>input_sequence_81754
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ATGGCAGCCGCGTCAGGAATCGCCGGTACGTTCTCCGTCCGCCCCACGGCGCCGGCGGGCCGGCTATGCTCGT---GCGC
CGCCGCGGCCGGCGAGGCGAGGTCCCGCGGCGCCGACGGGGGCGGGGGCGGGGCCGGGAAGTGGTGGGCGCCGCTCCTGG
GGTGGTCGGGCCAGGCCGACTACATCGACGCCCAGCCGGCG------CCGGCGCTGGAGGAGGACCGCGACCGGGCTGCG
GGGATGAGGCGGTTCGGGGTGCTGACGGAGGAGAAGGCGCGGCAGCTGCGGCTGCGGATGATGGAGACGGAGAGCTTCCA
CGACGTCATGTACCACTCCGCCATCGCGTCCCGCCTCGCCTCCGCCCCGCCCGACACCGCCCGCCGCACCAAGCCGTAG-
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>chr3A_1_TraesCS3A01G127500
ATGCATCTGATTTGGAACCGGAAAAACACCAGAACAATAGCCACCACCATTTGCAAAATGGAGATAGGGGCGCCACGGAA
CATGAACTCCGGGACGTGTTCCGATGGTCACGGTGTAAGAAGGCCATGCCTGAGGTTGCCATGAGATCCATTGGTATCCC
ACTGCCAGCTGAACAAGTTGAGGTAATTTCCCTCTACAGCAAAGCCCACATCATTCTCTCTTTTTTTCTCCATT------
----G-GGCATCATTCAACTTTGTTGCGTGTTACCCGTGGCAACGCAGGTGCTGCAGGACAATCTGGAGTGGGAGGATGT
GCAGTGGTCGCAGACCGGCGTCTGGGTTTCTGGGAAGGAGTATCCGCTCGCCCGCGTGCATTTCCTCTCGGCGAACTAGC
GATGGC-GCACTCCGGTAGCAGCAGGCC-----AGGCCAGGCCAGCCTATGAAGAAACCATTTTCTTCTTTCGTGAATGC
TGCTGCTTTGCTGCCGTGCCATGCCAACTTGTTTGTGTATAAAAGAAGGGAAAGAGAAGAGAAGC--------TGTTGTA
GGCCGTGTTGTGCCTGTAATCTTTG--TGACACACCAATAACCGTTATATGTC-TGTCTGAGAGATGTAATTCTTGGTTC
TTGAGTTAGGCAAAACCGGATTATTATTCGCTGATTGTTGAATGCTGGATGCGAGTTGGAACTATTTATCATCCAATGTT
TCTTGGTTGTAGCTCATGGCCATTGGTCGTGCCTTCTTTGTTCATAACGATGATGATATGTGGACTTTTACTTGGATGTA
GTTGGATGTTTGGGTATTTTTATAAGAAGACGAAACGGAGGGGGAGAGCGGCCGTTGCCGTGCCGTCAGCTCTCAACTGA
AGGAGCCCGG----CGACGGTGGAGGACGGGCCTGGCTTATCCACACGTT-TCCCCTCCCTTTTATAATCCCGCCACCTT
TAGCAACGGACGTGCGAAGCCAGCCC-GCCAATTAAACCCACCCGCCCTGCGATCCATTCCATTCCT------CTCGCCA
ATGGCAGCCGCGTCAGGAATCGCCGGTACGTTCTCCGTCCGCCCCACGGCGCCGGCGGGCCGGCTATGCTCGT---GCGC
CGCCGCGGCCGGCGAGGCGAGGTCCCGCGGCGCCGACGGGGGCGGGGGCGGGGCCGGGAAGTGGTGGGCGCCGCTCCTGG
GGTGGTCGGGCCAGGCCGACTACATCGACGCCCAGCCGGCG------CCGGCGCTGGAGGAGGACCGCGACCGGGCTGCG
GGGATGAGGCGGTTCGGGGTGCTGACGGAGGAGAAGGCGCGGCAGCTGCGGCTGCGGATGATGGAGACGGAGAGCTTCCA
CGACGTCATGTACCACTCCGCCATCGCGTCCCGCCTCGCCTCCGCCCCGCCCGACACCGCCCGCCGCACCAAGCCGTAGC
CTGGCCACGCACGCACGCGCGCGCTCCCTTGCCGTACGTGGCCGCCGTTCGAGGTGCAGCTCAGCTCACCGTCCGGCGGG
AAGCCATGCACGCGCAGCTGTGTG-TTTGTATATAAATAGCAGAAGCTTTTGTTCGTTCGTTCTAGACCGCGGCCATGTT
CTCCTCCTGGATTGGGATGGACTGATCAAAGAAAAGGAAAAAAAAAACATAAGTCCTGTAGCAACACTTGCAACCAAGAA
TGTTGT-----GAGAATAACAATAA----------------------TATGGTATGGTATGTACCGCCATTGACGTTTCT
CGATCTCTGTTCAATGAGGCGTAGATCCTGATGCTCACAAGTTCTTCCTACTACCATCATCAACGATTTCTGCACTGGCA
GTACTCTTTTTTTTCTTTTTTTTTGCGAGGGGTACTGGCACTACTCAATGATGCATGGTGAGACCTTGCAAAAATTCGTC
CAGGCCTCGATCGTCCGTCCTTGCGTATCATTGTCTCCGGCGGAAAATGAGTCAAGTCTTTGTCCATCAGGGGTTCAGGA
CTCGCAAGTGCACGTCGCCCTCCGCGATGATTCATGCACTGATG------------------------------------
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--------------------------------------------------ACTGATCGAGACCGACGTCTGCCTGACTGA
CTTGTTCTAATCTCATCCTTGTTTGTAGTTTAGGATAAAAGATACTCCCTCCTCCCCATATTGTAAGGCGTATTAGAGCA
TGGTTAATAAGAAAGCCGGCCGCTGGCTCTATAGCATTGCCATGTCACCTGAAGCCTTTGCTAAAAGACTACTAATAAGA
TAACTGTAGATTAGGTACTAAATTGGCTATAGCATTTATTGTTTGCATGTGGGGAAGGGAGAAGAACACACGTGATTGGT
GGACAAAAACAAAGCAGCGGCTGTAGTACTAGCATGGGCTGCAAGCCAGCTCCATTTTCCCGTCGAGTGTGCTAGAGCAT
GGTTAATAGTATAGACAGCTACTGGCTATAAGTCATTGTCATGTTATTTATAGTCTTTTTTATAGTCAATATG
>chr3B_1
ATGCATCTGATTTGGAACCGGAAAAACACCAGAACAATAGCCACCACCATTTGCAAAACGGGGACAGGGGCAACACGGAA
CATGAACTCCGGGACGTGTTCCGATGGTCACGGTGTAAGAAGGCCATGCCTGAGGTTGCCATGAGATCCATTGGTATCCC
ACTGCCAGCTGAACAAGTTGAGGTAATTTCCCTCTACAGCAAAGCCCATATCATTCTCTCTTTTTTACCCCATTGGGCGT
AGGCGCGGCATCATTCAACTTTGTCATCTCTTACCCGTGGCAACGCAGGTGCTGCAGGACAATCTGGAGTGGGAGGATGT
GCAGTGGTCGCAGACCGGCGTCTGGGTCTCTGGGAAGGAGTATCCGCTCGCCCGCGTGCATTTCCTCTCGGCGAACTAGC
GATGGCTGCACTCTGGTAGCAGCAGGCA-------------------TATGAAGGAACCATTTTCTTCGTTCTTGAATGC
TGCTGCTTTGCCACCGTGCCATGCCATCTTGTTTGTGTATAAAAGAAGGAAAAGAGAAGAGAAGCTCAGGAGTTGTTGTA
GGCCGTGTTGTGCCTGTAATCTTTG--TTACACACCAATAACCGTTATATGTC-TGTCTGAGAGATGTAATTCTTGGTTC
TTGAATTAGGCAAAACCGGATTATTATTCGCTGATTATTGAATGTTGGATGTAAGTTGGAACTATTTATCATCGAATGTT
TCTTGGCTGTAGCCCATGG-------------------------------------------------------------
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>chr3D_2
-TGCATCTGATTTGGAACCGGAAAAACACCAGAACAATAGCCACCACCATTTGCAAAACGGGGACAGGGGCGCCATGGAA
CATGAACTCCGGGACGTGTTCCGATGGTCACGGTGTAAGAAGGCCATGCCTGAGGTTGCCATGAGATCTATTGGTATCCC
ACTGCCAGCTGAACAAGTTGAGGTAATTTCCCTCTACAGCAAAGCCCACATCATTCTCTCTTTTTTCCTCCATTGGGCGT
AGGC--GGCATCATTCAACTTTGTTGTGTGTTACCCGTGGCAACGCAGGTGCTGCAGGACAATCTGGAGTGGGAGGACGT
GCAGTGGTCGCAGACCGGCGTCTGGGTTTCTGGGAAGGAGTATCCGCTCGCCCGCGTGCATTTCCTCTCGGCGAACTAGC
GATGGC-GCACTCCGGTAGCAGCAGGCC-----AGGCCAGGCCAGCCTATGAAGAAACCATTTTCTTCTTTCTTGAATGC
TGCTGCTTTGCCACCGTGCCATGCCATGTTGTTTGTGTATAAAAGAGGGAAAAGAGAAGAGAAGCTCAGC---TGTTGTA
GGCCGTGTTGTGCCTGTAATCTTTG--TTACACACCAATAACCGTTATATGTC-TGTCTGAGAGATGTAATTCTTGGTTC
TTGAGTTAGGCAAAACCGGATTATTATTCGCTAATTATTGAATGCTGGATGTCAGTTGGAACTATTTATCATCGAATGTT
TCTTTGTTGTAGCCCATGGGTGGTGCCTCC-----CTTTGTTCATAATGATGATGACATGTGGACTTAAC----------
-TTGAATGTTTGG----TTATTTACAGAGACAAAACGGAGGAGGGGGAGAGAGCTGCCGTCAG--------CTCAACTGA
AGGAGCCCGATCGACGACGGTGGAGGACGGGCCTGGCTTATCCACTCGTTCTCCCCTCCTTTTTATAATCCCACCACCTT
TAGCAACGGACGCGCGAAGCCACCCC-GCCAATTCTTAA-ACTCGCCCCGCAGCCCCTTCCATTCCTCGCCTCCTCGCTA
ATGGCAGCAGCGTCAGGAACCGCCGCGACGTTCTCCATCAGGACGCCGGCGCCGGGGCTCCGGCGGCCCTGCGCCCGCGC
CGCCGCGGCCGGCGGGGGCGCC------------------------------------AAGTGGTGGGCGCCGCTGCTGG
GGTGGTCGGGCCAGCCCGACTACATCGAGCCCCAGCCGGCGGCCGAACCGGCGCCGAAGGAGGAGCG------------G
GGGAAGAGGCGGTTCGGGGTGCTGACGGAGGAGAAGGCGCGGCAGCTGCGGCTGCGGATGATGGAGACGGAGAGCTTCCA
CGACGTCATGTACCACTCCGCCATCGCCTCCCGCCTCGCCTCCGCCCCGCCCGACACCGCCCGCCGCACCAAGCCGTAGC
CTGGCCACGCACGCACGCGCGCGCTCCCTTGGCGTACGTGACCGCCGTTCGAGGAGCAGCTCAGCTCGCCGGCCGGCGGG
AAGCCATGCATGCGCAGCTGTGTATTTTGTATATAAATAGCAGAAGCTTTTGTTCGTTCGTTCTAGACCGCGACCGTGCT
CTCCTCCTGGATCGGGATGGACTGATCAAAGAAAAGGAAAAAAAAA-CATCAGTCCTGTAACAACACTTGCAACCAAGAA
TGTTGT-----GAGAA-AATAATAATAATGCTGCTGCAGGATGCACA-----TATGGTATGTACCGCCATTGACGTTTCC
CGATCTCTGTTCAATGAAGCACAGATCCTGATGCTCACAAGTTCTTCCTGCTACCATCATCAACGATTTCTGGCACTACT
CT-------------TTTTTTTTTGCGAGGGGTACTGGCACTACTCAATGATGCATGGTGAGACCTTGCAAAAATTTGTC
CAGGTCTCGATCATCCGTCCTTGCGTATCATTGTCTCCGGCGGAAAATGAGTCAAGTCTTTGTCCATCAGGGGTTCAGGA
CTCGCAAGTGCACGTCGCCCTCCGCGATGATTCATGCATGTGACCCCATCGGCGTCCCCGTCCAGGCCAGGGAGCACAAG
AGAAGCCAGTAATCCCAGTCAGTGTGTGTTTATCGATCCGTAGCGATCTGATTTGATGGAGCACGTCGCACGTCATCGCC
ATTTGATTCAAGCTACGCTGTCAGTTAAATAACCCCACGGAGACATTCGCACTGGTCGAGACCGACGTCTGCCTGAGTGA
TTTGTTCTAATCTCATCCTTGTTTGTAGTTTAGGACAAAAGATACT----------------------------------
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>chr3B_160
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-------------------------------------------------------------------------------C
ACTGCCAGCTGAACAAGTTGAGGTAATTTCCCTCTACAGCAAAGCCCATATCATTCTCTCTTTATTCCTCCATTGGGCGT
AGGCG-GGCATCATTCAACTTTGTTGTGTGTTACCCGTGGCAACGCAGGTGCTGCAGGACAATCTGGAGTGGGAGGATGT
GCAGTGGTCGCAGACCGGGGTCTGGGTTTCTGGGAAGGAGTATCCGCTAGCCCGTGTGCATTTCCTATCGGCGAACTAGC
GATGGC-GCACTCGGGTAGCAGCAGGCCAGGCCAGGCCAGGCCAGCCTATGAAGAAACCATTTTCTTCTTTCTTGAATGC
TGCTGCTTTGCCACCGTGACATGCCATCTTGTTTGTGTATAAAAGAAGGAAAGGAGAAGAGAAGCTCAGGAGTTGGTGTA
GGCCGTGTTGTGCCTGTAATCTTTTTATTACACACCAACAACCATTATATGTCTTGTCTGAGAGATGTAATTCTTGGTTC
TTGAGTTAGGCAAAACCGGATTATTATTCGTTGATTATTGAATGTTGGATGTGAGTTGGAACTATTTATCATCGAATGTT
TCTTGGTTGTAGCCCATGGGTGGTGCCTCC-----CTTTGTTCATAATGACGATGATATGTGCACTTCAC----------
-TTGAATGTTTGGGCATTTTTATACGAAGACGAAACGGAGGGG-------------------------------------
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>chr3B_845
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------------------------------------------------------------------------TCAACCGA
AGGAGCCCGATCGACGACGGTGGAGGACGGGCCTGGCTTATCCACTCGTTCTCCCCTCCTTTTTATAATCCCGCCACCTT
TAGCAACGGACGCGCGAAGCCACCCCCGCCAACTCTTAA-ACTCGCCCCGCGGTTCCTTCCGTTCCTCGCTTCCTCGCTA
ATGGCAGCAGCGTCAGGAACCGCCGCGACGTTCTCCATCAGGACGCCGGCGCCGGGGCTCCGGCGGCCCTGCGCCCGCGC
CGCCGCGGCCGGCGGGGGCGCC------------------------------------AAGTGGTGGGCGCCGCTGCTGG
GGTGGTCGGGCCAGCCCGACTACATCGACTCCCAGCCGGCCGCTGAACCGGCGCCGAAGGAGGAGCG------------G
GGGAAGAGGCGGTTCGGGGTGCTGACGGAGGAGAAGGCGCGGCAGCTGCGGCTGAGGATGATGGAGACGGAGAGCTTCCA
CGACGTCATGTACCACTCCGCCATCGCCTCCCGCCTCGCCTCCGCCCCGCCCGACACCGCTCGCCGCACCAAGCCGTAGC
CTAGCCACG------CGCGCGCGCTCCCTTGCCGTACGTGGCCGCCGTTCGAGGAGCAGCTCAGCTCATCGGCCGGCGGG
AAGCCATGCATGCGCAGCTGTGTATTT-GTATATAAATAGCAGAAGCTTTTGTTCGTTCGTTCTAGACCGCGACCATGCT
CTCCTCCTGGATTGGGATGGACTGATCAAAGAAAAGGAAAAAAAAA-CATCAGTCCTGTAACAACACCTGCAACCAAGAA
TGTTGTTGTGAGACAATAATAATAATAATACTGCTGCAGGATGTACGTATGGTATGGTATGTACCGCCATTGACGTTTCT
CGATCTCTGTTCAATGAAGCATAGATCCGGATGCTCACAATTTCTTCCTGCTACCATCATCAACGATTTCTGTACTGGCA
CTAGTCAATG-------------------------------------ATGATGCATGGCGAGACCTTGCAAAAATTCGTC
CAGGCCTCGATCATCCGTCCTTGCGTATCATTGTCTCCGGCGGAAAATGAGTCAAGTCTCTGTCCATCAGGGGTTCAGGA
CTCGCAAGTGCACGTCGCCCTCCGCGATGATTCATGCA------------------------------------------
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>SNPs
----------------------------------------------------------S--S--S---------------
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------------------------------------------------------------------S-------------
--------------------------S-----------------------------------------------------
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------------------------------------------------------------------------S-------
-----------SS-------------S----------------------S------------------------------
----------------------------S---------------------------------------------------
------------------------------------S--------------S---------------------S------
-------------S-----SSSS--SSSSSSSSSS------------S-------------------SSSSSSSSSSSSS
S---S---------S---------S-------------------S-SSSS-SSS-SS-SSSSSSSSSSSSS---------
---------S-----------------------------------S-------------S--------------------
------------S---------S-----------SSSSSS--S-----S---S---S---------------------S-
--------S----------S-----SS---------S--S-SS-SS---------S-SS-----SSSS--SSS-------
--------------S--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------S----
--------------S--------------S------------------------S-S-------S--SSSSSSSSSSSS-
----S---------------------------------------------------------------------------
---------------------------S----------------------------------------------------
------------------------------------------------------S----------------S--------
----------S------------S------------------------------------------------S-----S-
----------------------------------------------S---S---------S-------------------
-------------------S------------------------------------------------------------
-----------------S--S----------------------------S----------------------S-------
S--S--SS-SSSSSS-----------------------------------------------------------------
------------S-------------------------------------------------------------------
--------------------------------------SSSSSS------------------------------------
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------------------------------------------------------S---------------------S---
S----------------------------------S----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_492
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------------------------------------------------------------------------GTGAATGC
TGCTGCTTTGCT--------------------------------------------------------------------
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>reverse_2534
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-----------------------------------------------------ATTTTCCCGTCGAGTGTGCT-------
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