>input_sequence_83866
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-------------------------------------------------------------------------ATGGCGT
TCGCGGCTTTGGCCATGTGGAGCGGTGGTTGGGGCTTGTCCGTTTCTTCGGCTCCATGGGAAGATGCTTCTGGCGCTTCT
TTTGCTGTGGACGCAGGAGGTGGCTACGACAGGGATGGAGGATTGGAGGTTGTTCATCGGCGATTGGTCTTTGAACCTGC
TTCAGCGAAGCTGGCCGATGCGGATCCGGCGTGGCATGGGGCGTCGCTTCGGCAGCCTGGACATTTCAGCTCTACTCAAG
ATCTCGCCTCTCTCGGCGGGCTACGATTGTGTGGCTCACAAAGCTTACAAGCGATGGTGCTTCTCCGGATCTAA------
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>chr3A_1_TraesCS3A01G394900
GGAGGAGCATGCCCTGCGTTGTGTTTAATATAGGCCCGCTCGTGAACGGACGTGTGGCTAGAGTAGGTTTCTCGACTTCC
ACGCGGGTTTAATGGATGTGTTTGAATGCGGCAAGGAGGCGTGTTCAGCCGGGTGTGCAGCGGGCGGCACCCTCGGCCGG
CGCGCTGCTTCAATGGCGGAGGCAGTGAGAGGCCGCGTCCGCCCTGAGCCGCCTTCAATGTGGAGCAGCGCGCTCTACAG
CGACATGAATGTGGGCAATTGGCACCGAAAGGGAAGCGCGCGTGGGAGGGGGAGGAGTTTTTGACACGCCAGGACTGTTA
GAAACAGGTTTGGGAGCGGTCCAGACTCCCGCAAATCGCTCCCACGTTTGTCTCAAGTTTGCGGGAGAAAAACGCGTTCG
TACCACACTGCAGACCGATACAAGCCCGCGTTCGTACCACATTGACGATCGGCGTTGGAGATACCCTAACACCATGTTTC
GTTCCTTTATCCAGCAAAGTAGAGTAGAGTGATAGGTTAAAAAAGCAAAGTAGAGTGAAATGCCCTAATTTCTTTACCCT
AAAAAAGTACAGTGAATTCCCCTCTCACTTCTCCCTTCCAACACTTTCCAACTAGTCTCTTCCCGTCCTCTCTCGAAACT
GCCTATAGAAGAGGGCAGGGT-------------------------------AAGACCGGTGGTCTCCTTCACCTCAGGT
GGCCATTATGGCTACTGGAGGGGTGGGAGATCTCGGATCTGATGCCTGACGGTGTATATA--CCTAGATTTTCTAGGTTT
GGTGTCCTTTGCACCGGCGTCATGGCGGAGGGGAAGTCGGTGTGTGGAATAAAGTGGCCCGGTCACCTTCTTCGCTCGCC
TGTCGTCGCTCTTGGCACTAGCGAGGAGCTGGGGTCCTTTTGGTCTCGCGGATCTGAGTGTTTACGATCCCGCGAGTTGG
TCGTCACCGTCGTCGGTCACTGCGAGGCTCCTTGCTGCGGCGAGAAGGCGAGCGGGGTCGAGGATTCTAACCCATGGCGT
TCGCGGCTTTGGCCATGTGGAGCGGTGGTTGGGGCTTGTCCGTTTCTTCGGCTCCATGGGAAGATGCTTCTGGCGCTTCT
TTTGCTGTGGACGCAGGAGGTGGCTACGACAGGGATGGAGGATTGGAGGTTGTTCATCGGCGATTGGTCTTTGAACCTGC
TTCAGCGAAGCTGGCCGATGCGGATCCGGCGTGGCATGGGGCGTCGCTTCGGCAGCCTGGACATTTCAGCTCTACTCAAG
ATCTCGCCTCTCTCGGCGGGCTACGATTGTGTGGCTCACAAAGCTTACAAGCGATGGTGCTTCTCCGGATCTAAAGGGGT
TGGTCGCTTTTCTTCTCTCTCCGGCGGCGACGACGGCGAGATGTGGGTAGCGGCAGTTGTGTGGTCGAGTTGGATTTGGT
GTTCTTCCGTAACCTATGTGGATGTACTCGTATCTACTGTATGTCTGCTTGTAATGTTTTCCTTAACATAATATAATCTC
AAGTATTTTCCTCAAAAAAAGTATAGTGAATTCATCTATGATCCAAAAGCGATCTACCCTATAAAATGTCTTTACTGTAA
AAATGTAGAGTGAATTAATCTATGATCCAAAAGCGATTCAAAAACAATCCATGTAACTCAAAACTCACGCAATTTACCCT
ATACACTGGTTTAAGTTATACACTTTGATCCAAAAGCAATTTTGAAGGGAGAAAACAAGCACCAAAATTTGTAAGGTTTC
CTCGTAAAATGTATTTTAGTTAAGGGCCTGTTTTGAACCCCTCCAACTCTCAACTCCACAAACTTCTCGTTTGAAGTTGA
CTTGACCGCTTTATCTTCTAGAAGTTGAATTCCCGAAGCTAAGATGGGCCGGTAGTGCAATTTTGTGAAGCAAAGGGAAC
ACAGCTCCATGTTTTGAAGAATCTGGAGTTCCCC-TTATTTACAACCAGATTGCCACTGCTTAGGAAAACAATTCGACAA
CCCACCTCTTGCTCACTCGAACAGAAACACACGAACA-ACTCGGTAATATCTCCCCTCTCCCTCACGTTATCCCTCTGGA
AACCCTCAACGCCACCGTCCCACCGCCACGCCCGCCCCCCTCGGTCGCCGCCTAGATTCTCTCCAACGACTCCAGATCTG
GCCTTCACAATGAGTTCCTCGCCGATTCCCGTCCTCACAGCCGCAAGTACCACCGTCAGCGAGGAGCGGCGCCATGGGGG
AAGGAGGATCTCATCCAGATGCCATTGACGCCAGCGAGGAGCAGCGCCAGTGGGGGGAGGAGGAGCTCAGCGAGGAGCGG
CGCCGATGAGC-AAGGAGGAGCATCCCAACTTCATAA
>chr5A_616
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-------------------------------------------------------TCTCTTCCCGTCCTCTCTCGAAACT
GCCTACAGAAGAGGGCAGGGCGAGATCCAGGAGTTCCTCTGTCCCCGTCGGCAAGACCGGTGGTCTCCTTCACCTCCGGT
GGCCATTATGGCTGCCGGAGGGGTGGGAGATCCCGGATCTGATGCCTGGCGGTGTATATAGTCCTAGATTTTCTAGGTTT
GGTGTCCTTTGCACCGGCGTCATGGCGGAGGAGGCGTCGGTGTGCGGAATAAAGTGGCCATGTCTCCTTCTTCGCTCGCC
CGGCGTCGTTCTTGGCACTGGCGAGGAGCTGGGGTCCTTTTGGTCTCGCGGATCTGAGTGTTTACGATCCTGCGAGTTGG
TCGTCGTCGTCGTCGGTCACCGCTGGGCTCTTTGGTGTGGCGAGACGGCGAGGGGGGTCGAGGATTCTGACCCATGGCGT
TCGCGGCTTTGGCCCTGTGGAGCGGTGGTTGGGGCTTGTCCGCTTCTTCGGCTCCATGGGAAGATGCTTCTGGCGCTTCT
TTTGTTGTGGATGCGGGAGGTGGCTACGACAGGGATGAAGGACTGGAGGTTGTTCATCGGCGATTGGTCTTTGAACCTGC
TTCAGCGAAGCTGGCCGATGCGGATCTGGTGCGGCATGGGGCGTTGCTCCGGCCGCCTGGGCTTTTCAGCTCTGCTCAAG
ATCTCGCCTCTCGCGGCGGGCTACGATTGTGCGGCTCACAAAGCTTACAAGCGATGGTGCTTCTCCGGATCTAAAGGGGT
TGGTCGCTTTTCTTCTCTCTCCGGCGGCGACGACGGCGAGATGGGGGTAGCAGCGGCTGTGTGGTTGAGTTGGATTTGGT
GTTCTTCCGTATCCTGCGTGGATGTACTCGTATCTACTGTATGTCTCCTTGTAATGTTTTCCTTAACATAATATAATCAC
GAGTATTTCCCTCAAAAAAA------------------------------------------------------------
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>chr4A_616
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-------------------------------------------------------TCTCTTCCCGTCCTCTCTCGAAACT
GCCTACAGAAGAGGGCAGGGCGAGATCCAGGAGTTCCTCTGTCCCCGTCGGCAAGACCGGTGGTCTCCTTCACCTCCGGT
GGCCATTATGGCTGCCGGAGGGGTGGGAGATCCCGGATCTGATGCCTGGCGGTGTATATAGTCCTAGATTTTCTAGGTTT
GGTGTCCTTTGCACCGGCGTCATGGCGGAGGAGGCGTCGGTGTGCGGAATAAAGTGGCCCTGT---CTCCTTCGCTCGCC
CGGCGTCGTTCTTGGCACTGGCGAGGAGCTGGGGTCCTTTTGGTCTCGCGGATCTGAGTGTTTACGATCCTGCGAGTTGG
TCGTCGTCGTCGTCGGTCACCGCTGGGCTCTTTGGTGTGGCGAGACGGCGAG-GGGGTCGAGGATTTTGACCCATGGCGT
TCGCGGCTTTGGCCCTGTGGAGCGGTGGTTGGGGCTTGTCCGCTTCTTCGGCTCCATGGGAAGATGCTTCTGGCACTTCT
TTTGTTGTGGATGCGGGAGGTGGCTACGACAGGGATGAAGGACTGGAGGTTGTTCATCGGCGATTGGTCTTTGAACCTGC
TTCAGCGAAGCTGGCTGATGCGGATCCGGTGCGGCATGGGGCGTTGCTCCGGCCGCCTGGGCTTTTCAGCTCTGCTCAAG
ATCTCGCCCCTCGCGGCGGGCTACGATTGTGCGGCTCACAAAGCTTACAAGCGATGGTGCTTCTCCGGATCTAAAGGGGT
TGGTCGCTTTTCTTCTCTCTCCGGCGGCGACGACGGCGAGATGGGGGTAGCAGCGGCTGTGTGGTTGAGTTGGATTTGGT
GTTCTTCCGTATCCTGCGTGGATGTACTCGTATCTACTGTATGTCTCCTTGTAATGTTTTCCTTAACATAATATAATCAC
GAGTATTTCCCTCAAAAAAA------------------------------------------------------------
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>chr6B_662
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----------------------------------------------------AAGACCGGTGGTCTCCTTCACCTCCGGT
GGCCATTATGGCTGCCGGAGGGGTGGGAGATCCCGGATCTGATGCCTGGCGGTGTATATAGTCCTAGATTTTCTAGGTTT
GGTGTCCTTTGCACCGGCGTCATGGCGGAGGAGGCGTCGGTGTGCGGAATAAAGTGGCCATGTCTCCTTCTTCGCTCGCC
CGGCGTCGTTCTTGGCACTAGCGAGGAGCTGGGGTCCTTTTGGTCTCGCGGATCTGAGTGTTTACGATCCTGCGAGTTGG
TCGTCGTCGTCATCGGTCACCGCTGGGCTCTTTGGTGTGGCGAGACGGCGAGGGGGGTCGAGGATTCTGACCCATGGCGT
TCGCGGCTTTGGCCCTGTGGAGCGGTGGTTGGGGCTTGTCCGCTTCTTCGGCTCCATGGGAAGATGCTTCTGGCGCTTCT
TTTGTTGTGGATGCGGGAGGTGGCTACGACAAGGATGAAGGACTGGAGGTTGTTCATCGGCGATTGGTCTTTGAACCTGC
TTCAGCGAAGCTGGCCGATGCGGATCCGGTGCGGCATGGGGCGTTGCTCCGGCCGCCTGGGCTTTTCAGCTCTGCTCAAG
ATCTCGCCTCTCGCGGCGGGCTACGATTGTGCGGCTCACAAAGCTTACAAGCGATGGTGCTTCTCCGGATCTAAAGGGGT
TGCTCGCTTTTCTTCTCTCTCCGGCGGCGACGACGGCGAGATGGGGGTAGCAGCGGCTGTGTGGTTGAGTTGGATTTGGT
GTTCTTCCGTATCCTGCGTGGATGTACTCGTATCTACTGTATGTCTCCTTGTAATGTTTTCCTTAACATAATATAATCAC
GAGTATTTCCCTCAAAAAAA------------------------------------------------------------
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>chr5D_1748
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--------------------TAAGGGCCTGTTCTGAACCCCTCCAACTCTCAACTCCACAAAATTCTCGTTTGAAGTTGA
CCCGAATGCTTTAGCTTCCAGAAGTTGAATTCCTGAAGCTAAGTTGAGCCGGTAGTGCAAATTTGTGAAGCAAAGGAAAC
CCAGTTCCATGTTTTGAAGAATCTGGAGTTCCCC-TTATTTACAACCAGATTGCCACCGCTGAGGAAAACGATTCGGCAG
CCCACCTCTTGCTCGCTCGAACAGATACACACAAACAGACTCGGTCATATCTCCCCTCTCCTTCACGTTCTCCCTCTA--
--------------------CGCCGCCATGCCCGGCCCCCTCGGTTGCCGACTGGATTCTCTCCAACGACTCCAGATACG
CCC-TCCAAACGAGTTCCCCGCCGATTCCTGTCCTCACAGCCGCCAGTACCGCCTTCGGCAAGGAGCAACACCATAGGGG
GAGGAGGAGCTCACCCCCACGCCATCGATGCCAGTGAGGAGCAGCGCCGGTGGGGGAAGGAGGAGCTCAGCGAGGATCAA
CGCCGGTGGTGAAAGGAGGAGC---------------
>chr4A_1750
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----------------------AGGGCCTGTTCTGAACTCCTCCAACTCTCAACTCCACAAACTTCTCGTTTGAAGTTGA
CCCGAACGCTTTAGCTTCTAGAAGTTAAATTCCCAAAGCTGAGATGGGCCGGTAGTGCAAATTTGTGAAGCAAAGGAAAC
CCAGCTCCACGTTTTGAAGAATCTGGAGTTCCCCCTTATTTACAAACAGATTGCCACCGCTAAGGAAAACGATTCA----
-----------CTCGCTCGAACAGACACGCACGAACC-GCTCGGTCATATCTCCCCTGCCCCTCGCGTTCTCCCTCTGGA
AACCCTCAGCGCCGTCGTCCCGCCGCCACGCCCGTCCCCCTCGGTCGCCGGCCGGATTCTCTCCATCGACTCCAGATCCG
GCCGTCCCAACTAGTTCCTCACCGATTCCCGTCCTCACAGCCACGAGTACCGCCGTCAGCGAGGAACGGCGCCGTGGGGG
AAGGAGGAGCTCACCCCCACACCATTGATGCCAGCAAGGAGCAGCGCCGGTGGGGGAAGGAGGAGCTCAGCGAGGAGCAG
CGCTGGTGAGC-AAGGAGGAGCATCCCGAC-------
>chr7B_1750
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----------------------AGGGCCTGTTATGAACTCCTCCAACTCTCAACTCCACAAACTTCTAGTTTGAAGTTGA
CCCGAACGCTTTAGCTTCTAGAAGTTAAATTCCCGAAGCTAAGATGGGCCGGTAGTGCAAATTTGCGAAGCAAAGGAAAC
CCAGCTCCACGTTTTGAAGAATCTGGAGTTCCCC-TTATTTACAAACAGATTGCCACCGCTAAGGAAAACGATTCG----
-----------CTCGCTCGAACAGACGCGCACGAACC-GCTCGGTCATATCTCCCCTGCCCCTCGCGTTCTCCCTCTGGA
AACCCTCAGCACCGTCGTCCCGCCGCCACGCCCGGCCCCCTCGGTCGCCGGCCGGATTCTCTCCATCGACTCCAGATCCG
GCCGTCCCAGCTAGTTCCTCACCGATTCCCGTCCTCACAGCCGCG-GTACCGCCGTCAGCGAGGAACGGCGCCGTGGGGG
AAGGAGGATCTCACCCCCACACCATTGATGCCAGCAAGGAGCAGCGTCGGTGGGGGAAGGAGGAGCTCAGCGAGGAGCAG
CGCTGGTGAGC-AAGGAGGAGCATC------------
>chr7B_1750
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----------------------AGGGCCTGTTCTGAACTCCTCCAACTCTCAACTCCACAAACTTCTCGTTTGAAGTTGG
CCCGAACGCTTTAGCTTCTAGAAGTTAAATTCCCGAAGCTAAGATGGGCCGGTAGTGCAAATTTGTGAAGCAAAGGAATC
CCAGCTTCACGTTTTGAAGAATCTGGAGTTCCCC-TTATTTACAAAGAGATTGCCACAGCTAAGGAAAACGATTCG----
-----------CTCGCTCGAACAGACACGCATGAACC-ACTCGGTCATATCTCCCCTGCCCCTCGCCTTCTCCC-----A
AACCCTCAGCGCTGTCGTCCCGCCGCCACGCCCGGCCCCCTCGGTCGCCGGCCGGATTCTCTCCATCGACTCCAGATCCG
GCCGTCCCAGCTAGTTCCTCATCAATTCCCGTCCTCACAGCCGCGAGTACCGCCGTCAGCGAGGAACGACACCGTGGGGG
AAGGAGGAGCTCACCCCCACACCATTGATGCCACAAAGGAGCAGCGCTGGTGGGGGAAGGAGGAGCTCAGCGAGGAGCAG
TGCTGGTGAGC-AAGGAGGAGCATCCCGAC-------
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------------
-----S--------------S-------------------------------------------------------S---
-------------S-S----------------S---------------S-------------------------------
-------------------------------S-SS---------S---------------S---S---------------
S-S-----S-------------------------------------------------------------S---------
-----SS-------------S--SS-----S---S--S-------S------S---------------S-----------
--------------S---------------------------S-------------------------------------
----S------S--S----------------------S----S-------------------------------------
-----------------------------S-S------------S---S----S------S-S----------S------
------------S------------------S------------------------------------------------
-------------------------------------------S-------S--S-S--------S--------------
-----------S---SS-----------------------------S-------------------------------S-
S-------S-----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSS------------S-----------------------------------------------
-SS--S-------S----------------------------------------------S---------------S---
S--------------------------------------------------------S---S--------S-----S--S
--------------S----------S-------------------S-----------------------S----------
--------S----SS------S------------S---------------S--S------------------------S-
---S--S---S---------------------------------S------S----------------------------
-------------S--SS-S--------S-------------------S-------S---------------------S-
-----S---------------------S--SSSSSSS
>forward_116
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----------------TGTGTTTGAATGCGGCAAGG--------------------------------------------
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>reverse_1997
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----------------------------------------------------------------------------ACAA
CCCACCTCTTGCTCAC----------------------------------------------------------------
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