>input_sequence_74442
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------------------------------------------------------CAATAAATTCGCCATCACAACCCATG
CGCACCCAAACCAAACCGCCTTCACGCAATCACTTCCGTCGACGCTTCGAGCAGATCCACCACCGCTCCC-----AATTC
CCAACCCCCAACACCAGCCATCTC----CTCCATGGCGCGGGCACCCGTCCTCCTCCTGCTCGCCCTCCTCGCCGCGGCC
CTCGCCGCGGCCACCCCGGCGGCGGCGCTGGGCGGCCGCGGCGCGCGGGTCGGCGGGTGGGGCCCCATCCCGGACGTGAG
GGACGCGCACATCCAGGAGCTGGGCGGGTGGGCGGTGGAGCAGCACGCGAGGCTGGCCAGCGACGGGCTGCGGTTCCGCC
GGGTCACGCGCGGCGAGCAGCAGGTGGTCTCCGGCATGAACTACCGCCTCTTCGTCGACGCGGCCGACGGCTCCGGCAGG
AGCGCGCCCTACCTCGCCGAGGTCTACGAGCAGTCCTGGACCAAGACCCGCCAGCTCACCTCCTTCAAGCCGGCGGCCAA
CTGATCCGCTCCCCCTCCGGCGCGCGTCGATCCGCGGCCGGCGACCGCGTCCGCTCCGGTTAATCTCGTCCGCCCGTCCT
TTGTA------GTAG----TACCACTAG---TGCTGCCA-----------------------------------------
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>chr2D_1_TraesCS2D01G128900
AGAAGAAGACCATGGCTAGCACTGCAATGACAAGCAAAGCCGCGACCAGTGGCAACACGACATCCATCATCTTGGAGCGA
GACTTGGGACCCATGTGTGGCAGGGTGGGCAGCTTGGAGATGTCTAGCAGCGGGGCAACCCCGTCCATGCTGAAGCTCCA
TCCAAGGAGATAGTGGCGTGTGCCTACGCCATAACCTCCAGAAGCCGAAAAACCAACGTACATCTTGTCCGCCATGACAG
TGGAGAGATCAATGACTTCAGAGAGTAAAGGATTCCTGGGCTTTGGTACTTGGACAAGTGCTAATGTCACGTTGAGTCGG
CTAGACTGGGCATCATAGTCGGCCCGGCTCTGTAGCGACGCGGCTCGAGGAACAGGAGAAGACGATCGCGCGGGGACTGG
ACCGCTGAGCCGGTTCGGTGGCAAGGCCCGAGGGGCAGGGCGAATCCCTTTTTACATCGTCCTTTTGGTTTTTCAATGTA
TTCTAATATGTTTCTCCTTTTTTTAACACCGTTTTCTATTTATTCTTATCAACTAAATGATCTCTACTTCTAATGTCTCA
GTTGCTAGTCTCCGTTCCGGGTTTATTTTCGTCCCACCTCCCGAGTGAGGGAAAGGAGGAGAGAGAGTGAGGAAGAGGGA
GGAAGAGGGTGTGTGTGAGAATTTGATGGTAAAAAAAAGTCGTCAATGTCACTTAATATGTATGAGAATATTTAATATAA
TATTAACATAATTGATATTGAATTTTTAAAGTTAATGTGCCCGTTGCAATGCACGGGCGTTTTTCTAGTAATAATAAAGA
AACTGAAAACCGCCGAAAAAACCGTTGGCGCACTCTGGAATGTGCCGAGGGGCCCTATGAGGCCACT-------------
-GAGGCCGAATGAGATGCTTTGGAAGTCTTCACCGCACACAGCAGCGTTCACGTTCACGTGCATTGTTTGGGTCAAAAAA
GTCATTCGTTCTCCTATCGCCACTTCGCATGGGCCCTTTGGCTCCGAGACCGTCCAATAAATTCGCCATCACAACCCATG
CGCACCCAAACCAAACCGCCTTCACGCAATCACTTCCGTCGACGCTTCGAGCAGATCCACCACCGCTCCC-----AATTC
CCAACCCCCAACACCAGCCATCTC----CTCCATGGCGCGGGCACCCGTCCTCCTCCTGCTCGCCCTCCTCGCCGCGGCC
CTCGCCGCGGCCACCCCGGCGGCGGCGCTGGGCGGCCGCGGCGCGCGGGTCGGCGGGTGGGGCCCCATCCCGGACGTGAG
GGACGCGCACATCCAGGAGCTGGGCGGGTGGGCGGTGGAGCAGCACGCGAGGCTGGCCAGCGACGGGCTGCGGTTCCGCC
GGGTCACGCGCGGCGAGCAGCAGGTGGTCTCCGGCATGAACTACCGCCTCTTCGTCGACGCGGCCGACGGCTCCGGCAGG
AGCGCGCCCTACCTCGCCGAGGTCTACGAGCAGTCCTGGACCAAGACCCGCCAGCTCACCTCCTTCAAGCCGGCGGCCAA
CTGATCCGCTCCCCCTCCGGCGCGCGTCGATCCGCGGCCGGCGACCGCGTCCGCTCCGGTTAATCTCGTCCGCCCGTCCT
TTGTA------GTAG----TACCACTAG---TGCTGCCAATAAATGAGTCGCGTGGTTTGGCCGTCACTC-----CTGCA
GTTCATCATCCTGACT----ACCACTACTAGTATACT--T---ATT----TGGCAAATA---------------------
-------------------------------------------------------------AAATCGTGAGTACTCTGAG
ATTGTTGTGATCCCTGGCTGCCATCCATTGCTGA---------TGCTTGCTTCCGAAGGAAGAGGGGTGGTTTCACTGCA
CGCTCACGCGCACTGTTTTGCTTCTGGCGATGATTGTCTTGTCCGTCAAGTTTCTGGAACGCAAAAGGTTGTGCCAAAAC
CCCGTGAGCGTGAGGAGATCTGCTTTGC--CCTGGAAGCTTGT-GTACTTTACTCTTTTATTTCTTAGAATTCTGGAGGC
TTGTGTAAAGTCATGCAAGCCGCCGATCCTACTTGAAAGGTTACTTTCGTGTAGTAGT--------TCTGAATTTCAATC
ACTATCGT-CTATGGGCTCACGTGAGGGCAAGTCTTTGTCAATGAACCAGTGGGCAGCC--TGTTTTCAGTAGAAAAACC
ATTGGACAGCCGTTGATCACCTGATTATTCGGGAGGTGCTTTGCAGTTTCGTGTATACGGCCGGGCGCCCTAAATCCGTC
TCAAACGCAACCTCATCTCCTTGAAGCCGGCGGCCAACTGATCCGTTCGGCGCATGTCGATCTGCAGCCGGCGACCGCGT
CCGATCTGGTTAATCTCAACTGCTCGTCGTCGTGTCTGTAGTGCCGCTAATAAATGAGTCGTGTGGTTTGGTCGTCACGC
GCTGCAGTTCATCATCCTGACTACTAGTAGTATATTTCTATTAATGCTGTGGTGGGTGCTTCATTCGTGTCTCATCTGCG
CCCATTGCTTGATTCCGAAGGAAGAGGGGCAAAGGTTTCACTGCACGATCACGTGCACTGCTTCGCTTAAGGCTATGATT
ATCTTATCTATGAAGTGTCTGGAACCAAATGCTGTGCCAAAAACCCGTGGGGATCCGCTTTTGGAGGCTTGTGTAAAGTC
ATCATGCAATGCATGTCGGCAATGCTAGTTGCAGCTGCAAAT
>chr2A_793
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------------------------------------------------------------------------AATAAAGA
AACTGAAAACCGCCGAAAAAACCGTTGGCGCACTCTGGAATGTGCCGAGGGGCCCTATGAAGCTTCAAAAAGTCATATAG
GGAGGCCGAATGAGATGC-------------------------AGCGTTCACGTTCACGTGCATTGTTTGCGTCCAAAAA
GTCATTCGCTCTCCTGTCGCCACTTCCCATGGGCCCTT-GGCACCAAGACCGTTCAATAAATTCGCCATCACGACCCAAG
TGCGCCCAAACCAAACCGCCTTCACGCAATCACTTCCTTCGACGCTTCCAGCAGATCCACCACCGCTCCC-----AATTC
CCAACCCCCAAGACCAGTCTCCAGTCATCTCCATGGCGCGGGGACCCGTCCTCCTCCTCCTCGCCCTCCTCGTCGCGGGC
CTCGCGGCCGCCGCCCCGGCGGTGGCGCTGGGCGGCCGCGGCGCGCGGGTCGGCGGGTGGGGCCCCATCCCGGACGTGAG
GGACGCGCACATCCAGGAGCTGGGCGGGTGGGCGGTGGAGCAGCACGCGAGGCTGGCCAGCGACGGGCTGCGGTTCCGCC
GGGTCACGCGCGGCGAGCAGCAGGTCGTCTCCGGCATGAACTACCGCCTCTTCGTCGACGCGGCCGACGGCTCCGGCAAC
AGCGCGCCCTACGTCGCCGAGGTCTACGAGCAGTCCTGGACCAACACCCGCCAGCTCACCTCCTTCAAGCCGGCGGCCAA
CTGATCCGA-CCCCCTCCGGCGCATGCCGAT-------------CCGCGTCCGCTCCGGTTAATCTCGTCCGCCCGTCCT
TTGTGTAGTTTGTAG----TACTGCTAG---TGCTGCCAATAAATGAGTCGTGCGGTTTGGCCGTCCCGC-----CTGCA
GTTCATCATCCTGACT----ACTACTACTACTACTAGTGT---ATT----TGGCAAATA---------------------
-------------------------------------------------------------AAATTGTGAGTACTCTGAG
ATTGTTGTGATCCCTGGCTGTCACCCATTGCTT---------------GATTTGGAAGGAAGGGGGGTGGTTTCACTGCA
CGCTCACGTGCACTGCTTCGCT-AAGGCGATGATTATCTTATCTGTGAAGTTTCTGGAACCGAAT--GTTGTGCCAAAAC
CCCGTGAG------GAAATTTGCTTTAGATTCTGGAAGCTTGT-GTGCTTTATTTTATTTTTTAG----ATTCTGGAGGC
TTGTGTAAAGTTATGCAAGCCGCTGTTTTCTGTTTCACGTGGATAAAATCTGGCTTTCTCGTAGTGTCTGAATTTCATTC
ACTCACTCACTATCGGGTCATGTGAGGGCATGTCTTTATCAGTGAACTGGTGCGCGTTCTTTGTTTTCAATTGAAAAAC-
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>chr2B_938
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-----------------------------------------------------------------------GTCCAAAAA
GTCATTCGTTCTCTTGTCGCCACTTCCCATGGGCCCTTTGGCACCGAGACC--TCCAATAAATGGCCATCACAACCCATG
TGCGCCCAAACCAAACCGCCTTCGCGCAATCACTTCCTTCTAG----CGAGCAGATCCACCGTCCCCAACCCACAACTCC
CCAGGCCCCAACACCAGTC------CATCTTCATGGCGCGGGTACCCGTCCTCCTCCTC---GCCCTCTTCGCCGCGGCC
CTCGCGGCCGCC---CCGGCGGCGGCGCTGGGCGGCCGCGGCGCGCGGGTCGGCGGGTGGGGCCCCATCCCGGACGTGAC
GGACGCGCACATCCAAGAACTCGGCGGATGGGCGGTGGAGCAGCACGCGAGGCTGACCAGCGACGGGCTGCGGTTCCGCC
GGGTCACGCGCGGCGAGCAGCAGGTCGTCTCCGGCATGAACTACCGCCTCTTCGTCGACGCGGCCGACGGCTCCGGCAAG
AGCGCGCCCTACGTCGCCGAGGTGTACGAGCAGTATTGGACCAAGACCCGCCAGCTCACCTCCTTCAAGCCGGCGGCCAA
CTGATCCGCTCCCCCTCCGGCGCATGCCGATCCGCGGCCGGCGACCGCGTCCGCTCTGGTTAATCTCATCTGCCCGTCCT
TCGTA------GTTTGTACTACCACTAGTGCTGCCAATAATAAATGAGTCGCGCGGTTTGGTCGATCGTCACGCGCTGCA
GTTCATCATCCTGACT----ACTACTAGTAGTATATT--TCTACTAATACTGGCAAATA---------------------
-------------------------------------------------------------AAATTGTGAGTACTCTGAG
ATTGTCGTGATCCCTGGCTGTCATCCATTGCTAA---------TGCTTGATTCCGAAGGAAGAGGGGCGGTTTCACTGCA
CGCTCACGTGCACTGCTTTCCTTCTGGCGATGATTGTCTTATCTGTGAAGTTTCTGGAACCAAATAAG--GTGCCAAAAC
CCCGTGAG------GAGATTTGCTCTGC--TCTGGAAGCTTTGCGTGCTTTATTTTATTTTTGAG----ATTCCGGAGGC
TTGTGTAAAGTCATGCAAGCCTGCGATGCCACTGCAAAGATTAGTTTCGATCGTGTAGTTCT------------------
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>chr2A_1463
TCTGAATTTCAATCACTATCGCCTATGGGCTCACGTGAGGGCAAGTCTTTGTCAATGAACCAGTGGGCAGTCTGTTTTCA
GTAGAAAAACCATTGAACAGCCGTTGGTTACCTGATTGTTCGGGAGGTGCTTTGCCGTTTCGTATAATACAGCCGGGCGT
GTCAAATCCGTCTCAAACTGGCAGGTTGACCGGTCAAGAAAAAACACCCGCAAC--------------------------
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------------------------------------------------------CTCACCTCCTTCAAGCCGGCGGCCAA
CTGATCCGC-CCC------GCGCATGTCGATTTGCAGCCGGCGACCGCGTCCGCTCTGGTTAATCTCATCTGCCCGTG--
-------------------------TAG---TGCCGCTAATAAATGACTCGTCTGGTTTGGTCGTCACGC-----CTGCA
GTTCATCATCCTGAGTGGTGAGTAGTACTACTATACT--TCGCATT----TCGCAAATACTCCCTCCGTCCCAAAATAAA
TTACTCAACTTTATACTAAAGTTAATATAAAGTTGGGTTATCTATTTTAAAACGGTGGGAGAAATTGTGACTTCTCTAAG
ATTGCTGTGGTGCGTGGCTCATCCGTGTCTCATCTGCGTCCATTGCTGGATTCCGAGGGAAGATGGGCGGTTTCACTGCA
CGCTCACGTGCACTGCTTCGCTCAAGACTATGATTATCTTATCTATGAAGTATCTGGAACGAAATGC-------------
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--------------------------------TGTGCCAAAAACCCGTGGGGATCTGCTTTTGGAGGCTTGTGTAGAAGT
C-------ATGCGAGTCGGCAATGCTAGTTGCAGCTACAAAT
>SNPs
SSSSS-SSS-S--SS---S-S-SSSSSS-SSS-SSSS--SSSSSSS-SS--S---SSSSS--SSSSS--SSS--SSSSS-
-SSSSSSS---SS--SSSS--S-SSS-SSSSSSSSSSSSSS-SSSS-SSSSSS-S-SSSS-SSSSS--S-S-SS-SS-SS
SS---SSSSS-SSSSSSS--SSSSSSS-S-SSSS-SSSS-S--S-SSSSSS-S-SSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------
------------------------------------------------------------S--SS-S-------------
------------------SSSSSSSSSSSSSSSSSSSSSSSSS---------------------------S---S-----
---------------S----------S---------------S----------S--------------------------
S--S---------------------------------S------------------------------------------
-----------------S-SS-SS------------------S---------------S---------------------
-----S--S---S-------------------------------------------------------------------
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-------------------------S----------------------------------------------------S-
------------S-------------------------------------------------------------------
-----------------------SS-------------------------------------------------------
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----------------------S---------------------------------------------------------
-----------------------------------------------------------------S--------------
--------------------S-----------S----------------S------------------------------
--------S------S------------------------S--S--S--------------S--S-S-------------
--------SSSSSS-----S----------S---------------S-----S-S-S--S---SSSSSS-----------
---------------------------S-S----S----S---S-----SSSSS-SSS-------------------S--
---SS-SS-----S--S---S---------S------S---S-----SS---S--SSS-----------S-S-------S
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------------S-------------------S-SSS
SSSSSSSS----SS----------------------S-----
>forward_322
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--------------------------------------------------------------AATGTCACGTTGAGTCGG
CT------------------------------------------------------------------------------
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>reverse_2177
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----------------CTCACGTGAGGGCAAGTCTT--------------------------------------------
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