>input_sequence_76962
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--------------------------------------------------------ATGGCCGGCGTCGAGTGTGTCTGC
CCTGGCAAACGAAAGGCGGGGTCTTTTTCCGGCGAGGAGTGTTCCCCGAAGGCCAAGAGGATGGTCGGCTGTTCCCGAGG
AGAGGAGGAGATTCCGGCGGCGAAGAAGATGTGGCGGCTGCCGCGGGAGGAGGTCGACCGGATCGTCGACTGGTCGCCGT
ACGTCCCTCCCGCCGTGTACCGAGACCTGAAGCGCGACAACCCGTCGCTTCTGCCATCGCCGGAGGAGGAGAAGGACGAG
CGCACGGTGCTCCTCTACCGGCACGCGCGCGAGTGCTACGAGCATCTGGATAGGTTCGCCGGCTTCCAGGCCAGGGTCCG
CCGCGAGTACGCCTCCAAAGGATTCGTGGAGGTCGACTACGACTGCGTCGGCGCCGAGGCCCAGGCGCGGAGGCGGATCG
ACCAGGCACGTGGTGAGGCTTTCAGAGCCATCGTTGCTCATCTAAAATCAGAGGTCGTCGTCGACGCCGACACGTTCCAG
CAACTCGAAAGGAAAATGATGGACGGTTTCTGA-----------------------------------------------
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>chr3A_1_TraesCS3A01G027000
AGGACATTTGTATCCTAGGCCTATCATATATAGCGGGGCTAGACACATGATATAATCTATGCCAACATAATAGCACAGTA
CGTAGGGGGAGCCAGCGGCGTGTGCCGGCGCCCGGGTGGCCGGTGTGCGATATTGTGACGGTGTCACGGGGAGGAGCGCC
CGTAGTCAGGCCTCGCGGATGTAGCCATATCGGTGAACCTCGTTAACAAATCTCGGTGTCGTGCTTGTGTGATTGCTTGG
TCTTTGGATGATCAACGGTATGCCTCAGATTTATTCTAACATATATGGATGGAGGGGTATAAAAATTAGTCAAAGCTCAG
GCCCCGTTCGATGCAAAGGTTTGTAAAACCATAGGACACTATAAAATGGAGGAATGGCATGGGGATGGAGTGGTAAAACT
CTGGAGCTAGAATCCATAGGAGAACTGAAAGAGACGCGTTCGGTGAGAGCATGTGAAGGCACAGGAAAGGTAGGACCCAG
TAGCACCTCTTTGCCAGATTTTTTCCTTATCAAATGTGTTTTTCCGTGTGTGGTGCCTCCACGTGGCAGCTGTGGGGTCC
TATTTTAGCAAGACAACAAAGTCACATCAACTTTCCTTCACTTCCCCTCGTGCTTCCGCCCAAAAAATGCGTTCATACTG
GATGTTTTTCTTCCTGTAAAAATGGAGGCAGCCACAACTTTCCTTTGGAACCTGAAGAGTCGAATCCTGTGGACCGAACG
CAGATTTGGGAAACTTTCCGGTGGTTTCTTATTCCTGCACATATCCTGTAAAATTCCTATGTACCGAACGCACCCTCAGT
CTTTAGTTAATCACGGTTTTGCACAGAGCGTCATTTCGGTTTGGCTCCGAGTGTGACTGAGATAGTCCGA------CGCG
TGAACGGGG-----CTTAAACCAATATAAGGAGGAGCAAGCCT-CCTCCCCAAAATCGAAAATCGAACGCGGGCAGCCCC
CAATCCAGATCTCAACATCTCCC---GGCGAGTTGAGCAGAAATCAG-ATCAGCCGATGGCCGGCGTCGAGTGTGTCTGC
CCTGGCAAACGAAAGGCGGGGTCTTTTTCCGGCGAGGAGTGTTCCCCGAAGGCCAAGAGGATGGTCGGCTGTTCCCGAGG
AGAGGAGGAGATTCCGGCGGCGAAGAAGATGTGGCGGCTGCCGCGGGAGGAGGTCGACCGGATCGTCGACTGGTCGCCGT
ACGTCCCTCCCGCCGTGTACCGAGACCTGAAGCGCGACAACCCGTCGCTTCTGCCATCGCCGGAGGAGGAGAAGGACGAG
CGCACGGTGCTCCTCTACCGGCACGCGCGCGAGTGCTACGAGCATCTGGATAGGTTCGCCGGCTTCCAGGCCAGGGTCCG
CCGCGAGTACGCCTCCAAAGGATTCGTGGAGGTCGACTACGACTGCGTCGGCGCCGAGGCCCAGGCGCGGAGGCGGATCG
ACCAGGCACGTGGTGAGGCTTTCAGAGCCATCGTTGCTCATCTAAAATCAGAGGTCGTCGTCGACGCCGACACGTTCCAG
CAACTCGAAAGGAAAATGATGGACGGTTTCTGA---CTGTCTGAAACCAAACTCAG----ATGTCTGATGCTGTTGGCAG
TCAGGCCAGTTACTCTTATGTAGT----------------------------ATTATGAGGGATCTAG------CTAGGT
GTATGCTCCGTCCCAA--GTGATCGATTGTGCTTCTTTGTGCCTTGTCACAACGTCACTGATCCAATGAATGCAATTTGC
CGATTC----AG--------AAAGAAAGAATGCAGCTTTTCATCATTGATTTAACA------------------GCTCAG
TTTTGTAGCTTACTGTGGGAATTACCTCTGATTTATCAACCCTGACGACTTGTTAGGATTTATCTCTGATTATTACCCCT
GTAGTTTTTTACAAGTACA----TAGTACTTGTTACTTTATCATGAATGGATTACTACACCATGAGAGA-TTGCACATTA
CTTT--GAGAAAA----CGGCTGTCCGTAAGGCCCAGCTATATATTGAAAGGAACGGAATAGAAAACAGAGAGGAGCCTC
AGTCAGAAGCTTAGCAATGATTTTCGAGATGAAAGAGTTCTGCTTGCACGTTGTTGTCATGGACACGGTCGTTTTCATGT
TATGATAGGCATCG----GAGTTGTGTCCTCCTGTTTTCACAAGAGCATGATTGTAACCCTGCAGTAATATACTCCAGTG
AATGCAAGCAGAGTTTGTTTTTGTCCCGACTCAACAAAAAGAAGCAGCTGATGAACAAACAGAGTTTGTTTTTGTACCTT
GTTAGTGTCCTGTAGTTTAGTAAATTTGTCTGACAGCGTCGATGCATAC----TTGTTTCAGTTATACTGCAACCAGATG
CATTTGTCTCTTTTGAGGACATTGGCACATCGGTGCTTCACAC--TAACTTACCATTTGTATTTGTATTTTTATTTTTAT
TTGTAATCCATCACATTGCTGATGTCTGTTATTTTCCCTGTACATGGCCATATGCCCACATACAGGTTCTGTTGCAACGT
CTGGGGCTGTGCATGTGCTATCTTCTCGCACGACTCCACTGATTCATCTCCAGGCCTTGCGATGGTGCCATTGCCATGGA
ACCGAGG
>chr3A_801
CTTATAA-------------------------------------------------------------------------
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------TTAATCACGGTTTTGCACAAAGCGCG---------TGGATCCGAGTGTGACTCAGATAGCCCGAGCCCGACGCG
TGGACGAGG-----CTCAAACCAATATAAGGAGGAGAAAGCCCCCCTCCCCAAAATCGAAAATCGAACGCGGGCAGCCCC
CAATCCAGATCTCAACATCTCCC---GGCGAGTTGAGCAGAAATCAG-ATCAGCCGATGGCCGGCGTCGAGTGTGTCTGC
CCTGGCAAACGAAAGGCGGGATCTTTTTCCGGCGAGGAGTGTTCCCCGAAGGCCAAGAGGATGGTCGGCTGTTCCCGAGG
AGAGGAGGAGATTCCGGCGGCGAAGAAGATGTGGCGGCTGCCGCGGGAGGAGGTCGACCGGATCGTCGACTGGTCGCCGT
ACGTCCCTCCCGCCGTGTACCGAGACCTGAAGCGCGACAACCCGTCGCTTCTGCCATCGCCGGAGGAGGAGAAGGACGAG
CGCACGGTGCTCCTCTACCGGCACGCGCGCGAGTGCTACGAGCATCTGGATAGGTTCGCCGGCTTCCAGGCCAGGGTCCG
CCGCGAGTACGCCTCCAAAGGATTCGTGGAGGTCGACTACGACTGCGTCGGCGCCGAGGCCCAGGCGCGGAGGCGGATCG
ACCAGGCACGTGGTGAGGCTTTCAGAGCCATCGTTGCTCATCTAAAATCAGAGGTCGTCGTCGACGCCGACACGTTCCAG
CAACTCGAAAGGAAAATGATGGACGGTTTCTGA---CTGTCTGAAACCAAACTCATC-----------------TGGCAG
TCAGGCCAGTGACTCTTATGTAGTAGTA-------------------CTAGCATTACGAGGGATCTAG------CTAGGT
GTATGCTCCGTCCCAA--GTGATCGATTGTGCTTGTTTGTGCCTTGTCACAACATCATTGATCCAATGAATGCAATTTGT
CGATTCAGAAAG--------AAAGAAAGAATGCAGCTTTTCATCATTGATTTAACAAATATGCCCTGCATAACAGCTCAG
TTTTGTAGCTTACTGTAGGAATTACCTCTGATTTATCAACCCTGACGACTTGTTAGGATTTATCTC-GATTATTACCCCT
GTAGTTTTTTACAAGCACA----TA---CTTGTTACTTTATCATGAATGGATTGCTACACCATGAGAGATTTGCACATTA
TTTTCAGAGAAAATGGTCGTCCGTCGGTAAGGTACGGCTATATATTGGAAGCAACAGAGTACAAAATAGAGAGGAGCTTC
AGTCAGAAGCTCAGCAAATTTTTTGGAGATGGAAGAGTTCTGCTTGCACGTTATTGTCATGGGCATGGTCATTTTCTTGT
TATAATAGGCATCA----GAGTTGTGTCCTCCTGTTTTCACAAGAGCATGATTGTAACCCTGCAACA--ATACTCCAGTG
AATGCA---------------TGTCCCGATTCAACAAAAAGAAGCAGCTGATGAACAAACAGAGTTTGTTTCTGTACCTT
GTTAGTGTCCTGTAGTTCAGTAAATTTTTCTGACAGCGTTGATGCATACGTACTTGTTTCAGTTATACTGCAACCTGATG
CATTTGTCTCTTTTGAGGACATTGGCACATCTGTGCTTCACAC--TAACTTACCATTTGTATTTGTATTTT-ATTTTTAT
TTGTAATTCATCACATTGCTGATGTCTGTTATTTTCCCTGTACATGGCCATATGCCCACATACAGGTTCTGTTGCAACGT
CTGGAGCTGTGCATGTGCTATCTTCTCGCACGACTGCACTGATTCATCTCCAGGCCTTGCGATGGTGCCATTACCCTGGA
AAAGAGG
>chr3D_862
ATGGT---------------------------------------------------------------------------
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------------------------------------------------------------------------CCGACGCG
TGGACGGGGCTCACCTCAAACCAATATAAGGAGGAGCAAGGCC-CCTCCCCAAAATCCAAAATCGAACGCGGGCAGCCCC
CAATCCAGATCTCAACATCTCCC---GGCGAGTTGAGCAGAAATCAGAATCAGCCGATGGCCGGCGTCGAGTGTGTCTGC
CCTGGCAAACGAAAGGCGGCGTCTTTTTCCGGCGAGGAGTGTTCCCCGAAGGCCAAGAGGATGGTCGGCTGTTCCCGAGG
AGAGGAGGGGATTCCGGCGGCGAAGAAGATGTGGCGGCTGCCGCGGGAGGAGGTCGACCGGATCGTCGACTGGTCGCCCT
ACGTCCCTCCCGCCGTGTACCGAGACCTGAAGCGCGACAACCCGTCGCTTCTGCCATCGCCGGAGGAGGAGAAGGACGAG
CACACGGTGCTCCTCTACCGGCACGCGCGCGAGTGCTACGAGCATCTGGATAGGTTCGCTGGGTTCCAGGCCAGGGTCCG
CCGCGAGTACGCCTCCAAAGGATTCGTGGAGGTCGACTACGACTGCGTCGGCGCCGAGGCCGTGGCGCAGAGGCGGATCG
ACCAGGCACGTGGTGAGGCTTTCAGAGCCATCGTTGCTCATCTTAAATCAGAGGTCGTCGTCGACGCCGACACGTTCCGG
CAACTCAAAAGGAAAATGATGGACGGTTTCTGA---CTGTCTGAAACCAAACTCATC-----------------TGGCAG
T---------TACTCTTATGTAGTACTCCCTCCGTCTCAACTCGACTCTAGTATTATGAGGGATCTAG------CTGGGT
GTATGCTCCGTCCCAA--GTGATCGATTGTGCTTGTTTGTGCCTTGTCACAGCATCATTGATCCAATGAATGCAATTTGC
CGATTCAGAAAGAAAGAAAGAAAGAAAGAATGCAGCTTTTCATCATTGATTTAACAAATATGCCCTGCATAACAGCTCAG
TTTTGTAGCTTACTGTGGGAATCTCCTCTGATTTATCAACCCTGACGACTTGTTAGGATTTATCTCTGATTATGACCCCT
GTAGTTTTTTACAAGCACATAAGTA---CTTGTTACTTTATCATGAATGGATTGCTACACCATGAGAGATTTGCACATTA
TTTTCAGAGAAAA----CGGCTGTCCGTAAGGCCCAGCTATGTATTGAAAGGAACGGAATACAAAACAGAGAGGAGCTTC
AGCCAGAAGCTCAGCAATGTTTCTCGAGATGAAAGAGTTCTGCTTGCACGTTATTGTCATGGACATGGTCATTTTCTTGT
TATAATAGGCATCGGATCGAGTTGTGTCCTCCTGTTTTCACAAGAGCATGATTGTAACCCTGCAACA--ATACTCCAGTG
AATGCAAACAGAGTTTGTTTTTGTCCCGATTCAACAAAAAGAAGCAGCTGATGAACAAACAGAGTTTGTTTTTGTACCTT
GTTAGTGTCCTGTAGTTTAGTAAATTTGTCTGACAGCGTTGATGCATAC----TTGTTTCAGTTATACTGCAACCAGATG
CATTTGTCTCTTTTGAGGACATTGGCAAATCGGTGCTTCACACTATAACTTACCATTTGTATTTGTATTTG------TAT
TTGTAATTCATCACATTGCTGATGTCTGTTATTTTCCCTGTA------------CCCACATACAGGTTCTGTTGCAACGT
CTGGAGCTGTGCATGTGCTATCTTCTCGCACGACTGCACTGATTCATCTCCAGGCCTTGCGATGGTGCCATTGCCATGGA
ACCGAGG
>chr3B_941
GCAGCC--------------------------------------------------------------------------
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-----------------------------------------------------------------------------CCC
AAATCCAGATCTCAACATCTCCCGGGGGCGAGTTGAGCAGAAATCAGA-TCAACCGATGGCCGGCGTCGAGTGTGTCTGC
CCTGGCAAACGAAAGGCGGCGTCTTTTTCCGGCGAGGAGCGTTCCCCGACGGCCAAGAGGACGGCCGGCTGTTCCCGAGG
AGAGGAGGCGATTCCGGCGGCGAAGAAGATGTGGCGGCTGCCGCGGGAGGAGGTCGGCCGCATCGTCGACTGGCCGCCGT
ACTTCCCTCCGGCCCTGTACCGAGACCTGAAGCGCGACAACCCGTCGCTTCTGCCATCGCCGGAGGAGGAGAAGGACGAG
CACAGGGTGGTCCTCTACCGGTACGCGCGCGAGTTCTACGAGCAGATGGAGGAGTTCGCCGGGTTCCAGGCCAGGGTCCG
CCGCGAGTACGCCTCCAAAGGATTCGTGGAGGTCGACTACGACTGCGTCGGCGCCGAGGCCGTGGCGCAGAGGCGGGTCA
ACCAGGCACGCGGTGATGCTTTCGGAGGCATCTTTGCTCATCTTTCTTCAGAGTTCGTCGTCGACGCCGACACGTTCCGG
CAACTCAAAAGGAAATGGATGGA---------------------------------------------------------
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>chr3B_1119
CGGGG---------------------------------------------------------------------------
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--------------------CGAAGAAGATGTGGCGGCTGCCGCGGGAGAAGGTCGACCGGATCGTCGACTGGTCG----
-----CCTCCCGCCGTGTACCGAGACCTGAAGCGCGGCAACCCGTCGCTTCTGCCGTCGCCGGAGGAGGAGGAGGACGAG
CCAACGGCGCTCCTCTACCGGCGCGCGCGCGAGTG-TACGAGCACGTGGAGGAGTTAGCCGGGTTCCAGGCCAGGGTCCG
CCGCGAGCACGCCTCCAAAGGATTCGTGGAGGTCGACTACGACTGCGTCGGCGGCGAGGCCTAGGCGCGGAGGCGGGTCA
ACCAGGCACGTGGTGAGGCTTTCGGAGCCATCGTTGCTCATCTTTCTTCAGGCGTCCTCGTCGACGCCGGCACGTTCCGG
CAACTCAGGAGGAAAATGATGGACGGTTTCTGAGTTCTGACTGAAACCCAACTCGATCATATGTCTGATGCTGTTTGCAG
TCAGACCAGTGGCTCTAATGGAGTATTAT----------------------TATTATGAGGGAGCTAGCTAGGCCTAGGT
GTATGCTCCGTCCCAAAAGTGATCGATTATACTGGTTTGTGCCCTGTCACAGCATGACTCATCCGATCAGTGCAATATGT
CGATTTCAGAAAAAAGAAAGCA----------------------------------------------------------
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>SNPs
------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSS-------------------S----SSSSSSSSSSS---S-------------S------S--------------
--S-------------S-------------------------S-------------------------------------
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-------------------------------------------------------S------------------------
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----------------------------------S------------------S--------------------------
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---------------S---------SSS-------------------------S--------------------------
S------------------------------------------------------------S---------------S--
-----------S-------S--------------------------------S------------S----S-----S---
---S------------------------------------------------------------SS-SS-----------
-------S---------------------S--------------------------------------------------
---------------------------------------S----------------------------------------
-----------------------------------------------------------------------S--------
-------S------------------------------------------------------------------------
----S------------------------------S--------------------------------------------
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>forward_225
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---------------------------------------------ACAAATCTCGGTGTCGTGCT---------------
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>reverse_2133
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----------------------------------------------------GTTGTCATGGACACGGTCGT--------
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