>input_sequence_68159
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--------------------------------------------------------------ATGCCTTCTGCTATGAAG
ATGGCGGCGGTGACGGCGGCGGTTTGCATCGCCGCGCTGCTA------TCGCTGGTCCACGTTGTGACCGCTGCCGATTA
CATCGTCGGCAACCCAACCGGCGGCTGGCAGGGAAAGACGGACTACAAGTCCTGGGCTTCGGCCCAAACCTTCCTTCCCG
GAGACACCCTGAGTGAGTATCATCAACACGCACGACGT-AAACTGATCTGTGATTGTGCATTGCAGTTCCTGCTAACGTT
C-TTCTGCGACAAAACTGTGCAGCATTCAAGTACAGCTCGAACCACAACGTCCTTGAAGTGACCGCCGACGACTACGAAG
CGTGCTCCACGGCCAACCCCGTCATCATCGACAACAGCGGCACCACCACCATCGCGCTCACGGCGCCGGGGAAGCGCTAC
TTCATCTGCGGCGGGCCGGGCCACTGCCAGAACGGAATGAAGCTGGAGGTGGAGGTCGCCGACCGCCCTGCACCCACGGC
GCCCAGCTCGCCGCCCCAGCTGCCCCCGGCACCTACGCCGCCGTCGCCGGTTCCGAGGACATGGCCACCGGCTCCGGCAC
CCGCGGCTGAACCGCCAAGGCATGCAGGGCACAAGAGGCACAAGAAGAGGCACTCCCCACCTCCAGCTGCGCCCACGGTG
GACCCTGCGGAAGCGTACTTCCCGCTCGCGACGCTGGCGCCGATGTCCTCGCCAGCTGCCTCTCTGCCGATGTCGTCGGA
CAGTGCAGCCGCGTGGCATGGACAGTGGGGCTATGCCACACTGGGGCTCGTAGCTCTCTGGTTCGCCGTTCTAGCTCTAT
GA------------------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G318000
AGTGTGCCATCAGAAAATCGGGCAGGGATCCACTCATCGTCCTTAGCATCTTGGCGCTCAGCTCCATCGTGATCACTTGC
TCCGGCGCAGTTCGATCGTGTATGGGCGCAGTACACGAGCGGGCAGTG-CA-TGGGCTTCAAGCTCCCCTGCTAAAGGAT
GAAGAAGAAATCCTCAGGCTGTTGAGTTCGCTACGTTGTAAAATCACGGGTAAAAGAAATTCAGAATTCTGAAGTTCTGA
ACACAGTAAC-AAGCCTGAAGCAACCCTGACATGACCTGGCGGCCCTTGCCACTTGGGCGTGTCGAACACTTGGACG---
------CGCTCGCCCCGCATCCACCGCACCCGTCCTCCGCCTTGGGCGCACGCTCTGGGATGTATCGGTTGGCGCCATCT
CCGTCGTCCTCGTTCCACCGGCAGCCGCTGCGGCCCGATTGCACATGCTCT---GGACCGCGCCGTGCTCTCGAGTGTTC
CATACCATCCACTCCCCACGCTCTTGGCCGGATCCTGCGCCAGCGTAGATTCCAGCGCGAACTGTAGCGTTGCCCGTTCA
CGAGGGGAATGTCCTGCGTGACCACCATACACGCAGCGGTGAAAAGGCGCCGTGCGGCCGGCGCACGCGCCACCCGCGGC
TCGGCTGAACATTCTTTCCTGTTACTTTACACCGCCCGGAACATGCTGCTGCCGTGCGCCGGTGCCAGTGGGCAGCCCAC
TGCGGCCGGAAACGCTTGTCAGCCAGCGGCCGGGCGCGTTGCCGCAGCCTCTACGTGCCCGAGAGATGCATGATCGGCTG
GACGCAGGAAACGGACGTATGCACAGGGTGCCGATGCATGCTCCAAAACGTGGATCTGCTCTACTGGTTGTTCTGTTCTG
TGACGCGTACCAACTCCTTCC-----CTCTTCTGGTCTGCCGACACACGAAGCTCTAGCTGTCTCTTGCACGCTGGTTGT
GGTTGCCCTATATATAGGGCTCGGAGTGCACCTT--CGGCTACCTACCTCAGACACCAGAGCATGCCTTCTGCTATGAAG
ATGGCGGCGGTGACGGCGGCGGTTTGCATCGCCGCGCTGCTA------TCGCTGGTCCACGTTGTGACCGCTGCCGATTA
CATCGTCGGCAACCCAACCGGCGGCTGGCAGGGAAAGACGGACTACAAGTCCTGGGCTTCGGCCCAAACCTTCCTTCCCG
GAGACACCCTGAGTGAGTATCATCAACACGCACGACGT-AAACTGATCTGTGATTGTGCATTGCAGTTCCTGCTAACGTT
C-TTCTGCGACAAAACTGTGCAGCATTCAAGTACAGCTCGAACCACAACGTCCTTGAAGTGACCGCCGACGACTACGAAG
CGTGCTCCACGGCCAACCCCGTCATCATCGACAACAGCGGCACCACCACCATCGCGCTCACGGCGCCGGGGAAGCGCTAC
TTCATCTGCGGCGGGCCGGGCCACTGCCAGAACGGAATGAAGCTGGAGGTGGAGGTCGCCGACCGCCCTGCACCCACGGC
GCCCAGCTCGCCGCCCCAGCTGCCCCCGGCACCTACGCCGCCGTCGCCGGTTCCGAGGACATGGCCACCGGCTCCGGCAC
CCGCGGCTGAACCGCCAAGGCATGCAGGGCACAAGAGGCACAAGAAGAGGCACTCCCCACCTCCAGCTGCGCCCACGGTG
GACCCTGCGGAAGCGTACTTCCCGCTCGCGACGCTGGCGCCGATGTCCTCGCCAGCTGCCTCTCTGCCGATGTCGTCGGA
CAGTGCAGCCGCGTGGCATGGACAGTGGGGCTATGCCACACTGGGGCTCGTAGCTCTCTGGTTCGCCGTTCTAGCTCTAT
GAGTTTGCGAAGTTGTAGATCATACCATCACATGTGTTACATCCCTGTTCTCGTCCATTGTATC------GTGTGTTCAG
ATTGTGAGGTGAGATTTGTTGAGAGACCTGATAATAATTGCTCGTTATGGTGAGCTCTATGCAGTCTCTTGGACGAGATT
ACTGGCTCGTGGCACCGTCAGCTAGTCCTCCTGTGTCCAAAACATGTATCGTGCTGTTTACTTGTTTTATAAGAGTTAGT
CAGAAACTAGAGCAAGTTTTGAAAAAATGATTGTGCAGTTTAAAAAAAATGTTTGCTCAACTTAAAAATAATGTTGATAC
CATTTCAAAAATTGATTAACCGCGTATTTGAATAATACCTAACCTGTATTCAAAATAGTGTTTGGAAATATATATTAAAC
ATATAACTGATAAATGTTTTTTAACACAGTACAGACGCAAACGCTCATATACACGTGCATACAATCATCCTTATGAACGC
ACACATGCACACTCTACCCCTACGAGCACCTCCGAAAAACTGAGCCGGCATATCATCTTGAACCCTGGTGGGCTGGGGAT
ACCATAGATTGGTTCGCATATAACTGAAAAATGTAAACGAATAAAAAAATACAAATGTTCCTTATGTACACAAAAGGTGT
ACAAAGTACATAAAAAAGTAGACATCAAACGCGCTGACTAGAAACCGATTGCTGAGCCAGCCCATTCGCAATATAGCTTG
AGCGAAATGTATTATCTCTCGGTAGGGGCGACACATAGCCCTCGAGGAGGTGTTCCGCGGCCCATCAGGAGATGTTCCGC
TGCACATGCGTATAAAAATGTTCCACTACATTTTTTGGATTTTTATTCTATCTAATCATAAAATCACATGAAATAGATTA
TGGAAAATACAAATGCTACATATTTACAATAAATTCTCATAAAAATCTAGTAATGAACTTATTAAAAAGGATTGCCACCC
TTTAATATATTTCAAATTTCAATTTATTTAAAAAATAATTTGAAGGAG
>chr3B_18
-----------------TCGGGCAGGGTTTTACTCATCGTCCTTGGCATCTTGGCGCTCAGCTCCATCGTGATAGCTTTC
TCCGGCGCAGTTCGACCGTGGATGGGCGCAGGACACGGGCGGGCCGTA-CATTGGGCTTCAAGCTCCCCTGCTAATGGAA
GAAGAAGAAATCCTCAGCCTGTTGAGTTCGCTACGTTGTAAAATCACACGTAAAAGAAAC---GAATTCTGAAGTTCTGA
ACACAGTAACAAAGCCTGAAGAAACCCTGACATGACCTGGCGGCCCTTGCCACTTGGGCGTGTCGAACACTTGGACGAAC
GCACCGCGCTCGCCGCGCATCCACCGCACCAGTCCCCCGCCTTGGGCGCACGCTCTGGGATGTATCGGTTGGCGCCATCC
CCCCTGTGCTCGATCGTTCGGCAGCCTCTGCTGCGCGATCGCACATGCTCT---GGACCGCGCCGTGCTCTCGAGTGTTC
CATACCATCCACTCCCTACGCTCTTGGCCGGATCCTGCGCCAGCACAGATTCCAGCGCGAACTGTAGCGTTGCCCGTTCA
CGAGGGGAATGTCCTGCGTGACCACCATACAGGCAGCGGTGAAAAGGCGCCGTGCGGCCGGCGCACGCGCCACCCGCGGC
TCGGTTGAACATTCTTTCCTGTTACTTTACACCGCCCGGAACGTGCTGCTGCCGTGCGCCGGTGCCAGTGGGCAGGCCAC
TGCGGCCGGAAACGCTTGTCAGCCAGCGGCCGGGCGCGTTGCGGCAGCCTCTACGTGCCCGAGAGATGCATGATCGGCTG
GATGCAGGAAACGGACGTATGCACAGGGCTT-GATGCATGCTCCAAAACGTGGATCTGCTCTACTGGTTGTTCTGTTCTG
TGACGCGTACCAACTCCTTCT-----CTCTTCTGGTCTGCCGACACACGAAGCTCTAGCTGTCTCTTGCACGCTGATTGT
GGTTGCCCTATATATAGGGCTCGGAGTGCACCTT--CGGCTACCTACCTCAGACACCAGAGCATGCCTTCTACTATGAAG
ATGGCAGATATGAAGGCGGTGATTTGCATCGCCGCGGTGACGGTTGTTTCACTGGTTCACCTTGTGGCCGCCACCGATTA
CATCGTCGGCAACCCAACCGGCGGCTGGCAGGGAAAGACGGACTACAAGTCCTGGGCTTCGGCCCAAACCTTTCTTCCCG
GAGACACCCTGAGTGAGTATCATCAACACGCACGACGT-AACTGGT--TGTGATCCTGCATTGCAGTTCCTGCTAACGTT
CTTTCTGCGACAAAACTATGCAGCATTCAAGTACAGCTCGAACCACAACGTCCTTGAAGTGACCGCCGACGACTACGAAA
CGTGCTCCACGGCCAACCCCGTCATCATCGACAACAGCGGCACCACCACCATTGCGCTCACGGCGCCGGGGAAGCGCTAC
TTCATCTGCGGCGGGCCGGGCCACTGCCAGAACGGTATGAAGCTGGAGGTGGAGGTCGCCGACCGCCCGGCACCCACGGC
ACCCAGCTCGCCGCCCCAGCTGCCACCGGCACCTACGCCGCCGTCACCAGTTCCGAGGACATGGCCACCGTCTCCGGCAC
CCGCGGCTGAACCGCCAAGGCATGCAGGGCACAAGAGGCACAAGAAGAGGCACTCCCCACCTCCAGCTGCGCCCACGGTG
GATCCCGCGGAAGCGTACTTCCCGCTCGCGACGCTGGCGCCGATGTCCTCGCCAGCTGCCTCTCTGCCGATGTCGTCGGA
CACTGCTGCCGCGTTGCATGGACAGTGGGGCTATGTCGCACTGGGGCTCGTAGCTCTCTGGTTCGCCGTTCTGGCTCTTT
GAGTTTGCGAGGTTGTAGATCATACCATCAGACGTGTTACATCCCTGTTCTCGTCCATTGTACTAGTATTGTGTGTTCAG
ATTGTGAGGTGAGATTTGTTGAGAGACCTGATAATAAT------------------------------------------
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>chr3A_42
-----------------------------------------CTTAGCATCTTGGCGATCAGCTCCATCATGCTTGTTTGC
TCCGGCGCAGTTAGATCGTGTATGGGCGCACGACACGAACGGGCAGTAACA-TGGGCTTAAAGCTCCCCTGCCAAAGGAA
GAAGAAGAAATCCTCAGACTGCTGAGTTCGCTACATTGTAAAATATGA---AAAAGAAAATCTGAAAATAA---------
------TAAC-AAGCCTGAAGAAACTCTGACATGACCTGGCGGCGGTTGCCACTTGGGCGTGTCGAACACTTGGACG---
------CGCGCGCCGCGCATCCACCGCACCCGTCCTCCGCCTTGGGCGCACGCTCTGGGATGTATCGGTTGGCGCCATCT
CCGTCGTCCTCGCTCCACCGGCAGCCGCTGCGGCCCGATCGCACATGCTCTGGAGGACCGCGCCGTGCTCTCGAGTGTTC
CATACCGTCCACTCCCCACGCTCTTGGCCGGATCATGCGCCAGCGTAGATTCCAGCGCGAACTGTAGCGTTGCCCGTTCA
CGAGGGGAATGTCCCGCGTGACCACCATACACGCAGCGGTGAAAAGGCGCCGTGCGGCCGGCGCACGCGCCACCCGCGGC
TCGTATGAACATTCTTTCCTGTTACTTTACACCGCCCGGAACATGCCGCTGCCGTGCGCCGGTGCCAGTGGGCAGGCCAC
TGCGGCCGGAATCGCTTGTCAGCCAGCGCCCGGGCGCGTTGCGGCAGCCTCTACGCGCCCGAGAGATGCATGATCGGCTG
CACGCAGGAAACGGACGTATGCACAGGGTGATGGCGCATGCTCCAAAACGTGGATCTGTTCTACTGGTTGTTCTCTTCTG
TGACGCGTACCAACTCCTTCCCTTGCCTCTTCTGGTCTGCCGACACACGAAGCTCTAGCTGTCTCTTGCACGCTGGTTGC
GGTTGCCCTATATATAGGGCTCGGGGTGCACCTCTACGGCTACCTACCTCAGACACCAGAGCATGCCTTCTGCTATGAAG
ATGGCGGCGGTGAAGGCGGCGGTTTGCATCGCCGCGGTGACGGTGGTTTCACTGGTCCACGTTGTGGCCGCCACCGATTA
CATCGTCGGCAGCCCAACCGGCGGCTGGCAGGGAAAGACGGACTACAAGTCCTGGGCTTCGGCCAAAACCTTTCTTCCCG
GAGACACCCTGAGTGAGTATCATCAACACGCACGACGTAAACTGGT--TGTGATTCTGCATTGCAGTTCCTGCTAACGTT
C-TTCTGCGACAAAACTGTGCAGCATTCAAGTACAACACGAACCACAACGTCCTTGAAGTGACCGCCGGCGACTATGAGG
CCTGCTCGACGGCCAACCCCGTCAGCATCGACAACAGCGGCACCACCACCATCGTGCTCACGGCGCCGGGGAAGCGCTAC
TTCATCTGCGGCGGGCCGGGCCACTGCCAAAACGGAATGAAGCTGGAGGTGGAGGTCGCCGACCGCCCTGCGCCCACGGC
ACCCAGCTCGCCGCCCCAGCTGCCACCGGCACCTACGCCGCCGTCACCGGTTCCGAGGACAGGGTCACCGGCTCCGGCAC
CCGCGGCTGAGCCGCCGAGGCATGCAGGGCACAAGAGGCACAAGAAGAGGCACTCCCCGCCTCCAGCTGCGCCCACGGTG
GACCCTGCGGAAGCGTACTTCCCGCTCGCGACGGTGGCGCCGATGTCCTCGCCAGCTGCCTCTCTGCCGATGTCGTCGGA
CTCTGCTGCCGCGTTGCATGCACAGTGGGGCTATGCCGCACTGGGGCTCGTAGCTCTCTGGTTCGCCGTTCTGGCTCTTT
GAGTTTGCGAGGTTGTAGATCATACCATCAGACGTGTTACATCCCTGTTCTCGTCCATTT-----GTATTGTGTGTTCAG
ATTGTGAGGTGAGATTTGTTGAGAGGCCTGATAATAATTGCTTGTTATGGTGAGCTATATGCAGTCTTTGGGTTGAGATT
ACTCGCACCAT---CCGTCAGCTAGTCCTCTGTCCTAAAACAT-------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSS----------S-SS------------------------------------------SS-----
-------------------------------S---------------S-------------------------------S
-----------------S-----------------------------SS----------S--S-----------------
---------------------S----------------------------------------------------------
--------------S-----------------------------------------------------------------
------------S--------------------------S----------------------------------------
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----S----------------------------------------------------------------------S----
------------------------------------------S-------------------------------------
------------------------------SS------------------------------------------------
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-------------S----------------------S--SSS--------S---------------S----SS-------
------------------------------------------------------------------------S-------
-----------------------------------------SSS-SSS-------S------------------------
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S-----------------------S--------------------S----------------------------------
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--S---S-------S----------------------S----------------------------------S-----S-
----------S-------------------S-S-----------------------------SS----------------
------------------------------------------S-------------S----------S-S--SS------
---S--S-SSSSSS----------------SSSSS-SS--S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_75
-------------------------------------------------------GCTCAGCTCCATCGTGATCA-----
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>reverse_1080
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---------------------------------------CTATCGCTGGTCCACGTTGT---------------------
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>forward_112
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-------------GATCGTGTATGGGCGCAGT------------------------------------------------
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>reverse_1081
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----------------------------------------TATCGCTGGTCCACGTTGTG--------------------
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>forward_413
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--------------------------------------------------------------------------CCATCT
CCGTCGTCCTCGT-------------------------------------------------------------------
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>reverse_2326
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-----TGCACACTCTACCCCTACGA-------------------------------------------------------
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