>input_sequence_71948
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-------------------------------------------------------------------------------A
TGGCCCAAGCTGGCGTCGCTCTCGCGCTGTGCGCCCT---GCTCCTCCACGGCGTCGCCTGGGAGGCGCGGGCGGCGTCG
TACACCGTCGGGAACAGCGCCGGCTGGGACATCAGCGCCGACCTCCAGTCGTGGGCCGCCGCCAAGATATTCAACGTCGG
CGACGTTCTAGGTATGAATGAATCACGCTACTTACTGTTTTAGCTACGCTT-------------AATGATCAGTTTTGCT
TA--ACCACTTGTCCACGTGCGCC--------TTGTGATCGATCTGCAGTGTTCACGTACTCCAAGACCCACACCCTGGA
CGAGGTGGACGCGGCGGGGTTCAAGAGCTGCAGCGCCGCCAACGCGCTGCTCTCCAGCAGCGACGGCAACACGACGGTGC
CCCTGACGGCCGGCGGCGACCGGTACTTCATCTGCGGCCACCAGATGCACTGCCTCGGCGGCATGAAGCTGCACGTGCAC
GTCACCTCGCCAGCCGGCTCCACGCCGCAGGGAGCCCCCGCGGGAACCGGAGCCGGCGCCGGCGCCCCGCTGGCAAGCCC
GGGCGCCGCTCTCGGCCCGGCCGGCGGCACCGACGACGACGCCGGCATCCCCAGGCTCGACCTCGGCGGATCGCACCGGG
TGGGGGTCGTGTGGCCCGCGCTGACGGCGTTGTGGTTGTGCCTAGCTGCGGCTCTGCTTGCATGA---------------
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>chr2A_1_TraesCS2A01G392600
CGGTGGAAGATGTTGGCGCCTTCAACGCGCTCGGCATGGAGCTGCGCCGCCGTCTTGAAGTGGGGGAGGGTAGGGGCGGC
AAGGAGTGGCAGTGGAGAGGGGGCGACCTGCAGAGGGGAGGTGGCCGGTGGGGGAGGGGGAGGCGAGGAGGAAGCCTGAG
GAGCGCCCATGGCGGCGGCGGCCGCGGCGGCGGAGGTTTCCTCGGCCATGGCGGAAGCGAGAAAGGAGGATCACAAAACT
AATACCATGTTAAACTATAAGAATGAGCTCAATATGCAAGTTGTATTCATCCTCTCAGGGGCAGCATATATAAGAGAGTA
CACTTTGAGAGAGGGAGAGAGGATACAACGCACGCACACACACGCTAAGCAACAGCCGATCCTATATCCAAGGAGTAGAT
AGAGACGGCTTGACCCTGCATGGCTCATGCAAGGGCGGTGCCATGCGACTCGCACGGGAGACCAGCACGGCTGGCGCAAG
ACCAACTTGCCGGTTATGATCTCAGTCTAACAGTTTCAACCTACTAGAAAACCAAAATCCTCTCCAAGAAGT-GAGGGAA
CAAGTAGCTATAAAAAAGAAGAGTAGAAAACCACAAAAATGGTGAAGATGGCCCGGCACGAGCCTGGAGCGGCAGGAACA
GCTTAACCGCCGATACCTAGTACCAACGGCACAAGAGAAAGTTGCGTCACCAA---------ACACCCCCATTCATCCCC
GCGATCACATATTCAAATCAGAACAAGCACAC----------GAAGACCGTTGCACCTCCCCATTTTACAACCTTTTCAG
CCGCTAGCCCGCGTGTGTCGCTCGCTTAATCAATCTGCAACACCGTCCCCTGGTCGCCTTACAAGATTAGGTCGATTATT
TCCAGCGACGCGCTCGAAAGATTAGGTTACCCAATCCTCAACAAGAACCGGCGCTCAGGGAGCTCATATATATCCAA-GC
TCTTGACGATGCAGTATGAGTTAATTTTTCTTATCTCTGCAATCTGCACTAGCATACAT------------------CCA
TGGCCCAAGCTGGCGTCGCTCTCGCGCTGTGCGCCCT---GCTCCTCCACGGCGTCGCCTGGGAGGCGCGGGCGGCGTCG
TACACCGTCGGGAACAGCGCCGGCTGGGACATCAGCGCCGACCTCCAGTCGTGGGCCGCCGCCAAGATATTCAACGTCGG
CGACGTTCTAGGTATGAATGAATCACGCTACTTACTGTTTTAGCTACGCTT-------------AATGATCAGTTTTGCT
TA--ACCACTTGTCCACGTGCGCC--------TTGTGATCGATCTGCAGTGTTCACGTACTCCAAGACCCACACCCTGGA
CGAGGTGGACGCGGCGGGGTTCAAGAGCTGCAGCGCCGCCAACGCGCTGCTCTCCAGCAGCGACGGCAACACGACGGTGC
CCCTGACGGCCGGCGGCGACCGGTACTTCATCTGCGGCCACCAGATGCACTGCCTCGGCGGCATGAAGCTGCACGTGCAC
GTCACCTCGCCAGCCGGCTCCACGCCGCAGGGAGCCCCCGCGGGAACCGGAGCCGGCGCCGGCGCCCCGCTGGCAAGCCC
GGGCGCCGCTCTCGGCCCGGCCGGCGGCACCGACGACGACGCCGGCATCCCCAGGCTCGACCTCGGCGGATCGCACCGGG
TGGGGGTCGTGTGGCCCGCGCTGACGGCGTTGTGGTTGTGCCTAGCTGCGGCTCTGCTTGCATGAAAGTTTTTGTTTTTA
GAAGCGCTGCATGAAAGTTTTTGTCAAACTTATTGCTCGTTCTGAGTGATTTTTAACCATTTCTACTGTGTGTTGTTTAT
GTGCAAAACGGGTCGATCTGGGCATCAAACGGAGGCCGAAAAATGGCTCCTGGTGGGTGGCCAAAACCTCGCTACTCACG
GCCAGGTTGTACAGTACGAAATTGTCGTCTTGTGT--CAGCGTGACGCGCCCACATGGACACGCGTCTTGGGCGTACGTA
CCACGCACTGTTGTTCTTGTTCGGTAGGTTTGTGTATACGTATATACAGTAGCACGGACAAGGGGAGCAGGTGGCGTATC
ACTTTCGAAGCCGCGGCGCTGTAGGAAGGATGATTTTCACTATGCTGGTAATAAGGTGAATAGCAACGATCTGATTTTAT
TTGGCAAATGCT-AAAAGTATGGCGTCTGATTTTTAGCGTTTGTCAACAAACATCCAGAGTTCCCATGCGAAAAAAGATA
AATTTCTCAGACTGTTCACTGTTGCGTAAGATTTGACATGCTCTAAAGTGAAAATTGTCATATAGTGTAAAATTTGTCAG
AAAAAACTTTCATATGGCAGCGGGTAATTGCCATGCATTCAATCAGGATCAGACGTTATGTATCTGAGGGTGGGTGTCAG
ATTTTTAATC---------CGACATCGAATATATATTAGGGTTCTTTTTATTAGACAAAAAACATCAC-------GGACA
AGTAGAAGCTCAAATGTAGGTTTTTGGTATGATACACAGGCAACATCTCCAACAGCTGCCCTAAAGACA-----------
-----------GGTTGGGTGGCTTGGGGCAAA----AAAGTCTCCAACAACTACCCTATTG-------------------
----------ATATATTGCCGAAAAAATGCCACCATGCTTAAAATTTTGCTACGAATGTTGCAAATATGCGTCACGCGCT
GCCCAATAAAC---------AAAAACGATGTGGTGGAACCCACCATTGCTCGGTGAACTTTCATAGTCACTGCGCTGCCT
CACGCCACCTCCGTGTCGGCCAATTACA
>chr4A_1
CGGTGGAAGATGTTGGCGCCTTCGACGCGCTCGGCATGGAGCTGCGCCGCCGTCTTGAAGTGGGGGAGGGTAGGGGCGGC
AAGGAGCGGCAGTGGAGAGGGGGCGACCTGCAGAGGGGAGGTGGCCGGTGGGGGAGGGGGAGGCGAGGAGGAAGCCTGAG
GAGCGCCCATGGCGGCGGCGGCCGCGGCGGCGGAGGTTTCCTCGGCCATGGCGGAAGCGAGAAAGGAGGATCACAAAACT
GATACCATGTTAAACTATAAGAATGAGCTCAATATGCAAGTTGTATTCATCCTCTCAGGGGCAGCATATATAAGAGAGTA
CACTTTGAGAGAGGGAGAGAGGATACAACGCACGCACACACACGCTAAGCAACAGCCGATCCTATATCCAAGGAGTAGAT
AGAGACGGCTTGACCCTGCATGGCTCATGCAAGGGCGGTGCCATGCGACTCGCACGGGAGACCAGCACGGCTGGCGCAAG
ACCAGCTTGCCGGTGATGATCTCAGTCTAACA------------------------------------------------
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>chr5A_1
CGGTGGAAGATGTTGGCGCCTTCGACGCGCTCGGCATGGAGCTGCGCCGCCGTCTTGAAGTGGGGGAGGGTAGGGGCGGC
AAGGAGCGGCAGTGGAGAGGGGGCGACCTGCAGAGGGGAGGTGGCCGGTGGGGGAGGGGGAGGCGAGGAGGAAGCCTGAG
GAGCGCCCATGGCGGCGGCGGCCGCGGCGTCGGAGGTTTCCTCGGCCATGGCGGAAGCGAGAAAGGAGGATCACAAAACT
GATACCATGTTAAACTATAAGAATGAGCTCAATATGCAAGTTGTATTCATCCTCTCAGGGGCAGCATATATAAGAGAGTA
CACTTTGAGAGAGGGAGAGAGGATACAACGCACGCACACACACGCTAAGCAACAGCCGATCCTATATCCAAGGAGTAGAT
AGAGACGGCTTGACCCTGCATGGCTCATGCAAGGGCGGTGCCATGCGACTCGCACGGGAGACCAGCACGGCTGGCGCAAG
ACCAGCTTGCCAGTGATGATCTCAGTCTAACAGTT---------------------------------------------
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>chr2D_511
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------------------------------CAGTTTCAACCTACTAGAAAATCATAATCCTCTCCAAGAAGT-GGGGGAA
CAAGTTGCTACAATAAAGAAGAGTAGAAAACCACAAAAGTGCTGAAGATGGCCCGGCACGACCCTGGAGCAGCAGGAACA
GCTTAACCGCCCATACCTAGTACCAACAACACAAGAGAAAGTTGCATCACCAACCTCAGCAAACACCCCCATTCCTCCCC
GCGATCACATATTCAAATCAGAACAGACACAAGAAAGCGGGAGAAGACCGTTGCACCTCCCCATTTTACAACCTTTTCAG
TCGCTAGCTCGCGTGTGCCGCTCGCTCGCTTAATCCGCAGCACCGTCCCCTGGTCGCCTTACAAGATTAGGTCAATTATT
TCCAGCGACGCGCTCGAAAGATTAGGTTACCCAATCCTCAACCAGAACCGGCGCTCAGGGAACTCGTATATATCCAA-GC
TTTTGACGATGCAGTCTGAGTTAAATTTTCTCATCTCTGCAATCTGCACTAGCATATCGGGATACCGCAGCGTCCGGCCA
TGGCCCAAGCTCGCGTCGCCCTCGCGCTGTGCGCCCTGCTGCTCCTCCACGGCGTCGCCTGGGAGGCGCGGGCGGCGTCG
TACACCGTCGGGAACAGCGCCGGCTGGGACATCAGCGCCGACCTCCAGTCGTGGGCCGCCGCCAAGATATTCAACGTCGG
CGACGTTCTAGGT----AAGAACGGGTCGCGGCAGCGCCGTCCGTCCTCTGCTTCGCTCGATCGCAGCTTATGCTTAACT
GACCACCACTTGTCCACGTATACGCCTTTAATTTGCGATCGATCTGCAGTGTTCACGTACTCCAAGACCCACACCCTGGA
CGAGGTGGACGCGGCGGGGTTCAAGAGCTGCAGCGCCGCCAACGCGCTGCTCTCCAGCAGCGACGGCAACACGACGGTGC
CCCTGACGGCGGGCGGCGACCGGTACTTCATCTGCGGCCACCAGATGCACTGCCTCGGCGGCATGAAGCTGCACGTGCAC
GTCACCTCGCCAGCCGGCTCCACCACGCCGGGAGCCCCT------------------GCCGGCGCCCCGCGGGCGAGCCC
CGGCGCCGCTCTCGGCCCGGCCGGCGGCACCGACGACGACGCCGGCATCCCCAGGCTCGACCTCGGCGGGTCGCACCGGC
TGGGGGTCGTGTGGCCCGCGCTGGCGACGTTGTGGTTGTGCCTAGCTGCGGCTCTGTTTGCATGAAAGTTTTTGTTTTTT
GAAGCGCTGCATGAAAGTTTTTGTCAAACTTATTGCTCGTTCTGAGTGATTTTTAACCTTTTCCACTGTGTTGTGTATTA
TGTGCAAACGGGTCGATCGGGGTATCAAACGGAGGCCGAAAAATGGCTATTGGTGGGTGGCCAAAACCTCGCTACTCATC
ACAGCGAAGGCT-GTACAAAATTGTCGTGTCGTGTGTCAGCGTGACGCGCCCACATGGACACGCGTCTTGGGCGTACGTA
CCACGTACTGTTGTTCTTGCTGGGTAGGCTCGTGTAT-------------AGCACGGACAAGGGCAGCAGGTGGCGTATC
ACTTTCGAAGTCGCGGCGCTGTAGGAAGGATAATTTTCACTATGCTGGGAACAAGGTGAATAGGAACTATCTGTTTTTAA
TTGGCAAATGTT--AAAATGTGGCGTTAGGTTTTTAGCGTTTGTCAACAAACATCCAGAGTTGCCATGCGAAAAAAGACT
AATTTCTCGGAC-------AGTTGCGTAAGATTTGACATGTTCTAAAGTGAAAATTATCGTGTAGTGTAAAATTTGTCAG
GAAAAACTTCCATATTGTAGCGGGTAACTGTCATGCGTTTGATTGGGATCAGACGTTATGTATCCGA----GGGTGTCAG
ATTTTTAATC---------CGACATTGAATATATATTCGAGTTCTTTTAATTAGACAAAAGACATCGTTCTACGTGGACA
AATAGAAGCTCAAATGTAGGTTTTTGGTA-----------------CTCCAACATCTGCCCTAAAGACATAGTTGTGTCT
AA--------AGGTTGGGTTGCTTGGGGCAAACAAAAAAGACTCCAATAACTCCG-------------------------
---TATAGATATATGGTGTCAAAAAAATGACACCATACTTAAAA-ATTGCTAAAAGTGCTGCAAATATACATCACACGCT
GTTCTATAAAC---------AAAAACGATGTGGTGGAACCCACCATTGCTCGGTGAGCTTTTGCCGTCTCTGCGCTG---
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>chr2B_512
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-------------------------------AGTTTCAACCTACTAGAAAATCATAATCCTCTGCAAGAAGTGGGGGGAA
CAAGTTGCTACAATAAAGAAGAGTAGAAAACCACAAAAATGCTGAAGATGGCCAGGCACGACCCTGGAGCAGCAGGAACG
GCTTAACCGCCGATACCTAGTACCAACAACACAAGAGAAAGTTACATCACCAACCTCACCAAACACCCCCATTCCTCCCC
GCGATCACATATTCAAATCAGAACAGACACAGGAAAGCGGGAGAAGACCGTTGCACCTCCCCATTTTACAACCTTTTCGG
TCGCTAGCTCGCGTGTGTCGCTCGCTCGCTTAATCTGCAACACCGTCCCCTGGTCGCCTTACAAGATTAGGTCAATTATT
TCCAGCGACGCGCTCGAAAGATTAGGTTACCCAATCCTCAACCAGAACCGGCGCTCAGGGAACTCATATATATCCAAAGC
TTTTGACGATGCAATCTAAGTTAATTTTTCTTATCTCTGCAATCTGCACTAGCATATCGGGATACCGCAGCGTCCGGCCA
TGGCCCAAGCTCGCGTCGCCCTCGCGCTGTGCGCT---CTGCTCCTCCATGGCGTCGCCTGGGAGGCGCGGGCGGCGTCG
TACACCGTCGGGGACAGCGCCGGCTGGGACATCAGCGCCGACCTGCAGTCGTGGGCCGCCGCCAAAATATTCAACGTCGG
CGACGTTCTAGGT----ATGAATCACGCTACTTACTGTTTTAGTTACGCTCGTTTTGGCCGATCAATTATCAGTTTTGCT
TA--ACCACTTGTCCACGTGCGCC--------TTGTGATCGATCTCCAGTGTTCACGTACTCCAAGACCCACACCCTGGA
CGAGGTGGACGCGGCGGGGTACAAGAGCTGCAGCGCCGCCAACGCGCTGCTCTCCAGCAGCGACGGCAACACGACGGTGC
CCCTGACGGCGGGCGGCGACCGGTACTTCATCTGCGGCCACCAGATGCACTGCCTGGGCGGCATGAAGCTGCACGTGCAC
GTCACCTCGCCAGCCGGCTCCACGCCGCAGGGAAGCCCCGCG------GGAGCCGGCGCCGGCGCCCCGCTGGCGAGCCC
CGGCGCCGCTCTCGGCCCGGCTGGCGGCACCGACGACGACGCCGGCATCCCCAGGCTCGACCTCGGCGGGTCGCACCGGC
TGGGGATGGTGTGGCCCGCGCTGGCGACATTGTGGTTGTGCCTAGCTGCGGCTCTGTTTGT-------------------
----------ATGAAAGTTTTTGTCAAACTTATTGCTCGTTCTGAGTGATTTTTAAACCTTTCCACTCTGTGTTGTTTAT
GTGCAAAACGGGTCGATCGGGGTATCAAACGGAGGCCGAAAAATGGCTCTTGGTGGGTGGCCAAAACCTCGCTACTCATC
ACAGCAAAGGCT-GTACGAATTTGTCGTGTCGTGT--CAGCGTGACGCGCCCACATGGACACGCGTCTTGGGCGTACGTA
CCACGTACTGTTGTTCTTGTTCGGTTGGTTCGTGTAT-------------AGCACGGACCAGGGCAGCAGGTGGCGTATC
ACTTCCGAAGTCGCGGCTCTGTAGGAAGGATAATTTCCACTGTGCTGGTAACAAGGTGAATAGCAAGGATCTGCATTTAA
TTGGCAAATGTTAAAAAATATGGCTTCAGATTTTTAGCGTTTGTCAACAAACATCCAGAGTTGCCATGCGAAAAAAGATA
AATTTCTCAGAT-------TGTGGCCTAAGAGTTGAC--------AAGTGAAAATTCTCATGTAGTGTAAAATTTGTC--
GAAAAACTTTCATATTGCAGCGGGTAATTGTCATGCGTTCGATCGGGATCAGACGTTATGTATCCGA----GGGTGTCAC
ATTTTTAACCTTGAAAATTCGACATCAAATATATATTAGGGTTCTTTTAATTAGACAAAAGACATCGTTCTATGTGGACA
AGTAGAAGCTCAAA-----------------ATACACGGGCAACATCTCCAACAGCTACCCTAAAGACATAGTAGTGCCC
CAAAACAGCCAGGTTGGGTGGCTTGGGG-AAA----AAAGACTCCAACAGCTACCCTATAGCCTTTCAAGAAAAAAACTG
CCCTATAGTTATATGGTGCCAACAAAATGACACCATGCTTAAAAGATTGCTACAAGCACTGCAAATATACATCACACGCC
GCCCAATAAACAAAAAACAAAAAAACGATGTGGTGGAACCCACCATTGCTCAGTGAACTTTCGCCCTGACCGTGCTGCTT
CACACCACCTCCGCACTGGCCAATTA--
>SNPs
-----------------------S--------------------------------------------------------
------S-------------------------------------------------------------------------
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S-------------------------------------------------------------------------------
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----S---------S------------------------------------S--S-------------------S-----
-----S----S--S---------------------------S-------------------S--------S---------
---------------------------SS----------------S----------------------------S-----
-------------------------SS----S------------------------------------------------
S-------S-----------------SSS-S------------------------------------------S------
------------------------------------------S------------------S------------------
-S-------------S----------------------------------------SSS---------------------
-----------S-------S------------------------------------------------------------
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-------------SSSS--------------------------S------S----------------S------------
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----------S---------------------------------------------------------------------
------------------------------------------SSSSSS--------------------------S-----
S--------------------------------------------------------------------S---------S
-----------------------S--S-----------------------------S----------------------S
----------------------------------------------------------S----S----------------
------------------S---S--------------------------S----------------------------SS
S-SSS-SS-SSSS---------------S-S-------------------------------------------------
-----S------------------------S------SSSSSSSSSSSSS--------------S---------------
----------S--------------------S-------------------S---------------------S-----S
----------S------S---------S----------------------------------S-----------------
------------SSSSSSS---------------------S---------------S----S------------------
S--------------S--------------S-----S---S---S-------------------S--SSSS---------
------------------------------------------------S-----------S-----SS------------
-----------------------------SS------S------------------------------------------
----------------------------------------S------------------S--------------------
--------------SS----S--------S--------------SS-------S-S--S---------S-S----S----
--------------------------------------------------------------SSS-------------S-
---S---------SSSS---------SS
>forward_831
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-----------CGTGTGTCGCTCGCTTAATC-------------------------------------------------
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>reverse_2065
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----------------------------------------------------------------GAGCAGGTGGCGTATC
ACTT----------------------------------------------------------------------------
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