>input_sequence_85899
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------------------------------------------------------------------ATGAGTTCCATGGA
GGGAAGCACTGTGAAGTTTCCAGAGCCTGCAAGTGGGGGCACCGGAGCCAGCAGTGTGAAGACGTCATGGACAGAGGTCG
TCGGGATGTCCGTTGAGAAGGCCAAGGAGATCATCGCCAAGGACAAGCCTGATGCTGAGATAGAGGTCCTGCTAGTCGAT
GCGTTGGTCACCCAGGACTTAAGGCCCGACCGTGTCCAAATCTTCATCGTTGTTGCCGACACCCCTACGGTTGGTTAG--
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>chr1A_1_TraesCS1A01G041500
CACGCATACATTTCTTCGCGCTTGTAAAGCTAGAGCTAGCCAGTGAAGGGTGTGTCGGCGACGGTATCGACAAAGATGCG
CACGCGGTTGGGCCTCAAGTCCCGGGTCACCGGCGACCCGGCTGGCAGCACGACGATGTCGGCGTCAGGCTTGTCTTTGA
GTATGATCTCTCTGGCCTCCTTTATGGACTTGCCCACCACCTCTGGCCATGACTTCTGCCACGACTCACCGGCGAGGCCG
TCGGTGCTAGCTGGGACATCTGTGGAGCTCATCGTTGATGGACGAGCCTACAAATCAATTTTCCAAAAGCGAGAAACAGG
TCAGTCTTAGAGAGAAAGTAGCACCAAAACTGAAACCGATTGATTGATAGCAAGCTGCATTTCTAATTAAGCAAAATATG
CTAGTTAGCTAAAGATTGATCGACAAAAGCAAGATGGATATGTGTATATCTATGATCCGACTCACCGGCTGAATGGACCT
GAAGCCTATTA---CTTAATCTTCTCAACTTGGTTGGTATCTTGATGCTGCATAAACACT------TTGCATGGATGGGT
ACTTATAGGGGAGATCGACATAAGCGACACTGTGTTGTGTGCAGAGAAGATGCATGCCCTCACATGCATGCATGTACCGA
GGGGAAGAA----GGCGCGTGATACACGAGATAAGATGCTGATTGGCTGGACTGGATTTCGTGATGGATAACACGTACGG
ATGCTAAGGAAGAGGACAGCATACCACGTGATTCACAGGTCCATCGACTTGTAGCTAGGAGCTCAATGTACCATCGCCGT
TTTCCGGTGCTGTAGTGCTCCTCAACTTAGTTAACTATAACTAGTATAAATGCCACACAATAAGTTGATGCTATATCATC
AACTTCTCCTTACATGTTTAGAACATTCAATTAGTTCTTCTGGTGAGTGTGTGCCTGGTCGATTTTTTTTGTTCACCCAT
TTTCCCTCGTGGTTTATGCTTTATTT-------------TCTTGATCCAAGAGTTCATTGAAGAACATGAGTTCCATGGA
GGGAAGCACTGTGAAGTTTCCAGAGCCTGCAAGTGGGGGCACCGGAGCCAGCAGTGTGAAGACGTCATGGACAGAGGTCG
TCGGGATGTCCGTTGAGAAGGCCAAGGAGATCATCGCCAAGGACAAGCCTGATGCTGAGATAGAGGTCCTGCTAGTCGAT
GCGTTGGTCACCCAGGACTTAAGGCCCGACCGTGTCCAAATCTTCATCGTTGTTGCCGACACCCCTACGGTTGGTTAGCT
AGCTTATCAGGCATGAATCATTAATAATTATGTAACAGAGGATAAAGATATCTGGCACATCAGGCAGGCACTTTCTCTTT
GAT-------------AAGGAATAAAGGCATGCTGGGCATGAGCGAATCATGCCCAAGTTCAGGCTTCAGTGTATTCTTC
CATGACATGTTGGGCATGACATGTATAATTGCGCTCTCTGTTTCATCTAGATTACTCTTACTAGGCAGGGAATGTGCCCG
AATGCTCGGTGGTGCTAGTATTTCATGTTGCGAGTTTTTCTTTTCGACAGGAATTTCAAGTTGTGAGTTGGCACGTTAAA
CCTTAGGTTTGTTCACATCGGTTAGCCGGTCATTTATCGTATTCCCTAGAGCAAACATCCAAAAAGACGACAACAACAAG
AGGGATAATATATTATTTGGATCTAAGCACAAATTGGTCACTACTTACAGTAACTGAATGTTATGTGTCACCCTAAATCT
CGAACAAGGGCAAAATCATAAATATATGACACTAGAAGAAATCCTAGTACCATCGTCGGTACTCAAAGAAGCATAACCGC
TTTATCTGTTGCACAAATAATGATGTTTTATCACTTTCACATGAACTTTCAACTATCTGTAACTTTAATGTGATAGGCAT
GCTGCAAAGGGACGCGGCTCTTTTTGTGCCAAACATTGACAAATGTTT-GATTGCTTGCAAAGTTTCATCATCGAATGAC
ATTCGGGGAAAACGTAGCAAAAATATCGACA---CTCCAAAATCCTGCAAAGTCCTTTATATGCTGCCAATTATGTTTTC
CTTAATT----TTCTGAGTTCCTGAAAATATCATCGCTAAATTTCTTAAGGAGTTGCAGTGGGCTTCCAACTAGGTAGAA
CTCTTCAAGTTGAAAAGGAGATCAAGTATGCTTCCTTCAATCTGAAAAAGCAACAACCG-TCACCAAACCATATAGTTTA
TGACGTACACCGTTTCAACTGGGTTGGCTAGGTATTAGAATCCATAACATGGTTGAAAAT
>chr1B_1
CACGCATACATTCCTTCGCGCCTGCATAGCTAGAGCTAGCCTGTGAAGGGTGTGTCGGCGACGATATCGACGAAGATGCG
CACGCGGTTGGGCCTCAAGTCCCGGGTCACCGGTGACCCAGCTGGCAGCACGACAATGTCGGCGTCGGGCTTGTCTTTGA
GTATGATCTCCCTGGCCTCCTTTATGGACTTGCCCACCACCTCTGGCCATGACTTCTGCCACGACTCGCCGGCGAGGTCT
CCCGTGCCAACTGGAACCTCCATGGAGCTCATCGTCGATGGACCAGCCTACAAATCAGTTTTCCAAAAGCGAGAAATAGG
TCAGTCTTAGAGAGAAAGTAGCACCAAAACTGAAACTAATTCATCCATAGCAAGATGCGTTTCTAATTAAGCAAAATACG
CTAGCTAGCTAAAGATTGATCGACAAAATTCAGATGGGATACG---TATTTGTGATCCGACTCACCGGCTAAGTGGACCT
CAAGAAGCTTGTTTCTTAATCTTCTGAGCCTGGTTGCTAACTTGGTGCTGCATAAACACATTGCAATTGCATGGATGGGT
ACTTATAGGGGAGATCGATATAAGCGGCACTGTGTTATGTGCAGAGAAGATGCATG------------------TACCCA
GGG---GAA----GGCGCGTGATACACGAGATAAGATGCTGATTGGCCGGACTAGATTTCGTGATGGATAACACGTACGG
ATGCTAAGGAAGACGACAGCATACCACGTGATTCACAGGTCCATCGACTTGTAGCTAGGAGCTCAATGAACCATAGCCGT
TTTCCGGTGCTGTAGTGCTCCTCAACTTAGTTAACTATAACTAGTATAAATGCCACACAATAAGTTGATGCTATATCATC
AACTTCTCCTTGCATGTCTAGAACATTCAATCAGTACTTCTGGTGAGTGTGTGCCCGGTCGATTTTTTTTGCTCACCCAT
TTTCCCTCATGGTTTATAACATGCTTACCGCTTTATTTCTCTTGATCCAATAGTTCATTGAAGAACATGAGTTCCATGGA
GGGAAGCACTGGGAAGTTTCCAGAACCTGCAGGAGGGGGCACCGGAGCCAGCAGTGTGAAGACGTCGTGGCCAGAGGTCG
TCGGGATGTCTGTTGAGAAGGCCAAGGAGATCATACTCAGGGACAAGCCTGATGCTGAGATAGAGGTCCTGCCAGTCGAT
GCGTGGGTGACCCAGGACTTAAGGCCCGACCGTGTCCAAATCTTCGTCGCTGTTGCCGACACCCCTACGGTTGGTTAGCT
AGCTTATCAGGCATGAATCATTCATAATTATGTAACAGAGAATAAAGATATCTGGCGCATCGGGGATGTACTTTCTCTTA
GATAATCATTTAAATGAAGGAATAAAGGCATACTGGGCATGAGCGAATCATGCCCAAGTTCAGGCTTCAGTGTATTCATC
CATGACTTGTTGGGC-----------------------------------------------------------------
----------GGTGCTAGTATTTCACGTTGCGAGTTTTTCTTTTTGACAGGAATTTCAAGTTGTGAGTTGGCACGCTAAA
CCTTAGGATAATA-------------------------------------------------------------------
-----------ATTATTTGGAACTAAGCACAAATTGGTCAGTACTTACAGTAACTGAAAGTTATGTGCCACCCTAAATCT
CAAGCAAGAGCAAAATCGTAAATATATGACACTAGTAGAAACCCTAGTATTATCATCGGTACTCAAAGAACCATAACCGC
TTTATCGGCTGCACAAATAATGAC-TTATATCACTTTCACGTGAACTTTAAACTACCTGTAACTTTAATGTGATAGGCAT
GCAGCAAAGGGGCGCGACTCTTTTTGTTCCAAACATTGACAAATGTTTTGATTGCTTGCAAAGTTTTATTATCGAATGGC
ATTCGTGAAAAATGTGGCAAAAAAATATCAGGCGCTCCAAAATGCTGCCATGTCCTTTGTATGGAACCAATTATGTTTTC
CTTAATTATTTTTCTGAGTTCCTGAACATATCATCGCTAAATTTCTTGAGGAGTTGCAGTGGGCTTCCAACTAGGTAGAA
CTCTTCAAGTTGAAAAA-AGATCAAGTATGCTTCCTTCAAGCTGAAAAAACAAACAACCTTCACCAAACCATATAGTTTA
TGACATACACCGTTTCAATTGGATTGGCTAGGTATAAGAATCCATAACATGGCTGAAAAT
>chr1D_1
CACGCATACATTTTTTCGCGCTTGCAAAGCTAGAGCTAGCCAGTGAAGGGTGTGTCGTCGACGGTATCGACGAAGATGCG
CACGCGGTTGGGCCTCAAGTCCCGGGTCACCGGCGACCCGGCTGGCAGCACGACGATGTCGGCGTCGGGCTTGTCTTTGA
GTATGATCTCTCTGGCCTCCTTTATGGACTTGCCCACCACCTCTGGCCATGACTTCTGCCATGACTCACCGGCGAGGCTG
TCGGTGCTAGCTGGGACATCTGTGGAGCTCATCGTTGATGGACCAGCCTACAAATCAATTTTCCAAAAGCTAGAAACACG
TCAGTCTTACAGTGAAAGTAGCACCAAAACTGAAACTAATTCATCCATAGCAATATGCGTTTCTAAT-AAGCCAAATACG
CTAGCTAGCTAAAGATTGATCGACAAAATTCAGATGGGATATG---TATTTGTGATCCGACTCACCGGCTAAATGGACCT
CAAGAAGCTTGTTTCTTAATCTTCTGAGCTTGGTTGGTAACTTGCTACTGCATAAACACATTGCA------TGGATGTCT
ACTTATAGGGGACATCGATATATGCGGCAGTGTGTTATGTGCAGAGAAGATGCATGCCCTCACATGCATGCATGTACCCA
GGGGCCAGGGGCGGGCGCGTGATACACGAGATAAGATACTGATTGGCTGGACTGGATTTCGTGATGGATTACACGTACTG
CTGCTATGGAAGGCGACACCATACCACGTGATTCACGGGTCAATCGACTTGTAG--------------------------
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>SNPs
------------------------S----------------------------------------------S--------
------------------------------------------------------------------S-------------
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-------------------------------------------S------------------------------------
------------------------------------SS---S--SS--------S---S-------------------S-
----S-----------------------SSS------SSSSSSSSS---S-S------------------S---------
S---SSSS--S--------------S-S-----------S----S--------------S--------------------
------------------S-------S---------S-----------------------------------------S-
----SS--------------------------------------------------------------------------
-------------S------------------------------------------------------S-----S-----
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-----------S-----S-------------S---S-------------------S---------------S--------
--------S--------SSSS-SS--------------------------S-----------------------------
-----------S------------S------S-S--------------------------------S---S---------
----------S-----------------------SSS--S--------------------------------S-------
----S---S------------------------------------S---S------------------------------
----------------------S-----------------S---------------S----S--S-S-S----------S
-------------------------------S---------------------------------------------S--
------S--------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSS---------------S------------------S------------------------------S----
-------S-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSS----------S------------------S-----------------S--------S------------
-S-S----S--------S-----------------S-----S-------SS---S---------------S---------
------S-S--------------SS--S------------S--------S-----S------------------------
--S--------S----S----------S--------------------------------------S--S--------S-
-----S-S----S--S-------S--SSSSS------------S----S-S-------S----SSS--------------
--------------------------S--------------------S--------------------------------
----------------SS----------------------S--------S---SS-S-S---------------------
----S-------------S---S------------S----------------S-------
>forward_487
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-------------------------------------------------------------------GCTGAATGGACCT
GAAGCCT-------------------------------------------------------------------------
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>reverse_1520
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-------------------------------------------------------------------------------G
AATGCTCGGTGGTGCTAGT-------------------------------------------------------------
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