>input_sequence_87317
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----------------------------------------------------------ATGGCGCGGTTCGACCCGTGGC
CGGTGTTCTTCCGGAGGGAGTGGGCCCGCACCTGGCCCTTCCTGGCGGGCTTCGCCGTCACCGGCGCCCTCGTCACCAAG
CTCACCGCTGGGTTCACCGAGGAGGACCTCAGGGCCTCCAAGTTCGTCCAGGCGCACAGGCGCTGA--------------
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>chr3D_1_TraesCS3D01G537200
GCAAAGCGTTGTGGTGGCACAAGAAGGACCATGTTGTGAGCATAAATTGTGGAGGAGGGCCCGTCGATGGATGTTGGGGG
CACTGGAGCATGAATCCGCCCACTAATCGGAGAAGCGCAACGCCGCGAGCCTGATAACGATGTCATGGATCGACACCAAG
ATAGCATCTCATGGCAAACTTGCTGAGAGAAAGAGCAGTCGGCAAGTAAGTGTTGAAGATCTTTGGGATCCTGGTCACAC
GAGACGCATCGGTCACAAAAAAAAACTTGGTTTGAACGTCAAACTAGCCGTGGTTATATGTCTTTGGCCAAAGGGGATAT
CTTCCCTTCATACCGATTGATCGGCCAAGAGACAATCGAGAAGAAAGAGAAAATAAAATAAATACAAGAGACATCCATCT
GCTCGCATAATGAAAAGGAATCATGAAAAACGACGTACGGTTTGCGATGCAAAATCATGGTGACTCCTCTCATGCGGCAT
ATGCATACGCCTAGACATATATGGTAAGCAATTTGAAACAAGCTTGAGCGAGGACTCCTTCTCTCTCTCTCCCCCCCTCT
TCCTCGGTGTTTATATATTGTACTCCCTCTGTTCCCAAATATAAGTCTTTGTAGAGATTTCAACAAGTGACTACATACGG
AGCAAAATGAGTGAATCTACACTCTAAAATATGTCTACATACATTGTAGTCCATTTGAAATGCCTAAAAAGACTTATATT
TAGGAACGGAGGGAGTATAAAAATAAAAATCTTCATGTGCAATTCAAAAACATCTCCTTCCTGAAGCTTTTTTTGGGAAG
AAAAGAAGTGTTTAACCAGAAACCCTCCATTTTTCCGCGAGAGAACCGGG------------------------------
--------------------------------------------------------------CCCGAGCAGACGACAGAA
GAATAGGTGAGCAGCCCCCTACCCTCGCCACAACGACCGAACACTCTCATTCTCTCCGC------CTCGCCGCAGCCACC
GGAGCAGCGACCTCGACCGGATCGACGACCCCGACGAGCGGCGGAGGAGCAGTCGGATATGGCGCGGTTCGACCCGTGGC
CGGTGTTCTTCCGGAGGGAGTGGGCCCGCACCTGGCCCTTCCTGGCGGGCTTCGCCGTCACCGGCGCCCTCGTCACCAAG
CTCACCGCTGGGTTCACCGAGGAGGACCTCAGGGCCTCCAAGTTCGTCCAGGCGCACAGGCGCTGAGCCCCTCACCTCAG
CTCAGGTCACGTCACCCCCACCCCTCCCCGTCTCATCGTATGATCAGCCCTGATTCGGCGTCTAGTAGGTCTGCGCGTTC
GTTCATCCCATTGGATTGGATTGGATCGGATTCAGCCCTGCCCGGCAAGGCTGTGTGAATTTAGATGCCTGCGCCTGCGT
CGAATTTACCGTGCGGATTTAGATGCCTGCGTCCTCGCGTGGATGCGCATAGCAATTCGGTGGACCTGCAGCTCGTGTCA
TTGAAATGCCGTGCATTTTAACATGGGAAAGAAAATCATCATGGACGGCCGAATCATTCCATTTCCCTTCATCGTAGTCA
CATGCTACATGCCATTTCGCCTCCCCCTCTGCGCATGTGTGCTCGGGTTCAGCGGTTGTTTTCGCCTTCCCCTCTGCGCA
TAGCTATTTGTTTTGGCTTTTTGTAACTGGTCATGGACAGGGTTTGCTTTCCTGATTGGCCTAGCTGTTTTCCTTCAGAT
AAATTACTAGTAACCCTATGTTGTTACTACAAGCAGCGGTTGTGGTGTTGAGCTTTTCTTTCCAATATACTCCCTCTGTA
AACTAATATAATTAAGAGTGTTTAGATCACTACTTTAGTGTTCTAAATGCTCTTATATTAGTTTACAGAGGGAGTACTAT
ATAGCATTACCAAGATGCTTCAGAAATCTGTTTTGTTGTCAGCAGTAATCATGTGCGATACTTCTGTGAACACTACATCT
TTTGCGGCGATCTTTGTTATGGCTGA------TTGCTGAGCTAACTACGAGTTTATGCCAACATAATTTAGTCCATATGC
TGTAATAAAACCCTGACGTGTTGATCATTTTG-TTTCCTCCAGGCTGGGACGAAGGAATGGCTCCCGCAATTTTCACTGA
ATTAGTCCCATCGACGTGTTTGACAGCTTTTTTTGTATGTCAT------TCGAATGAACTCGCTGAATGCAAGCCATAGC
ATA--CCCAAGTTTCTGTTGTAATTTTTTGTAATAAGAGGT
>chr3B_846
AGCAGCCCCCTACCCTCGCCAGAACGACACGAACACTCTCTCATCCTCTCCGTTGGTCTCGCCGCAGCCAGCGGAGCAGC
GACCTCGACCGGATCGACGACCCCGACGAGCGGCGGCGGAGATGGCGCGGTTCGAATATCTACAGATAAGCACAAAAAGG
ACTGTCATCAATGTAACAGACTTGATGCTCAAGCAATCCATGTGTCTTTGATTCCTTAAAGAAAGGGAAGAGCGGACGAG
GAGACCCAACCCCGCGTCCACGCTGAAAGCACCATGACGTGGCCACCAACACCACCTGAATCGAGGCAGAAGCATCATAG
TAGATGGCACTCATCCACAATCATTTGATCATATTTGGGGGAATCAACCCTCACCCCTTCCCCCCAAGAGGTTGGAACCA
ACACCACAGGGCCGAGGTCAGAGATAATTATTTCACTGCGGTGTTGCCTCCACAGCCCAAACTAGCGACAAGAGGGCACC
AAAACCTACAAACGAGACTAAAACTTCCTATGGGTGCGAAATCTATCGTGTGATGGGTGCGTGCGGTTGTATTGGGCACT
GATGGTCTATGCTTTATATATAAAGCGGGGCGAAAGCCTTTTTCGCTAAACTTGTTGAGGAAAAGAGCAATCGACAAATA
AGTGTTGCAGATCTCCGGGAACTTGGTCACACAGAACGCATCCGGTCGCAAAAAACGTGATCTGGATGCCAAACTAAGTA
TGGTTATTATGCCTTGTACAAGGCAAGGTGCTTATGAAAACAAATCGGTTGTTATTGAGCATCGATACTTATTTATAGAG
GGTAGACGCTTAATTAGGCATTGCTCCTATAATGATAAGCACATGTGCTTGACAAAAACATCTTTAGGAAAAAAAGTTAT
CCAGAAACCCTCCATTTTTCTGCGAGAGAAGCGGGCCACTGGCCGAGAGCGGCCCGGCCCGGCCCGAGCAGACATAATAG
GTCTGTC--AGCAGCCCCCTACCCTCGCCAGAACGACCGAAAACTCTCTCATCCTCTCCGTTGGTCTTGCCGCAGCCACC
GGAGCAGCGACGTCGACCGGAT---CGACCCCGACGAGCGGCGGCGGAG---------ATGGCGCGGTTCGACCCGTGGC
CGGTGTTCTTCCGGCGGGAGTGGGCCCGCACCTGGCCCTTCCTGGCGGGCTTCGCCGTCACCGGCGCCCTCGTCACAAAG
CTCACCGCCGGGTTCACCGAGGAGGACCTCAGGGCCTCCAAGTTCGTCCAGGCGCACAGGCGCTGAGCCCCTCAGGTCAA
CCACCCGCCCCGTCCTTGTCGCTCAAACCCCGATCCGGCATCCGATTAGGCCCTCGCGCTCATTCC--------------
-----------------------GATCAGATTCAGCGACGTTTCTTGGTCCGTTCCCCTCCTGCCGGGTGCGAGCGCCGT
CGTTAGGCTAGGTCGGCGAGTCATGCTACGATTACTGATTTACGTACGCACCTATTGCCATGGACACCATTTCACCCTGT
CCCGGTTCACGGCGGTTGCTTGCCTGGATATGTAACAGTGGCTCCGGATCATGGCGATGCCGTCGCTATTGCAGAAACGG
GCATCCTTTTTGGACCATTCAATGGATTCGATCACTTGATCGGTGTTTGCGAGGCAAGACTGAAACCGTGAGCTGCATTG
TCCGTGTTGATGTCTTTGTATG-----TGGTCATGGCCAGGGTTTATTTTCCTAATTGGCCTAGTTGTTCT-CTTTAGAT
AAATTACCAGTAACCCCTTGTT----------GCAGTGGCTCTAGTGTTGAGCTTTTCTTTCCAATCCAATATATAACAT
TA------------------------------------------------------------------------------
-----ATTACCAAGACGCTCCATAAATCCGTTTTGCTGTCGTCACTGTTCCTGTGTGGTATTGCTATTAACACTACATCT
TTTGATAC-ATCTTTGTTTTGGCTGGTTGTTGTTGCTGAGCTAACTACGAGTTTATGCCAACATAATGTAGTCCATATGC
TGTAATAAAACCCTGATATATTGATTATTTTGTTTTCCTCCAGGATGGGACGGCTCCTGTAATTC--------TCACTGA
ATTAATCCCATCAACGTGGTTGGCAGATTTTTTTTTAATACGTTATTAGTCGAATGAACTCGCTGAGTGCAAGCCAATAG
TATACCCCAACTTTCTATTGTAAC-TTTTGTAATAAGAGGT
>SNPs
SSS-SS-SSSSSSSSSSSS--SS-S-SSS-SSSSSS-SSSSSSSSS-SSSS-SS-SSSS-S-SS-SSSSSSS-SS-SS-S
S--SSSSS-SS--SSSSSSS-S-SS-SSS-S-SS-SSSS-SSSS---S-SS-SSS-SSSS-SSSSSSS-S-SSS-SS-S-
-SS-SSSSSS---SS-S-SSSSSSSS-SSS---SSSSSSSS-SSSS-SS-SS-SSSSS-SSSSS----SSSSS-SSSS-S
-----S--S-SSSSSSSSS-SSSSSSSS-SSSSSSSSSSSSSS-SSSSSSSSSSSS-SSS--SSS-SSS--SSSSS---S
SSSSSSSSSS-SSSSSSSS---SSSSS-SSSSSSS-S-S-S-SSS-SSSSSS-SSSSS-SSSSS------SSSSSS-S-S
S-S-SSSSSSSSSS-S-SS-SSSSS--SS-SSS-SSSSS-S-SSS-SSS-S-S-S-SSSSSSSSS-SS-SSSS-S-SSSS
-SSSSSSSSSSSS--S-SSS-SSS-SSSS-SSSSSSSSS--S--SSS-S-S-SSSSSSSSS-SSSSS-S-SSSSSS-S--
SSSSSSS-S-SSS-SSSS-S--SSS-SSSSSSSSSSSSS-S-SS-SSSSSS-S-SSSSSSS--SS--SS-SSSSSS-SSS
--SSSSSSSSS-SSSSSSSS---SSSSS-S-SSSSSSSSSS-SSSSSSSSSS-SSS-SS--SSSS-SSSSS-SS--SS-S
-S-SS-SSSS-SSSSSSSS--SSS--SSSS---SSSSSSSS-SSSSSSSSSS-S-SSSS-S-SS-SSS--S---SSSS--
SSS---S-SS-SSSSSSSS-SSS-SS-S--SS-SSSSS-SSSSSSSSSSS------------------------------
-------------------------------------------------------------------------SSS-S-S
-SS-SSSSS---------------------S----------S------SSSSS---SS---------S------------
-----------S----------SSS-------------------S----SSSSSSSSS----------------------
--------------S-------------------------------------------------------------S---
--------S-----------------------------------------------------------------SS---S
-SSSSSS-S-SSSS-SSSSSS-S-SSS--SSSSSSSS-S--SSSSSSSSSSSS-SSS--SSS-SSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSS----S--------SSS-SSSSSSSSSS-SS-SSSSSSS-SSSS-SSSSSSS-SS---
--SSSSSSSS-SS---SSSSSS----SSSSS-SSSS-SS-SSSSSSSSSSSSS-S-S-SS-----SSSSSSSSSSSS-SS
SSSSSS-SS--SSSS--SSSSSSSS---S-SSS--SSS-SSSSSSS-SS-SSSS-SS-S-SS-SS-SS-SSSS-S-SSSS
SSSS-SSSS-SSS-SSSSS-SSSSSSS--SSSSSS-SSS-SSSS-SS-S-SSS-SSS-SS-SSSS-SSSSSSSSSSSSSS
-SSS-S--SS-S-SSSSS-S-SSSSSS---------S--------SS------S----------S----S-S---S----
-------S--------SS----SSSSSSSSSS----S--S-S-S----------------------SS-S-SSS-SSSSS
S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSS----------S---S--S-----S------S----SS--S-SS--S----S-S--S-S--S-S------------
----SSS-S---------S------S-----------------------------------------S------------
----------------SS-S-----S------------------S-------SSSSSSSSSS-S-SSSSSSSS-------
----S-------S-----S---S---S-------S--SSS-S------------------------S---------SSSS
SSS-------S-----S------SS----------------
>forward_407
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-------------------------------------------------------------------GAGACATCCATCT
GCTCGCA-------------------------------------------------------------------------
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>reverse_1355
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--------------------------------------------------------------------------GCGTTC
GTTCATCCCATTGG------------------------------------------------------------------
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