>input_sequence_72402
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--------------------------ATGGCGGGTCCCGGCGTCGGAGCGGCCGCGCCTCGCCTGTCGCTGCTGCTGCTG
CT---CGTCGTCGTCTTCGCGGGCCCCTCTCGCGACAGCCGCACCGTGAGTTCTTCTTCTTCC---TCTTGCACGCGCGC
CCACATCTCGCGGTGTCACTCTATCTATC--------TATCAACCGACGACTGCTCTGCTCTGCCGTGTGACG-------
-CATGGCGCCGTTTTGCTTGTGCTGCGCAGGAGGCGGCCGTGCGGACGTGCACGTACACGGTGAAGGTGAAGACGAGCTG
CGCGTCGCCGGCGCGGACGTCGGACGCGGTCAGCGTGGCGTTCGGGGACGCGTACCGGAACGAGGCGTACGGGGCGCGCC
TCCCGAGCGCGCCGGGCGGGAGGGCCTTCGAGCGGTGCGGCACCGACACCTTCCGCGTCTCCGGGGTGTGCGGCTACGGC
GTCTGCTACCTCTACCTCCGCCGCGCCGGCCGCGACGGCTGGGCGCCCGAGTGGGTCCAGGTCACCGAGCCGGGCCCCGG
CGCCGGAGAGAAGCCCGCCACCTTCTACTTCGGGGCGCCGCTGCCGGACGGCGTCTGGTACGGCCACAACCGCTGCCCCA
AGGCCAAGGCCAA------------GGCAGCGGCGGCGGCTCGGACAAACACCACCTCTGCTGCTGCTTCGCCTCTGGGC
TAG-----------------------------------------------------------------------------
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>chr1A_1_TraesCS1A01G115400
TTTGATGTGGATTTTGACTTGCTGGGGATTTAATCCCTGCCAATTTGCTCCAAACCCCTTGGAACCCTGTGGAACCGAAC
AAGGCCTTAGGGTGCGAGAGAATTGACCTGATGATTCAAGGCCCCAATAGATCATATCCTCTTCAATTTGTATGATCGAT
CACAATTCGATTAGTAAAAGATTCACTTTTATATTTGAGTCACACAATCATATTTTTAACTTAGCATAAGC-AAACTAGC
TCAGGGAAAGCAACAGAACCGGTAACGGAGGAGCATTCATTCACATGCTCGCAGCAACGGAGGATGATGCATTCATCCAC
AGGCTCGCGGCAAGGGAGC------CAGGGCATTCCGTTACGTGCGGTGTATAAATAAACGATAGATGAATTACAGTACA
ACAAAGGGCATTTGGTCTAGTGGTATGATTCTCGCTTAGGGTGCGAGAGGTCCCGAGTTCAATTCTCGGAATGCCCCAAT
TTTTGCATTTTTTTTTGTTTTTCCTCTCTCT--------------------------------------------CT---
---CCGATTTGAAGCGCGCCATAGAGACCTTTCTCAACGTCCATAAG-TTTTTGGAGAACCATCTAGCTAGCC------T
CTGTTTCATTCTGAGACTATGCAGCATCGTAGAAGCATCTAAGCTTATTTTACTCTGAGATTATAAACCATCAAACTCCC
TGCGCTTGTGTGTGTGTG--CCCCGCGCTGGATGCTTCTGACTTCTGTCCGTCGACCTGTGCCGCGCGGCGGACCACATC
AGCACCGAGCGTGACGACACGCGACGCTCGTGTCCGCTAGTGAGCGATTCGGCGCGTTGCCGATCCGATACGATGCGCTG
CTGGTCCACTGGCCTGCAGCCATGTGCTAGCGTGCACCGCATCCTCATCGCCATCTCGACACAGTGACACGCCAAACCGC
TATTATTAGCACCCCCGAACTCCTACGCGGCGGCGCAATCACATCGAGTCCTCGCGCCGTCCCCCGTCCCATATTCCCTT
TACCCGTTCTCGCCTCGTCGCCGGCAATGGCGGGTCCCGGCGTCGGAGCGGCCGCGCCTCGCCTGTCGCTGCTGCTGCTG
CT---CGTCGTCGTCTTCGCGGGCCCCTCTCGCGACAGCCGCACCGTGAGTTCTTCTTCTTCC---TCTTGCACGCGCGC
CCACATCTCGCGGTGTCACTCTATCTATC--------TATCAACCGACGACTGCTCTGCTCTGCCGTGTGACG-------
-CATGGCGCCGTTTTGCTTGTGCTGCGCAGGAGGCGGCCGTGCGGACGTGCACGTACACGGTGAAGGTGAAGACGAGCTG
CGCGTCGCCGGCGCGGACGTCGGACGCGGTCAGCGTGGCGTTCGGGGACGCGTACCGGAACGAGGCGTACGGGGCGCGCC
TCCCGAGCGCGCCGGGCGGGAGGGCCTTCGAGCGGTGCGGCACCGACACCTTCCGCGTCTCCGGGGTGTGCGGCTACGGC
GTCTGCTACCTCTACCTCCGCCGCGCCGGCCGCGACGGCTGGGCGCCCGAGTGGGTCCAGGTCACCGAGCCGGGCCCCGG
CGCCGGAGAGAAGCCCGCCACCTTCTACTTCGGGGCGCCGCTGCCGGACGGCGTCTGGTACGGCCACAACCGCTGCCCCA
AGGCCAAGGCCAA------------GGCAGCGGCGGCGGCTCGGACAAACACCACCTCTGCTGCTGCTTCGCCTCTGGGC
TAGCGCGACCTGATT----CGGCTCTACCCACCGGGCGCAGCCCCTCTCCGTATGTAATTCGGCATTCGCCGAGAATAAG
CAGACTGTGCTTACAGATTCAGAATAAGTAATTAGAGAATCATAATCCGAAATATGATGAGGCCATGAGGGCACCTTCTT
CACACCCCGGAGGATTTGTTTCCTGTTTACATTTACCACACATCTCTATTAGAGCATCTCTAGCAGACCTGTTATATCAT
GGACCCTTATATTGCTTTTACAGTTCACAGAAAACCAGTTTTACTGGCTGGTCCGGGCACCGGCCGAACAGATTCCGTAT
AATCAATCTGTAAAAAACCAAATCAAAATCGACCGACGACCGACATGCGAACGAGAAAGACACGGCCAGAAACGAAGGCC
GGCGGATGAACGGACGAGA-AGACGCGGGCTGGCCACGACACGCGGGCTTAGGACAGGGCGGCGCGGGCGGCGGTCGAAC
GCGCGCGGCCGGACTCAGCTAGCTAGCTCGCACACATCGATTCACAGCTAGCTAGCGCAGTCGTAGCTAGCTAGCTAGCT
CGCATCGATTC----------AGCTAGCGCGGCTGTCTAGCTAGCTTGCTCGCATCCACGGGTG----------------
---------------------GCGGACGGGCGCGGCGGACGGGCAGCCGGGT----------------GAGTTTCATGGT
GTTGGCGGGAGCAGAGATTCCTCAACCGCAAGTGTTGACCGGTATTTAGGGCCCTGCCAAAGTTGCCTTCAAAACTAA-A
GATATGAGGGTTTCGGGTTCGTGTTTATAGGGCCTCTTAAAAAAATTTAAGAGTCGGACAATTTTAAGGGGTCTGTTCAG
ACCTGTTTTTTCGACTAGAACTGTC-AAAGCGGTTATTTTACGGGTTTGACCATTTATACGGGATCTGCTAGAGATGCTC
TTAATCGCTAGAAACCATAGTTTTTTTAAAAAAAAAGAGGAAGGCCCCCGGCCTCTGCATCTGGACGATGCATGCAGCCA
CTTTATTAATTATTCATAAAAGACTTTACAAAG
>chr1D_86
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-----CTTATGGTGCGAGAGATTTGACCTGACGATTCAAGGCCCCAATAGATCATATCCTCTTCAATTTGTAAGATTGAT
CGCAATTCGATTAGTACAAAATTCACGTTTATATTTGAGTCATACAATCATATTATTAACTTAGCATAGAAAAAACTAGC
TCAGGGAAAGCAACAGGACCGGCAACGGAGGAGCATTCATTCACAGGCTCGCAGCAACGGAGGATGATGCATTCAT-CAC
AGGCTCGCGGTAAGGGAGGCATAGGCAGCCCATTCCGTTACATGCAGCGTATGAATAAACAATAGATGAAATACAGTACA
ACGACGGGCATTTGGTCTAGTGGTATGATTCTCGCTTAGGGTGCGAGAGGTCCCGAGTTCAATTCTCGGAATGCCCCAAT
TTTTGCATCTTTTTTG---TTTCTTCTCTCC--------------------------------------------CTTTC
TCACGGATTTGAAGCGTGCCATAGAGACCTTTCTCAACGTCCATAATTTTTTTGGACAACCATCTA------C------T
CTGTTTCATTCTGAGACTGTGCCCCATAGTAGAAGCGCCCAAGCTTATTTTATTCTGAGATTATAAACCATCGCACTCCC
GGCGCTC------GTGTGTACCCCGCGCTGGATGCTTCTGACTTCTGTCCGTCGACCTGCGC--CGCGGCGGACCACATC
AGCACCGAGGATGACGACACGCCTCGCTCGTGTCCGCCAGCGAGCGATTCGGCGCGTTGCCGATCCGATACGATGCGTTG
CTGGTCCACTGACCTGCAGCCATGTGCGA--GTGCACCGCACCGCACCGCATCTAC----------ACACGCCAAACCGC
TATTATTAGCACCCCCGAACTCCTACACGGCGGCGCAATTGCATCCAGTTCTCGCGCCG-CCCCCGTCCCATAATCCCTT
--CCCGTCCTCGCCTCGTCGCCGGTAATGGCGGGTCCCGGCATCGGAGCGGCCGCGCCTCGCCTGTCGCTGCTGCTGCTG
CTGCTCGTCGTCGTCTTCGCGGGCTCCTCCCGCCACAGCCGCACCGTGAGTTCTTCTTCTTCTT--------------GC
ACACATCTCGCAGTGTCACTCTATCTATGATCTACTGTATCAACCAACGACTGCTCTGCTCCGCCGTGTGAGTGTGTGAC
CCATGGCGCCGTT----TTGTGCTGCGCAGGAGGCGGCCGTGCGGACGTGCACGTACACGGTGAAGGTGAAGACGAGCTG
CGCGTCGCCGGCGCCGACGTCGGACGCGGTTAGCGTGGCGTTCGGGGACGCGTACCGCAACGAGGCGTACGGCGCGCGCC
TCCCGAGCGCGCCGGGCGGGAGGGCCTTCGAGCGGTGCGGCACCGACACCTTCCGCGTCTCCGGGGTGTGCGGCTACGGC
GTCTGCTACCTCTACCTCCGCCGCGCCGGCCGCGACGGCTGGGCGCCCGAGTGGGTCCAGGTCACCGAGCCGGGCCCCGG
CGCCGGAGAGAAGCCCGCCACCTTCTACTTCGGGGCGCCGCTGCCGGACGGCGTCTGGTACGGCCACAACCGCTGCCCCA
AGGCCAAGGCCAAGGCAGCGGGCACGGCAGCGGCGGCGGCTCGGACAAACACCACCTCTGCTGCTGCTTCGCCTCTGGGC
TAGCGCGACCTGATT----CGGCTCTACCCACCGGGCGCAGCCCCTCTCCGTATGTAATTCGGCATTCGTCGAGAATAAG
CAGACTGTGCTTACAGATTCAGAATAAGTAATTAGAGAATCATAATCCGAAATATGATGAGGCCATGAGGGCACCTTCTT
CACACCCCGGAGGATTTGTTTCCTGTTTACATTTATCACACATCTCTATTA-----------------------------
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>chr1B_389
GTT-----------------------------------------------------------------------------
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------------------------------------------------------------------------------CA
ACAAAGGGCATTTGGTCTAGTGGTATGATTCTCGCTTAGGGTGCGAGAGGTCCCGAGTTCAATTCTCGGAATGCCCCAAA
TTTTGCATCTTTTTTG---TTTCCTCTCTGACTCTCTCTCTCTCTCTCTCTCTCCGATTTTTTTTTTTTGAACTTCTTTC
TCTCCGATTTGAAACGTGCCATAGAGACCTTTCTCAACGTCCATAATTTTTTTTGAGAACCATCTA------CCTAGCCT
CTGTTTCATACTGAGACTATGCACCATCGTAGAAGCATCTAAGCTTATTTTATTGTGAGATTATAAACCATCAAACTCCC
TGCGCTC------GTGTG--CCCCGCGCTGGATGCTTCTGACTTCTGTCCGTCGACATGTGC--CGCGGCGGACCACATC
ATCACCGAGCATGACGACACGCAACGCTCGTGTCCGCTAGCGAGCGATTCGGCGCGTTGCCGATCCGATACGATGCGTTG
CTGGTCCACTGGCCTGCAGCCATGTGCTAGCGTGCACCGCATCCTCATCCCCATCTCGACACCGTGACACGCCAGGGCGC
TATTATTAGCACCCCCGAACTCCTACGCGGCGGCGCAATCACATCGACTCCTCGCGCCGTCCCCCGTCCCATAGTCCCTT
--CCCGTCCTCGCCTCGTCGCCGGCAACGGCGGGTCCCGGCATCGGAGCGGCCGCGCCTCGCCTGTCG---CTGCTGCTG
CTGCTCGTCGTCGTCTTCGCGGGCTCCTCCCTCCACAGCCGCACCGTGAGTTCTTCTTCTTCTTCTTCTTGCACGTGCGT
CCACATCTCGCAGTGTCACTCTATCTAT------------CAACCAACGACTGCTCTGCTCTGCCCTGTGAGTGTGTGAC
CCATGGCGCCGTT----TTGTGCTGCGCAGGAGGCGGCCGTGCGGACGTGCACGTACACGGTGAAGGTGAAGACGAGCTG
CGCGTCGCCGGCGCGGACGTCGGACGCGGTCAGCGTGGCGTTCGGGGATGCGTACCGCAACGAGGCGTACGGCGCGCGCC
TCCCGAGCGCGCCGGGCGGGAGGGCCTTCGAGCGGTGCGGCACCGACACCTTCCGCGTCTCCGGGGTGTGCGGCTACGGC
GTCGGCTACCTCTACCTCCGCCGCGCCGGCCGCGACGGCTGGGCGCCCGAGTGGGTCCAGGTCACCGAGCCGGGCCCCGG
CGCCGGAGAGAAGCCCGCCACCTTCTACTTCGGGGCGCCGCTGCCGGACGGCGTCTGGTACGGCCACAACCGCTGCCCCA
AGGCCAAGGCCAAGGCG------------GCGGCGGCGGCTCGGACAAACACCACCTCTGCTGCTGCTTCGCCTCTGGGC
TAGCGCGACCTGATTGATTCGGCTCTACTCACCGGGCGCAGCCCCTCTCCGTATGTAATTCGGCATTCGTCGAGAATAAG
CAGACTGTGCGCCCAGATTCAGAATAAGTAATTAGAGAATCAGATTCCGAAATATGATGAGGCCCTGAGGGCACCTTCTT
CACACCCCGGAGGATTTGTTTCCTGTTTACATTTACCACACATCTCTATT------------------------------
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>chr2D_2002
AAATCA--------------------------------------------------------------------------
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-------------------------------ACCGGCGACCGACGTGCGGACGAGGAAGACATGGCCAGAG-CGGAGGCC
GGTGGACGAACGGACGAGAGAGACGCGGGACGGCCATGACACACGGGCGGAGGCCGGGGTGGCGC-GGCGGCGGCCGGGC
GCGCACGGCCGGACTCAGCAAGCTAG---------------------CTAGCTAGCGTGGCCGTAGCTAGCTAGCTTGCT
TGCTCGCATCAATTCATAGCTAGCTAGCGCGGCCGT-TAGCTAGCTTGCTCGCATCCACGCGGGCGGGCGAGCGCGGCGG
GCGGACGGGCGGCCGGGCGCTGCGGACGGGTGCGGCGGCCGGGCGGCAGAAGGGCGCGGCGGCCGGGCGAGCTTCATGGC
GTTGGCGGGAGCAGAGATTCCTCAACCGCCAACGTTGACCGGTATGCAGGGCCCTGGTAAAGTTGCCCTCAAAAACTGTA
GATATGAGGGTTTCGGGCTCGCGTTTATAGGGCCCCTTAAATTT-TTTAAGGGTCGGACGATTTTAAGGGGTCTGTTCGG
GCTCGTTTTTTCGACTGGAACTGCAAAAAACTGTTATTTTGCAGGTTTGACCACTTATACGGGTTCTGCTAGAGATGCTC
T-------------------------------------------------------------------------------
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>SNPs
S--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSS----S-----------S---------S----------------------------------------S---S---
-S--------------S--S------S---------------S-----------S-------------SSS---------
----------------S-----S----------------------S------------------------------S---
----------S-------S---------SS-----------S---S-S----S-------S---------S---------
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--------S------SSSS-----------S-------------------------------------------------
----------------S-----------------------------S-------------------SSSSSS--------
-----------------------S----------------------------S---------------------------
------SSSSSSS-------------------------------------------------SS----------------
----------S-----------S-----------------S------------------------------------S--
-------------------------------------------------S------------S-----------------
-------------------------------------------------------------------------S------
SS-----S---------------------------------S--------------------------------------
------------------------S----S---S----------------------------S------------S----
-----------S----------------S----------------S-------------------------SS-------
-------------SSSS---------------------------------------------------------------
---------------------------------------------------------S--------------S-------
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---------------------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S--------S----S-----S------S-------SS--S-----
--S---S----------------------SS-----S-----S-----SS---S-S---S-----S--------S--SS-
----S--------------S------SSSSSSSSSSSSSSSSSSSSS----------SS-S---------------S---
S--SSSS--SS----------------------S--S-----------------------S-S-----------------
------------------------------S-------S-----S--S-SSS-------------------S-------S
-----------------------------S-SS------------SS---------SS---------S------SSSS--
-----------------S---S------------S------SSSS------S-------S------------------S-
S-SS------------S------SS----S-S--------S-S----------S---------S----------------
-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_52
--------------------------------ATCCCTGCCAATTTGCTCCA----------------------------
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>reverse_2037
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------------------------------------AGTTTTACTGGCTGGTCCGG------------------------
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