>input_sequence_87116
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--------------------------------------------ATGGGACGCATCTTGCTCCTCTGCGCATTCCTCCTC
GTCCTGCTCAGCGTGGCCAGCCTCATGGAGGTAACGGAAGGGAGGGGCCGAGGCGGATCACGCGGCGGAGGAAGCGGCAG
CCCGCGTGGCCTCAGCGGTGGCACCTGGGTGGCGTGCGTCGGCTCGTCGC-------TGCTGGCCGCCGCGGCCATGCTC
CTGTAG--------------------------------------------------------------------------
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>chr3B_1_TraesCS3B01G357100
CAAGGTGAGCCAGGTTCTTCCATGGAAGATCAAGGGCGTCAAGGTGGAGCGAATACTCACGCTCAGGGGCAGTACCAAGC
AGCCCGGAATAGAATTCGTCCACCGCGGTTGCGATTTCTTCCTGGTTCGTGAACGTCTGCCCGTTCTGTTGCAATGAGAG
GATGACATTCTTACGTTGGCGATGGCATTCTATATACATCCGTATGTGGTTCGTAATGGAATCTCTACAAAGACTTACAT
TTAGGAACGGAGGGAGTATATTAGAATTTGTTTCGCCATATGTCACTGAAATTACTATCGAAAAACGTCAGAGCCGGAGT
GCCACGCGCTTGACGTGCTGCACTTATTATTTGAGCTATATTATTATATTACCACGCTGGCCTACGAACGCCAGATGATG
CGTGTGATGCTAGCAATCAACCAGCGTACTCCAAGAAAAGTCCAGGAAATCAGAAGGAAGGAAAAGCGGAGCATGACTAC
GCAAGCGAGCGAGAC-TTGCGTTCCATACCGCCGCTTGTCCTGCTCATGGTTGACCTGGAAATCCTAGTCTTACGACCTG
GTACTTTGTTTGGCCCATAATGGAGATAAAAAC----TACGTACAAAATCCAATTGCCAACCTGGAATGGAAGAGATAAG
TGCAATGATCCACTCAACAATGACAGGTACACCACTTACCCTCTAAACGGAAGTCCGGTCATGAGGTGCAGACGTAGTCC
TACATCATTTCGAATCAATTTCCTCTAGTACCTAATTGAAGAAGATAAGAGCACCCGCGTCAAAATTAGAGTAGAAAAAC
GGCAATGTCAACTCTGCCTTGACCAATAAGCTGCGAGCTCCGTGCTGCTAGCTAGCC--AGTTAACAGCAACACGTCTGG
CA--------------------------------------------------------------AGGTCAGCTCCGGACC
ATGCATAAATACACAATTGCAGCAGCAGCAGCTG---------------TGGAGGCGAGAGAAGGAAATCACACGCTCTG
GAAGCTGTGTTTCCGCTAGCCCGCGTGTAGGGATAGATTGGAAGATGGGACGCATCTTGCTCCTCTGCGCATTCCTCCTC
GTCCTGCTCAGCGTGGCCAGCCTCATGGAGGTAACGGAAGGGAGGGGCCGAGGCGGATCACGCGGCGGAGGAAGCGGCAG
CCCGCGTGGCCTCAGCGGTGGCACCTGGGTGGCGTGCGTCGGCTCGTCGC-------TGCTGGCCGCCGCGGCCATGCTC
CTGTAGGCCCGAGCTGCGTGACTCAGCTATGTGTGATATATATACGGCTGGC--GGAGACCTGCGTACGT---ACTTTGG
TGATTTTGTGTGTTGTGACTTGTGTGTGCTTGAGATATATCTGAATGTTGTCGTGGTAATTTGCAGCAACAACAGTGGGT
CCAGCATGAGATTCGTAAACTTATCCTTCTGTAAATGAATGAGTTTGTCTAAGTCGTATCTAGATGTGACATAATAGATA
CTTCAATCGTTTTTAAATATAAGTTTATTTTAGATATTCTAATATGGACTACATACGGGCAAAATGAATGAATCTACACT
CTAAAATACGTCTATATTCATCCGTATGTTATCCATATTCAAATCTCTAAACAGACTTATATTTGAAAACGGAGGGAGTA
TGTCACATCTAAGTAATGTCCAAAATAATATTGTGGTCCCTTTTGCCTTGTCTTTTTATTTTTTAGACAATATCGATATT
TGTTCTGTTTTCAGGTGTTGTTATCCGTGCCGTCCACTTTCTCTGGTCCAACAGAGTCTAAAGGATCTGGCTGATTACAG
CATGTGCACGTCAGTACTCGCTGCAACTAATCATCGCTGGGCATGGAACTCTTGATAGCTTGAACCTCACGGGGCACTCA
CTATGGACAAGAGTTAGCTACAGGAGACGCAAGTCAAACTAGAGTGTGCTCATGTAGCTACGTAAATAAGGGCATATGTA
CAATGGTTGATAAGATAGTCTCATCTTAAGTCTTGCATGTGATTTAAAGATGACAAAAAAATTTATCTACAGTGGGTCAT
CTCATAGCCTTATCTTCAATAACTAGTAATTTCTAAAAATATGGTGAGACATATTATGCTAAAAGATCACCTCTAGCTTT
TTCTTATGAGTTCTCTCTCCTCCACTTCATTATCTATCCTACGTGTCACTTCTAAGATAGCACCATTGTACATGCCCTAA
CACTATGGGCACGTAAAAATAGCATCTACATGGCCACA-TTTTTTTCCCTTT
>chr3D_359
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--------------------------------------TATTATTATATTATCACGCTCT-CGACAAACGCAAGACGATG
CGCGTC-------CAATCAAGCAGCGTACTCCAAGAAAGGTCCAGGAAATCAGAAGGAAGGAAAAACTGAGCATGGCTAC
GCAAGCGAGGGAGACTTTGCGTTCCATCCCGCGGCTTGTTCTGCTCACGGTTGACCTGGAAATCCTAGTCTTACGACCTG
GTACTTTGTTTGGTCCATAATGGAGATAAAAACCACGTACGTACCAAATCCAACTGCCAACCTGGAATGGAAGAGATAAG
TGCAATGATCCACTCAACAATGACAGGCACACCACTTACCCTCTAAACGAAAGTCCAGTCATGAGGTACAGACGTAGTCC
TACATCATTTCGAATCAATTTCCTCA---ACCTAATTGAAGAAGATAAGAGCACCCACGTCAAAATAAGAGTAGAAAAAT
GGCAATGTCAACTCTGCCTTGACCAATAAGCTGCGAGCTCCGTGCTGCTAGCTAGCTATAGTTAACGGTAACACGTCTGG
CA--------------------------------------------------------------AGGTCAGCTCCGGACC
ATGCATAAATACACAATTTCAGCACCAGCAGCTG---------------TGGAGGCGGGAGAAGGAAATCACACGCTCTA
GAAGCTGTGTTTCTGCTAGCCCGCGTGTAGGGATAGATTGGAAGATGGGACGCATCTTGCTCCTCTGCGCATTCCTCCTC
GTCCTACTTAGCGTGGCCAGCCTCATGGAGGTCACGGAAGGGAGGGGCCGAGGCGGATCGCGCGGCGGAGGAAGCGGCAG
CCCGCGCGGCCTCAGCGGTGGCACCTGGGTGGCGTGCGTCGGCTCGTCGC-------TGCTGGCTGCCGCGGCCATGCTC
CTGTAGGCGT--GCTGCGTGCCTCAGCTATGGAGTG---ATATACGGCTGGCCTGGAGATCTTTGTACGTGGTACTTTGG
TAATTTGT--------------TGTGTGCTTGAGATATTTCTGAATGACGTCGTGGTAATCGGCAGCAACAAC-------
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>chr3A_359
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--------------------------------------TATTACTATATTACCACGCTCGCCCATAAACGCCAGACGATG
CGCGTCATGCTAGCAATCAACCAACGTACTCCAAGAAAGGTCCAGGAAATTAGAAGGAAGGAAAAACTGAGCATGGCTAC
GCAAGCGAGGGAGAC-TCGCGTTCCCTACCGCGGCTTGTTCTGCTCATGGTTGACCTGGAAATCCTAGTCTTACGACCTG
GTGCTTTGTTTGGTCCATAATAGAGATAAAAACCATCA---TACCAAATCCAATTGCCAACCTAGAATGGAAGAGATAAG
TGCAATGATCCACTCAACAATGACAGGCAAACCACTAT-CCTCTAAACGGAAGTCCTGTCATGAGGTACAGATGTAGTCC
TAC-TCATTTCGAATCAATTTCCTCT---ACCTAATTTAGGAAGATAAGAGCACCCACGTCAAAATAAGAGTAGAAAAAT
GACAATGTCAACTCTGCCTTGACCAATAAGCTCCGAGCTCCGTGCTGTCAGCTAGCTCCTCCCTTCGTCCTATAATATAA
GAGCGTTTTTAAAATGTCAAAAATGCTCTTATATTATGTGACGGAGGAAGTAGTTGACCTAACGAGGTCAACTCTGGATC
ATGCATAAATACACAAT-GCAGCAGCAGCAGCTGGCCCCGACATCTAGTTGGAGGCCAGAGAAGGAAATCACACGCTCTA
GAAGCTAGCCCGCCTGCG----------------AGATTGGAAGATGGGACGCATCCTGCTCCTCTGCGCATTCCTACTC
GTCCTGCTCAGCGTGGCCAGCCTCATGGAGGTCACGGAAGGGAGGGGGCGAGGCGGCTCACGCGGCGGAAGCAGCGGCAG
CCCGCGTAGCCTCAGCGGTGGCACCTGGGTGGCGTGCGTTGGCTCGTCGCTGCTGGGTGCTGGCCGCCGCGGCCATGCTC
CTGTAGGCCCGAGCTGCGTGACTCAGCTAGGCGGTG---ATATACGGCTGGCCTGGACATCTTTGTACGT---ACTTTGA
TAATTTA-TGTATTGTGACTTGAGTGTGCTTGAAATATATCTGAATCATGTCGTGGTAATTGCCAGCAACAAC-------
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>chr3B_1416
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-----------------------------------------------------------------------TAATATATA
CTACATTCGTTTCTAAATATAAGTTTG-TTTAGAGATTCTAATGTGGACTACATTCGGAAAAAATGAACGAAGCTACACT
CTAAAATACGTCTATATTCATCCGTATGTTGTCCATATTTAAAATTCTAAACAGACTTATATTTGGAAACAGAGGGAGTA
TGTCACGTCTAAGTAATGTCCAAAATAATATTGTGGTCCCTTTTGCCTTGTCTTTTTATTTTTTAGACAATGTCCATATT
TGTTCTGTTTACAGGTGTTGTTATCCGTGCCGCTCACTTTCTCTGGCCCAACAGA---TAAACGATCTGGCTGATTACAG
CATGTGCACGTCATTACTCGCTGCAACTAATCATCGCTGGTCATGGAACGCTTGATAGCTTGAACCTCACGGGGCACTCG
CTATGGACAAGAGTTAGCTACAGGAGACGCGAGTCAAACTAGAATGTGCTCATGTAGGTACGTAAAT-------------
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------------------------------------------------------------------------------AA
CACTATGGGCACGTAAAAATAGCATCTACATGGCCACAATTTTTTTTCCTTT
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------------S---S--S---------S----
--S--S--------------------------------S--------------------------S-S-------S----
---------S----------------------S------S----------------------------------------
-------------S------------------------------S-----------------------------------
---------------------------S----------------------------S----------S------------
--------------------------SSS---------------------------S---------S------------S
--------------------------------------------------------S---------S-------------
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-------------------------------------------------------------------------------S
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--------------------------------S-----------------------------------------------
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-------------------------------S-SSSSSS--------------------S--SS----------------
-S----SS---S-----------------------------------S-------------S-----------SSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----S---
--S--S------S-------------SS------S--------S----------S---SS--------S---S-------
------------------------------S--------S---SS--------------------S----S---------
------S----------------------------------------------------------------S--S-----
----------S---------------------SS------------S--------SSS----S-----------------
-------------S--------------------------S--------S-----------------------------S
------------------------------S------------S-------------S---------SSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--
----------------------------------------------S-----
>forward_139
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---------------------------------------TCCTGGTTCGTGAACGTCTG---------------------
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>reverse_1436
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---------------------------------------------------------------------------TGGGT
CCAGCATGAGATTCG-----------------------------------------------------------------
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