>input_sequence_82651
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-----------ATGTTGAAGCCCGTGGCATCGTCTTCCTCGTCGGTCCGGTGCTGGGCGGTCATCGCCGCTGCACTGATC
CTGTGTGCGGCCAACGTTGAGCTTGTCCATGGAGGTAAATTA-----------------AGCATGAGATGATCTCCATAT
CTTCACTAAACTCTGTTATGATCGATCGATGTGCCAACCGATATTCATATTCCTGTATGTATGTGTGTGCAGGTGGGAGG
CCTGTGCCGAGACCTCCGGCTCCGGTAGGGCATGTGGCTCCCAAGGAGCACTGCCCTGACTGCAGCGACAACCCGCCACC
GTCGCC---GCCGCTTCCTCCTACTCCTCCGGCGGCTGCAGCAGAAGCACCTCCTGCTAGCAGCCATGTGTGA-------
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-------------------------------------------------------
>chr3B_1_TraesCS3B01G014000
CGCGGTTCATCTGCCGAACCGCGACTGAAGACTTCATTAGTCGCGGTTCCTACAGTTTCGCGACTAATGAGGCTGGACGG
AAGCCTCTTTTTCTACTAGTGAAATGAGGAGGCATTGGAAAATATAGCTCGAAATTAAAATGTTTCTTCTGTTTTATGAC
AGCTTATTCGTGCATTCACCTATGATCCCTGTTGCTTGAGAAGAAAGTATCAGTTAAATGCAGTTTGCACATGAGAATAA
GTGTACCGGCCGGGATTACTACTTCTTGCTGGACTGTAATTTGCTATGGATCTCCCACGGTCATGTTATAAAATTTTAAT
TTCTGGATTCTCTTATGCAAATTTCCAAGATACCCGGACGTCTGTTTTTTCTTTTAGAGTGACCACATATGTACTAAAAA
CAAAAATATTCTACTGTATCGTGAGAGATTATGCAGCCAGATCATTTCAATGCGCGAACCAACTTGTGGTTGGATGGTTA
AAGGGATTGTGGTCTCCGCAGCCCACCAGGGTTCAAATCTTGGTG--------------------------------CTC
GCATTTATTTCTGGATTTATTTCAGGATTTCGCC----------------------------------------------
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---------------------------------------------GATTTATTTCAGGATTTCCGGCGATGTGCATTCAG
TGA-AGGAGACGTTTCCGTCAACGACGAGGTGTCTTCGGTGACTTCGTAAATATCAAGATGATATGCCGACTTAGTCTTT
CGGAGGTGCTCATAGGGATAGGGTGTGTCTGTGTACGTTCATAGGGGTGAGTGTATGCGCGTGTACATGAGCGCTTGTTT
TGTTCAAAAGAAAATCCAATGCTACGAAGTCTGCAGATGTGGAAACGCCCATCTCGTTGACGGCGTGCAGTCGTCGTTGC
CGTGCTCCATGCCGGAGCATGCGTTCATACATGCATAAGTGGT--TACA-CACTAGGTTGCTAGAAATTAAGCAGACGAA
AACTATTCGTCTATAT----ATACGTATACAAGCATGCATCTATTACATGAAGATGTCGAAGATAGATAGATAGAGAGGT
TAACACCAAAGATGTTGAAGCCCGTGGCATCGTCTTCCTCGTCGGTCCGGTGCTGGGCGGTCATCGCCGCTGCACTGATC
CTGTGTGCGGCCAACGTTGAGCTTGTCCATGGAGGTAAATTA-----------------AGCATGAGATGATCTCCATAT
CTTCACTAAACTCTGTTATGATCGATCGATGTGCCAACCGATATTCATATTCCTGTATGTATGTGTGTGCAGGTGGGAGG
CCTGTGCCGAGACCTCCGGCTCCGGTAGGGCATGTGGCTCCCAAGGAGCACTGCCCTGACTGCAGCGACAACCCGCCACC
GTCGCC---GCCGCTTCCTCCTACTCCTCCGGCGGCTGCAGCAGAAGCACCTCCTGCTAGCAGCCATGTGTGATGTAGGC
TGTGTGCGCTCCCTCGTTGGGCAGCAGGCCACTGCAGACATTTCGACGTTTACTACAGTCTGTTTGACTTGCTAC-----
----AGTGGTACTAGTTCTTTTTCTCTTTGAGCCGACACTGGT--------------------ATGTGTGTTTGTTTGGT
TTTGCTATGTCTCAATCGAC-GGTTCAATTGAGTGTAAATTAGTTCAGAAAGAACACAAATAAGTCGCGGTCTATAAAGC
TACGCTGGATGTGTACACTGGCCACACAATTATTAAACCGTGCAAATTACCAAATTGTGCGCCCGCCACCAAATCTATCA
TGGTTGCTGTTAATTGCGCCCGCCACCAGATCTATCATTTTTTTGCATTTACTGTTCATTGGGCGGTTTTGACCCGGTCA
ACGCCCTCAAAATCTGGTTTAAGACCAAACGTATCCGGTTTTGAAACTTGAGGGACCAAAAGTAGACCCAAAAATTTTGA
GGGACCAAGTCTAGACTTTCTGGGAACTTGAGGGACCAAAAACACACTTTTCTCATCAAAAAACGTGCTTTCGAATGTTT
TGACAGCTTAACTGTCCTCGGTAGCCGTTGCCTACTCTGCAGTGTTTACCACTGCGTGTGGGTGTACACAGTAACTCCAA
CCATCTGGGTATCTTACTCGATCTATAT-------------------------------------------------GCT
TTGTTGACCGGCCAGAGTAACCCAAAGACAGTTC----------------------ACCACACCAAATGACCTGGACCAT
CGGAACCGTGCACCCCACC-AAAAGCACATAAGCAAAAGGATAGGCGGCCGGAGGGGCAGTCAAAGGCTGCCGCGCCTGA
TCTCACGCCTTCAATAAGCACAGAGTACCACAGCGGGCGATGTCCGCCGGTCAAAGGCACGTCTTCTGGTGACAAACTCT
GACGCGGCCTGCTCGCACGCCTCAATGCCGGCCACAGACACGCCTCCAGGCCGCCTGCATACACGCCACCAAGCCGCATG
CATGGAGCCTGCACAGACAATGACACGCGATCTTCTCCTCTTAATCTCCTGAAAT
>chr3A_456
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-------------------------------------------------------GAACCAACCTGTGGTTGGATGGTTA
AAGGGATTGTGGTATCCACAGTCCACCAGGGTTCAAATCCTGGTGCTCGCATTCATTTCTGGATTTATTACAGGGTTCTC
GCATTTATTTCTGAATTTATTTCAGGATTTCCGACGATGCGCATTCAGTGGGAGGAGACGTTACCGTCGACGACGAGACG
CCTACGGTGACTTCGTAAATCTCAAGGTGATATGCCGGCTCAGTCCTTCGGAGGTGCTTGTACAACATATTTGTGCGGCC
CTGCGGTGCCTCCCGAGTAGAATCTGTGCGGTGCCTGGTAGGTTGGCAACCTTGTCAGTACTTTTTTATTCTGGTCTTTT
TTTTAGAAAAGGAGAACGACCCCTGGCCTCTGCATCTGGGCGATGCATACGGCCACTTTATTAATTATTTTACAAGACCT
TACAAAGTTATACAACAGTAAGACTAAAGCCGTTGTCTAAACAACAAACTGTCGCTACACCTATCCAGTTGGTGAAGGGG
CGTAGATAACCTGGGCCTAATACCAAACAGACATCGCAGTCAAGCCAAACATCTAAGACCTGAGACCCCAACCTAGCCAA
TTGATGGGTCTGTGGCACACACTGGTCCGGCGTGCTCTCAGAGGCCGCCGCCGGCAACTGCCACCGCGCCATCTTTAGAA
CTGTACTGATGCATCAACCTTGCTCGGTCTAGCTATCGTCGACGCCAACACGGCGCCCAACGGCACCTCCTCCCTGTGCG
CAAACAGTTGAGCACGTCGCGGTCGCCACTGATACACCTCTGCGCCATGCTGCCAAGTACCACCAGCTGACACAATTTGA
AGTCCTTGGAAGATTTGTCGTGCGTAGCACCTGCCGGCCAGGCATGACAAAGCGTAACACCTGTTGGTCAGGCATGACTT
GATATCTCCACCGAAGCTCCGTGCAAGATGAAGCCGCTCCACCTCCTGCCTCTGACTTCCAGCGCTGCTCCACAAATGAT
GCTCCCAAGGGAGAAATGACACCACAGTGCCGCCATCGTCCGATCTGGAACACCAGATCCTAGGGTTTCCCCCGGAGCAG
CATGAGTGGGTTGACAGTAGTTACTCGACAATACCTCCATCAAGATAACGGAGAGAACGCCGCCATCGCCTGCCGCAGGG
CCGGGCCGGTAAAGTCCGAGGCCCTGTGCCAAACTCTAAAATGGGCCCTAGCACATTAGAGAAACTGCATAAATATATAA
GTATATGTGAACCAACCTGTGGTTGGATGGTTAAAGGGATTGTGGTATCCTAGTCCACCAGGGTTCAAATCCTGGTGCTC
GCATTTATTTCTGGATTTATTACAGGGTTCTCGCATTTATTTCCGGATTTATTTCAGGATTTCCGGCGATGCGCATTCAG
TGGGAGGAGACGTTACCGTCGACGGTGAGACGCCTACTGTGACTTCATAAATCTCAAGATGATATGCCGGCTCAGTCCTT
CGGAGGTGCTTATAAGGGTAGGGTGTGCGTGTGTGCGTTCATAGGGGTGAGTGTATGCGCGTGTATATGAGCGCTTGT--
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>chr3D_783
AAGTCTTA------------------------------------------------------------------------
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---------------------------------CAGATGTGGAAAAGTCCATCTCGTTGACGGCGTGCAGTCGCCGTTGG
CGAGCTCCATGCCGGAGCATGCGTTCATACATACATAAGTGGTTATACA-CACT-GGTTGCTGGAAATT----------A
AACTATACGTCTATATATACATACATATACAAGCATGCATCCACATGCAGTCGTTCCCAGAACGATCCAA--------GT
TAACACCAAAGATGTTGAAGCCGGCGGCATCATCTTCCTCGTCGGTCCTGTGCTGGGCTGTCATCGCCGCTGCACTGATC
ATGTGTGCGGCCAACGTTGAGCTTGTCCATGGAGGTAA-TTAACCCCGCAAAAAAATTAACCACCAGATGATCTCCATAT
CTTCACTGAACTCTGTTGTGATCGATCGATGTGCCAACCGATATTCCTATT------------TGTGTGCAGGTGGAAGG
CCAGTGCCGAGACCTCCGGCTCCGGTAGGGCATGTGGCTCCCAAGGAGCACTGCCCTGACTGCAGCGACAACCCACCACC
GTCGCC---CCCGCTTCCTCCTACTCCTCCGGCAGCCACAGCGGACGTACCTCCTGCTGCCAGCCATATGTAATGTATGC
TTGCCGTGCTTCCGCGTTGCACAGCAGGCCGCTGTAGACATTTCAAGGTTTACTTCAGTCCGTTTGACTTATCCC-----
----AGTGGTACTAGTTCTTTTTCTTTTTGAGGCGACACTGGTACTAGTTGTATCGCATGGATATGTTTGTTTGTTCGGT
TTTGCTATGTCTCAATCGAC-GATTCTATTGAGTGTAAATTAGTCCAGGAAGAACACAAATTAGTCGTCGTCTATAAAGC
TATGCTGAATGTGTAGATTGGTCACGTACCTATTAAACCCTGCAAATTGCCAAATTGTGCGCCCGCCACCAT-TCTATCA
TGGTTGCTGTTAACTGGGC-------------------------------------------------------------
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>chr3B_784
-AGTCTTA------------------------------------------------------------------------
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---------------------------------CAGACGTGGAAACGCCCATCTCGTTGACGGCGTGCAGTAGTCGTTGC
TGTGCTCCATGCCGGAGCATGCGTTCACACATACATAAGTGGT--TACA-CACT-GGTTGCT------------------
------ACGCCTATAT----ATACATATACAAGCATGCATCCACATGCAGTCGTTCCCAGTTAA---------------T
TAACACCAAAAATGTTGAAGCCCGTGGCATCGTCTTCCTCGTCGGCCCGGTTCTGGGCCGTCATCGCCGCTGCACTGATC
TTGTGTGCGGCCAACGTTGAGCTTGTCCATGGAGGTAA-TTA-----------------ACCATGAGCTGATCTCCATAT
CTTCACTAAACTCTTTTGTGATCAATCGAGGTGCCAACTGATATTCCTATGTATG------TGTGTGTGCAGGTGGAAGG
CCTGTGCCTAGACCTCCAGCTCCGGTAGGGCATGTGGCTCCCAAGGAGCACTGCCCTGACTGCAGCGACAACCTGCCACC
GTCGCCGCCGCCGCTTCCTCCTACTCCTCCGGCAGCTGCAGCAGGCGTACCTCCTGCTAGCGGCCATGTGTGATGTAGGC
TTTGCGCGCTCCTCCGGA-----------CGCTGCAGAAATTTCAATGTTTACTACAGTCCGTTTGACGACTTGCCTCAA
CGGTAGTACTACTAGTTATGGTTTTCTTTGAGGCGACACTGGTACTAGTTGTATTGCATGGATATGTTTGTTTATTCAGT
TTTGCTATTTCTCAATCGACAGATTTCATCGAGTGTAAATTAGTTCAGAGAGAACACAAATTAGTCGTGGTCTATAGAGC
TATGCA-------TACACTGGTCACACAATTATTAAACCGTGCAAATTGCCAAATTGTGCGCCAGCCACCAA-TCTACCA
TGGTTGCTGTTAACTGGGCCC-----------------------------------------------------------
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>chr3A_784
-AGTCTTA------------------------------------------------------------------------
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---------------------------------CAGATGTGGAAATGTCCATCTCGTTGACGGCGTGCAGTCGTCGTTGG
CGAGCTCCATGCCGAAGCATGCGTTCATACATACATAAGTGGTTATACAACACT-GGTTGCTGGAAATT----------A
AACTATACGTCTATATATACATACATATGCAAGCATGCATCCACATGCAGTCGTTCCCAGAACGATCCAA--------GT
TAACACCAAAGATGTTGAAGCCGGCGGCATCATCTTCCTCGTGGGTCCTGTGCCGGGCTCTCATCGCCGCTGCACTGATC
ATGTGTGCGGCCAACGTTGAGCTTGTCCATGCAGGTAA-TTCG-------------------------------CCATAT
CTTCACTGAACTCTGTTGTGATCGATCGATGTGCCAACCGATATCCCTATT------------TGTGTGCAGGTGGCAGG
CCAGTGCCGAGACCTCCGGCTCCGGTAGGGCATGTGGCTCCCAAGGAGCACTGCCCTGACTGCAGCGACAACCCGCCACC
GTCGCC---CCCGCTTCCTCCTACTCCTCCGGCAGCCTCAGCAGACGTACCTCCTGCTGGCAGCCATATGTAATGTACGC
TTGGCGCGCTTCCGCGTTGCACAGCAGGCCGCTGTAGACATTTCAAGGTTTACTTCAGTCCGTTTGACTTATCCC-----
----AGTGGTACTAGTTCTTTTTCTTTCTGAGGCGACACTGGTACTAGTTGTATCGCATGGATATGTTTGTTTGTTCGGT
TTTGCTACGTCTCAATCGAC-GATTCTATTGAGTGTAAATTAGTTCAGAAAGAACACAAATTAGTCGTCGTCTATAAAGC
TATGCTGAATGTGTAGATTGGTCACGTACCTATTAAACCCTGCAAATTGCCAAATTGTGCGCCGGCCACCAT-TCTATCA
TGGTTGCTGTTAA-------------------------------------------------------------------
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>chr3D_1876
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--------------------------------------------------------CAAAAAACGTGCTTTCAAATGTTT
TGACGGCTTAACCGTCCTCGGTAGCCGTTGCCTACTCTGCACTGTTTAACACTGCGTGTGGGTGTACCCAGTAACTCCAA
CCATCTGGGTAGCTTACTCGGCCAATGGGCGTGTGATTGGACGGGTACCGTACTGTCTGGCGGCGAGAACAATTATCGCT
TTGTTGACCGGCCAGAGTAACCCGACGACAGTTCTATAGAAATCTCGACCGCATTCACCACACCAAATGACCTGAACCAT
CGGAACCATGCACCCCACCAAAAAGCACATAAACAGAAGGATAGGCGGCCGGAGGGGCAGTCAAAGGCTGCGGCACCTGA
TCTCACGCCTTCAATAAGCACAGAGTACCACAGCGGGCGACGTCTGCTAATC-------------------ACAAAATCT
GACGCGGCCTGCTCGCACGCCTCAATGCCGGACACAGACACGCCTCCAGGCCGCCTGCATACACGCCACAAGTCCGCATG
CACGGAGCCTGCACAGACAATGACACGTGGTCTTCTCTTGTTAATCTCCTGAAAT
>SNPs
SSSSS--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------S----------------
-------------S---S---S-----------------S----------------------------------------
-------------S-----------------SSS----------------------------------------------
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-----------------------------------------------------------------------S--------
--S-----------S-----S---SS---SS-S--S-S--------S-----S----------------S--S----S--
----------S---S--S---------SS-----S------------------------------S------------SS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------------------------------------
--------------------------------S---------------------S-------S------SSSSSSSSSS-
------S-----------------S----------------S-SSSSSS-SS-S-SS-SS-S-S-SSS-SSSSSSSSS--
----------------------------------------------------------S---------------------
S-------------------------------------S---------------------S-------------------
-----------------S----------------------------S----SS--SSSSSS---------------S---
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---------------------------------S-----------S-S--------------------------------
-S--S--------S-----SS---------S-------------S-S-------------S---------SS-S------
--------------------------------S----------------------------------S--------S---
----------------------S---S----------------------------------S-----S------------
--S----S-------------S--------------------------S-----------------------S-------
-------------S--S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------S-------
----S-------S----------------------------S------S------------------S------------
-----------S--------SS-S--SS----------------------------------------------------
-----------------------S-S------------------------------------------------S-----
-------S------------------------S--S-----------------------------------S--S-----
----------------------------------------S---S--SSS--SSSSSSSSSSSSSSSSSSS-----S---
-------------------------------S-------------------------------------S-SS-------
--S------------------------S-S-------S-S---------------
>forward_1938
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------------------------------------------------------------------------------TT
CGGAGGTGCTCATAGGGA--------------------------------------------------------------
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>reverse_3139
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------------------TCTGGGAACTTGAGGGACCA------------------------------------------
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-------------------------------------------------------
