGTAATAGTTGTGCAG
TAACCACTTTTACCTAGGTCCATCCGGACCCTCATTGATGTTAAAAAGCAAATGCATTACTTACTTAGATTGCACAAAAC
ACCAGCGCTAAGTTCTTCATTACC--TTTTTTCCCGGAGA----ATAACTTCATGACTTAACGCGGTCACTCTCTATTTT
GCTTAAGCATGATGTATTGATATGACAGTAC-------------------------CTTTCTCTCTTTCCCAGCTGCCAC
CATTGTAAGTTAAATAAATAAA-----------TAAAATTGCCAGCATTGTCCATTTTCCAAAGA-------AAAATGCC
ACCATTGTCAGAATTAACGGCTGACTCACGGCCAGCGCTTCTGTCAGGGAACACGATTAGTCGGGAAGAAGTCGCTATCT
TTCCCGCGGTTGCTCGCTGGCTCTCTTTTACAATTGCATCGTTGACACAAGCAACGGCGATTGCTAAGCTTAATTAGCAC
GTCAAAATCCCAAGTTAGTAGGCCGACTGGTTTTGTTAACAGAAAAACAAATGGTATCAACT-CCGGCTTACATATGCGT
GCACCCGGCAC--------CACCCGATGCAGCGCGTCTGCGCTCGTGAGACTTGGCCGGCTCAACTCCCCTGTCAGCCTA
TGGCCCCAAAATACATCAGATACATGTGCATCCTGACCATTTCGCCCTTACCGCCTGTACTAAAAACCGCTTACCCGGTG
GGTTAACAAAACAATTCTCTAA----------ATATTTAAAAC-CAGGCACCTCGACTGCACAAGCAACCCGGTGTGAAC
CCCATCATCGGGTGCTCGATTCTCAGCC------CAGAGATAACGGCGACGTCC-TCGAGTTGGCTCTATAAAGAGCAAA
GAAACCTCGACGACCTAGCCAGTACCAG----------------------------------------------------
--------------------------------------------------TACCAGTAG---------CGCTCCGTCTGT
TTTTCATTGTCG----GAAGCAACCTCCACGCTCCCAGTACGCAGCAGATGACGAAGGGCGGCGGCAGCGAGACGGGCGG
GTGCCTCTGCATCGGGGCGCCGATGCGCGCGCTGTCGCGGGCGTGCGACTCGGCCTGCGACCTCTACGTGCGCGGCATGT
CCGGGTGCGCCACCCGCGTGCCGGCGGGGGCGGTGGCAGGCGGCCGCGGCTCCGGCTTTGTCAGATCGGCCACGGCCGTG
CACCTGTGGACGAGCTCCGACCGCGCCGACGACCTCGTCCGCGCCGGGTCGACGAAGCAGCGCCGCGTGGCGACGGCCGA
TCAGCCGGCGGATGTCGGGGCGGCAAAGAAGGGCCGCCTTAGTCCGGTGGCGCCGGCGATCGTGCCGGCTCGGAGGAAGG
GGCCGGCGATGGCGACCATCGCCGAGAACGGGCCGTGCGACTTCGGCGCCTGCGCGCTGAGGCCACCGGAGCTGAGGAAG
CGCGCCACGG-CGGTCGGCGGGCAGGGCGCGCCTGGCGGTGGGTTTGTCGCCGTCATCGCGGGGACCGAGGCCTTCGCGG
CTCGATCGTGACGCGTGCGTGCAAGACGCGCGCGCGTAGCGGCTGTGTACAAAACTAGCTTCTAGAAGTCCAGAGGTCGA
TTTCACCCAACACACCAGTTTTCTCGCACTTTCTCGTGATTTCTTGCTGATGTGTAAACAGTTTGACAAGTAGTGCAAAT
ACTATTATGATCCGCACAGAATATAGTGCAGATATAATGACAAAGTCTGTTTTAAACCATGTCTTTGTAGTGAACTGGTG
ATAATCTGAC-TGAACACCAATCTCCTAATCCGTGAAATCAGGATAAAGGTTGTCAAACGCACGATTATATCATGTGGGG
TTCTATAGCTTTAGGATCTAAG--TTAATTGGGGTTATTTGCGAACTTGCCATATGATTCTTATCCAAGTAAGAATGTGC
AAACATTCTTATCTGACAAGCTTGGAATGTAAGGGCATCTCCACCGCCGTCCATAATAATGGATACATCAAACGTCGAAG
GGCACGTCCGGACGTGTCCGTGGACACAAAAAAGGGAGACGGCCATCCAACAC---------------------------
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------------------------------------------------------------TATACATCAATGTTCGTCTC
TGTTTTGTTCTCATAAATTTAGAGCACTTAAAATAATTAAAGATAAATATCATCTTTCGTCCATAATCATGTTGCGCAAA
TATTTTAATGCAACAATAATTCAAATATAATTATACAATCCAAACATGAGGGTTTCCAATAAAATAGTTTAAATTTGAAT
TTAACTTATTCAAATATTTTTTTTAATTTTCTGCTCAACCAGATCTAA-----------AGTTG-----------CTCGA
TGATGAATCTGTTGATGCATTTGGATAAAATCCTCGAACATTGTTGGGTTCTGCTTTGGAAGT
>chr7D_1
CATCCAAGGACCTTTATGCACAAAGGAAGGACTGGTGCCTAATTTTATATTTCTGTAGGGTCATTGTAATAGTTGTGGAG
TAACCACTTCTACCTAGGTCCTTGGGGACTGTTG-----GTAAAAAAGGAAATGCATTACTTACTTGCATTGCACAAAAC
ACCGGTGCTAAGTTCTTCATTACT--TTTTTTTCTTCTGCCGGGATAACTCCATGACTTAACGCGGTCACTCTCTGTTTT
GCTTAAGCATGATGTATTGATATGACAGTGGCGGGCTTCGTGTCTTGCTATTTTCATTTTCTCTCTTTCCCAGTTGCCAC
CATTGTC--------AAGTTAA-----------AAAAAGATCCACCATTGTCCATGTCCAAAAGAAATTAGGAAAATGCC
ACCATTGTCAGAATTAACGGCTGACTCACGGCCAGCGCTTCTGTCAGGGAACACGATTAGTCGGGAAAAAGTCGCTATCT
TTGCCGCGGTTGCTCGCTCGCTCTGTTTTACAATTGCATCGTTGACACAAGCAACGGCGATTGCTAAGCTTAATTAGCAC
GTCAAAATCCCAAGTTAGTAGGCCGACTGGTTTTGTTAACAGAAAAACAAATGATACCAGCCCCCGGCTTACATATGCGT
GCACCCGGCAC--------CACCCGATGCAGCGCGTCTGCGCTCGTGAGACTTGGCCGGCTCAACTCCCCTATCACTCTA
TGGCCCCAAAATACATCACATACATGTGCATCCTGACCATTTCGCCCTTACCGCCGGTATTAAAAACCGCTTACGCCATG
GTTAACCAAGC----------A----------ATATTCAAAAC-CAAGCTCCTCGACTGCACAAGCAACCCGGTGTGAAC
CCCATCATCGGGTGCTCGATTCTCAACCTCAACCCAGAGATAACGGAGACCTCCGTCGAGTTGTCTCTATAAAGAGCAA-
GAAACCTCGACGACC------GTACCAG----------------------------------------------------
--------------------------------------------------TACCAGTAG---------CGCTCCGTCTGT
GTTTCATTGTCGGTCGGAAGCAACCTCCACGCTCCTAGTACGCAGCAGATGACCAAGGACGGCGGCAGCGAGACGGGCGG
GTGCCTCTGCATCGGCGCGCCGATGCGCGCGCTGTCGCGGGCGTGCGACTCCGCCTGCGACCTCTACGTGCGCGGCATGT
CCGGGTGCGCCACCCGCGTGCCGGCCGGGGCAGTCGCGGGCGGCCGCGGCTCCGGCTTTGTCAGATCGGCCACGACCGTG
CACCTGTGGACGAGCTCGGACCGCGCCGACGACCTCATCCGCGCCGCGTCGACGAAGCAGCGCCGCGTGGCGACGGCCGA
TCAGCCGGCGGATGTCGGGGCAGCAAAGAAGGGCCGCCTTGGCCCGGTGGCGCCGGCGATCGTGCCGGCTCGGAGGAAGG
GGCCGGCGATGGCGACCATCGCCGAGAACGGGCCGTGCGACTTCGGCGCCTGCGCGCTGACGCCACCGGAGCTGAGGAGG
CGCGCCCC-GGCGGTCGGTGGGGTGCGCGCGCCTGGCGGTGGGTTTGTCGCCGTCATGGCGGCGAGCGAGGCCTTCGCGG
CTCGATCGTGACGCGTGTTTGCAAGATGA-CGCGCGTAGCGGCTGTGTACAAAACTAGCTTCTAGAAAGTC---------
-----CCCAACACACCAGTTTTCTCTCACGTTCTCGTGATTTCTTCGTCATGTGTAAACACTTTGACAAGTAGTGCAAAT
ACTATTATGATCCGCACAGAATATAGTGCAGACATAATGGCAAAGTCTGTTTTAAACCATGTCTTTGTAGTGAACTAGTG
ATAATGTGACATGAACACCAACCTCCTAACCCGTGAAATCAGGATAAAGGTTGTC-AAAACATGATTATATCATGTC--G
TTCTTTAGCTTTAGGATCTAAATATTAATTGGGGTTATTTGCGATCTTGCCATATGATTCTAATCCGAGTAAGAATGTGC
AAACATTCTTATCTGACAAGTTTGGAATGCCATCGTG-------------------------------------------
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----------------------------------------------TGAAGCTTTTCAATAAAATAGTTTCAATTTGAGT
TCAACTTATTCAGACATATTTTTTAGTTTTCTGCTCAACCAGATCTAAAGTTGCTCATGAGTTG-----------CTCGA
TGAAGAATCTGTTGATGCATTTGGATAA-----------------------------------
>chr3D_563
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---------------------GCCGACTGGTTTTGTTAACAGAAAAACAAATGATATCAACT-CCGGCTTACATATGCGT
GCACCCGGCAACAATGGATCACCCGATGCAGCGCGTCTGCTCTCGTGGGACTTGGCCGGCTCAACTCCCCTATCACCCTA
TGGCCCCAAAATACATCACATACATGTGCATCCTGACCATTTCGCTCTTACCGCCGGTATTAAAACCCGCTTACGCCATG
GTTAACCGAGC----------AAATCTCTAATATATTCAAAAC-CAGGCATCTGGACTGCACAAGCAACCCGGTGTGAAC
CCCATCATCGGGTGCTCGATT------CTCAACCCAGAGATAACGGAGACGTCCGTCGAGTTGGCTCTATAAAGAGCAA-
GAAACCTCGACGACCTAGCTAGTACTCCCTTCGTTCGGAATTACTTGTCGCAGAAATGGATGTATCTAGACGTATTTTAG
TTCTAGATACATCCATTTTCGAGACAAGTAATTCCGAACAGAGGAAGTAATACCAGTAGCGCTCCGTCCGCTCCGTCTGT
GTTTCATTGTCG----GAAGCAACCTCCGCGCTCGTAGTACGCAGCAGATGATGAAGGACGGCGGCAGCCAGGCGGGCGG
GTGCCTCTGCATCGGCGCGCCGATGCGCGCGCTGTGGCGGGTGTGCGACTCCGCCTGCGACCTCTACGTGCGCGGCATGT
CCGGGTGCGCCACCCGCGTGCCGGCGGGGGCAGTCGCGGGCGGCCGCGGCTCCGGCTTTGTCAGATCGGCCACGACGGTG
CACCTGTGGACGAGTTCGGACCGCGCTGACGACCTCATCCGCGCCGCGTCAACGAAGCAGCGCCGCGTGGCGACGGCCGA
TCAGCCGGCGGATGTCGGGGCGGCAAAGAAGGGCCGCCTTGGCCCGGTGGTGCCCACGATCGTGCCGGCTCGGAGGAAGG
GCCCGGCGATGGCGACCATCGCCGAGAACGGGCCGTGCGACTTTGGCGCCTGCGCGCTGACGCCACCGGACCTGAGGAGG
CGCGCCCC-G-CGGTCGGCGGGCAGGGCGCGCCTGGCGGTGGGTTTGTCGCCGTCATGGCGGGGATCGAGGCCTTCGCGG
CTCGATCGTGACGTGTGCGTGCAA---GA-CGCGCGTAGCGGCTGTGTACAAACCTAGCTTCTAGAAGTCCGGAGGTCGA
TTTCACCCACGACACA--TTTTCTCTCACGTTCTCGTGATTTCTTCCTGATGTATAAACAGTTTGACAAGC---GCAAAT
ACTATT--------------------------------------------------------------------------
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>SNPs
-------------------------S------SS--------------------------------S-------------
--------------------------S------S----------------------------S-----------------
--S---------------------SS-------S---S------------------------------------------
-----------S----S---------S--------S----------------------------------S---------
--------------------S-SSSSSSSSSSS-----------S---------------------------------S-
----------------------------------------------------------------------------S---
------------------------------------------------S-------------------------------
------------------------------------------S-------------------------------------
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S----------S--------------------------------------------------------------------
----------------------------------SSSS--SSSS------------S-----------------------
SSS-----------------------------------------------------------------------------
------------------------S-------------------------------------------------------
--------------------------------------------------------S-------------S--S---S--
-----S---------------S-S-------SS------S-----------------------S----------------
------------------------------------------------------S-------------------------
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-------------------------------------S-------------S-----------------------SS---
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-S-----S--------------------------------------S--------S------------------------
---S-------------S----------------S-----------------------------S--------------S
-------S---------------S--------------------------------------------------------
---------------------------S------------------S---------------------------------
--------S------------S-------S----------------------S--S-----------------S------
-------------S-------------S---------------------S---------------------------S--
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--------------------------S------------------S---------S--SSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S-S-----------S-
------------S--S---SS------------S----------------S---------S----S--SSS-SS------
-----S---S----------------S-------SSS-S------------S----------------------------
------------------------------S-----S---------------------------SSSSSSSSSSS-----
---S-------------------------------S--SS---SS------------------
>forward_882
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--------------------------------------------------------------AAGCAACCCGGTGTGAAC
AT------------------------------------------------------------------------------
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>reverse_2764
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-------------------------------------------CCGGGTTCTGCTTTGGAAGT
