>input_sequence_76950
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-----------------------------------------------------------------ATGGCCATGCCGATG
CCGCCACCGCCGCCCGCAGGCATGCCTCCG---------ATGGGGCCGATGGGTCCGATGGGGCCGATGGGGCCGATGGG
A---------CCGATGGGTCCGCCGCCGGCAGCCGACATGGCTGGGATGGGGACGATGCCAGTGATGCACGCGGCCTTCT
TCTGGGGGCACCGAGCGCAGGTACTCTTCCGCGACTGGCCCGGAGACCGTGCCGGCGCAGGTATGTACGTCCTCTGCCTC
TTCATCGTCCTCACGCTCGCCGCGCTCGTGGAGGCCCTCTCCGCGGCGTCGAGGGGGGTCTCCAGCCGCCGGCCGGCCGT
GGTGCTGGCGCTCACGGGGCTCCACGCGGTGAAGATGGCGCTGGCCTACCTGGTGATGCTGGCTGTCATGTCGTTCAACG
TCGGCGTCCTCCTCGCTGCCGTCGCCGGACACGCGATCGGGTTCCTCCTCGCGCGGAGCGCCGTGTTCCGCCAAGCGACT
CCGGGTGACGCGCCACAGAACGGTGCTCTCGTTCCCTCGGAGGCTGAGCCCAAACCTTAA--------------------
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>chr2A_1_TraesCS2A01G199000
ATTGTAGCACCAATATGTTATATGCAACTACCGGTCCAAAAATTTCTTCACATAAATATAGGTTGGTTAGCGGATAACAT
AGAATCACATCACGAAAGGTGCACCAAATCAATGCATTATAAAAGAAACATGTTCTATTA-------CTTCCCCGCCCAC
CAAACTAAATATTCAACCAATTCCAAAATATAAGGGGTATTAGTTTTTCAGAAAGTCAAATTTCTTTAACTTTGGTCAAG
TTCAGAGCAAAACTATCAACATCCATAATATTAAACAAAATGACTATGAAAATTCATTTCATGATGAATTT--AAAAATA
TTGATTCGATATTATGGATTTTGATAAATTTATCTATAAATTTGATCAAACTTAGAAGGTTTGTCTTTTTAGAAAAGTAA
TACACCTTATATTTTGAAATATAGTGT---TTTTTTAAGAAATCCAACAACGCCAACGGCGCGGCAAAACGCGCGCAACC
CTTTTAGTAGTAATACCATGTCTGAAAAGTAGCTTTTAGTGCCAATTGAAATCTAGCGCTCAAACTTGGAAATCCATCCT
AATAATTGTTTTTTAGTTGGAACTCTTTTTTTTTATGGAAAGTTGGAACTATTGAAATA-----CATGGCACCAGTTCGA
TAATACTCGTAGTCCTTTTGTTTTTTGCGAGA---AGATAAGACTCACAGTCCGTAGGTCAATATAAAGGCTGGTTATAG
GAAGAATCGGAGCAGCAGCCTTGTTTGGAAGAGACAGCTACACCGGCAGCAACCAGG----AAGACATCCTCTATCTGCT
ATCCCAAAGCTCACGGTATCTAATGCCCCTATCGCTATTATCTCTTCCTTGTTCTTGTTCCTATTTTCTTTCTTGTTAGA
TAGATATGTATGCCTTTATTATGTCTTTCCATTCTCTGGTAGAATTCCTCGCTTTCCAATAGACAAGAGTCACTGGGCGA
GTTCTTTTTAATTATACTGCCCACCAACTCGTCGACCCGACATTTCTGCTCAACTCACCGGA-AAATGGCCATGCCGATG
CCGCCACCGCCGCCCGCAGGCATGCCTCCG---------ATGGGGCCGATGGGTCCGATGGGGCCGATGGGGCCGATGGG
A---------CCGATGGGTCCGCCGCCGGCAGCCGACATGGCTGGGATGGGGACGATGCCAGTGATGCACGCGGCCTTCT
TCTGGGGGCACCGAGCGCAGGTACTCTTCCGCGACTGGCCCGGAGACCGTGCCGGCGCAGGTATGTACGTCCTCTGCCTC
TTCATCGTCCTCACGCTCGCCGCGCTCGTGGAGGCCCTCTCCGCGGCGTCGAGGGGGGTCTCCAGCCGCCGGCCGGCCGT
GGTGCTGGCGCTCACGGGGCTCCACGCGGTGAAGATGGCGCTGGCCTACCTGGTGATGCTGGCTGTCATGTCGTTCAACG
TCGGCGTCCTCCTCGCTGCCGTCGCCGGACACGCGATCGGGTTCCTCCTCGCGCGGAGCGCCGTGTTCCGCCAAGCGACT
CCGGGTGACGCGCCACAGAACGGTGCTCTCGTTCCCTCGGAGGCTGAGCCCAAACCTTAAGC-TGACATGATTAGATGCT
GGAAATTGTTTTATTAAGACCCGGATGGATACTGAATATGGGAAGTATATGTACGGAGTACATTCTAGAAAATAG-----
--ATTATTCTAGTACTCCTCCTCCTTGGTTCGACATAACTTTATAAAAAACACAACCT-------------GACGGAATT
CTCAAATTTAATTTTTCAAACGAATTAGACCCCACATGGAGG--TCTCTCCCTCATGATTGACAAGGATGAGGGTGAAGG
GGCAACGCACACACATGATTTCGAAAAGTCCGGTGTTCTGATCCGCCTCCCGGAACAAGAGGCAGAGAGC----------
TTCTGGAGATGCACCGACAACCGCGAGATCAA------------------------------------------------
-----------------------------------------------------------TATATATGTTTGAACTATGTT
TAAAATTTGTATTATTAAGTGCAAACAATTTGTATTCGTGTGCACAAAACTATGTTTGGCCAAAATGATCGACGCAAATG
TCTT--------------------GAAAATAGGAGCTGTGGTTGCAAATAACAAGATTTGATGCCCGTT--------GTC
CGCGGGCGCGTCT---GCAGATATTATGT--CTCGGATTAGCTACCTATGGTTGTAGATGCTTTTCTGTTTCTAATTGGG
CACCAGATTCTATTCTTGATAAGCAGGCACCAGGTCGTACAATATGTTGAATATTGCTCCAGTGCGAGTTACATCTATAG
TTG-------------------------------------------CACACTGTATCATAGTTTTGTGGAGTTCCTATGC
TTCTGTAGATGGATTTTGTCGCTGCTTTTCAGAATTCATCAAATTTTCCACATGACG----TATAATATAATAAGCACTG
TTACAAATTCGCTGATTTAACACGGTTGACAGCTAGAGCACAAGGCCAAAAGAAACTCTTTTACCGGAGTT-GGAGAACA
ATAAATGTAGGCACAAGGCCAGAAAGAGGAGGGGCACTCAGCTACTTCTACAGCTAACTACAACTCCCGTCAGTTTAACC
AGACTGACTCAAATTCACGGTATAATCATCAGAAGGCAAAAATAAGTGACATCCTGTTTAGATATCGCACGAGCTGCTCC
A
>chr4D_1
ATTGTAGCAGCAATATATTATATGCAACTACCGACACATAAATTTTCCCACATAAATATAGGTTGGTTAGCGGATAACAC
AGAATCACATCATGAAAGGCCCGCCGAATCAACGCATTATAAATAAAAATAAAACACACTCTATCGTCTACCCCACCCGC
CAAAAGAAATATCGTATCAGTTCCAAAATATAAGGGGTATTAGTTTTTTAGAAAGTCAAATTTCTTTAACTTTGTTCAAG
TTCAGAACAAAAATATTGACATCCACAATATTAAACAAAAAG--TATGGAAATTCATTTCATGATGAATATAAAAAAATA
TCGATTTGATACTATGGATTTTGATATATTTCTCTACAAATTTGATCAAACTTAAAATGTTTGCCTTTTCAAAAAATTAA
TACACCCTATATTTTCAAACCGAGTGATTATTTTTTAAGAAACTCAACAACACCAATAGCGCAGCAAAGCACGCCCATCC
CTTCTAGTAGA---------------------------------------------------------------------
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-----------ATTTTATGTATGAAAATTATTTTAG--------------------------------------------
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>chr2D_476
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-------TAGTAATACCACGTCTGAGAAGTAGC-TTTAGTGCCAATTGAAATCTAGCGCTCAAACTTGGAAATCCATCCT
AATAATTGTTTTTTAGTTGGAACTCTTTTTTTA-ATGGAAAGTTGGAACTCTTGAAATATACTACATGGCATCAGTTCGA
TAATACTCAGAGTCCTTTTTTTAGCGAGTTCTCCTAGATAATACTCACAATCCGTAGGTCAATTTAAAGGCTGGTTATAG
GAAGAATCGGAGCAGCAGCCTTGT-TGGAAGAGACAGCTACGCGGGCAGCACCAGCACGC-AAGACATCCTCTATCTGCT
ATCCCAAAGCTCACGGTATCTAATGCCCCTATCGCTATCATCTTTTCCTTGTTCTTGTTCCTATTTTCCTTCTTGTTTGA
TAGA----TATGCCTTTATTATGTCTTTCCATTCTCTTGTAGAATTCCTCGCTTTCCAATAGACAAGAGTCACTGGGCGA
GTTCTTCTTACCTATACTGCCCACTAACTCGTCGACCCGACATTTCCGCTCAGCTCACCGGA-AA------ATGGCCATG
CCGCCACCACCGCCCGGGGGCATGCCTCCG---------ATGGGCCCGATGGGGCCGATGGGGCCGATGGGGCCGATGCC
TCCGATGGGGCCGATGGGTCCGCCGCCGGCAGCCGACATGCCTGGGATGGGGACGATGCCAGTGATGCACGCGGCCTTCT
TCTGGGGGCACCGAGCGCAGGTACTCTTCCGCGACTGGCCCGGAGACCGTGCCGGCGCAGGTATGTACGTCCTCTGCCTC
CTCATCGTGCTCACGCTCGCCGCGCTCGTGGAGGCCCTCTCCGCGGCGTCGAGGGGGGTCTCCAGCTGCCGGCCGGCCGC
GGTGCTGGCGCTCACGGGGCTCCACGCGGTGAAGATGGGGCTGGCGTACCTGGTGATGCTGGCTGTCATGTCGTTCAACG
TCGGCGTCCTCCTCGCCGCCGTCGCCGGACACGCGATCGGGTTCCTCCTCGCGCGGAGCGCCGTGTTCCGCCAAACGACT
CCGGGTGACGCGCCACAAAACGGTGCTCTCATTCCCTCGGAGGCTGAGCCCAAACCTTAAGC-TGACATGATTATATGCT
GGAAATTGTTTTATTACGACCCGGATGGATACTGAATATGAAAAGCATATGTACGGAGTACGTTCAAGAGAATTACAAGA
TTATTATTCTATTACTCCTCCTCCTTGGTTCGGCATAACTCCTCAAGAGTTATAAGAAACGCGAACCTGACGACGGAATT
CTCAAATTTAAATTTGCAAATGAATTGGACCCCACGCGAAGGTCTCTCTCCCTCGTGATTGTCGAGGATGAGGGTGAAGG
GGCAGCGTGCACGCATGATTTCGAGAAACCCGGTGTTGAGGTCTGCCTTCCGGAACAAGAGACAGAGAGCACCGCCAACT
TTCTAAAAATGCATTGACAACTGCGAGATCAACATATGCATATATGCAACTTATGCATTATCTTGTGGAGCACATGT-GG
GTTCACACTGGAAATCAGTAAGCTTTGCTTTTAATTTATCAATTAAGCACTATGAACAATATCTATGTTTGAACTATGTT
TGGTTTTTTGATTATTAAGTACAAACAATTTGTATTCATGTGCACAAAACTATGTTTGGCCAAAATGATAGACATGCATG
TGTTTGCATGGATTTAATGTCTTAGAAAATAAAAGCTGTGATTGCCAATGACAAGATTTGATACCCGTTCAGTCACTGTC
CGCCGGCGCATCC---GCTGACGTATAGAGGCTCGAATTAGCTCTCCGTGGTTGTAGATGCTCTTTTGTTTCTGGTTGGG
CACCCGATTCTGTTCTTGGTAAGCAGGCACCGGGACGTATAGTATGTTGAATATTGCTCCACTGCGAGTTAAAGTTAGTA
CAATTGGGTCATCTATTTTGGAACGGAGGGAGTACATCTAGACTTACAAACTGCATCATAGTTTTGTCGAGCTCCTATGC
TTCTCT--------------GCTGCTTTTCAGAGTTCATCGAATTTTCCACATGATG----TATAATATAATAAGCATTG
TTACAAATTCGCTGATTTAACATGGTCGACAGCCAGAGCACAAGGCCAAAAGAAACTCTTTTACTGGAGTT-G-AGAACA
ATCAATGTAGGCACAAGGACAGAAAGAGGAGGGGCACTCAACTACTTCTAGAGCTAATTGCAACTCCCACCAGTTTAACC
AGACTGACTCAAATTTATGGTGTAATCATCAGAAGGCAAAAATAAGTGGCATCCTATTTA--------------------
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>chr2B_669
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------------------------------------------------AGTCCGTAGGTCAATATAAAGGCTGGTTATAG
GAAGAATCGGAGCAGCAGCCTTGT-TGGAAGAGACAGCTACACCAGCAGCACCAGCACACTAAGACATCCTCTATCTGCT
ATCCCAATGCTCACGGTATCTAATGCCCCTATCGCTATCATCTTTTCCTTGTTCTTGTTCCTATTTTCTTTCTTGTTAGA
TAGA----TATGCCTTTATTATGTCTTTCCATTCTCTTGTAGAATTCCTCGCTTTCCAATAGACAAGAGTCACTGGGCGA
GTTCTTCTTAACTATACTGCCCACTAACTCGTCGACCCGACATTTCTGCTCAACTCACCGGGGAA------ATGGCCATG
CCGCCACCGCCGCCCACGGGCATGCCTCCGATGGGGCCAATGGGGCCGATGGCTCCGATGGCTCCGATGGGACCGATGGG
A---------CCGATGGGTCCGCCGCCGGCAGCCGACATGCCTGGGATGGGGACGATGCCAGTGATGCACGCGGCCTTCT
TCTGGGGGCACCGAGCGCAGGTACTCTTCCGCGACTGGCCCGGAGACCGTGCCGGCGCAGGTATGTACGTCCTCTGCCTC
CTCATCGTGCTCGCGCTCGCCGCGCTCGTGGAGGCCCTCTCCGCGGCGTCGAGGGGGGTCTCCAGCCGCCGGCCGGCCGC
GGTGCTGGCGCTCACGGGGCTGCACGCGGTGAAGATGGCGCTGGCGTACCTGGTGATGCTGGCTGTCATGTCGTTCAACG
TCGGCGTCCTCCTCGCCGCCGTCGCCGGACACGCAATCGGGTTCCTCCTCGCGCGGAGCGCCGTGTTCCGCCAAGCGACT
CCGGGTGACGCGCCCCAGAACGGTGCTCTCATTCCCTCGGAGGCTGAGCCCAAACCTTAAGTTTGACATGATTAGATGCT
GGAAATTGTTTTATTAAAACCCGGATGGATACTGAATATGAAAAGCACATGTATGGAGTACATTCAAGAGAATTAAAAGA
TTA--ATTCTATTACTCCTCGTCCTTGGTTCGACATAACTCCTCAAGAGTTATAAGAAACGCGAACCTAACGATGGAATT
CTCAGATTTAAATTTTCAAATGAATTAGTCCCCACGCGAAGGCCTCT-TCCCTCATGATTGTTGAGGATGAGGGTGAAGG
GGCAGCGTGCACGCATGATTTCGAGAAACCCGATGTTCAGGTCCGCCTTCCAGAACAAGAGGCAGAGAGCATTGCCAACT
TTCTGAAAATGCATCAACAACTGCAAGATCAACAGGTGCATATATGCAACTTATGCATTATCTTGTGGAGTACATATGGG
GTTCACACTGAAAATTAGTAAAGTTTGCTTTTATTTTATCAATTATGCACTATGAACAATATCTATGTTTGAACTATGTT
TAAATTTTGCATTATTAAGTATGAACAATTTGTATTCGTGTGTGTAAAACTATGTTTGGCCAAAATGGTCGACGTGCATA
TGTTTGCATGGATTTGATGTCTTAAAAATAGAAACG-GTGATTGCAAATGACAAGATTTGATACCCGTTCAGCCATTATC
CGCATACGCATCCGCTGCTGACGTATAGAGGCTCAGATTAGCACTCCGTGGTTGTAGATGCTCTTTTGTTTCTGGTTGGG
CACCCGATTCTATTCTTGGTAAGCAGACACCAGGTCATACAGTATGTTGAATATTGCTCCACTGCGAGTTACATCTAGTA
TATAG--------------------------------------TTACACACTGTATCATAGATTCGTGGAGCTCCTATGC
TTCTCT--------------GCTGCTTTTCAGAGTTCATCGAATTTTCCACATGACGTATATATAACATAATAAACACTG
TTACAAAATCGCTGATTTAACACGGTCGACAGCCAGAGCACAAGGCCAAAAGAAACTCGTTTACTGGAGTTAG-AGAACA
ATCAATGTAGGCACAAGGCCAGAAAGAGGAGGGACACTCAGCTACTTCTACAGCTAACTACAATTCCCGTCAGTTTAACC
AGACTGACTCAAATTGATGGTGTAATCATCAGAAGGCAAAAATAAGTGGCATCCTGTTTACATATCGCACGAGCTGCTTC
A
>SNPs
---------S------S----------------SSS--S------SSS-------------------------------S
------------S------SS-S--S------S----------SS---SSSSSS-SSSSS---------S----S---S-
----SS------SSS-S--S----------------------------S-------------------------S-----
------S-----S---SS-------S--------------S-SS----S--------------------S----------
-S----S----S--------------S----S----S-----------------S--S-----S-----S-S----S---
------S--------S---SSS----S---------------SS-------S----SS----S-----S-S---S--S--
---S--------------S------S-------S----------------------------------------------
--------------------------------SS----------------S--------------------S--------
--------SS---------S--SSSSSSSSSS---------S--------------------------------------
------------------------S--------------------------S-SSSS-----------------------
--------------------------------------S----S------------------------------------
----SSSS-----------------------------S------------------------------------------
------S----S------------S----------------------------------------SSSSSS---S-S---
-----------------S--------------------------------------------------------------
----------------------------------------S---------------------------------------
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S-------S----------------------------------------------------------------------S
---------------------------------------------S----------------------------------
----------------S---------------------------------------------------------------
------------------------------S-------------------------------------------------
----------------------------------------SS---S-------------------S---S---SS-----
-----------S----------------------------SSSS--S-SSS-S--SSS----------------------
-----------S--------S--------------SS-S----------------------S-S----------------
----S--SS---S-----------S--SS---------S-S-------S-------------------------------
-----S-S-----S-------S----------------------------------------------------------
--------------------------------------------------------------S-----------------
----S----S----------S-----------------------------------------------------SSS---
-S-----------------------------SS-------S--------S------------S-----------------
---S-----S--S-----S--SS-SSS-S--------------SS-SS--------------S--S-------SS-----
----S-------------S----------------------S-------------------S---------------SSS
-SS--------------------------------------------------------------------S--------
----S-SSSSSSSSSSSSSS-------------S------S---------------------------------------
--------------------------S------S------------------------------S--------S------
--S-----------------------------------------------------------------------------
---------------S-S---S--------------------------S-----------S-----------------S-
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>forward_106
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------ACATCACGAAAGGTGCACCA------------------------------------------------------
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>reverse_2244
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---GGGCGCGTCTGCAGATATTA---------------------------------------------------------
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