>input_sequence_78087
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--------------------------ATGGCTTCCGGCGGCTGGCTCTGCTCCGCGCTGCTCGCTT---TGCTCGTCGTC
CTGGCCGCGCGGCCGGCGGCGGTGTCGGGGGCGTCGGCGCACCTGCACTTCTACATGCACGACGTGCTGACCGGCCCGGC
GCCGACGGCGGTGCAGGTGCTGGACGGCCCGCGCGGCCACTTCGGCGACACTATCGTCATCGACGACGCGCTCACGGCCA
CCTCGTCCGCGGCGTCGCCGGCCGTGGGGCGCGCGCAGGGGCGGTACATCTGGGCGTCCAAGGGGAACCCGGAGCTGCTG
GTCACCATGGAGGTGCTCCTCACGTCCGGCCCCTACGCGGGGTCCTCCGTCACGGTGGTCGGCCGGGACGACATCGGCGC
GGCGGTGCGGGAGCTGTCGGTGGTCGGCGGCACGGGCCAGTTCAGGATGGCCACAGGCTACGTGCTGTGGAAGACCGTCC
GGCTCGACCACCCCAACGCCGTCCTCGAGCTCGACGTCTTCGTCAACCCGTGA---------------------------
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>chr3A_1_TraesCS3A01G080800
TGTTAACTACATGAATGTAAAGTTAAAGAACAGGGAAAAAGATGACTATGGCTTCTCATGTGAAAAATATCATGATGTGT
CAATCTGTACAAAATATTTCAAAAACCATTCATTTGGGTAATTTCTATTTGCGCTTAAGTTTCTCTGATTAGTTCATCTC
AACAAAAATGCAATCAATGTACAATGGATTAAACACAT--ATCTAAATGTAGTATTTTTTTTAGAAGAATGTTGAATTTC
GCCCAAGAATCACATACACAC---------------------------------------------------------GA
AAACCTGTTGGACAAGTGCACCTGTCGTGTCCTCTGTTTTCTCTTTATTTCTT---------------------------
------------GTGCCTGCTTATACTATCCTATATCAAAATTTTGTAGTAAAAAGGAA----------AACTATCATTT
GGCTAAGCTTTTGTTTTTCTGCCTTTTTTGAGA---TTTTTACTGCTTCTCGAGGTAAAATTGACTTGACCATTTGCATT
GCCGTGGCATGGTAGTTAAGTAAAACGTTTGTCATTCTTCGTAGGCCTAGCATTCTTGTGGTAGATTTTGTGTTTCGCAG
AGATGCCATTTTTACTGTTGGAATCGCCACTTCACCTCTTTCAACAA-------------GAAAACATGGAGCTCTGAAA
TCTGAATCCAGAGCTCCCAATCTATGGCAACAATCGCCACTTCACAGCTATGTAACCCGCACTACAAATCAATGGTGATT
GATACATTCATCTACATTTTCTGCTGTTGATAGATCTCGATCTGCAGCTCGGGACCATGAATGCGCGCTCCGTCGACAGT
GAAGAATGGCAACATAAACGCGGTCCGGTCCAGAAGACGACGCATCAACTGCTGCCCTCAATACA-AACAAACCAGGCAT
GATCATTGAGAAATTATTGTCACACCGACCATACACCTCAGCAACATTATCACCAAGATGGA----------TCCTCATT
TTTCTCTTGCGTGCGTGTATATATACAGCACACAAAGATGCAGAAAC--------AAGACATCACACAGGCACACACTTG
AGCTTGCAC---TGAGCTCTCTTGCCATGGCTTCCGGCGGCTGGCTCTGCTCCGCGCTGCTCGCTT---TGCTCGTCGTC
CTGGCCGCGCGGCCGGCGGCGGTGTCGGGGGCGTCGGCGCACCTGCACTTCTACATGCACGACGTGCTGACCGGCCCGGC
GCCGACGGCGGTGCAGGTGCTGGACGGCCCGCGCGGCCACTTCGGCGACACTATCGTCATCGACGACGCGCTCACGGCCA
CCTCGTCCGCGGCGTCGCCGGCCGTGGGGCGCGCGCAGGGGCGGTACATCTGGGCGTCCAAGGGGAACCCGGAGCTGCTG
GTCACCATGGAGGTGCTCCTCACGTCCGGCCCCTACGCGGGGTCCTCCGTCACGGTGGTCGGCCGGGACGACATCGGCGC
GGCGGTGCGGGAGCTGTCGGTGGTCGGCGGCACGGGCCAGTTCAGGATGGCCACAGGCTACGTGCTGTGGAAGACCGTCC
GGCTCGACCACCCCAACGCCGTCCTCGAGCTCGACGTCTTCGTCAACCCGTGAAATACGTGACGGACCGCGAG-------
--CTCGTCTCGTTCGTCTCACATGA-------------GCATGTTCATCTGTTCCACTTCTCACCTATGCATTTGCCCTG
TCTTCTACTATATGTCTACTCTGCTGCTCCTCCATGCATACGAGTGCAATAATAATGTTGAATATGTGCAAATGTTGTTC
ATC---AAATAATATGTTGCCCGGCTTTGGTAATGACGATGATCTAAATAATATGTTGCCCGGTTTGACCAGGGTAAAGC
AAACTTTTTCGAAGGCAATTTTAGTGACGCGAGAATGTCATGTTTAGTTGACACGCACGACAATTTCCTGACAGACAATA
CACTGAGCATGGATTTGCCATGCTTGCCGACTAAATTTGCCATCATCGCGTCATTAAAAATTGCCATAAAAACCATTCGA
TTTGCCATGGTCAAATCCCGAATATTCGGGCGTTATCGGGGTCCTTCTAAATATGCTTGCTTTAGATCCGTTCAGAACTA
CTTATATTTTGAGTTATATGTTGTTGTTAGCATTTGAACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNCGGAATCAAATTTACAATCACAATTCGATCAACCTCGACATACGGAAAAGAATTGCTCCCAACACAAGGCAG
GTGCGCTGTCGATTTCATTATAAGATAGGAATATTAAGAACATAGTGGCCAGGTGCATTGTCGATTTCATTATTATAAGA
TTGAAAATTTAAAAACAGATTGGTCAGTTTATACGGGAAACTAGGCCAAAAACCGTACATCACACACGTGATTAAGGGAC
AACCGTGCAAAAAACCAAAACCATGCCGATATCGGCCA
>chr3B_164
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---AAAAATGCAATCAGTGTACAGTGGGTCAAACATAATGATGTAAATGGAGTATTTTTT-TAGAAGAATATTCAATTTC
GCCCAAGAATCACATACACACGGGAACCATACAAAACACACGAACATCTGATGTTCAAAAAAAAAACACGAACATCTAGA
AAATCTCTTGGACAAGTGCACGGGTCGTGTCCTCTGTTTTCTCTTTATTTCTTTCTGGTCTTTACAATGCGATGGTA---
------------------------------CTATATCAAAAATTCGTAGTAAAAAGAAAGAAAGAAAGAAATTCTCATTT
GGCTAAGATTTTGTTTTTCGGTCTTTTTTTGAGATTTTTTGACTGCTTCTCGAGGTAAAATTGCCGTGGCCATTAA----
----------------------------------------------------------TGGTAGATTCTGTGTTTCGCAG
AAATGCCACTTTTACTGTTGGAATCACCACTGCACCTCTTTCAACAAGAAAACATTTTTGGAAAACATGGAGCTCTGAAA
TCTGAATCCAGTGCTCCCGACCTATGGCAACAACCGACACTTCACAGCTATGTAACCCGCACTACAAATCAATGGTGATT
GATACATTCATCTACATTTTCTGCTGTTGATAGATCTCGATCTGCAGCTCGGGACCATGCATGCGCGCTCCATCGACAGT
GAAGAATGGCAACATAAACGCGGTCAGATTCAGAAGCCGACGCATCAACCGCTGCTCTCAATACA-AACAAACCAGGCAT
GATCATTGAGAAATTATTGTCATACCGACCATACACCTCAGCAACATTATCAGCAAGATGCAG----------------A
TTTCTTC----TGCGTGTATATATACAGTACACAAAGATGCAGAAAT--------AAGACATTACACAGGCACACACTTG
AGCTTGCAC---TGAGCTCTCTTGCCATGGCTTCCGGTAGCTGGCTCTGCTCCGTGCTCCTGGCTC---TGCTGGCCGTC
CTGGCCGCGCGGCCGGCGGCGGTGTCGGGGGCGTCGGCGCACCTGCACTTCTACATGCACGACGTGCTGACCGGCCCGGC
GCCGACGGCAGTGCAGGTGCTGGACGGCCCGCGCGGCCACTTCGGCGACACCATCGTCATCGACGACGCGCTCACGGCCA
CCTCGTCCGCGGCGTCGGCGGGCGTGGGGCGCGCGCAGGGGCGGTACGTGTGGGCGTCCAAGGGGAACCCGGAGCTGCTG
GTCACCATGGAGGTGCTCCTCACGTCCGGCCCCTACGCGGGCTCCTCCGTCACGGTGGTGGGCCGGGACGACATCGGCGC
CGCCGTGCGGGAGCTGTCGGTGATCGGCGGCACGGGCCAGTTCAGGATGGCCAGAGGCTACGTGCTGTGGAAGACCGTCC
GGCTCGACCACCCCAACGCCGTCCTCGAGCTCGACGTCTTCGTCAACCCGTGACCGTAAC----GGACCAAGCGCGTCGT
TACTCGTCTCGTCTCCCCTATTTGCCCAATCTATATGTGCATGTTGATCTGTTCCACTGCTCCTCTATATATTTGCCCCG
---TCTTCTATACGTCTCCTCTGCTACAGCCTAC----------------AACAATGTTGAATATGTGCAAATGTTGTTC
CTG---AAATAATATGTTGCCTGGCTTTGGTAATGACGATAATCTAAATA------------------------------
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>chr3D_220
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-------------------------------------------------------------TAGAAGGATGTTGAATTTC
GCCCAAGAATCACATACA---------------------------------------------AAACATGACTATCTCGA
AAATCTCTTGGACAAGTGCACGGGG-GTGTCATCTGTTTTCTCTTTATTTCTTCCCAGTCATTACGATGTGATGGTACAT
CTTAACAGCATTGTGCCTGCTTATACCATCCTATATCAAAAATTCGTAGTAAAAGGAAA----------AACTCTCATTT
GGCTAAGCA------TTTCTGCCTTTTATGAGATTTTTTTTACTGCTTCTCGAGTTAAAGTTGCCGTGACCATTTGCATT
ACCATGGCATGGTAGATTCTTGT---------------------------------------------------------
---TGCCATTTTCACTGTTGGAATCGCCACTTCACCTCTGCAAACAA-------------GATAACATGGAACTCTGAAA
TCTGAATCCAGACCTCCCAATCTATGGCAACAATCCCCATTTCGCAGCTATGTAACCGTAT-TACAAATCAATGATGATT
GATACATTCATCTGCATTTTCTGCTGTTGATAGATCTCGATCTGCAGCTCGGGACCATGCATGCGCGCTCCATCGATAGT
GAAGGATGGCAACATAAACGCGGTCCGATCCAGAAGACGACGCATCAACTGCTGCCCTCAATACATAACAAACCACACAT
GATCATTGAGAAATTATTGTCACACCGACCATACACCTCAGCAACATTATCAGCAAGATGCAG----------------A
TTTCTTC----TGCGTGTATATATAGAGTACACAAGGATGCAGAAAT--------CAGACATTACACAGGCACACACTTG
AGTCTTGACTCTTGAGCTCTCTTGCCATGGCTTCCGGCGGCCGGCTCTGCTCCATGCTGCTCGCGC---TGCTGGCCGTC
CTGGCCGCGCGGCCGGCGGCGGTGGCGGGGGCGTCGGCGCACCTGCACTTCTACATGCACGACGTGCTGACCGGCCCGGC
GCCGACGGCGGTGCAGGTGCTGGACGGCCCGCGCGGCCACTTCGGCGACACCATCGTCATCGACGACGCGCTCACGGCCA
CCTCCTCCGCGGCGTCGGCGGGCGTGGGGCGCGCGCAGGGGCGCTACGTCTGGGCGTCCAAGGGGAACCCGGAGCTGCTG
GTCACCATGGAGGTGCTCCTCACGTCCGGCCCCTACGCGGGCTCCTCCGTCACGGTGGTCGGCCGGGACGACATCGGCGC
CGCCGTGCGGGAGCTGTCCGTGGTCGGCGGCACGGGCCAGTTCAGGATGGCCACGGGCTACGTGCTCTGGAAGACCGTCC
GGCTCGACCACCCCAACGCCGTCCTCGAGCTCGACGTCTTCGTCAACCCGTGACCGTCTCCCATGGACCAAGCGCGTCGT
TACTCGTCTCGTCTCCCCTATTTGCCCAATCTATATGTGCATGTTGATCTGTTCCACTTCTCCTCTATATATTTGCCCCG
---TCTTCTATATGTCTCCTCTGCTAGAGCCTAC----------------AATAATGTTGAATATGTGCAAATGTTGTTC
CTGAAAAAATAATATGTTGCCTGGCTTTGGTAATGACGATAATCTAAATA------------------------------
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>chr7B_727
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--------------------------------------------------GGGACCATACATGTGCGCTTCATCGACAAT
GAAGGAACACAACATAAACGCAGTCCTGCTCGGAAGACGACGCATCAACTGCTGCTCTCAATACA-AACAAACCAGACAT
GATCATTGAGAAATTAT---CATACAGACCATACACCTCAGCAACATTATCAACAATAGGCGAGCAATCAATTCCTCACA
TTTCTTG----TTTGTGTATATATACAGTACATAAGGATCCAGTAGACTAATCAGAAGACATCACACAGACACACACTTG
AGCCTTGAGCT---AGCTCTCCTGTCATGGCTTCCGGCA---GGCTCTGCTCCGTGCTGCTCGCCCTGCTGGTCGTCGTC
CTGGCCACGCGGCCGGCGGCGGTGTCCGGAGCGTCGGCGCACCTGCACTTCTACATGCACGACGTGCTGACTGGCCCGGC
GCCGACGGCGGTGCAGGTGATGGACGGGCCACGCAGCCACTTCGGCGACACGATCGTGATCGACGACGCGCTGACGGAGA
CCTCGTCGGCGACGTCGACGGGCGTGGGGCGCGCGCAGGGGCAGTACGTGTGGGCCTCGAGGGGGAACCCGGAGCTGCTG
GTCACCATGGACGTGGTGCTCACGTCGGGCCCCTACGCGGGGTCCTCCGTGACGGTGGTGGGCCGGGACGACATCGGCGC
GGCGGTGCAGGAGCTCTCGGTGGTCGGCGGCACCGGGCAGTTCAGGATGGCTACAGGGTACGTGCTGTGGAAGACCGTCC
GGCTGGACCACCCCAACGCCGTCCTTGAGCTCGATGTCTTCGTCAACCCGTGA---------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSS-------------S------S---S-S-----S-S----S------S----------S-------------------
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---S--S--------------SS---------------------------------------------------------
--------------------------S--------------S--S-----------S----------------S------
---------------------------------------------------------------S-S--------------
S--S-----------S-SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------S------------
-S------------------------------------------------------------------------------
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-----------------------------------------------------------S-----------S--------
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----------------------------------------------------S-------S-----------------SS
-----SSSSSS-----------------S-----------------S---------------------------------
------------------------------------------------------S----------S--------------
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---------------------------------------------------S----------------------------
-----------------S---S-------------------------S--------------------------------
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-----------------------------------------------------SSSS-SSSSSS-SS-SSSSS-------
------------SSSS-SS-SS--S--------------------S----------------SS----SS--------S-
SSS---S----------S-------S-SS-SSSSSSSSSSSSSSSSSSSS------------------------------
S-S------------------S------------------S---------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_343
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---CCTGTTGGACAAGTGCACCT---------------------------------------------------------
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>reverse_2082
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-TTGCCATGGTCAAATCCCGA-----------------------------------------------------------
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