>input_sequence_75988
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A-TGGGCTCCCCCTCCCCTCCGCCGCCGC---CCGCCGGCGACCAACGGCCCCACCACCCCCTCCTCGCCGCAGCCGCGG
CCGCCTCCCTGCTCGCCGTCCTCTACCTCCCTCGGCCGCTCCTGCAGCTGCTCCTCACCCCCGCCCCGCTCTCCTCCGTC
CTCCTCCTCGTCTACCTGCTCCGCCTCGGCTCCCCGCCACCTGCCGCGACCCTTCCTCCTCTTCCTCCTCCGCCGCAGGA
GAGAGCCCCGGAGGTCGCTCCGCCTCCGCCACCGCCTCCC---------CCGCCGCCGCCGGCGAAGCCCCAGAGCGTGT
TCCTGGAGCCCGAGTTCGCGTCGTGGGCGCCCAAAGGCCGCGTCCTGGAGGTGATCCACGAGGAGTTCGAGGCGGAGTGG
GGGCCGGAGGAGATGGGCCTGCCCTGGACGTCGGACTCCGACTCGGACAGCTGCAGCGGCAGCGACGACTACGACGGCGG
CGGCGGCGGCGGCGGGGAGGAGTACGGGATGATCGAGATCGAGCTGGAGGAGGACAACCTCATCGAGATCGACATCTCGA
GCTGCCGGTGA---------------------------------------------------------------------
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>chr2D_1_TraesCS2D01G210900
GAGTCCCCGTGGCCGGCCTGTAGACGTGTAGTTGGCCGCACCCGGAAGGATGTGCCCATATCTGGGCCACCCCTGCTCCT
CCCCCGTTGGCAAGACTTCAAGTGGAAGCCAAGTTGCCCCGCTGCGCAAACAG----AAAAAAA--GGCTCACCCCGACA
CGTTAACATGCAGGGAAGATGCTTGTGAC-CTGCGACTACCCGACGGGCGACGGGTGACGGATACGGGAGGATCTGGCGC
TGGCGGCTCCATCGAAAAGGGCACGAGGCATCCGGGCAAGGGCACGCAGGCCCGTCAGCTTTCCTCCGTTGGTTTCGGCA
GCGGCCGGTGGAG----CTCTCTCTGCCCGTCGGGGGATTTGCTTCCCGTTTCGTCTCGTCCGGTTGCCTTTT-CTTCCC
GTTTCGTCTGGTCCGGTTGCCTTTTCTTCCCGTTTCGTGTGCAGT---GCAGTGCAGGTGGCAGCCCTGCGCCTTTGCGT
GCATGCTGCAGCCTTCCGCTCGCCCGAGCCGAGTCATTTGCATTTTCTGCCGGCCGGTGCCCCGATTCGTGTGGCTCCGT
GCTGCCGCCCATCATGTTTTTTACTGCTGACCCAGTCGCACGCCGTTTGACCGGACGCTCCTTTTCCTGCCCGTGGTCTT
TGCACAATGCAGATACTACTGGTCAATTTCCCCAGCACTGTCCCAACATGTGGACGTAGACCCACATGTCATCCCTTCAT
TAGTTGCTGAAGAGGGTGTTGAGCATTTCAAGTTA--AACACATTC-------TACCATTAATTGGACA-GGAGGACAAT
GGATGAACAATCAGGTGAAACGTACG-CGG-TTTTAACACAACATTCTACCGTCCTTCCGG-----GCGTACCTGCAAAA
AAAAGATCGGAGTTTTGATTTCGCTGTCTGGAACAAGAATAAAACCGGAAGCGC-----TCGCTCGTCTCGTTTGCTTGT
CGCTTTAAAAAGAGAGAAACCGACTTGGCGGTGAGTGGCTCTGCTCGGCTTTAACCACTA---CACTCCTCCCGCCTTAA
A-TGGGCTCCCCCTCCCCTCCGCCGCCGC---CCGCCGGCGACCAACGGCCCCACCACCCCCTCCTCGCCGCAGCCGCGG
CCGCCTCCCTGCTCGCCGTCCTCTACCTCCCTCGGCCGCTCCTGCAGCTGCTCCTCACCCCCGCCCCGCTCTCCTCCGTC
CTCCTCCTCGTCTACCTGCTCCGCCTCGGCTCCCCGCCACCTGCCGCGACCCTTCCTCCTCTTCCTCCTCCGCCGCAGGA
GAGAGCCCCGGAGGTCGCTCCGCCTCCGCCACCGCCTCCC---------CCGCCGCCGCCGGCGAAGCCCCAGAGCGTGT
TCCTGGAGCCCGAGTTCGCGTCGTGGGCGCCCAAAGGCCGCGTCCTGGAGGTGATCCACGAGGAGTTCGAGGCGGAGTGG
GGGCCGGAGGAGATGGGCCTGCCCTGGACGTCGGACTCCGACTCGGACAGCTGCAGCGGCAGCGACGACTACGACGGCGG
CGGCGGCGGCGGCGGGGAGGAGTACGGGATGATCGAGATCGAGCTGGAGGAGGACAACCTCATCGAGATCGACATCTCGA
GCTGCCGGTGATGGATTC-CCCCGACATTCCGACCGGTTTTCC--------TTCTCTTGCGTTGGCTTTGACAAAAACAA
AATACATTTTGCTGATTCGGCGTGTGAATTCGAGTGCCGTTCTTTATTCTCTTTATTACTACTTAGATG-----CTGCAA
TGTACATAGGCTGGTCACTGGTGAGCTGAGAAAGATACTACCGAGTGAGGAAGGCTCGCTAATTTTTGGTTCATCTGAGA
TGATGGCGAGTTTAGTTTGATCCTACTACTACC-ACTAGTTTTTGTGCCATGTTAATCACTTGTCACCTCAAGGAAGGAA
TCAACTTGTGATGCTTGCATTGGTCTTTCTTTATCCAAGCATCTTGAGCTAGTGTTTACTATGATTAGCACTACAAGATC
GTCCGCTTTTTGTTCTTGTTCTGACAAGA-TTGCAATCATTCACCACATTGCGCGGCTGGCGTTTTACTATATTCGAGCG
CAGATTGTGCTTGAGTTTCATGTTAGTAC----GATAGCTTGGTGATACACTGA--------------------------
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----------TACTACTAGCTAGCTGCATGGATCTGGAGAAAATTATTAGTAGCTTGGCGACACATGTGTAAAGATCGTG
CCGGTGGTTGGTGGTTGGGATGGATCCGTTAAGTTGGCTCACGAAATTAGGTCGATCTCCGAGCACGAGAACATACTCCT
GCTGTGCCATC----TAAGCATGTTCAATTAATACTGACAGGCTGCTTTGCTTCCCTTTCGAAATA--TAATCAAGCCAC
TAATAATTAGGCTATATATGGAAATCCATA------TGTACAACAAGTTGCTTGAAGGGAACTTATTCAATTCGAAACCA
GTTGAGTTGGTACATTTCTATGGCTGATAGTACCAAATCAGAGCCGCATGTCCTGACGCGTAGGCTGTCGTATCGCATAA
CCTCAGGGCGAATGAAGTCTGTTTTAAACCTTAAACTCATAGAGCTTGTCGAAATTAAACCCTCACTTTTGAATCCCTGA
AATTGGTACCCTAACCTCTTTGATCCTGGTCATTATCAA
>chr2B_15
--------------GGCCTGTAGACGTGCAGTTGGCCGCACCCGGAAGGATCTGCCCATATCTGGGCCACCCCTGCTCCT
CCCCCGTTGGCAAGACTTCAAGTGGAAGACAAGTTGCCCCGCGGCGCAAACAAGAGAAAAAAAA--GGCTCGCCCCGACA
CGTTAACATGCAGGGAAGATGCCTGCGAGGCTGCGACTGCCCGACGGGTGACGGATACGGGATACGGGAGGATCTGGCG-
-----GCTCCATCGAAAAGGGCACGAGGCATCCGGGCAAGGGCACGCAGGCCCGTCAGCTTTCCTCCGTTGGTTTCGGCA
GCGGCCGGTGGAGCTATCTCTCTCTGCCCGTCGGGG-ATTTGCTTCCCGTTTCGTCTCGTCCCGTTGCCTTTT-CTTCCC
GTTTCGTCTGGTCCGGTTGCCTTTTCCTCCCGTTTCGG-----GT---GCAGTGCAGGTGGCAGCTCTGTGCCTTTACGT
GCATGCTGCAGCCTTCCGCTCGCCCGAGCCGAGCCATTTGCATTTTCTGCCGGCCGGTGCCCCGATTCGTGTGGCTCCGT
GCTGCCGCCCATCATGTTTTTTACTGCTGACCCAGTCGCACGCCGTTTGACCGGACGCTCCTTTTCCTGGCCGTGGT---
-------------AGATACCGGTCAATTTCCCCAGTACTGTCCCAACATGTGGACGTGGACCCACATGTCATCCCTACAT
TAGTCGCTGAAGAGGGTCTTGAGCATTTCAAGTTAGTAACACATTC-------TACCATTAATTGGACTTGGAGGACAAC
GGACGAACAATCAG-TGAAGCGTACG-CGGTTTTTAACACAACATTCTACCGTCCTTCCGG-----GCGTACCTGCAAAA
AAAGATTGGG-GTTTTGATTTCGCTGGCTGGAACAAGAATAAAACCGGAAGCGCGTCCTTCGCTCGTCTCGTTTGCTTGT
CGCTTTAAAAAGAGAAAAACCGACTTGGCGGTGCGTGGCTT-----GGCTTTAACCACTC---CACTCCTCCCGCCTTAA
AATGGCCTCCCCATCCCCTCCGCCGCCGCCGGCCGCCGCCGACCAACGGCCCCACCACCCCCTCTTCGCCGCGGCCGCGG
CCGCCTCCCTGCTCGCCGTCCTCTACCTCCCTCGGCCGCTCCTGCAGCTGCTCCTCTCCCCCGCCCCGCTCTCCTCCGTC
CTCCTCCTCGTCTACCTGCTCCGCCTCGGCTCCCCGCCACCTGCCGCGACCCTTGCTCCTCCTCCTCCTCCGCTGCAGGA
GAGAGCCCCGGAGGTCGCCCCGCCTCCGCCTCCG---------------CCGCCGCCGCCGGCGAAGCCCCAGAGCGTGT
TCCTGGAGCCGGAGTTCGCGTCGTGGGCGCCCAAAGGCCGCGCTCTGGAGGTGATCCACGAGGAGTTCGAGGCGGAGTGG
GGGCCGGAAGAGATGGGCCTGCCCTGGACGTCGGACTCCGACTCGGACAGCTGCAGCGGCAGTGACGACTACGACGACGG
CGGCGGCGG---CGGGGAAGAGTACGGGATGATCGAGATCGAGCTGGAGGAGGACAACCTCATCGAGATCGACATCTCGA
GGTGCCGGTGATGGATTTACCCCGACATTCCGACCGGTTTTCCCCCTTTGCTTCTCTTGCGTTGGCTTTGACAAAAACAA
AATACATTTTGCTGATCCGGCGTGTGAATTCGAGTGCCGTTCTTTATTCTCTTTATT---ACTTAGATG-----CTGCAA
TGTACATAGGCTGGTGACTGGTGAGACGAGGAAGA---TACCGAGTGAGGAAGGCTTGCTAATTTTTGGTTCATCTGAGA
TGATGGCGAGTTTAGTTTGATCCTACTACTAC----TAGTTTTTGTGCCATGTTAATTACTTGTCACCTCAAGGAA----
TCAACTTGTGATGCTTGCATTGGTCTTTCTTTATCCAAGCATCTT-AGCTAGTGTTTACTATCATTAGTACTACAAGATC
GTCCGCTTTTTGTTCTTGTTCCGAGAAGG-TTGCAATCATGCACCACATTGCGCGGCTGGCGTTTTACTATATTCGAGTG
CAGATCGTGCTTGAGTTCCATGT---TAC----GATAGCTTGGTGATACACTGA--------------------------
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----------T-CTACTAGCT-GCTGCTTGGATCTGGAGAAA---ATTAGTAGCTTGGCGACACATGTGTAAAGATCGTG
CCGGTTGTTGGTGGTTGGAATGGATCCGTTAAGTTGGTTCACGAAATTAGGTCGATCTCCGAGCACGAGAACATACTCCT
GCTGTCTGTGCCATGTAAGCATGTTCAATTAATACTGACAGGCTGCTTTGCTTCCCTTCAAAAAAAAT--ATCAAGCCAC
TAATAATTAGGCTATATATGGAAATCCATA------TGTACAACAAGTTGTTTGAAGGGAACTTATTCAATTCGAAACCA
GTTGAGTTGGTACTTTTCTATGGATGATGGCACCAAATCGGAGCCGCATGTCCTGACGCGTAGGCTGTCGTATCGTATCG
CCTCAGGGC-----------------------------------------------------------------------
---------------------------------------
>chr2A_41
----------------------------------------CCCGGAAGGATGTGCCCATATCTGGGCCACCCCTGCTCCT
CCCCCGTTGGCAAGACTTCAAGTGGAAGACAAGTTGCCCCGCGGCGCAAACAA----AAGAAAAATGGCGCGCCCCGACA
CGTTAACATGCAGGGAAGATGCTTGTGAC-CTGCGACTGCCCGACGGCCGACGGGTGACGGATACGGGAGGAT-------
------CTCCATCGAAAAGGCCACGG---------------------AGGCCCGTCAGCTTTCCTCCGTTGGTTCCGGCA
GCGGCCGGTGGAG----CTCTCTCTGCCCGTCGGGGGATTTGCTTCCCGTTTCGTCCCGTCCGGTTGCCTTTTTCTTCCC
GTTTCGTCTCGTCCGGTTGCCTTTTCCTCCCGTTTCGTGTGCAGTAATGCAGTGCAGGTGGTGGCTCTGTGCCTTTGCGT
GCATGCTGCAGCCTTCCGCTCGCCCGAGCCGAGCCATCTGCATTTGCTGCCGGCCGGTGCCCCGATTCGTGTGGCGCCGT
GCTGCCGCCCATCATGTTTTTTACTGCTGGCCCAGTCGCACGCCGTTTGACCGGACGCTCCTTTTCCTGCCCGTGGTCTT
TGCACAATGCAGCAGATACTGGTCAATTTCCCCAGTACTGTCCCAACATGTGAACATGGACCCACATGTCATCCCTACAC
TAATCTC---------------GCAGTTCAAGTTA--ACACACTCTACTATAGTACCATTAATTGGACA-GTAGGACAAC
GAACGAACAATCAG-TGAAGCGTAAAACGG-TTTGAACACAACATTCTACCGTCCTTCCGTTCCGTGCGTACCTGCAGAA
AAAAGATCGGAGTTTTGATTTCGCTGGCTGGAACAAGAATAAAACCGGAAGCTC-----TCGCTCGTCTCGTTTGCTTGT
CGCTTTAAAAAGAGAGAAACCGACTTGGCGGTGCGTGGGTT-----GGCTTTAACCACTACTACACTCCTCCCGCCTTAA
A-TGGCCTCCCCCTCCCCTCCGCCGCCGC---CCGCCGGCGACCAGCGGCCCCACCACCCCCTCCTCGCCGCGGCCGCGG
CCGCCTCCCTGCTCGCCGTCCTCTACCTCCCGCGCCCACTCCTGCAGCTGCTCCTCTCCCCCGCCCCGCTCTCCTCCGTC
CTCCTCCTCGTCTACCTGCTCCGCCTCGGCTCCCCGCCACCTGCCGCGACCCTAGCTCCTCCTCCTTCCCCGCCGCAGGA
GAGAGCCCAGGAGGTCGCCCCGCCTCCGCCTCCGCCTCCCCCGCCGCCGCCGCCGCCGCCGGTGAAGCCCCAGAGCGTGT
TCCTGGAGCCCGAGTTCGCGTCGTGGGCGCCCAAGGGCCGCGCCCTGGAGGTGATCCACGAGGAGTTCGAGGCGGAGTGG
GGGCCGGAGGAGATGGGCCTGCCCTGGACGTCGGACTCCGACTCGGACAGCTGCAGCGGCAGCGACGACTACGACGACGG
CGGCAGCGGCGGCGGGGAGGAGTACGGGATGATCGAGATCGAGCTGGAGGAGGACAACCTCATCGAGATCGACATCTCGA
GCTGCCGGTGATGGATTC-CCCCGACATTCCGACCGGTTTTCC--------TTCTCTTGCGTTGGCTTTGACAAAAACCA
AATACATTTTGCTGATTCGGCGTGTGAATTCGAGTGCCGTTCTTTATTCTCTTCAT---TACTTAGATGCTTCCCTGCAA
TGTACATAGGCTGGTCACTGGTGAGCTGAGAAAGATACTACCGAGTGAGGAAGGCTTGCTAATTTTTGGTTCATCTGAGA
TGATGGCGAGTTTAGTTTGATCCTGCTACTACTTACTAGTTTTTGTGCCATGTTAATCACTTGTCACCTCAAGGAAGGAA
TCAACTTGTGATGCTTGCATTGGTCTTTCTTTATCCAAGCATCTTGAGCTAGTGTCTACTATGATTAGCACTACAAGATC
GTCCGGTTTTTGTTCTTGTTCTGACAAGATTTGCAATCATGCACCACATTGCGCGGCTGGCGTTTTACTATATTCGAGTG
CAGATTGTGCTTGAGTTTCATGT---TACGATAGATAGCTTGGTGATACACTGAGGCTGGTCATAGTGGAGAGTAACTTA
GACTAGTAACATGTATATGTTACTAGTCTATATTACTACCTTCATAGTGGGTAGTATCATATATGTGGTAACATAGATGT
CTTTATTTATTGCTTTGTAGACTCATTTTGCATTGGGAAGCGCTATGTGATGGTAACATATTATGTTACTCTATTTGCCT
CTCTCTTCATTAACTAATTGCCACCTCATCACTTTTGCTTGTGTGGCATCTAAGTTACTACCTATGTTACTCCCACTATG
ACCAGCCTGATACTACTAGCTAGCTGCTTGGATCTGGAGAAAATCATTAGTAGCTTGGCGACACATGTGTAAAGATGGGG
CCGGTGGTTGGTGGTTGGGATGGATCCGTTAAGTTTGCTCACGAAATTAGGTCGATTTCCGACCACGAGAACATACTCCT
GCTGTGCCATC----TAAACATGTTCAATTAATACTGACAGGCTGCTTTGCCTCCCTTTAGAAATACATAATCAAGCCAC
TGATAACTAGGCTATATATGGAAATCCATAGGAGTATGTACCACAAGTTGTTTGAAGGGAACTTATTCAATTCGAAACCA
GTTGAGTTGCTACTTTTCTATGGCGGATAGTACCAAATCGGAGCCGCATGTCCTGACGCGTAGGCTGTCGTATCGTATCG
TCTCAGGGC-----------------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSS--------------S---------------------------------------------------
----------------------------S-------------S---------S------------------S--------
--------------------------------------S----------------------------------------S
SSSSS---------------------------------------------------------------------------
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--------------------------S--------------------------------------S---S----------
---------------------------------S----------------------------------------------
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------------SSSS-------------------S---------------------S------------------S---
----S------------S-------------------------------------------------------------S
---S----------S----S------------------------------------------------------------
--------------------------S-----------------------------------------------------
---------------------------------S------SSSSSS----------------------------------
-----S------------------------------------------------------------------S-------
--------------------------------------------------------S-----------------------
------------------------------------------------------S------S------------------
------------------S-----------S-------------------------------------------------
------------------------------------------S-------------------------------------
----------------------------------------------------------------------------S---
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---------------------------------------------------------SS---------------------
--------------------------------------------------------S-----------------------
--------------------------------S-----------------------------------------------
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----------------------------------------S-------------------------------------S-
-----------------------SSS------------------------------------------------------
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---------------------------S----------------S-----------------------------------
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-----------------------------------------------------------S--------------------
--------------------------------------------------S-----------------------------
-------------S-------------------------S-----------------------------------S--SS
---------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_427
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-------CTGGTCCGGTTGCCTTTTCT-----------------------------------------------------
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>reverse_2760
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---------------------------------------AGAGCCGCATGTCCTGAC-----------------------
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