>input_sequence_85991
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-------------------------------------------------------------------ATGGTTCAACGGT
CGGCCGGCCAGGGCGCGCGGCGGGGCCAGGGCCGGCAGCGGCACGACCACCCGACGGCGGCG---------AGGTCGGGC
GGCGGGGGGAGGCGGCATTACCAGCAGGAGCTGCTGCTGGGGCTGCACAGCAGCAAGGGCAAGGGCGCGTGCCGGTTCAA
GCGCAGCTGCTTCAGCGAGGAGGAGGACGCCGCGTCGTCCGCCATGCTGCTGCTCGCCTGCGTCGTCTGCGCCCCCTCAC
TTTGA---------------------------------------------------------------------------
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>chr5A_1_TraesCS5A01G050900
TAATTTTTTTCGCCGCGTCAATCGAATTTGGAGAGAAGAGGATGCGCGACTCCGAGGTGGAGACGGGGGCGCCACC-GCA
AGGCTTCAAACAGAAACGGTGTGGATCAGGGGA-CGACGCGACAATGACATCCTAGTTGGAGGGGGGGCGAAGGTTTGAC
GAGTTCGGGTGTTCGGGGAGGTCGCCGGTGATTGGATCGTTTGGGGTTTAGAGGGAG-TGTGGGCAATTCGCGGGGAAGA
AAGACTCTCGGCCGTCAGATCTTGGGTCAAACGGTGTTGGTTGATTTTACTAGATTGAAAAAATCCAAGTGCATGTGCAA
TCGCCCCCTAAGA-------------------------------------------------------------------
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--------------------------AAAAGAAACCAAATAAACA---ATGGAGGTAGAGAAAGATTAATGGAGTGACAA
ATGACGAGATACTACTCCCTCCGATCCAAAAAAAAAG--TGTTGTGGCTTTAGCTCAAATTTGAACTAA-GCCACGACAC
TTGT----------------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------------TTTTATCAGAGGGAGTAATTTCTCGAGGCGCTTAAGACTTTTTAT
ATTTTTCTTAATCTAAACTACCAAAAATGAAAGACCTTCACAAAGAATCTCTAAGCTCCGCTAGTGCAAGCCAGAAAAGT
AATATTGTGGTAAACAAGATACACCCGCGTACATGTAATCTCTTTGATTTGATTAA-----TGTGATGTGCATGAACGTC
ATGACAAGTCTTAGCGGCGGCCCGT-----AGCAGGTAGCTGGATCCGTTGAATGAACAGTGGTTGCTCTGTGCCCCACC
ACGTTCATGCGCGCCGTTCAGCTCACTCTG--------------------TGGTTTCAAATCCTCCGGCCCGGCGGTAGC
CTCCAAATGCGTTCGAAATAAAGCTCGCTCT------GATATGATGCC-ATATGGCATTCTTGCAATATCGCCAGACCAC
AGGGGCAAGCAGCACCCACTGCCCTCTATAAATAACGCCGCACCATACGTCCATGTCTCCTCGCCCACTCGCCGTTTGAA
TACTCCGCTCTGCTCTCCTCCAGCAAAATCCACAGAGCAGA-----------------ACATACAGGATGGTTCAACGGT
CGGCCGGCCAGGGCGCGCGGCGGGGCCAGGGCCGGCAGCGGCACGACCACCCGACGGCGGCG---------AGGTCGGGC
GGCGGGGGGAGGCGGCATTACCAGCAGGAGCTGCTGCTGGGGCTGCACAGCAGCAAGGGCAAGGGCGCGTGCCGGTTCAA
GCGCAGCTGCTTCAGCGAGGAGGAGGACGCCGCGTCGTCCGCCATGCTGCTGCTCGCCTGCGTCGTCTGCGCCCCCTCAC
TTTGATTACCAT--CCATACCCCATGGTGATCTCGATCGTGGAAACGATCGCTAGCTTAAGTAATTGTTCTCTCAATTCT
CTCTGTGCTGCTAGTAATTACTGTGTACTGTATCCAGATAACTGTGAT--------------------------------
------------------GTGAATTATATGTACTCGTTTGATCACGGAGATATAATAG----------------------
--AGCCGTTGTTCTCGCCGTGTGCTTAACAGCCGGTAAATTTATATATGTGTTGAGTATGTTCAGTGATCACTGTGTTAT
GCTGGTAAGTAATGGAGAATTTGGGGATGATCAGCTTATTCGCTTTTTGCATAAAAGGCCCCGTGCACAAAAAAGAGATT
AAAAAACTACCCTATGCGTATACAACTAGTACCAAATCTAACATGTGGCAGCAAGCCAACCAAGGGACATGCCACCACAT
CACATGGCGGTTGGCAATGATCCAACGGTTTTCACAAGGCGTAAGGCTGGTCATAGTGGGGAGTAACTTAGACTAGTGTC
ATATGCATAACACTAGTCTAAGTTACTATCTTCATAATGCAAAGTAACATAATAGTAGTGTCTTAGATGGCTTCATTTAT
TAGCTTGTAGACTTATTTTGTCTTGGGAAGCGCTATGTTACAGTAACATATTATGTTACTATCTCACATTAAATACTTGC
CACATAAGCAAAAAAATTTTGGAATGCGCTATGTTACTAGTTAAGTTACTCCCACTATGACTAGCCTAACAGAACGGATG
GTCAAGCATATTGCATGCGCCATCCCCTATCCTTGTGGGGAATGTATCGGGTGCTCTCACCTTTGGAGTGTTTTCGGTGC
TCCACGCATTTTAAAATGTTCGTAAAATTTTGAAACAAATCTAGCACATTCATAAAACATCAATGTATGTTGTCACAAAA
TTTCAAATCAAAATTCAAAACATTGCTCGAGATACAAAAAAGACAAAACTGACGTTAATTTGATAATGAGCCAAATCTAA
AGCCAACTTATGTTATGTACTCCCCTTATAAAGAAATATAA
>chr5B_1
TAATT-TTTTCGCCACGTCAATCGAATTTGGAGAGAAGAGGATGCGCGACTCCGAGGTGGAGACGGGGGCGCT-GCGGCA
AGGCTTCAAACAGAAACGGTGTGGATCAGGGGA-CGACGCGACAATGACATCCTAGTTGGAGGGGGGTCAAAGGTTTGAC
GAGTTCCGGTGTTCGGGGAGGTCGCCGGTGATTGGATCGTTTGGGGTTTAGAGGGAG-TATGGGCGATTCGCGGGGAAGA
AAGACTCTCGGGCGTCAGATCTTGGGTCAAATGGTGTTGGTTGATTTTACTGGATTGAAAAAATCCTAGTGCATGTGCAA
TCTCCCCCTAAGA-------------------------------------------------------------------
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--------------------------AAAAGAAACCAAATAAATA---GTGGAGGTAGAGAAGGATTAATTGAGTGACAA
ATGACGAAATACTACTCCCTCTCATCC--AAAAAAAG--TGCTGTGGCTTTAGATCAAATTTGAACTAAAGCCATGTCAC
TTTT----------------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------------TTTCACCAGAGGGAGCAATTTCTTGAGGGGATGAAGACTTT----
--TTCTCTTAATCTAAACTACCCAAAATGAAAAACCTTCACAAAGAATCTCTAAGCTCCGCTAGTGCAAGCCAGAAAAGT
AATATTGTGGTAAACAAAATACACCCGCGTACATATAATCTCTTTGATTAAT-----CACTTGTGATGTGCATGAACGTC
ATGACAAGTCCTAGCGGCGGCCCAT-----AGCAGGTAGCCGGATCCGTTGAATGAACAGTGGTTGCTGTGTACCCCACC
ACGTTCATGCGCGCCGTTCAGCTCACTCTGCCTGCCGGCTGCCCCCCTTGTGGTTTCAAATCCTCCGGCCCGGCGGTAGC
CTCCAAATGCATTCGAAATAAAGCTCGCTCTCGCTCTGATGTGATGCCAATATGGCATTCTTGCAATATCGCCAGACCAC
AGGGGCAAGCAACACCCACTGTCCTCTATAAATAACGCCGCACCACACGTCCATGTCTCCTCGCCCACTCGCCGTTTGAA
TACTCTGCTCTCCTCTCCTCCAGCGAAACTCACAGAGCAGAACACATAGACCAGGAGGACATACAGGATGGTTCAACGGT
CGGCCGGCCAGGGCGCGCGGCGGGGCCAGGGCCGGCAGCAGCACGACCACCCGACGGCGGCG---------AGGTCAGGG
GGCGGGGGAAGGCGGCATTACCAGCAGGAGCTGCTGCTGGGGCTGCACAGCAACAAGGGCAGGGGCGCGTGCCGGTTCAA
GCGCAGCTGCTTCAGCGAGGAGGAGGACGCCGCGTCGTCCGCCATGCTGCTGCTCGCCTGCGTCGTCTGCGCCCCCTCAC
TTTGATGTTGATTACCATACCCACTGGTGATCTCGATCGTGGAAACGATCGCTAGCTTAAGTAATTGTTTTCTCAATTAT
CCCTGTGCTACTAGTAATTACTGTGTACTGTGTCCAGATA----------------------------------------
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>chr5D_1
TAAATTTTTTCGCCGCGACAATCAAATTTGGAGAGAAGAGGATGCACAACCCTGAGGTGGAGACGGGGGGCGGCGCGGCA
AGGCCTCGAACGGAAACGGTCTGGAACAGGGGGGCGACATGACAATGACATCCTAGTTGGAGGGGAGTAGAAGGTTTGAC
AAGTTTGGGTGTTCGGGGAGGTCGCCGGTGATTGGATCGTTTGGGGTTTAGAGGGAAATGTGTGCAATTCGTGGGGAAGA
AAGACTC--GGCCGTCAGATC-TGGGTCAAACGGTATTGGTTGATTTTACTCGACTGAAAGAAATCCAGGTGNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNAAAAGAAACGAAACACACAGTGGTGGAGGTAGAGAAGGATTAATGGAGTGACAA
ATGACGAAATACTACTCCCTCTGATCC--AAAAAAAAAATGTTGTGCCTTTAGCTCAAATTTAAACTAAAGCCATGACAC
AAATACATGGCAATTTTGAATATCTTTTATAGCAAATTTAGTGATGCAAGGATGGCAACTTTAGTTGTAAGAATGACAAC
TTTTTTTGGATGACAAGTTTCAGTTTTTTTTCTGATTTCAGATGACAACCTTAGTTGTAAAAATTTCAGTGCCGGATTGT
TTCGTGCCACACGTGTTACACTCATTTGAGGGGGGTTTTATCGGAGAGGGTAATTTCTTGAGGGGCTGAAGACTTTA---
--TTTTCTTAATCTAAACTAT-AAAAATGAAAAACCTTCACAAAGAATCTGTAAGCTCTGCAAGTGCAAGCCAGAAAAGT
AATATTGTGGTAAACAAAATACACCCGCGTACATATAATCTCTTTGATTTGATTAAACACTTGTGATGTGCTTGAACGTC
ATGACAAGTGCTAGCGGCGGCCCATAGCAGAGCAGGTAGCTGGATCCGTTGAATGAACAGTGGTTGCTCTGTACCCCACC
ACGTTCATGCGCGCCGTTCAGCTCACTCTGCCTGCCGGCTGCCCCCCTTGTGGTTTCAAATCCTCCGGCCCGGCGGTAGC
CTCCAAATGCGTTCGAAATAAAGCTCTCTCT------GATATGATGCC-ATATGGCATTCTTGCAATATCGCCAGACCAC
AGGGGCAAGCAGCGCCCACTGTCCTCTATAAATAACGCCGCACCACACGTCCATGTCTCCTCGCTCACTCGCCATTTGAA
TACTCTGT-----TCTCCTCCAGCAAAATTCACAGAGCAGAACACATAGACC---------------ATGGTTCAACGGT
CGGCCGGCCAGAGCGCGCGGCG------GGGCCGGCAGCAGCACGACCACCCGACGGCGGCGGCCGCGGCGAGGTCCGGC
GGCGGGGGGAGGCGGCATTACCAGCAGGAGCTGCTGCTGGGGCTGCACAGCAGCAAGGGCAAGGGCGCGTGCCGGTTCAA
GCGCAGCTGCTTCAGCGAGGAGGAGGACGCCGCGTCGTCCGCCATGCTGCTGCTCGCCTGCGTCGTCTGCGCCCCCTCAC
TTTGATGTTGATTACCCC-----CTGGTGATCTCGATCGTGGAAACGACCGCTAGCTTAAGTAATT-TTTTCTCAATTAT
CCCTGTGCTACTAGTAATTACTGTGTACTGTATCCAGATATAACTGTGATGTGTAAATCTCCACCCGTTGACCCCCTTTC
TCGGTTGCTCAACCAGTAGTGAATTATATGTACTCGTCGTGTAAACCATTGTGCTCACCGTGTACTGTATCCAGATATAA
CAAGCCGTTGTTCTCACCGTGTGCTTAACAGCTGGTAAAT--------GTATTGACTATGTTCTGTGATCAC-GTCTTAA
GCCGGTAAGTAATGGAGAATTTAGGGATGATCA-------------------------CCCTGTGCACAAAAAATA-ATT
AAAAAAATACCCTACACGTATACAACTAGTACCAAATCTACTCAAGGCGCCACTC-------------------------
CACATGGCGGTTGGCAATGATCCAACGGTTTTCACAAGGCG---------------------------------------
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>SNPs
------------------------------------------------------------------------SSS-----
-------------------------------------------------------------------S------------
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---------------------------------------------------S--------------S-------------
--S-----------------------------------------------------------------------------
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------------------------------------------------S-------------S-----------------
-------S-------------S-----SS---------------------------------------------S-----
--S-----------------------------------------------------------------------------
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----------------------------------------------------------S----S---S--------SSSS
SS------------------------------S-----------------------------------------------
-----------------S----------------S---------------------------------------------
----------S------------S------------------------------------------------S-------
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---------------------S-----------------------S----------------------------------
-----S-----S-----------------S--------------------------------------------------
---------------------------------------S------------------------------------S---
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------SSSS------------SS---------------------------------------------S--------S-
-S-------S------------------------------SSSS--SS--------------------------------
-------------------------------------SSSS-S-SSS-SSSSSSSS-S----------------------
---------------S----------------S-------SSSSSSSS--S----S-------S--------S--S---S
--S-------------------S----------SSSSSSSSSSSSSSSSSSSSSSSSS---S------------S-S---
------S-------SS------------------------SSSSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
-----------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1446
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-----------------------------------------------------------------CACTCGCCGTTTGAA
TACTCC--------------------------------------------------------------------------
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>reverse_2567
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------CATATTGCATGCGCCATCCC------------------------------------------------------
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