>input_sequence_81121
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--------------------------ATGTACCAGGCGATCCCGTACAGCGCCGGCCGGCTGCCGGCGTGGCCGCGGCAG
TTCGAGCCTGCCGAGGTCGACGGCGCGGCCGGTCTGGAGAGCAGGCGGGCA---------------GGCGACGGCGGGGA
GGCGGTGAGGAGGGCGGTGGCGGAGAGCCCGGTGCTGGTGATGGGGAGGCGCGGGTGCTGCCTCAGCCACGTGGTGACGC
GGCTGCTGCAGGGGCTCGGGGTGAACCCCGCAGTGCACGAGGTCGCCGACGAGGCAGAGCTCGCCGGGGCT---------
---GCCGGCGGCGAGGCCGTCGTCGCGCTGCCAGCGGTGTTCGTGGGCGGGAGGCTCCTCGGCGGGCTCGATCGGCTCAT
GGCCGTGCACATCTCCGGCGAGCTCGTGCCCATACTCAAGGACGCCGGCGCGCTCTGGCTCTGA----------------
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>chr1B_1_TraesCS1B01G425500
TTGAAAAGTATAGACTTGGTCCCTCAAGTTTTTTT---ATATATTTGGTCCTTCAAGTCCGAAAACCGGATAAGTTTCGG
CCAAATTCAGATTTTGAGCACGTTGACCGGGGTTTGATCACGTTGACCAGTTTTGACTGATGAATAGTAAATATA----A
AAAATAGCAAACAAATTTAAAAAAAATATAAATTTTGTGACAACCAACATGCTTTGGTGCGCTTGGTGCATGTAAAATTT
TGTGGTCAAATAATATCCGAGAGTTGTAGT--AAAAAATGCTTTTTTAGCCAAAATTAGTTACTTTTTGCCACGAGATCC
TCGGATGTCGAAACACACA--AATTTTCAGGCACCAAAGCATCTAGGTTGCCACAAAATTTTAGAGTTTTTTGTTTTGCT
TTTTTTTTGAATTTACTGTTCACCAGTCAAATCCCTGGTCAAATGTGGTCAAACCCGGTCAGCGTGCTTAAAATCTGGTT
TTGTACCAAACTTATCCAGTTCTGAAACTTAAAGGACCAAGTGTGTATACCAAAAGATTTTGAGGGACCAAGCCTATACA
TTTTAGGAATTGAAGGGACAAAAACATAGTTTTTTCTGGAAAACTGAAGCAACCTGATCCTAAATTTTCGACCAC--GTC
CTCGTGCGCCAGCCGCCTC-CGGGCGGGCCCACCAGGCAGCAAGAGAGAGCCAGCCACCCCGGCAATCGTGTCCTGCCAC
GTAGCCTCGCGTCACGAGCCGGGCCCATCAAACCGCCCAGCAACCGCGGCTGATCCGCCGCCACGTCACGGCGCGTTGCA
TGCACACAATCACACGGAGGGC-GAAAAGCCGCGGTCGCCGTCGTCCTCATCGCGTG-----------------------
-------TACACACCTGGCCGGCGCTCCTGATGGTCGTCGGGTGACGCCACCCCTCTCCTCCGATGAGCTCACCTCCCTC
CCT-----TTTATATGTCCAGCCTCGCTCCCGTTGCCCGTCACACT----------------CACACCACGGCACAACGC
GCCGATTGATCAGCGTCGAGGTCGAGATGTACCAGGCGATCCCGTACAGCGCCGGCCGGCTGCCGGCGTGGCCGCGGCAG
TTCGAGCCTGCCGAGGTCGACGGCGCGGCCGGTCTGGAGAGCAGGCGGGCA---------------GGCGACGGCGGGGA
GGCGGTGAGGAGGGCGGTGGCGGAGAGCCCGGTGCTGGTGATGGGGAGGCGCGGGTGCTGCCTCAGCCACGTGGTGACGC
GGCTGCTGCAGGGGCTCGGGGTGAACCCCGCAGTGCACGAGGTCGCCGACGAGGCAGAGCTCGCCGGGGCT---------
---GCCGGCGGCGAGGCCGTCGTCGCGCTGCCAGCGGTGTTCGTGGGCGGGAGGCTCCTCGGCGGGCTCGATCGGCTCAT
GGCCGTGCACATCTCCGGCGAGCTCGTGCCCATACTCAAGGACGCCGGCGCGCTCTGGCTCTGAGACATATGTATACGTA
GACGTA----------------------------GTACGTACAACCGTTTGATTAGGAGTTAGTACAACCAGTAATCTCT
TCTCCTTCTTTTCATTTCTCCTTTTAACTCGTGAGGTCATGTGAATTACTACTGCTCGACCTTC---CTCTCTTGCTTGG
GATCAATCAGTAATAGTGATG---------CTAT---------------TAGGGTTTAAATTCTTTTAAGTCAATTCAGT
TTCGAC--CACACGCCTGTAAATAGACCGATGAGTGAAGGTAGATGTACTGTACTGGAGTATTTAGCACTGTATGTGAAT
GATGTTCGTTCCCTTCTGTACGTACTGCAGCTAGCTTTGCATGGTTCTCTGGATGACAATCAATC----TGTTCTGTTTT
TGCCATGTTTTCATGAAACGGCACTGTGTCGGATATTCTGATCGTGTAGAGAAGAGAAACCTCCTCCCAAAAATTAGCTG
AACAATTTCTCTTCTGTTTAATTAATCGACGAGACAAATCTCTTTCCTTTG-TTTTGAAAACACAAAAACCAAGTTCATC
ATGAAAAGTTGAGCCCAGGCAAAGTAAACGTTTAACAAGGAGATCTCCCAGCATCACCACTGTCTGTTTTTCCGAGGTAC
TAAACTGGTTGCTGCGAGACGCCGACCTATAGCCTATCAC----------------GCGCTCTTGAGGGCACTGCGTG--
----------------------------------GCACTAGTACAAATATGAAA-GAGCGTTGACTATCTCCATACGTAC
GTTGAATAACTACCCATTGCTGATGCATGCTCAAATGCCATTCAGCTAGAAAAATATTACTGCAGTTAGAACGTCAAGCT
CAGCACAGCTTGCACGGATTCAGATGAGCTCAGCAGGGTGCCGAGTCTTGTCTTAAACATAGGTACTCATGACAAATGGA
AGTCTGTTCAAAGCATAGATCGATGCGTCAAATGAAAGAAACTTTGACTAATTGTGCATTGCTGACGCTGCATGCTTCGC
GTTCCGATAATGAATGGGAATTCCACCTTTTCTTCTACCGGGGAAACGACGTGAGATAA
>chr1D_4
---AAAAGTATAGACTTGGTCCCTCAAGTTTTTTTGGTATATATTTGGTCCTTCAAGTCTAAAAAATGGATAAGTTTGGT
CCAAATTCAGATTTTGAGCACGTTGACCAGGGTTTGACC-------------------GATGAACAGTAATTTTTTTTTA
AAAATAGCAAACAAATTCAGAAAAATTTAATTTTTTGTGACAACCAACATGCTTGGGTGCGCTTGGTGCATGTGAATTTT
TGTGGTCAAATAATATCCGAGGAGCTGTAGTAAAAAAATGCTTTTTTAGCCAAAATTAGTTTCTTTTTGCCACGAGATCC
TCGGATGTCGAAACACACACAAATTTTCAGGCACCAAAGCATCTAGATTGCCACAAAATTTTAGTGTTTTT--TTTTGCT
ATTTTTTTGAATTTAGTGTTCACCAGTTAAATCCCCGGTCAAACGTGGTCAAACCCGGTCAGCGTGCTTAAAATCTGATT
TTGGACCAAACTTATCCCTTTTTGAAACTGGAAGGACCAA--GTGTATACCAAAAGA-------------AGCCTATACA
TTTTAGGAATTGAAGGGACAAAAACATAGTTTTCTA---AAAAATGAAGCAACCTGATCCT-------------------
--CGTGCGCCAGCCGGCTAACGGGCGGGCCCACTAGGCAGCAGGAGAGAGCCAGCCACCCCAGCAATAGTGACCTGCCAC
GT--------------AGCCGGGCCCATGAAACCGCCCCGCAACCGCGGCTGAACCGCCGCCACGTCACGGCGCGTTGCA
TGCACACAATCGCACGGAGCGCGAAAAAGCCGCGGTCGCCGACGTCCTCGCCGCGTGGAGCCCGCCCAAGAGAAGAACGC
ATACGCATACACACCTGGCCGGCGCTGGCGATGGTCGTCGGGTGACGCCACCCC-----------------ACCTTCCTC
CCTTTTAATTTATATGTCCAGCCTCGCTCCCGTTGCTCGTCACACCACGGACGCAAGCTGCACACACCACAGCGGCACGC
ACCGATCGATCAGCGTCGAGGTCGAGATGTACCAGGCGATCCCGTACAGCGCCGGGCGGCTGCCGGCGTGGCCGCGGCGG
TCCGAGCCTGCCGAGGTCGTCGGCGCGGCCGGTCAGGAGAGCAGGCGGGCA---------------GGCGACGGCGGGGA
GGCGGTGAGGAGGGCGGTGGCGGAGAGCCCGGTGCTGGTGGTGGGGAGGCGCGGGTGCTGCCTCAGCCACGTGGTGGAGC
GGCTGCTGCAGGGGCTCGGGGTGAACCCCGCCGTGCACGAGGTCGCCGACGAGGCTGAGCTCGCCGCGGCGGTGACTGGA
GACGCCGGCGACGAGGCCGTCGTGGCGCTGCCGGCCGTTTTCGTGGGCGGGAGGCTCCTCGGCGGGCTCGACCGGCTCAT
GGCCGTTCACATCTCCGGCGAGCTCGTGCCCATACTCAAGGACGCTGGCGCGCTCTGGCTCTGAGACAT-----------
-----------------------------------------------TTTGATTAGGAGTTAGTACAGCCAGTAATCTCT
TCTCCTTC---TCATTTCTTCTTTTGACTCGTGAGGTCATGTGAATTACTGCTGCTCGACCTTC---CTCTCT-GCTTGG
GATCAATCAGTAATGGTGATG---------ATAGTTAGCTAGACGATGATAGTTTTAAATTCTTTTTAAGTGAATTTAGT
TTCGACCACACACGCCTGTAAATAGATCGATGAGTGAAGATGGATGTACTCTACTGGAGTATTTAGCACTCCATGTAAAT
GATGCTCGTTCCCTTCT----GTACAGCAGCTAGCTTTGCATGGTTCTCTGGATGACAATCAATCAATCTGTTCTGTTTT
TGCCATGTTTTCATGAAACGGCACTGTGTCGGATATTCTGATTGTGTTGAGAAGAGAAACCTCCTCCCAAAAATTAGCTG
AACAATTTCTCTTCTGTTTAGCTAATCCACGAGGCAAATCTCTTGCCTTTG-TTTTGAAAAAACAACAACCGAGTTCATC
ATGACAACTTGAGCCCAGGCAAAGTAAACGTTTAACATGGAAATCTCACAGCAGCACCGCTGTCTGTTTTCCCGAGGCAC
TAACCTGGTTGCTGCGAGACGCCGACCTACGGCTTCAACATTGATTCCCCTGACATGCGCTCTTGAGGGCACTGCGTCTG
CGTGGCACCAACCCATTGACTGAAACAAGATGGAGCACTAGTACGAATATGAAATGAGCGTTGACTATCTCCATACGTAC
GTTGAATAACTACCCATTGCTCATGCATGCTCAAATGCCATTCAGCTAAAAAAGGATTACTGCAGTTAGCACGTCAAGCT
CATCGCAACTTGCACGGATTCAGATGAGCTCAGCAGGGTGCCGAGTCTTGTCTTAAACATAGGTA----TGACAAATGGA
GGTCTGATCAAAGCATAGAT----GCGTAAAATGAAAGAAACCTTGACTAATTGTGCATTGCTGACGCTGAATGCTTCGC
GTTCCGATAATG----GGAATTCCACCTTTTCTTCTACCGGGAAAACGACGTGAGATAA
>chr1A_589
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---------------------------------------AAAATTGAAGCAAGCTGATCCTAAATTTTTTCCACGATGTC
CTCCTGCGCCAGCCGGCTA-CGGGCGGGCCCACCAGAGAGCAAGAGAGAGCCAGCCACCCCGGCAATCGTGACCCGCCAC
GTAGCCGCGCGTCACGAGCCGGGCCCATCAAACCGCCCCGCAACCGCGGCTGACCCGCCGACACGTCACGGCGCGTTGCA
TGCACACAATCACACGGAGCGCGGAAAGGCCGCGGTCGCCGTCGTCCTCGCCGCATGGAGCCCGCCCAAGAGAAGAACGC
ATACC------CACCTGGCCGGCGCTCGCGATGGTCGTCGGGTGACGCCAC--------------------------CTC
CCT-----TTTATATGTCCAGCCTCGCTCCCGTTGCTCGTCACACCACGTACGCAAGCTGCACACACCACGGCACCACGC
ATCAATTGATCGGC------GTCGAGATGTACCAGGCGATCCCGTACAGCGCCGCCCGGCTGCCGGCGTGGTCGCGGCGG
TCCGAGCCGGCCGAGGTCGTCGGCACGGCTGGTCAGGAGAATAGGCGAGCA---------------GGCGATGGCGGGGA
GGCGGTGAGGAGGGCGGTGGCGGAGAGCCCGGTGCTGGTGGTGGGGAGGCGCGGGTGCTGCCTCAGCCACGTGGTGGAGC
GGCTGCTGCAGGGGCTCGGGGTGAACCCCGCCGTGCACGAGGTCGCCGACGAGGCCGAGCTCGCCGGGGCTC--------
----CCGGTGGCGAGGCCGTTTTCGCGCTGCCGGCCGTGTTCGTGGGCGGGAGGCTCCTCGGCGGGCTCGACCGGCTCAT
GGCCGTGCACATCTCCGGCGAGCTCGTGCCCATGCTCAAGGACGCCGGCGCGCTCTGGCTGTGAGACAAATCGGAGACGC
AT---------ATACGGGACGGG---------------------CCTTCTGATTGGGAGTTCGTAGTT--AGCAGTCTTT
TCTCCCTGTTTTCATTTCTCCTTTTGACTCTTG----------------------------------------------G
GATCAATCAGTAATGGTGATGCTATTAGGGATAGTTAGCTAGTCGATGATAATTTTAAATTATTTC-AAGTGAATTTAGT
TTCGACCACACACGCCTGTAAATAGATCGACGAGTGAAGATAGATGTACTGTACTGGAGTATTTAGCACTGTATGTAAAT
GATGTTCGTTCCAAT-T----GTACAGCAGCTAGCTTTGCATGGTTCTCTGGATG-------------------------
-------TTTTCATGAAACGGCACTGTGTCGGATATTCTGATCGTGTTGACAAGAGAAACCTCCTCCCAAAAATTAGCTG
AACAATTTCTCTTCTGTTTAATTAATCGACGAGGCAAATCTCTTGCCTTCGTTTTTGAAAAAGCAAAAACCGAGCTCATC
ATGCGAACTTGAGCCCAGGCAAAGTAAACGTTTAACATGGAAATCTCCCAGCAGCACCACTGTCTGTTTTCCTAT-----
------------------------------GGCTTCAACATTGATTTCCCTGTTATGCGCTCTTGAGGGCA------CTG
CGTGTCACCAAT-------------CAAGATGGAGCAGTAGTACAAATATGAAATGAGCGTTGACTATCTCCATACGTAC
GTTGAATAACTACCCATTGCTGATGCATGCTCAAATGTCATTCAGCTAAAAAAGAATTACTGCAGTTAGCACGTCAAGCT
CAGCACAACTTGCACCAATTCAGTTGAGCTCAGCAGGGTGCCGAGTCC-GTCTTAAACATAGGTA----TGACGAATGGA
GGTCTGATCAAAGCACAGAT----GCGTAAAATGAAAGAAACATTGACTAATTGTGCATTGCTGACGCTGCATGCTTCGC
GTTCCGAT---------------------------------------------------
>chr1B_996
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---------------------TCGAGATGTACCAGGCGATCCCCTACAGCGCGGGCCGGCTGCCGGCGTGGCCGCGGCGG
TCCGAGCAGGCCGAGGCCGACGGCGCGGCCGGCCAGGAGGGCGGGCTCGCCGACGCGGCGGCGAGGGGCAACGGCGGGGA
GGCGGTGAGGCGGGCGGTGGCGGAGAGCCCGGTGCTGGTGGTGGGGAGGCGCGGGTGCTGCCTCAGCCACGTGGTGAAGC
GGCTGCTGCAGGGGCTCGGGGTGAACCCCGCCGTGCACGAGGTCGCCGACGAGGCCGAGCTCGCCGCGGCGGTGACCGGG
GACGC---CGGCGAGGCCGTCGTCGCGCTGCCGGCCGTGTTCGTCGGCGGGCGGCTCCTCGGCGGGCTGGACCGGCTCAT
GGCCGTGCACATCTCCGGCGAGCTGGTGCCCATACTCAAGGACGCCGGCGCGCTCTGGCTCTGAGCCTACTCCGAGCAAA
ACCAAAGACGCATACGGGACGGGGTACTACGGACGTACGCACAACCGTTTGATCAGGAGT------------TAATCTTT
TCTCCTTCTTTTGATTTCTCCTTTTGACTCTTGAGATCATGTGAGTTACTGCTGCTCGATCTTCAGTCTCTCTTGATTGG
GATCAAT-------------------------------------------------------------------------
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>SNPs
SSS--------------------------------------------------------SS----SS----------S-S
----------------------------S--------S-SSSSSSSSSSSSSSSSSSS------S-----S-S-S-----
-----------------S-S-----S-SS-SS----------------------S------------------S--S---
---------------------SSSSSSSSS-------------------------------S------------------
----------------------------------------------S-----------------S------SS-------
S--------------S-----------S-------S-------S---------------------------------S--
---S-------------SS--S-------SS---------SS---------------SSSSSSSSSSSSS----------
---------------------------------S-SSSS----S------------------------SSS-SSS-----
---------------S--S----------------------------------------------------S--------
------S-------------------------------S--------------S--------------------------
-------------------S-----------------------------SS-----------------------------
---------------------------SS-------------------------SSSSSSSSSSSSSSSSS----S----
------------------------------------S--------S-----------------------------S----
S-----------------------------------------------------------------------------S-
-S--------------------------------S---------------------------------------------
----------------------------------------S------------------------------------S--
-------------------------------S-----------------------S------------------------
--------------------------------S--S-----------------------------------S--------
-----------------------------------------------------------------------SSSSS-SS-
SS-SS----------------------------------S---------------------------S------------
-------------------------S------------------------S-----------------------------
--------------S---------------S--S------------------SS--S--S-SS--------S----S---
--------------------------S------------S------------------------------------S---
-----------------SSSS----S------------------------------------------------------
-----------------------------------------------S--------------------------------
---------------------------------S----------S----------------S---------S--------
----S--S-----------------------------S---S-----------S----------------S------S--
---S-------------------------SS--S-SSSSS-------------------------------------S--
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------------------------------------------------S----SS--------------S----------
-------S---------------------------------------------------------SSSS-----------
S-----S-------------SSSS----S-------------S-------------------------------------
------------SSSS--------------------------S----------------
>forward_127
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---------------------------CGGGGTTTGATCACGTTGAC---------------------------------
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>reverse_2190
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-----------------------------TAGCCTATCACGCGCTCTTG-------------------------------
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