>input_sequence_82803
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--------------------------------GTATAAATAAAACGGCTACGAGAAATCTGC------------------
----CTCTCTCGCCGCGATCCAAAGTCCCAAACCCTAACGCGAACGAGCGGATCGACCGATCGAGCGAGGCGAGGCAGGG
TCGGGATGATGGAGGCGCCGTCG---CTGGAGCACCGTGTGCCGGCGGAGGAGCGGCACCGGATCGAGCGG---------
---GTGGCGCGGGACCGGGACGGGGACCTGGCGGAGGCGCTGCTGCTGCGGCTGCTGAGGATCACGCGCAACGGCCGGCG
CTGGGGGTTCCTGGCCAACGACCACCCGCTCCACCCCTACTACCTCCAGCAGAAGGTCTCCGAGCAGTGCCGCATCCTCC
GCCCCCGCCACGCCGCCGACCGCTGA------------------------------------------------------
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>chr5A_1_TraesCS5A01G517800
CTGTAATCACTGGCACTGCAGCATGCCAGCATAAGAAGCACAGCTTAGTTTCTCTGAATTGCTCAAAAAACCGCTTAGTT
TCTCTGAATTAACATATGAAACCATCTCTAAATAGAACTGTATGGCTCATACGTAGCTGATAGCCGAATAGATTGCAAGA
AAACTGAGAGAAAAGTCAAGCGTTCAGCATTTGATGAAATCATTTTCCTCCTAATCACAGGCGAAGATGGAAAGAAAGCG
AGCTCGCGAGCACGACAGGTTTGCTCGGAAGCTGGCGTCAGCGAGACGCAGAGCAGAGGCGAAGAGGGAGGCCGCGGAGG
CGAGGAGGAGCCAAGAAGCGGAGCGAACGGATGAGCAGGCGGCGCAGATCCGTAAGACCGGGCACATACCTTCCTCGATC
TCTTGCT------GGTGCTGGTGCCTATGATC-ATCTTATGCCTCTGAGCATC--GTAGAAATGTTATGTTTCTCCTGAA
AACGACCATTGTAAAAATGCTACTGGCTCATCTTTTATCAGCAAGGAATGCGAAGTGTGTCGTCATTTTTCTCGTCCTCT
CCTGTCGATTTGCCAGATCGGATAATATCGACGCCCGTAAATGCGCGCTCATCATTTTCTTGAGGAATTTAAACCTTGCC
ATGGGCGCTGTTGGAGAGCAAATTTGGCATTATAT------TTATAGCCACAAGAAATCCAGTTTTAATCAACACTTAAT
GACAAAGGATAAAAGAATATAAATTACTTCCTATGAAAAGGAAAAAAAAAGATATCCATTGCATAAATGGATTTTTT---
----TTGTACTACCAGTGCATGAATGCAGGGA--AGAAAATAGCACTGCGCCATCAATTCGCTAGGCGGATGTAGATAAT
AATAATAATGGTGGAATTAGTGAGCGGTTCGTGATGCCACGTGCAT---------CCGC-------------------AT
CGGACGGCTGGGAATCACTCCTTGCCAAAACAGGATAATATTTTATCC---AAAAACATTCCCGTTCTGTCCTCTGTCTC
CACGGGCGGGGC-----------------CCTGTATAAATAAAACGGCTACGAGAAATCTGC------------------
----CTCTCTCGCCGCGATCCAAAGTCCCAAACCCTAACGCGAACGAGCGGATCGACCGATCGAGCGAGGCGAGGCAGGG
TCGGGATGATGGAGGCGCCGTCG---CTGGAGCACCGTGTGCCGGCGGAGGAGCGGCACCGGATCGAGCGG---------
---GTGGCGCGGGACCGGGACGGGGACCTGGCGGAGGCGCTGCTGCTGCGGCTGCTGAGGATCACGCGCAACGGCCGGCG
CTGGGGGTTCCTGGCCAACGACCACCCGCTCCACCCCTACTACCTCCAGCAGAAGGTCTCCGAGCAGTGCCGCATCCTCC
GCCCCCGCCACGCCGCCGACCGCTGACCGACCGCCC------------------GCAT----------------GCATGC
ATCTTCGTTGTTTTCA---------------TTCATTCTTGTCTCGCGATCGCATCCCATTCTTTATTC-GTAGGATTGT
TGTTTGTATGTG-------CCTAATAACGCGCCATTGATACGAGGAGATCTCTCCAGAGCGGCCGAGGATCGAAGGAAGC
AGCTGTGGGCTGGATTCCAATAAGAAATAGTACTAGGCACGTCAAAGAAAAGAAATAGTAGCAGGGCTTCTGTATTGGGC
CAGGTGATTCT-TTAGGTGAAA----------------------------------------------------------
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------------------------------------------------AAAACGATTGCACGATCGACCACGCATCATAC
CAAACGGTCGTAGTCTTCCTAGTCGTTTACTTGACGAAATTCGCAGGTGATGCTACATTTGCTGACAAGATTGTATTCGG
CAGCGGTGCACGAGTCTTCCAAAATTTTGCTGCCGTAGAACAATTCATGACGAAGACCTGCTGGAATGGGCACCTGATCC
TTGATCCTGCACTTGACGGTGGCAATGGTGTCGAATCTCGAAACCTCCACGGTTATGATCTTACCTGCAGGGAACTCGAC
AGAGATCTGCATTTTTTGCAGGGAGGAGTGTTCCTCCAGCCTTTTGTTCAACACGTCCGTCAGCGGTGTCCTCGAGGTAA
GCATGGCTTGCAGCAGCTCAACAGCCTGCAAGACAACAAATTAAATCTGGATCTAGTAATTGTTCTGCACAATTCTAGGC
TTCTAGCTACCTTACCTCTGGTTTCCCGATGGTGATCTCCGTCTCGACAACGTTAGCCTTGTCTCTCCTGCACCAGTGCT
TCGTCACGGACATCCCGGAGGCCTGGTGGATCAGTAGATCATCGCTCACCACATAGTTTCGGTCTTCGACCAGGTCATGA
CAACAGCCAGCACACCAGCTATATGATACCAGGCCCATGTAATTTTTCGGTTCCACTTCGTGTTCTTTGAGAGTGCCGCA
CTTTGAGCGCACACTGAACGGGCTAAGGGGTGGATTCAGCAACGTCTCACTGGGCTTCCCACTTTGTTAT
>chr4B_27
CAGCAT---------------------------AGAAGCACAGCTTAGTTTCTCTGAATTTCTGAAAAAACTGTTTAGTT
CCTCTGAATTAACATATGAAACCATCTCTAAATAGAACTGTACGGCTCA----TAGCTGATAGCCAAATAGATTGCAAGA
AAACTGAGAGAAAAGTCAAGCGTTCAGCATCTAAAGAAATCACTTTCCTCTGAATCGCAGGCGAAGATGGAAAGAAAGCG
AGCTCACGAGCACGACAGGCTTGCTCGGAAGCTGGCGTCAGCGAGGCGCAGAGCAGAGGCGAAGAGGGAGGCCGCGGAGG
CGAGGAGGAGCCAAGAAGCGGAGCGAACGGATGAGCAGGCGGCGCAGATCCGTAAGACCGGGCACATACCTTCCTCATTC
TCTTGCTGGTGCTGGTGCTGGTGCCTATGATAAATCTCATGCCTCCGAGCATATGGTAGAA-----ATGTTTCTCCTGAA
AACGCCCATTGTAAAAATGCTACTGGCTCATCTTTTACCAGCAAGGAATGCAAAGTGTGTCGCCGTTTTCGTCCTCTCGA
-------ATTTGCCAGATCGGATAATATC------------TGCCTCTTCATCATTTACATCGCGAATTAAAACCTTGCC
ATGACCGCCTTTCGCGAGGAAAATCGACATTATAT------TTATAGCCATTGGAAATCCAGTTTTAATTAAGAAGGATA
GTA-------AAAATAATATACAATCCTTCGTATAAAAAGGAAAAATGATATCCCATTACAGTACTACTTTTTTTGATGA
AAAAATGTACTACTAGTACATTAATAATGTAGGGAAAAAATAGCACGGCGCCATTAATTTCTTATGAGGATCTAG-----
-ATAATAATGGTGGAATTAGTGAGCGGTTCGTGATGCCCCATGCGTCCGCCTCGGCCGC-------------------AT
CGGACGGCTGGGAATCACTCCTTGCCAAAATAGGATAATATTTATCCAAAAAAAAACCTTCCCGTTCTGTCTTGTGTCTC
CACGGGCGGGTTGGATCC-----AAGTGTCCAGTATAAATAAAACGGCTACGAGAAATCTCTCTCTCTCTCTCTCTGACT
CTGTCTCTCTCGCCGCGATCGA----CCCAAACCCTAACGCGAACGAGCGGATCGGCCGA--------------------
TCGGGATGATGGAGGCGCCGTCGTCGCTGGAGCAGCGGGTGCCGGCGGAGGAGCGGCACTGGATCGAGCGGGTGGCGCGG
TTCGTGGCGCGGGACCGGGACGGGGACCTGGCGGAGGCGCTGCTGCTGCGGCTGCTGAGGATCACGCGCAACGGCCGGCG
CTGGGGGTTCCTGGCCAACGACCACCCGCTGCACCCCTACTACCTCCAGCAGAAGGTCTCCGAGCAGTGCCGCATCCTCC
GCCCCCGCCACGCCGCCGACCGCTGACCGCCCCCCCTCCGCCGCGCGGCTGCATGCAT----------------GCATGC
ATCTTGCCGCCTCTGCTCTGTTGTTAATTTTCCTTTTTCTTTTTCGTCGTCACATCAC--ATTTTTTTTTGTAGGATTGT
A----GTAGTATGTGATTAATTAATGACGTGCCGTCGTTGTGAG-------------ATCGGCTGAGGATTCAAAGGAGG
CAGCCGC----TGGTTCTAATAAGAAATAAC--A-----------------------------------CTGTATTAGGC
CAGATGGTTTC-TTTTTGGATAAGATTGATGATTGATTATGTGCTTAATTAACTGTTTCCGAAAAAAAAGGTGTGCTAAC
TCACTACCGGACTCGCCGCCTATGCCGTCGGCTGACTCTCTATGCTGGGAAAGGCTGGGATAATGTCAGTGGCCTGGGCT
CCAAGCTTCACTGGGGTTTGCCTGAGCCCAGTTTCTGTAGGCCGCTTCAATTTTTTTTTTGAGATGCTGAATTCTGTTTC
TGCCTTTGCTAGTCCCTTTTTTGTCTTCGCAAATTGGATTAATATGACATAATGTGGTTTATTTTTTGTGTGTTCAATTA
TTATGTTCTATAATACCTCCAACATTGCTTGGTTGAGATGCATTTGCAGTCTTACTGACCAACATGCCGATTACGGCTTC
TCGCCGCGGTTCCGTCTTCCATCCGAAGGAGAAACCACCACGAACAGAAGTTCCCCTGCATTCAGGCAACTAACAAGTTT
TTCAAGCAGACTGGACAGACAGATCATTACAGGAGAGCAAGGCACCAT----CCACCACTGTCAAATTACAGGACAGACA
GAACACACTGCTACTACCACCAGGCACCAGAACTTACTGAACAGCGGCAAAACGATTGCACGACCAG----GCATCATAC
CAAACGGTCGTAGTCTTCCTAGTCGTTTGATTCACGAAATTCGAGGGCGATGCTACATTTGCTGACAAGATTGTATTCGG
CAGCGGTGCACGAATCCTCCAAAATTTTGATACCATAGAACAATTCATGACGAAGACCTTCTGGAATGGGCACCTGATCC
TTGATCCTGCTCTTGACGGTGGCAATGGTGTCGAATCTCGAAACCTCCACGGTTATGATCTTACCTGCAGGGAACTCCAC
AGAGATCTGCATTTTTTGCAGGGAGGAGTGTTCCTCCAGCCTGTTATTGAACACGTCGGTCAGCGGTGTCCTCGAGGTAA
GCATGGCTTGCAGCAGCTGAACAGCCTGCAAGACAACAAATTAAATCTGGATCTAGTAATTGTTCTGCACAATTCTAGGC
TTCTAGCTACCTTACCTCTGGTTTCCCGATGGTGATCTCCATCTCGACAACGTTAGCGTTGTCTCGCCTGCACCAGTGCT
TCGCCACGGACATCCCGGAGGCCTGGTGCAGCAGTAGATCATCGTCCACCACATAGTTTCGGTCTTCGACCAGGTCATGA
CAACAGCCAGCACACCAGCTATATGGTACCAGACCCATGAAGTTTTCCGGTTCCACTTGGTGTTCTTTGAGAGTGGCGCA
CTTAGGGCGCACGCTGAACGGGCTAAGGGGTGGATTCAGCAAAGTCTCAGCGGGCTTCCCACCTGTTAT-
>chr4D_164
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---CTGAGAGAAAAGTCAAGCATTCAGCATCTAACGAAATAACTTTCCTCCGGATCGCAGGCGAAGATGGAAAGAAAGCG
AGCTCGCGAGCACGACAGGCTTGCGAGGAAGCTGGCATCAGCGAGGAGCAGAGCAGAGGCGAAGAGGGAGGCCGCGGAGG
CGAGGAGGAGCCAAGAAGCGGAGCGAACGGATGAGCAGGCGGCGCAGATCCGTAAGACCGGGCACATACCTTCCTCAATC
TCCTGCT------GGTGCTGGTGCCTATGATAAATCCCATGCCTCTGAGCATC--GTAGAA-----ATGTTTCTCCTGAA
AACGACCATTGTAAAAATGCTACTGGCTCATCTTTTACCAGCAAGGAATGCAAAGTGTGTCGCCGTTTTCGTCCTCTCGA
-------ATTTGCCATATCGGATAATATC------------TGCGTATTCATCATTTACATCGCGAATTAAAACCTTGCC
ACGACCGTCTTTGGCGAGGAAATTCGACATTATTATATTTATTATAGCCGTAGGAAATCCAGTTTTAGTTAACACGGA--
-TA-------AAAATAATAAAAAATCCTGCATATAAAAAGGAAAATGAAA----TCCCTTGCATAATGGT---------A
AAAATTGTACTACCAGCACGTTAATGTAGGGA--AAAAAATAGCACGGCGCCATTAATTTCCTAGGCGGATCTGG-----
-ATAATAATGGTGGAATTAGCGAGCGGTTCGTGATGCCACGTGCGT---------CCACAGCGGCCGTGCGATGCCGGAT
CCAACGGCTGGGAATCGCTCCGCGCCAAAATAGGATA------TATCC---AAAAACATTCCCGTTCCGGCGTCGTCCAC
ACGGGGTGTCCTGATCCGATCCAAAGTGTCCTGTATAAATGAAACGGCTACGAGAAATCTCTCG----------CTGACT
CTGTCTCTCGCCA------CGA----TCCAAACCCTAACGCGAACGACCGGATCGACAGATCGAGCGAG-----GCAGGG
TCGGGATGATGGAGGCGCCGTCG---CTGGAGCACCGGGTGCCGGCGGAGGAGCGGCACCGGATCGAGCGGGTGGCGCGG
TTCGTGGCGCGGGACCGGGACGGGGACCTGGCGGAGGCGCTGCTGCTGCGGCTGCTGCGGATCACGCGCAACGGCCGGCG
ATGGGGGTTCCTGGCCAACGACCACCCGCTCCACCCCTACTACCTCCAGCAGAAGGTCTCCGAGCAGTGCCGCATCCTCC
GCCCCCGCCACGCCGCCGACCGCTGATCCTCCGCCCTCCTCCGTGCCGGGCGATCGCTTGGCATGCCGGCGCGCGCATGC
ATCTTGCCGTCTCTGCTCTGTTGTTAATTTTTTCTTTCTTGTTTCGTCGTCGCATCACATATTTTTTTTTGTAGGATCGT
A----GTGTGTG-------ATTAATGACGTGCCGTTGTTGTGAG-------------ATCGGCTGAGGATTCAAAGGAGG
CAGCCGC----GGATTCTAATAAGAAATAAGAAA-----------------------------------CTGTAATAGGC
CAGATGATTTCTTTTTTGGATAAGATTGATGATTGATTATGTGCTTAA----CTGTTTCCGAAAAAAAAG-TGTGCTAAC
TTCGACTGG--------------------------CTCTCTATGCTGGGAAAGGCTGGGATAATGTCAGTGGCCTGGGCT
CCAAGCTTCACTGGGGTTTGCCTGAGCCCAGTTTCAATTTTTTTTTAA----TTTTTTTTGAGATGCTGAATTCTGTTTC
TGCCTTTGCTAGTCCCCTTTTTGTCTTTGCAAATTGGATTAACATGACATAATGCGGTTTAATTTTTGTGTGTTCAATTA
TTATGTTCTATAATACCTCCAACATTGCTTGGTTGAGATGCATTTGCAGTCTTACTGACCAACATGCCG--TACGGCTTC
GCGGCG--GTTCCGTCTTCCATCCGAAGGAGAAACCACCACGAACAGAAGTTCCCCTGCATTCAGGCAACTGATAAGTTT
TTCAAGCAGACTGGACAGACAGATCATTACAGGAGAGCAAGGCACCATCCGACCACCACTGTCAAATTACAGGACAGACA
GAACACACTGCTACCACCACCAGGCACCAGAACTTACTCAACAGCGGCAAAACGATTGCACGACTACCAAAGGCCAGTAG
ATA--------------------------ATTGACGAAATTCGAGGGTGATGCTACATTTGCTGACAAGATTGTATTCAG
CAGCGGTGCACGAATCTTCCAAAATTTTGATACCGTAGAACAATTCATGACGAAGACCTGCTGGAATGGGCACCTGATCG
TTGATCCTGCGCTTGACGGTGGCAATGGTGTCGAATCTCGAAACCTCCACGGTTATGATCTTACCTGCAGGGAACTCCAC
AGAGATCTGCATTTTTTGCAGGGAGGAGTGTTCCTCCAGCCTGTTATTGAACACGTCGGTCAGCGGTGTCCTCGAGGTAA
GCATGGCTTGCAGCAGCTCAACAGCCTGCAAGACAACAAATTAAATCTGGATCTAGCAATTGTTCTGCACAATTCTAGGC
TTCTAGCTACCTTACCTCTGGTTTCCCGATGGTGATCTCCATCTCGACAACGTTAGCCTTGTCTCTCCTGCACCAGTGCT
TCGTCACGGACATCCCGGAGGCCTGGTGCATCAGTAGATCATCGCTCACCACATAGTTTCGGTCTTCGACCAGGTCAAGA
CAGCAGCCAGCACACCAGCTATATGATACCAGACCGTTGTAGTTTTCCGGTTCCTCTTGGTGTTCTTTGGGAGTGGCGCA
CTTAGGGCGAACGCTGAATGGGCTAAGGGGTGGATTCAGCAGCGTCTCAGTGGACTTGCCACCTGTTAT-
>SNPs
-S-S-SSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------------------S--S-------S-S------
S-----------------------------------------S------SSSS------------S--------------
------------------------------S-S-S-------S--------S----S-----------------------
-------------------S-------------------------S----------------------------------
----------------------------------------------------------------------------S---
-------------------------------S-----S-----------------------SSSSS--------------
-------------------------------------S-------------S----------S-S----SS--S--SSSS
SSSSSSS----------------------SSSSSSSSSSSS----SSS---------S-S-SSS-----S----------
---SS---SS----S---S-----S-S-----------------------S-S----------------S-----SS-SS
-SSSSSSSSS----S--------S-S----S---S-----------S---SSSS---S---------S-SS----SS---
-----------------S---S----S--------S----------S-------S----SS----------S---SSSSS
S-------------------------------------------S-----------------------------------
------------------------------S----------------------------------------S--------
----------SS------------------------------------------------SS------------------
--------------------S-SSSS-------------------------------------------SSSSS------
-------------------------------------S------------------------------------------
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-----------------------------S--------------------------------------------------
-----SSSSSS-S-SS------------------S-------S---SSS-------S---SS---S--S-----------
SSSSS--------------SS----S---S---S---S-SS---SSSSSSSSSSSSS-S----S------SS--S-S--S
SSSSSSSSSSS------S-----------SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------S---
---S-----SS---SSSS--S-----------------------------------------------------------
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---------------------------------------------------------------S-SS-S-S---------
----------------------------SS-------------SS-----------------------------------
-------------S---------------S-S------------------------------------------------
----------S------------------------------------------------------------------S--
------------------------------------------S--S--S--------S----------------------
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----------------------------------------S---------------------------------------
----------------------------S---------------------------------------------------
--------------------------------S--------S----S-----------S----------------S----
---S-S------S------------------------------------S------------S-SS-SSS
>forward_543
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-------------------------------------------AGGAATGCGAAGTGTGTCGT-----------------
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>reverse_1746
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-----------------------------------------------------------------GCTTCTGTATTGGGC
CAGGT---------------------------------------------------------------------------
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