>input_sequence_78180
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-------------------------------------------------------------------------ATGTCGA
CGGCGTCGTCGG------AGCAGCAGCAGCCACCGCACCGAGGGTTGTGGAGCCTCGGCGGGACGGTGGAGCTCGTGGCG
GCGTTCACGGCGGTGTGCCTCGCGCTGTACGGGGCGGTGCTGTACCTCAACTATCTGTACGTGCGGTGGAGCGGGCGGGA
CGGCGTGCGCCGGACGGGGTCCGGCCCCGAGGCCGGGCCGGCGGCGAGGAAGAGGGACGGCGGAGGAGGGCTCGACGAGG
CGGCGCTGGCGGCCATGCCGGTGTTCAGGTTCAAGGCGGAGCCGCGCGGGGC------CGGCGGCGGC------GAGGAG
TGCGCGGTGTGCCTGGGCGCCATGCAGGACGGCGACGCGGTGCGCGCCCTGCCCGGGTGCAGCCACGCGTTCCACGCCGG
CTGCGTCGACGTCTGGCTGGGCGCGCACGCCACCTGCCCCGTCTGCCGCGCGCGCCCTGCCCTCCCGGTTC---------
CGGCAGCGAAGGACGGC-----------GGAGACCGCCGGACGGGAGCTTGA----------------------------
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>chr2D_1_TraesCS2D01G475900
AGGAGCAGAGGTGTTGGACGAAAGAGACGGACATGAATAATAACGGGCACTACTCATTGACAAGTGGGTCATTTTAGATT
ATGTTTTTATTTGCTGAGCTATCTGCCACGTCAATAACATGCTGACAAAACCACCCTGAAAAGCACTATCTAGAGGCCCC
ATGGGTTATTTGATCGATTCATGAAACACGAGGGGGTCATGTTGACTTATTTACGACGTAGACACCTACGGAACATTTGT
CTCACTGGTTGAACCTACGGGGAATATCGTAGAGCTATGAAAAAACACTTATGGACTTCATCTACAATTCTACATGCATA
TCTCCTTCATGAATTGTAGCTAATCCATACATATCTTCTACAGGCGTAGTGTTACTCCCAGGGCCGTACAACACATGCAA
CACAATTTTTC-AAAAAC----TATGTGTTGCAAAGATGTAAAATTCCGAATTCTTATCTCTATTC----TAGTATCTTT
TAGCTAAAACAAGTAATCCCTGTGTAATTTTTTTATACAGAATCTTCCAGTATATCTCCATTAAAACATATA---TTTTC
CACGCATAG-TTTTAAGCCCTATGATGTCAAATCAGGTA------TATGTTAGGTTTGTGTCAACTGTCAAGTGCCTTTT
CAGAAGAATTTCTCTAGGCTAGTGCAACATTACCCGAACTAGCACTTATGACATGGATACGAGTTTGAAGATTCTACTTT
CAACATTAGATCATAAACAAACTTT---------------------------------TTTTTTTGAGAGGGAGGTGCTG
CCACCTGGAAGAAGACTGGAGTGTGGAGTTGGCCACTGGGTAGATTC------CTAGTAAATGCTCTTGGAACA---TTG
GCTAATCTATTCACTGACAGAACATTGTAGT-------------------------------------------------
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------------------------------------------------------------------AGTAAAATAACTTA
ACTCTTGCTTCAGCACCACAGGCCATTACATGGCACACCAACAAAACCATCATTGCTCGCACCAAGCCAAC----AGAGA
GAGCAAAGCAAGAACC-----GCACGGCACGACACTCTGCGAGTGGAGT-AC----ACCCATCGAT---CGGCATGTCGA
CGGCGTCGTCGG------AGCAGCAGCAGCCACCGCACCGAGGGTTGTGGAGCCTCGGCGGGACGGTGGAGCTCGTGGCG
GCGTTCACGGCGGTGTGCCTCGCGCTGTACGGGGCGGTGCTGTACCTCAACTATCTGTACGTGCGGTGGAGCGGGCGGGA
CGGCGTGCGCCGGACGGGGTCCGGCCCCGAGGCCGGGCCGGCGGCGAGGAAGAGGGACGGCGGAGGAGGGCTCGACGAGG
CGGCGCTGGCGGCCATGCCGGTGTTCAGGTTCAAGGCGGAGCCGCGCGGGGC------CGGCGGCGGC------GAGGAG
TGCGCGGTGTGCCTGGGCGCCATGCAGGACGGCGACGCGGTGCGCGCCCTGCCCGGGTGCAGCCACGCGTTCCACGCCGG
CTGCGTCGACGTCTGGCTGGGCGCGCACGCCACCTGCCCCGTCTGCCGCGCGCGCCCTGCCCTCCCGGTTC---------
CGGCAGCGAAGGACGGC-----------GGAGACCGCCGGACGGGAGCTTGACCTGGAGAGCCCGGTATAGCATGCGTGC
GTGCGCCATCCCCGAGCTGTCAG---------------------------------------------------------
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------------------------------------------------------------TGTGGCTTGAGGCACTTCTC
TTATGGGTTTGAGTAC------ATGTTTGTGTTAGCTTGCTTCGATT-GGGCCGATAATTTTGTCTCATGGCTTATCAGT
TGTAATCCTACTTGACTTGTGCATATTGGTGATGATAAGTGAAGA--------------------AATTAAGTTCGTACG
TGGTGTATT-GCAATTGTGGCCAGCCAGGTGACGAAATTGTGGATGGATGAAACCGTATGCACCGCTGAAAGAGACATA-
CAATTCCTTTTGTGGTGGACAATACATTTTTC-AATCCCATGTTCAAGAGTGGCCAGATAAGGATAAGATTAAGGCTTTA
TACACTGCCACAACCAGTACTGGCCACAACGACACCTGAATGGTTGAGTGACCAAGTGCGCGAAATATACATTTCTTTAA
CCACGAGAGTAAATATCTCTGACGTGTGAAGCACCGAGGCTAGCGTCACTGTTCATACCTCGG-TCGATCCTAATCCATT
TTGGAGCAAGCCGTGGGCACCGAATTTAAACCGCTGGTGTGTGCACACCGGGCAGCGCTTCAAATGATCAGGCAACAGCG
AGAACAGGCGACGACCCTATTCACCATCCGGCAAGCAGAGAAGAGGTGGTAGAATTCAAAACTTCTCGTGGGCCTGCGGC
GCGGCCCACTCGGGTGAAGACGAAGCCCAAATGGCACGCTGGCCCGGAATGGCTGTAGTTTAAATACCCTTGTAACGTTC
GAATGGATTGGCTTTGGACGGACGGCGGCTTCGGCCGACTGTAATAGCTGTAGCAGTGAGGCAGGTTGGGAGGATAAACA
CGCTACCAAAATTTCCCCATTCTGCCATGAACCCTAGCTTCCACGCCTAGATCGATCGCGACCCTTACACTTGGTATCAG
ATTCGGCGGTCCTGGCGCTTCCCCAACACCATCACGAGACGCAGTGACGAGATCGGCGGCGATGGAAAAGCTGTCGGAGG
>chr2B_353
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--------------------------------ATCTTCTATATGTGTAGTGTTACTCCCAGGGCCGTACAACACATGCAA
CACAAATTTTC-AAAAGCTATATATGTGTTGCAAAGATGTAAAATTCTGAATTCTTATCTACTATTCTAGTAGTATCTTT
TAGCTGGAACAAGTGATCCTTCTAGAATTCTTTTATACAGAATCTTGGAGTTTATCTCCATTAAAATATGTTTTTTTTCC
CACGCATAGTTTTGAAGCCCTATGATATCAAATCAGGTA------TATATTAGGTTTGTG-------TCAAGTGCCTTTT
TAGAAGAATTTCTCTAGGCTAGTGCAACGTTACCCGAACTAGCACTCATGACATGGACATGATTCTGAAGATTCTACTTT
CACCATTAAATTATAAATAAAGATGCTATTATTCGGCTTCATCCCAAGTCCTGCCATATTTTTCTGAGAGGGAAGTGCTG
CCGCCTGGAAGAAGACTGGAGTGTGGAGCTGGCCGCTGGGTAGATTATTATTACTAGTAAATGCTATTGGAACGAACTTG
GTTAATCTATTCACTGACAGAACAGTATAG--------------------------------------------------
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---------------------------------------------------------------------AACATAACTTG
ACTCTTGCTCCAGCACCGCCGGCCGTAACCTTACACGCCTACAAAACCATCATTGCTCGCACCAAGCCAGCGGG--GAGA
GAGCAAAGCAAGAACC-----GCACGGCACGACACTCTGCCAGTGGAGTGAC----ATCCATCGAT---CGGCATGTCGA
CGGCGTCCGAGCAGCAGCAGCAGCCGCCGCCGCCGCACCGGGGGTCGTGGAGCATCGGCGGGACGGTGGAGCTCGTGGCG
GCGTTCACGGCGGTGTGCCTCGCGCTGTACGGGGCGGTGCTGTACCTCAACTATCTGTACGTACGGTGGAGCGGGCGGGA
CGGCGTGCACCGGACGGGACCCGACCCCGAGGCCGGGCCGGCGACGAGGAAGAGGGACGGCGGAGGAGGGCTCGACGAGG
CGGCGCTGGCCGCCATGCCGGTGTTCAGGTTCAAGGCGGAGCCGCGCGGGGC------CGGCGGCGGC------GAGGAG
TGCGCGGTGTGCCTGGGCGCCATGCAGGACGGCGACGCGGTGCGCGCCCTGCCTGGGTGCAGCCACGCGTTCCACGCCGG
GTGCGTCGACGTCTGGCTGGGCGCGCACGCCACCTGCCCCGTCTGCCGCGCGTGCCCTGCCCTCCCGGTTC---------
CGGCAGCGAAGGACGGCTCCAGGACGGCGGAGACCGCCGGACGGGAGCCGGACCCGGAGAGCCCGGTATAGCATGCGTGC
GTGCGCCATCCCCGAGCTGTCAGGCCTGGTACAATGGGAGGTGCTTAGGGAAGGTGTTTAGAAAAATAAATCAGGTTTTC
TTAAGCATCGATGCTTATTTGTACAGGATAGACGCTTAACTAAGCGCCTCTTCTGTAGAAATAGACATCGGTGCTTTAGA
AAAACCCAGTTTATTTTTCTAAGCATCTCTCTAAGCACCTCCCATTGCACAAGGCCTCAGTATGGGTTGAGGTACTTCTC
TTATTATGAGGTTGAGTACATAATGTTTGTGTTAGCTTGCTTCTATCGGGGCCGATAATTTTATCTCATGGCTTGTCAGT
TGTAATCCTACTTGACTTGTGCATATTGGTGATGATAAGTGAAGAAGTTCTCCAGACCACTCTGTAATTAAGTTCGTACG
TGATGTATTTGCAATTGTGGCCAGTCAGATGAGGAAATTGTGGATGGATGACG-CGTATGCACCGCTGAAAAGGACATGG
CAATTCCTTTCGTGGTGGACAATACATTTTTTTAATCCCATGTTCAAGAATGTCCAGATAAAGATAAGATTAAGGCTTTA
TACACTACCA----------------CAACGACACCTGAATGGTTGAGCGACCAAGTGCGCGAAATTTACATTTCTTTAA
CCACGAGAGTAAATATCTCTGACGCATGAAGCACCGAGGCTAGCGTCACTGT-CATACCTCGGATCGATCATAATCCATT
TTGGAGTAAGTCGTGGGCA-------------------------------------------------------------
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>chr2A_362
AG------------------------------------------------------------------------------
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-------------------------------------------GTGTAGTGTTACTCACAGGGCCGTACAACACATGCCA
CACAATTTTTTAAAAAAC----TATGTGTACCAAAGATGTAAAATTCTGAATTCTTATCTACTGTTCTAGA---ATCTTT
TAGCTGGAACACATAATCCTTCTAGAATTCTTTCATACAGAATCTTCGAGTTTATCTCCATTAAAATATATTCTT----C
CATGCAGGATTTTTAAGCCCTGTGATATCAAATTAGGTAGTAGTATATATTAAGTTTGTG-------TCAAGCGCCTTTT
TAGAAGCATTTCTTTAGGCTAGTGCAACATTACCCGAACTAGCACTTCTGACATGGATATGAGTTCGAAGATTCTACTTT
CACCATTAAATTATAAACAAACAT-------------------------------ATATTTTTTTGAGAGGCAAGTGCTG
CCACCTGGAAGAAGACTGGAGTGTGGAGTTGGCCACTGGGTAGATTC------CTGGTAAATGCTCTTGGAACGAACTTG
GCTAATCCATTCACTGACACAACATTGTACAGTATAACATAATTTATGCCATGTTTGGTTTCAATAAGTCACTTGACTTA
TAAGTCAGGTAACTTAAAACCAGTGACTTATAAGTCACGCCTGTTTGGTTGCCATCTAACTTATAAGTCATTTGAGCACA
TCTTCCCATCTTGTTTTTTACGTAAAGATGGTGGGATCCATGCAAAAGGGGGTGACTTATAAGTTTTAAGTTGGGGTGTA
GCAACTTATGACTTATAAGTTAGGGTGACTTATAAGTTGGGTCCGTTTGGCAAAATAAGTTACTTTTTGCACTTTTTGAC
TTATAAGTTGGTGACTTATTTGGAACCAAACAGGGCCTTAACTCTTGCTCACCCCCGCAAAAAAAAAGTAAAATAGCTTA
ACTCTTGCTCCAGCACCACTGGCCGTAACATTACACGCCAACAAAACCATCATTGCTCGCACCAAGCCAGCAGAGAGAGA
GAGCAAAGCAAGAACCGCACGGCACGGCACGACACTCTGCCAGTGGAGTGACTGACATCCATCGATCGGCGGCATGTCGA
CGGCGTCG---G------AGCAGCCGCCGCCGCCGCACCGGGGGCTGTGGAGCCTCGGCGGGACGGTGGAGCTCGTGGCG
GCGTTCACAGCGGTGTGCCTCGCGCTGTACGGGGCGGTGCTGTACCTCAACTATCTGTACGTGCGGTGGAGCGGGCGGGA
CGGCGTGCGCCGGACGGGGCCCGGCCCCGAGGCCGGGCCGGCGACGGGGAAGAGGGACGGCGGAGGAGGGCTCGACGAGG
CGGCGCTGGCGGCCATGCCGGTGTTCAGGTTCAAGGCGGAGCCGCGCGGGGGCGGCGGCGGCGGCGGC------GAGGAG
TGCGCGGTGTGCCTGGGCGCTATGCAGGACGGCGACGCGGTGCGCGCCCTGCCCGGGTGCAGCCACGCGTTCCACGCCGG
GTGCGTCGACGTCTGGCTGGGCGCGCACGCCACCTGCCCCGTCTGCCGCGCTCGCCCTGC---------TC---------
CGGCAGCGAAGGACGGCTCCAAGACGGCAGAGACCGCCGGACGGGGGCCGGACCTGGAGAGCACGGTATAGCATGCTTG-
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>chr4A_1059
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---------------------------------------------------------GCGGGACGCTGGAGCTCGTGGCG
GCGTTCACGGCGGTGTGCCTCGCACTCTACGGGGTGATACTGTACCTCAACTACCTATACGTACGGTGGAGCGGGCGGGA
CGGCGTGCATCGGACGGGATCCAGCACGGCAGCCGGGC---CGGCGAGGAAGAGGGCCGGCGGAGGGGGGCTCGACAAGG
CGGCGCTGGCAGCCATGCCGGTGGTCCGATTCAAGGCGGAGGCGCGTGGCGA------CGGCAGCGAGGTAAGGGAGGAG
TGCGCGGTGTGCCTGAGCGCCATGCAGGACGGCGACGCGGTGCGCGCCTTGCCCGGGTGCAGGCACGCGTTCCATGTCGG
GTGCGTCGACGTCTGGCTGTGCGCGCAGGCCACCTGCCCCGTCTGCCGCGCGCGCCCTGC---------TCTCCCGGTTC
CGGCAGCGAAGGACGGCTCCAAGAGGGCGGAGACCGCCGGACGGGAGCCGGACCTGGAGAGCCCGGTATAGCATGCGTGC
GT----CGCCCCCGAGCTGCCGG---------------------------------------------------------
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------------------------------------------------------------TATGGCTTAAGG--------
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>chr4D_1059
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---------------------------------------------------------GCGGGACGCTGGAGCTCGTGGCG
GCGTTCACGGCGGTGTGCCTCGCACTCTACGGGGTGATACTGTACCTCAACTACCTATACGTACGGTGGAGCGGGCGGGA
CGGCGTGCATCGGACGGGATCCAGCACGGCAGCCGGGC---CGGCGAGGAAGAGGGCCGGCGGAGGGGGGCTCGACAAGG
CGGCGCTGGCAGCCATGCCGGTGGTCAGATTCAAGGCGGAGGCGCGTGGCGA------CGGCAGCGAGGTAAGGGAGGAG
TGCGCGGTGTGCCTGAGCGCCATGCAGGACGGCGACGCGGTGCGCGCCCTGCCCGGGTGCAGGCACGCGTTCCATGTCGG
CTGCGTCGACGTCTGGCTGTGCGCGCGCGCCACCTGTCCCGTCTGCCGCGCGCGCCCTGC---------TCTCCCGGTTC
CGGCAGCGAAGGACGGCTCCAGGAGGGCGGAGACGGCCGGACGGGAGCCGGTCCTGGAGAGCCCGGTATAGCATGCGTGC
GC----CACCGCGGAGCTGCCGG---------------------------------------------------------
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------------------------------------------------------------TATGGCTTGAGG--------
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>chr4B_1073
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-----------------------------------------------------------------------CTCGTGGCG
GCGTTCACGGCGGTGTGCCTCGCACTCTACGGGGTGATACTATACCTCAACTACCTATACGTACGGTGGAGCGGGCGGGA
CGGCGTGCATCGGACGGGATCCAGCACGGCAGCCGGGC---CGGCGAGGAAGAGGGCCGGCGGAGGGGGGCTCGACAAGG
CGGCGCTGGCAGCCATGCCGGTGGTCAGATTCAAGGCGGAGGCGCGTGGCGA------CGGCAGCGAGGTAAGGGAGGAG
TGCGCGGTGTGCCTGAGCGCCATGCAGGACGGCGACGCGGTACGCGCCCTGCCCGGGTGCAGGCACGCGTTCCATGTCGG
CTGCGTCGATGTCTGGCTCTGCGCGCACGCCACCTGCCCCGTCTGCCGCGCGCGCCCTGC---------TCTCCCGGTTC
CGGCAGCGAACGACGGCTCCAGGAGGGCGGAGACGGCCGGACGGGAGCCGGTCCTGGAGAGCCCGGTATAGCATGCGTGC
GC----CACCGCGGAGCTGCCGG---------------------------------------------------------
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------------------------------------------------------------TATGGCTTGAGG--------
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>SNPs
--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------S-S-S-----------------------------------
-----------------------------------------------S------------SSSS-S--------------
-----SS------------S-S-SS----S-----------------S---S--------------S----S------S-
--------------------------S---------------------S-----------SSSSSSS-------------
S----------------------------------------------------------S--------------------
--S-----S--S----------S-S------------------------------------------------S------
-------------------------------------------------------------------------S------
------------------------------S-------------------------------------------------
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---------S---------S----S-S----SS---S--------------------------------S----------
----------------------------------------S----------------S----------------------
--------SS--------------S--S---S--------S---------------------------------------
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------------------------------------------------SS------------------------------
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-------------------------------------------------------------S----------S-------
----SSSSSS-SSS-S---------------------------S--S---------------S-----------S-----
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--S---------------------S---S---S------------------SSS-----------------SS-----S-
----------S--------------------S-----------------S--S--------S------------------
------S---SSSSSSSSSSSSSSSS----------------------S-----------------S-------------
------------------------SS--------------------------S-----------------S---------
------S---S--------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_167
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-------------------------------------------------------------------ATCTAGAGGCCCC
ATGGGTT-------------------------------------------------------------------------
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>reverse_2812
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-----------CGACCCTATTCACCATCCGG-------------------------------------------------
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