>input_sequence_77059
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-----------------------------------------------ATGTCGAAGAGGACGGTGCTGCGGGTGGACACC
TCCTGCGCCAAGTGCAAGCGCAAGGTCATGCTCGCCGTCTCCAGCCTCCAAG----GTACGTTTGGATCAGATCGCATGG
CCAAACTGGCAACGAGGCCATGCATTTCTTGCTTGGTTAACTGTTGCTCTTACGTG--------CTGTGCCCAGGTGTGG
ACAAGATCGAGATCGACTCGGAGAAGGGCACGATGACGGTGACCGGCGGCGTGGACCCGGTGGACGTGGTGGAGGCCACC
AGGAGGAAGGCCGGGAAGCGCGCTGACGTCCTCACCATCGGCCCGCCGCCGTCCGCGTCGGCCGCGTCCAAGCCGGAGGA
GAAGAAGAAGCCCGAGCAGCAGCAGAAGCCGCAGCAGACATAT---------------GTGGCGGCGGAGAGGAGGACGC
CTGAGCCGCCGGTGACGCTGTACGTGCACCACGTCCCGCCGCCGCCGCCGTCGTGGCCCGCGTACGAGCAGTGCGCCGTC
GTGCCCTACCACTACCAGCAGCAGCAGGACCCCTGCTCCATCATGTAG--------------------------------
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>chr2B_1_TraesCS2B01G526000
CTGTTGTTTCTTCTTGCGGCTGTAGTTGTCACCTTGTAAGTACTGCTCCAATGTAAAGGAGCTCTCCCCTTTGGTCGGGA
AAAAAGATGCAGCAGAGCGGTCGCCGTCGCTGCTGTTAATTTGTTGCCGCTGTTATTGTAGCCTTATGACTATTGCAGGG
ATGTATACCTACCGGGTGGCTCGTCGCGGCAGAAGATACGGCAGGAATTCGA----------------------------
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------------------------------------TACACAAACACCAAGAAAATATCAGCAGACTTTTCTTACAGCGG
TGCAACCACATGCTGTAATGTTTGCAGTACAAACGAGAATA--AAAGTTTTCGTTGCAGGCT--------ACGGTGTTCC
CTGTGTGTGCTCTGACGGTCTGATGGGCATCTGCAGTATATCTTCTGAATTTGCGGTTGCCGCTTCGCCGTACCTCTTGA
ATTTGTGATTGTTTTCTGCTGTGCCGTCTGTGAAAGTCTAGAATGCATCAGGACTTTCACTCGGTCTGT-----GGTCGG
GGACTTTGTATTTCTGTTATTCAGTTAAT----------AATGCCCGGTTCAAAAAACGGAAAGAAACTAGAATGCAGGA
GTTGAGCACCAAGACCACTGTGCGAACAACCCCGGCCGCACGCATGAAGTCATATGCACAGGTTAGAGTGGTTCCAACAC
CCAGCGACCACACACACAAGGGAAAGG-----------------ATGTTTGCCACGACAAAATAACAGTTGAGTACGTTG
TGTGTGCGACATAAAATCGGCTCGCCTGATCCTGGCTCGTGTGACGCTTCCC---CTGAAAACCTGGTGAAACTAAAGGT
GAATCTCG--------ATCTAGAATATCTAGACTCAGG------AGCCAGTGGACTTCCCGTTCGGGGAGGTTGAGCGAC
CCCATCGGGGTCCCTAACCACCT--GAAACCCAAACGGGACACCCACCACTGGCACTGTCTGCCTGTATATAGCCCGGGA
CCAGACATCAGCAGAGCCACCGGCCGGCCTTGTCGTTGTCGTGGTGGAGG----CCGGGATCCATTCAATCGACCACGCG
AGAGTGTTC--------------------------------------ATGTCGAAGAGGACGGTGCTGCGGGTGGACACC
TCCTGCGCCAAGTGCAAGCGCAAGGTCATGCTCGCCGTCTCCAGCCTCCAAG----GTACGTTTGGATCAGATCGCATGG
CCAAACTGGCAACGAGGCCATGCATTTCTTGCTTGGTTAACTGTTGCTCTTACGTG--------CTGTGCCCAGGTGTGG
ACAAGATCGAGATCGACTCGGAGAAGGGCACGATGACGGTGACCGGCGGCGTGGACCCGGTGGACGTGGTGGAGGCCACC
AGGAGGAAGGCCGGGAAGCGCGCTGACGTCCTCACCATCGGCCCGCCGCCGTCCGCGTCGGCCGCGTCCAAGCCGGAGGA
GAAGAAGAAGCCCGAGCAGCAGCAGAAGCCGCAGCAGACATAT---------------GTGGCGGCGGAGAGGAGGACGC
CTGAGCCGCCGGTGACGCTGTACGTGCACCACGTCCCGCCGCCGCCGCCGTCGTGGCCCGCGTACGAGCAGTGCGCCGTC
GTGCCCTACCACTACCAGCAGCAGCAGGACCCCTGCTCCATCATGTAGCTAGCTAGTTAATCGTCTCTTCGTGCCATCGT
TATCTGAATCGTA-GTACTACTAATTCATACTATGTACGTAGGTAATTCAA-CCCCGGATCGATACCTCT----GCGCAC
TAGCATCCCACGGTGATTTTCCTTCGAGAGAATTAGCTGAACTTTCTGAATAAATACATAATGTTATTTTTTTGACAAAG
GAGATATATTAATATTACAGATATATCAATTACATCCAGCCTCTGCAACAACGCAATACACAAATGACACTACGGATGCA
CATAATATTATGGAAAAGCTTCAAATCAATGGA-CGGGTCCTTGATTTTGCGTCGACCGCTTCCTCCGTTTGCCACGCGT
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------------------------------------------------------------------CCCTGTGGACCCAA
CTACCTCCATTTCTTCTA---CTTATCTCCTCATGCGACGGCCGCAGCCACA-AAGTATTCTTCCCAGCGGGCGGCGCCC
TCTACCCACA---------CCCTC----------GCTCACTGCCCTATCCGGCGTCATGCCGGGACGCTCTCCGGCCACC
GCGCGTCATCCATCGCAACCCCGTCA------------------------------------------------------
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------------------------------CAA-----------------------------------------------
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-------------------------------------------------------CCTAGATCTGCCGGCCCAACCACAG
GTGCGGCCCAGCCCCATCCACAGCCGCGGTCACCGACAACGTGTGACCAGTCACCGCAACCTGCATTTCTCCATGTGTTC
ATCAGCTTCTCCCTTGACGACTCCTTCCCATGGATTCGCACATGGAGCGTGCAACCACATCCTGCCTC-------CAACA
TCTGACCACAACATGGTCCATGTTGCAATAGGTAACCGCAATATAGTCCATGTTGCAATATGGATGTTCATAGGCCCATG
TCACACAATGGATGACCAAAGCCCATATCATACAAGATGGAGGTCACCACAACATGGTCCATGCTGCAAT--GGGTGATC
AAAGGCCCATGTGACGCGAGCACAACAGTGGCTGGGTCTGTTGATGCGACGAAGGTTGACATACCTTGCATCACCAATCT
CAAGGAGGAGTTTATCAATAGGGTTACTTGTGTGGTCTACTTGGGACCCCCAAAGCCCT
>chr2A_1
CTGCTGTTTCTTCTTGCGGCTGTTGTTGTAACCTTGTAAGTACAGCTCCAATGTCGAGGAGCTCTTCCCCTTGGGCGGGA
AAAAAGATGCAGCAGAGCGGTCGCTCACTGCTG------TTTGTTGCCGCTGTTATTGTAGCTTTATGACTAGTACAGGG
ATGAATACCTACCGGGTGTCTCGTCGCGGCAGAAAATACGGCACGAATTCGA----------------------------
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------------------------------------TACACAGACACAAAGATG-TA----CAGACTTGTCTTACAGCGG
TGCGACCACATGCTGTAATGTTTGCAGCACAGACGAAAACTCTAAAGTTCTCGTTGCAGGCCACCTGGCCACGGTGTTCC
CTGTG--TGCTCTGACGGTCTGACGGGCATCTGCAGTATATCTTCTGAATTTGCTGTTGCTGTTTCACCGTACCTCTTGA
ATTTGTGC---------GCTGTGCCGTTTGTGAAAGTCTAGAATGCACCAGGACTTTCACTCTTGTCTATGGCCGGCCGG
AAACTTTGTATTTCC-------------TGGAAAGGGGTAATGCCCGGTT-TAAAAAAAGAAAAAAGAAT-GCACCAGGA
GTTGAGCACCAAGACCACTGTGCTAACAACCCCG----CACGCATGAAGTCATATGTACAGGTTAAAGTGGTTCCAACAC
CCAACGACCACACACACACA------AAGGGAAAGGACGACTTCATGTTTGCCACGACGAAACAACAGTTGAGTACGTCG
TGTGTGCGACATAAAATCGGGTCGCCTGATCCCGGCTCGTGTGACGCTTCCCCGGCTGAAAACCTGGTGAAACTAAAGGT
GAATCGCTAATTCGCTATCTAGAATATCTAGACTC------CGTAGCCAGTGGACTTCCCGTTCGGGGAGGTTGAGCGAC
CGTATCGGGGTCCCTAACCACCT--GAAACCCAAACGGGACACCACCGCTACCCGT-------CTGTATATAGCCCGGGA
CCAGACATCAGCAGAGCCGCCGGCCGGCGTTGTCGTTGTCGTGGTGGAGGTCGGCCGGGATCGGTTCTATCGACCACGCG
AGAGCGCTC--------------------------------------ATGTCGAAGAGGACGGTGCTGCGGGTGGACACC
TCCTGCGCCAAGTGCAAGCGCAAGGTCATGCTCGCCGTCTCCAGCCTCCAAGGTACGTACGTTTGGATCAGATCGCATGG
CCGAACTGGCAGCGAGGCCATGCATTTCTTGCTTGGTTAAGTGTTGCTCTTACGTG--------CTGTGCCCAGGTGTGG
ACAAGATCGAGGTCGACTCGGAGAAGGGCACGATGACGGTGACCGGCGGCGTGGACCCGGTGGACGTGGTGGAGGCCACC
AGGAGGAAGGCCGGGAAGCGCGCCGACGTCCTCACCATCGGCCCGCCGCCGTCGGCGTCCACCGCGTCCAAGCCGGAGGA
GAAGAAGAAGCCCGAGCAGCA---GAAGCCGCAGCAGACATAT---------------GTGGCGGCGGAGAGGAGGGCGC
CTGAGCCGCCAGTGACGTTGTACGTGCACCACGTCCCGGCGCCGCCGCCGTCGTGGCCCGCGTACGAGCAGTGCGCCGTC
GTGCCCTGCCACTACCAGCAGCAGCAGGACCCCTGCTCCATCATGTAGCTAGCTAGCTAATCGTCTCTTTGTGTCACTGC
TATTTGGACCA----TAGTACTAATCGATA---------TAGGTAATTCAAACCCCGGACCGATACCTCT----GCGCAC
TAGCATTCCACCGTGATTTTCCTTCGAGAGAATTAGCTGAACTTTCTGAATAAATACCTAATGTTATGGA----------
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-------------AAAGGCTTCAAATCAACCGAACGGATCCTTGATTTTGGGTCAACCGCTTCCTCTGTCTGCCACGCGT
CCCCATGGGGTTGAGATTCTCTGTAGTACTTTATGGTCAGTACACCGGATGACATGTGGGGCCGGGTCCCACATGTCAGT
GACTATACTGCACTCTGCAGTACTGCAGAGGATCCTAACCAGTCCCGGGTTGGACCATGGGCCCACCTACCGCTT-----
-----TCCCTTTCTTCTA---AGTGTCTCCTCATGCGGCCGCAACCG-----CAAGTATTTTGCCGAGCAGGCGGCATCG
TCTACCCACA---------CCCCTGCTCTTCCCTGCTCACTGCCCTATCCCATGTTGCGTCGGGACCCTCCCCGGCCATC
AGGCATCGTCCATCGCAACCCTGCCGCAGCCCAGATCTGCCGGCCCAACAACATGTGCGGCTCAGCCCGTCCACCATCGC
AGTCACCGACAACGTGCGACCAACCACGACAACCCGCATTTCTCCATGTATCCATCGGCTTCTCCCCCGACGACTCCTTC
CCATGGATTCACACATGGAGCGTGCTGCCGCATCCCAGATCTGCCGGCCCAACCACATGTGTGGCTCAGCCCATCCACCA
CCGCAGTCACCGACAACGTGCGACCAACCACTGCAACCCGCATTTCTCCATGTATCCATCGGCTTCTCCCCCAACGACTC
CTTCCCATGGATTCANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATCCTAGATCTGCCGGCCCAACCACAT
GTGCGGCTCAGCCC-ATCCACCACCGCAGTCACCGACAACGTACGACCAACCACTGCAACCCGCATTTCTCCATGTATCC
ATCGGCTTCTCCCCTGACGACTCCTTCCCATGGATTCACACATGGAGCGTGCTGCCGCATCCCACCGCCAGATTGCAGCA
TCTAACCACAACATGGTCCATGTTGCAATAGGTAAACACAACATAGTCCATGTTGCAAT------GATCAGAGGCCCATG
TCACGTAATGGATGACAAAAGCCCAAGTCATAT-AGATGGAGGTCACCACACCATGGTTCATGTTGCAAT--GGGTGATC
AAAGGCCCATG---------------------------------------------------------------------
-----------------------------------------------------------
>chr2D_39
--------------------------------------AGTACAGCTCCAATGTCAAGGAGCTCTTCCCTTTGGCCTGGA
AAAAAGATGCAGCAGAGGGTAG-----CTGCTG------TTTGTTGCCGCTGTTACTGTAGCTTTATGACTAGTACAGG-
ATGTATACCTACCGGGTGGCTCGTCGCGGCAGAAAATACGGCAGGAGTTCGCGAAAAGTGCGTGCAGCTACCGGGCTCCA
TGGCTCTTGGTATTTGAAAATTTTGAAAGACACACTTCCGATGCTAAAAAAATCTTAAATCAAATAAGTGAATACATACA
CACATTCCTAAGGCCTGGTAAAAATCTGAAAAATAAATACTTTGTATTTTGGGAAATACAAAAAAGAGAAAATTTTGACA
GAAATTGCACCCCCTTTCTCCTGTATACCGTCAGAAATTTGATTTTTTTCTATACCCCAAAATAAAACGAGATTTCTACC
GAAACTTGCCATTGGTATTCGGAATATGTATATGTATCCTTGGGAAAAATTTCACATTTTTTGAAACTTCAAAAACACAA
ATTTCAAAATGTTTAAATATAGAAAGCAGCGGAGACTACACAGACACCAAGATG-TATCAGCAGACTTTTCTTACAGTGG
TGCAAGCACATGCTGTAATA------------------------------------------------------------
-------TGCTCTGACGGTCTGATGGGCATCTACAGTATATCTTCTGAATTTGCGGTTGCTGCTTCACCGTACCTCTTGA
ATTTGTG---------------------------------------------------------TCTAT-----GGTGGG
GGACTTTGTATTTCCGTTATTCAGCTAATGGAAAGGGGTAATGCCCGGTTCTAAAAAAAGAAAAAAGAAGAGCACCAGGA
GTTGAGCACCAAGACTACTGTGCTAACAACCTCG----CACGCATGAAGTCATATGTACAGGTCGAAGTGGTTCCAACAC
CCAGCGACCACACACCACACACACACAAAGGAAATGAGGACTTCATGTTTGCCACGACAAAACAACAGTTGAGTACGTTG
TGTGTGCGACAC--AATCGGTTCGCCTGACCCTGGATCGTGTGACGCTTCCCT---TGAAAACCTGGTGAAATTAAAGGT
GAATCTCG--------ATCTAGAATATTTAGACTCCGTATACGTAGCCAGTGGATTTCCCGTTCGGGGAGGTTGAGCGAC
CCCATCGGGGTCCCTAACCACCTCTGAAACCCAAACGGGACACCCACCACTGGCACTGTCTGCCTGTATATAGCCCGAGA
CCCAACATCAGCAAAGCCACCGGCCGGGGTTGTCGTTGTCGTGGTGGAGG----CCGGGATCGATTCTGTCGACCGCCGC
ACGAGGGCAGGGAGGGGTCGCCGGAGAAGGTTGGTCGGTCGGTTCCTATGTCGAAGAGGACGGTGCTGCGGGTGGACACC
TCCTGCGCCAAGTGCAAGCGCAAGGTCCTGCTCGCCGTCTCCAGCCTCCAAGGTACGTACGTCCC-----GATCGCATGA
CCAAACTGGCAACGACGCCATGCATTTCTTGCTTTGTTCACTGCTCCTCTTACGTGCTGTGCGCCTGTGCCCAGGTGTGG
ACAAGATCGAGATCGACTCGGAGAAGGGCACGATGACGGTGACCGGCGGCGTGGACCCGGTGGACGTGGTGGAGGCCACC
AGGAGGAAGGCCGGGAAGCGCGCCGACGTCCTCACCATCGGCCCGCCGCCGTCGGCGTCGACCGCGTCCAAGCCGGAGGA
GAAGAAGAAGCCCGAGCAGCAGCAGAAGCCGCAGCAGCAGTGGGAGGAGAAGAAGCACGTGGCGGCGGAGAGGAGGGCGC
TTGAGCCGCCGGTGACGGTGTACGTGCACCACGTCCCGGCGCCGCCGCCGTCGTGGCCCGCGTACGAGCAGTGCGCCGTC
GTGCCCTACCACTACCAGCAGCAGCAGGATCCCTGCTCCATCATGTAGCTAGCTAGTTATTCGTCTCTTCGTGTCATTGT
TATTTGAACCGTACGTAGTACTAATCGATAGGTAATTC------------AACCCCGGATCGATGCCTCTGCGCGCGCAC
TAGCATTCCACCGTGATTTTCCTT-GAGAGAATTAGCTGAACTTTCTGAATAAATACCTAATGTTATGGA----------
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-------------AAAGGCTTCAAATCAACCGA-CGGATCCTTGATTTTGGGTCAACCGCTTCCTCCGTCTGCCACGCGT
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------------------------------------------------------------------CTACCGCTT-----
-----TCCCTTTCTCCTACTTATTATCTCCTCCTGCGACGGCTACAAGCACACAAGCATTCTGCCGAGCGGGTGGCGCCG
TCTACCCCTCCCCCCTCCCCCCAC----------CCTCACCGCCCTATCCGCGTCACGCC--GGAACCCTCCCGGCCACC
GCGTGTCGTCCATCGCAACCCCGTCA------------------------------------------------------
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------------------------------CACCCCAGATATGCCGGCCCAACCACAGGTGTGGACT-------------
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---------AGCCCCATCCACCGCCGCGGTCACCGACAACGTGCGACCAGCCACCGTAACCCGCATTTCTCCATGTATGC
ATCGGCTTCTCCTCCCACGACTTCTTCCCATGGATTCACGCATGGAGCGTGCAATCGCATCCTGCCGCCAGATTGCAACA
TCTGACCAAAACATGGTCCATGTTGCAATAC-TATCCACAACATAGTTGATGTTGCAATA--GATGATCAAAGGCCTATG
TTACCCAATGGATGACAAAA-CCCATGTCATACAAGATGGAGGTCACCACAACATGGTCCATGTATGCAATGGGATGATC
AAAGGCCCATG---------------------------------------------------------------------
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>SNPs
---S-------------------S-----S-------------S----------S----------S--------S-----
------------------------SSS-SSSSSSSSSSS-----------------------S---------S-S-----
----------------------------------S---------------------------------------------
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------------------------------------------S---------SSS-------------------------
---------------------------S---S----S--SS--------S-----------S------------------
-----SS-----------------------------------------------------S-----S-------------
-------SSSSSSSSSS----------S-------------------S--------------SS---S------------
--------------S---------S--------------------------S-----SS----S--SSSSSSSSS-----
-----------------------S----------SSSS------------------S--------S--------------
-------------------SSS-S-SS-----------------------------------S-----------------
--------------------S-----------------------------------------------------------
-----------------------------------S-S------------------------------------------
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----------------------------S---------------------------------S----S------------
----S-S-------------------------------------------------------------------------
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-----------------------S-----------------------------S------S-------------------
----------------------------------------------------------------------------S---
-----------------S--------------------S-----------------------------------------
-------------------------------------------------------------------------S---S--
---S----S--------S-------SS---SSSSS-S-S-----------------------------------------
------S----S---------------------------------------------S---------SSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSS---S------------SS------S------------S---S--------------S----------
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-------------------------------------------------------------------SSSSSSSSSSSSS
SSSSS---S------------S--------------------SS---S--------------S--S-------------S
----------------------S----------------------------SS--SSS--------S---S---------
-------S------------------------------------------------------------------------
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--------------------------------S-----------------------------------------------
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-------------------------------------------------------------------------------S
-------S-------------S---------------------S------S----------S--------------S-S-
---S---------S-----------------------S------------------S---------S-------------
-------------------------------------S---S------------------SS----S---S---------
----S-----------S---------S------------------------------------S----------------
-----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_828
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--------TTGTTTTCTGCTGTGCCGTC----------------------------------------------------
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>reverse_3626
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-------------------------CAGTGGCTGGGTCTGTTGAT-----------------------------------
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