>input_sequence_71993
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-----------------------------------------------ATGATCTCTATAGGCGGGTCCTCCTCGTCCTCC
TCCTCC---GCCGCCGCAGCGGGGGTCCGGATGGGCGGGGCCAAGCGGCGGGGGAAACCGGGCGGGGCCGCCGCGCCGGG
GGCCGCGGGCCCGCCGCAGACCAGGTGGCGGAGCGGCACGCAGGAGCGGATCTACGGCCGGCGCCTGCTGGACGCGCTCC
GGGCCACGCGGTCGGGCGCCGCCTCGTCC---------CCGCAGCCGCGCGCCGTCAAGGCCGCCGCCGACTCGGCGCTG
GCGCTCACGGCGCGCGGGCAGTCGCGCTGGAGCCGCGCCATCCTGCTGGCCGGCGCCGCGTCCTGCCGCCGCCGCGTGCT
CGTCAAGGCCGGCGGGAAGATCCGCCGCCACCGCCGCCCGCAGGCGCGCGCCGCCGCCGCGGCGTCCAAGGCCGCGGCCG
CCGCTTCCGCCAGCGAACCGCCGTTGCTCAAGGAGAAGAAGGTGAAGGACCGGCTCCGCGTGCTGGGCCGGCTCGTCCCC
GGGTGCCGGAAGCTGCAGGCCCCCGACCTGCTCGAGGAGACGGCCGACTACGTGGCCGCGCTGGAGATGCAGGTCAAGGC
CATGCGCGCGCTCGCCGACGCGCTCGCGGCGGCCCAGCTGTCCTCGCCTCCCCCGCCGGCCGCCGCCGCCGCCGACGAGG
CCGAGATGGAGAGGTGA---------------------------------------------------------------
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>chr3A_1_TraesCS3A01G169100
GAATGTCAAGAGAGGGCGGGGTCGACCGATTTTGACATGGAAGGAGTCCGTTAAGAGAGACCTGAAGGATTGGAGTATCG
ACAAAGAGCTAGCTATGGACAGGGGTGCGTGGAAGCTTGCTATCCATGTGCCAGAGCCATGAGTTGGTTGCGAGATCTTA
TGGGTTTCACCTGTAGCCTACCCCAACTTGTTTGGGACTAAAGGCTTTGTTGTTGTTGTTTGTAGTTCAACATCTCTAAG
GCAAAAAAAAGTTAAATACATTTTTTAAAGAAAAAAGAACCATGAGATCAACGTGACTAAGCTTGCTCGAATGAGACTTA
AAGATCCTCAATCGATTAAGCATCTTTGGTAAACTT-GGAGGCAAATTTTGCCCCTTTGTAATTAACA------------
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-----------------------------------------------TGGTCAAACTC-ATACGATTTGACCTCAGTCAA
AGCTAATATGCGAAGTAAATAACAACAGAGGGCTTATTCCCGCATTTTTTTTAAAAGACGTATCTTCCACATTTCGCCAG
ATCAAAAGGCTTTAACTAGAACGTTGCGAAGCACTAATACCATGGCACATTCGCAGAAAAAAGGAGTATAAACAAAAG-G
GAAATAAGAAAGCGCGCACTCAATAACGACCCCTGCCTACCAT----AGCGATCGAGCGAGCGAGCAGCGCGGAGGCCAC
GCTACAGCGCCAA-----ATTCCACACCAAACAAAGGCGCGGCGACGAAC--------GAGCAGCCAACACCCGCACCAC
CTCCCCTCACCGCACCGCACT--ACTCCTCCTTGGCTCCAATGTCTAATCCACTCGCTAATCACCTCCGCCGCACCACCA
AATAAGTACGCCCACCCCCGCGACGGAAAGCTAATCTCTCCTCCCTCCCCCTTTCTTCTTCATACTCCCACCATCTCCAC
CACCACCACCACCATCCT------CTTTCTCCCACCCACCTTTAAGCCGCCCCATCCCCCGCTGCGCTGAGTCACTTCCT
CACGCCACCCGCCGACTGATTGCTCGATCGAGGTGCGGTGCGCGGCCATGATCTCTATAGGCGGGTCCTCCTCGTCCTCC
TCCTCC---GCCGCCGCAGCGGGGGTCCGGATGGGCGGGGCCAAGCGGCGGGGGAAACCGGGCGGGGCCGCCGCGCCGGG
GGCCGCGGGCCCGCCGCAGACCAGGTGGCGGAGCGGCACGCAGGAGCGGATCTACGGCCGGCGCCTGCTGGACGCGCTCC
GGGCCACGCGGTCGGGCGCCGCCTCGTCC---------CCGCAGCCGCGCGCCGTCAAGGCCGCCGCCGACTCGGCGCTG
GCGCTCACGGCGCGCGGGCAGTCGCGCTGGAGCCGCGCCATCCTGCTGGCCGGCGCCGCGTCCTGCCGCCGCCGCGTGCT
CGTCAAGGCCGGCGGGAAGATCCGCCGCCACCGCCGCCCGCAGGCGCGCGCCGCCGCCGCGGCGTCCAAGGCCGCGGCCG
CCGCTTCCGCCAGCGAACCGCCGTTGCTCAAGGAGAAGAAGGTGAAGGACCGGCTCCGCGTGCTGGGCCGGCTCGTCCCC
GGGTGCCGGAAGCTGCAGGCCCCCGACCTGCTCGAGGAGACGGCCGACTACGTGGCCGCGCTGGAGATGCAGGTCAAGGC
CATGCGCGCGCTCGCCGACGCGCTCGCGGCGGCCCAGCTGTCCTCGCCTCCCCCGCCGGCCGCCGCCGCCGCCGACGAGG
CCGAGATGGAGAGGTGAGGGTCTGAGCCTCGCCTCGCCTCCGAGAGGGAGATTGATGACACGAT----------GGCTCG
GGGAAATAA-GGCGATTGATTACTGGATGGATGGACGGATGGATTGTTACCGCGAGAGGGGGTCCTGGGATTCCAGGAGG
GTATTGTGATTCCGATGATGATGATTGCTGCTGCTGCTGCTGC---TGCTGATTTGTAAATTCTTGATGCTACTACTTGT
ATAAGTAATGCTGCTCTGCTCCTC--------TCCTGTGTTCTTGAAATGTTCTTCCTCCTCCTGAAACAAGACGGGGGG
ATTCCTGTGCCTGTCTGTCTCCTGCGGATTGGATTGGATTGGAATTGGATTATGCTTTTGTTTGGCTGTGCCACGGTGAA
TTAGGAGTTTTGTTTCTTGTATAAGTGCAATGCTAACCGTCTGATTTCATGGCTTCCTCGAGCTGCATTCGATGGGATTC
CTCGAGGCGGCAATTTCTGCTCGCGAGGGAGAACAGAAATCCGAATTCGATCGGATGGACAGAGACAAGAGAATTTGCAA
GTGGCTCGGCTCGTAAACCATCGATGTCGTCAACCACCGCGCTTAAACTAACTATAACGCTAACAAAGATCAGACAAGGC
GTGAGCATAAAGATTCCGCTGGCTGGTTCTTTCTGCTCTGGGCGCAGTCCCGGCCTGACGCCGGTTTCTCTGATCCGATG
GGCGGGCGGGTATTATTTGCTGCCAGAAATGTGTTACGTACTGCTGCGCAGTACTACTAGTGCTGCAGCACTGGGCCTTC
TGCGGCAAATTTTCTGGGCTGCATTTATGCACGTGAAAATGTTCCCCTGCAGAGAGCTCGAGGGGGACAGCGATCTGAGT
CGTCGTCATCCTCTCTGTTCTCCTTCTTTTCACTCTTTCAATGAAGATCGCGAAATGTTTTTGACATGTGGAGGATGGGG
AATTTGGTTGGCTAAGCTGAAACTCGGCGAGCCCCTTATCAGTTGTTTGCAACAGATGTTTCATCAGTCATATAAACAC
>chr3D_223
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--------------------------------------------------------------TAGTTCAACATCTCTAAT
GCAAAAAAAAGTTAAATAAACTTTCAAAAGAAAAAAGAGCCATGTGGTTAATGTGACTAAGCTTGGTCGAATGAGACTTA
AAGATCCTCAATCGATTAAGCATCTTTCGTAAACTTGGGAGGCAAATTTTGCCCCTTTCTAATTAAGTTCATAAAATAGA
CCAATAAATTAGATAGAAATGTCCGAACAAAAATTAATGCGCACACAAGTAACTCAATGCTCATAAGTGATGTAGACACC
CACGTAATGAATTGTTCTCTTTCTCCACAAATGACTCAACAAACATCAGGGTTTCGCCCCTGCCAGCACCACTGTTGGTC
CGCCCCACCTCTGATGATCATTGGGCATTGGAGGTACGAGGAACTCCCTCCGCTCGTCAACGGGAGGGGTCGCATCAGTT
CTTTAGGTAGTTTCATTGTTTTTGGTTGGATGACAAGACGACAAATGTGTCTCATAGTTAGAATAATATCCTCTGTGTCC
CATCTCCGCTCCGACAGAAGGCTTGTAACGTGTGTCTCCGGTGGATCTATTTGGATTCGGTTGACCCTTATTTTTGTTGA
TGTCTTTGCAGGTATGACCCTTCCGATCTACGCTTCCCATCATCGTCGGTGATTGATATTCTGTTGCGTTGGTCCTTTGG
CCTCCTAGCACGATTGCTTCCCTTATTCAAAAAAGAAAGCACGATTGCTTCCCTATTGTCTACTATAATAAGGTTTGATC
GACTCCAATAAGGAAGGGACGATGACGACAGCGTCTTTGGCACGCTTGAGTGCTTGTAATCATCATGAAGTGGCCCATGG
ATCTTGCTGCACTTCTTTTACGGTTGCATATTTATTAAAATGTTTGAGCATTTATTGCAGCAAAAAAACTCAGCACTCAG
AAACATCATTGTTATTATGAATCGCCTACTGATTCCGACTTTATCGTTGACACCTAGCATGAACATGACGCGTGATTTTA
ACAAGGTGATCGAAGATCAATACTCCCACCATTGTTGTTACGTCGGCATATTAGTTTTGTTTAGAGTTAAAATTTATAAA
CCATGCCCAAGTTTGCGTGACAAAATAATAACATATACACCATGAAATCAATATCATAGATTCATCATTGAATATATTTT
CACATCATATAGATTTGCTATTGTAAATGTTCATATTGTTTCTAACTTGGTCAAACTTTATACAATTTGACCTCAGTCAA
AGCTAAACAAAGGGAGTACCACGACACCGTTGCAACATCCGTGAAAATAGAAGG----CGTATCTTCCACATTTCGCCAG
ATCAAAAGGCTTTAACTAGAACGTTGCGAAGCACTAATACCATGGCACATTCGCAGATAAAAGGAGCATATAAAAAAACG
GAAATAAGAAAGCGGGCACTCAATAACGACCGCTGCCTACCGT------------AGCGAGCGAGCAGCGCGGAGGCCAC
GCTACAGCGCCAA-----ATTCCACACCAAACAAAGGCGCGGCGACGAACCAGCGAACGAGCAGCCAACACCCGCACCAC
CTCCCCTCACCTCACCTCACCGCACTCCTCCTTGGCTCCAATGTCTGATCCACTCGCTAATCACCTCCACCGCACCAGCA
AATAAGTACGCCCACCCCCGCGACGGAAAGCTAATCTCTCCTCCC----CCTTTCTTCTTCATACTCCCACCATCTCCAC
CACCACCACCA---CCATCTTCTCCTTTCTCCCACCCACCTTTAAGCCGCCCCATCCCCCGCTGCGCTGAGTCACTTCCT
CACGCCACCCGCCGATTGATTGCTCGATCGAGGTGCGGTGCGCGGCCATGATCTCTATAGGCGGGTCCTCGTCCTCCTCC
TCCTCCGCCGCCGCCGCGGCGGGGGTCCGGATGGGCGGGGCCAAGCGGCGGGGGAAACCGGGCGGGGCCGCCGCGCCGGG
GGCCGCGGGGCCGCCGCAGACCAGGTGGCGCAGCGGCACGCAGGAGCGGATCTACGGCCGGCGCCTGCTGGACGCGCTGC
GGGCCACGCGGTCGGGCGCCGCCTCGTCC---------CCGCAGCCGCGCGCCGTCAAGGCGGCCGCCGACTCGGCGCTG
GCGCTCACGGCGCGCGGGCAGTCGCGCTGGAGCCGCGCCATCCTGCTGGCCGGCGCCGCGTCCTGCCGCCGCCGCGTGCT
CGTCAAGGCCGGCGGGAAGATCCGCCGCCACCGCCGCCCGCAGGCGCGCGCCGCCGCCGCGGCGTCCAAGGCCGCGGCCG
CCGCGTCCGCCGGCGAGCCGCCGTTGCTCAAGGAGCGGAAGGTGAAGGACCGGCTCCGCGTGCTGGGCCGGCTCGTCCCC
GGGTGCCGGAAGCTGCAGGCCCCCGACCTGCTCGAGGAGACGGCCGACTACGTGGCCGCGCTGGAGATGCAGGTCAAGGC
CATGCGCGCGCTCGCCGACGCGCTCGCCGCGGCCCAGCTGTCGTCGCCTCCCCCGCCGGCTGCCGGCGGCGACGACGAGG
CCGAGATGGAGAGGTGAGGGTCCGAGCCTCGCCTC-----CGAGGGGGAGATTGATGATGACATGATGGCGTTGGGCTCG
GGAAAATAAGGGCGATTAATTACTGGATGGATGGATGGA----TTGTTACCGCGAGAGGGGGTCCTGGGATTCCAGGAGG
GTATTGTGATTCCGACGATGATGATTGCTGCTGCTGGTGCTGCC---GCTGATTTGTAAATTCTTGATGCTACTACTTGT
ATAAGTAATGCTGCTCTGCTCCTC--------TCTTGTGTTCTTGAAATGTTCTTCC-CCTTCTTAAACAAGAAGGGGG-
ATTCCTGTGCCTGCCTGTCCCCTGCGGATTGGATTGGATT-----------ATGCTTTTGTTTGGCTGTGCCACGGTGAA
TTAGGAGTTTTGTTTCTTGA--AAGTGCAATGCTAACCGTTTGATTTCATGGCTTCCTCGAGCTGCATTCGATAGGATTC
CTCGAGGCGACAATTTCTGCTCGCAAGGAAGAACAGAAATCCGAATTCGATCAGAGGGACGGGGACAGGAGAATTTGCGA
GTGGCTCGGCTCGTAAACCATCGATGTCGTCAACCACCGCGCTTAAC------ATAACGCTAACAAAGATCAGACAAGGC
GTGAGCAGAAAGATTCCGCTGGCTGGTTCTTTCTGCTCTGGGCGCAGTCCCGGCCTGGCGCCGGTTTCTCTGATCCGATG
GGCGAGTAC-TATTATTTGCTGCCAGAAATGTGTTAC----TGCTGCGCAGTAGTGCTGCAGCAGT-GCACT-GGCCTTC
TGCGGCAAATTT-CTGGCCTGCATTTATGCACGTGAAAATGTTCCCCTGCAGAGAGCTCGAGGGGGACAGCGATCTGAGT
CGTCGTCATCCTCTCTGTTTTCCTCCTTTTCATCCTTTTAATGGAGACTGCGAAATGTTTCTGACATGTGGCGGATGGGA
AATTTGGTTGG--------------------------------------------------------------------
>chr3B_564
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----------------------------------------------------------------AGTATAAAAGAAAGGG
GAAATAAGAAAGCGCGCACTCAATAACGACCGCTGCCTACCGTAGCGAGCGAGCGAGCGAGCGAGCCGCGCGGTGGCCAC
GTCACAGCTCCAAATTCCATTCCACACCAAACAAAGGCGCGGCGACGAAC--------GAGCAGCCAACACCCGCACCAC
CTCACCTCACCTCACCGCACTC--CTCCTCCTTGGCTCCAATGTCTAATCCACTCGCTAATCACCTCCACCGCACCAGCA
AATAAGTATGCCCACCCCCGCGACGGAAAGCTAATCTCTCCTCCC----CCTTTCTTCTTCATACTCCCACCATCTCCAC
CACCACCACCACCACCATCTTCTCCTTTCTCCCACCCACCTTTAAGCCGCCCCATCCCCCGCTGCGCTGACTCACTTCCT
CACGCCACCCGCCGATTGATTGCTCGATCGAGC-----TGCGCGGCCATGATCTCTATAGGCGGGTCCTCCTCCTCGTCG
TCGT------CCGCCGCGGCGGGGGTCAGGATGGGCGGGGCCAAGCGGCGGGGGAAACCGGGCGGGGCCGCCGCGCCGGG
GGCCGCGGGGACGCCGCAGACCAGGTGGCGAAGCGGCACGCAGGAGCGGATCTACGGCCGGCGCCTGCTGGACGCGCTGC
GGGCCACGCGGTCGGGCGCCGCCTCGTCCGCGCAGCCGCCGCAGCCGCGCGCCGTCAAGGCCGCCGCCGACTCGGCGCTG
GCGCTCACGGCGCGCGGGCAGTCCCGCTGGAGCCGCGCCATCCTGCTGGCCGGCGCCGCGTCCTGCCGACGCCGCGTGCT
CGTCAAGGCCGGTGGCAAGATCCGACGCCACCGCCGCCCGCAGGCGCGCGCGGCCGCCGCGGCGTCCAAGGCCGCGGCCG
CGGCGTCCGCCGGCGAGCCGCCGTTGCTGAAGGAGCGGAAGGTGAAGGACCGGCTCCGCGTGCTGGGCCGGCTCGTCCCG
GGGTGCCGGAAGCTGCAGGCGCCCGACCTGCTCGAGGAGACGGCCGACTACGTGGCCGCGCTGGAGATGCAGGTCAAGGC
CATGCGCGCGCTCGCCGATGCGCTCGCGGCGGCCCAGCTATCGTCGCCTCCCCCGCCGGCCGCCGCCGGCGACGACGAGG
CCGAGATGGAGAGGTGAGGGTCTGAGCCTCGCCTCTGAT----GGGGGAGATTGATGATGACATGATGGCGTTGGGCTCG
GGGAAATAAGGGCGATTAATTACTGGATGGATGGATGGA----TTGTTACCGCGAGAGTGGGTTCTGGGATTCCAGGAGG
GTATTGTGATTCCGATGATGATGATTGCTGCTGCTGCTGCCGCCGCTGCTGATTTGTAAATTCTTGATGCTACTACTTGT
ATAAGTAATGCTGCTCTGCTCCTCTCTTCTTGTCTTGTGTTCTTGAAATGTTCTTCCTCCTTCTGAAGCAAGACGGGGGG
ATTCCTG----TGCCTGTCTCCTGCGGATTGGATTGGATT-----------ATGCTTTTGTTTGGCTGTGCCACGGTGAA
TTAGGAGTTTTGTTTCTTGTC--AGTGCAATGCTAACCGTTTGATTTCATGGCTTCCTCGAGCTGCATTCGATAGGATTC
CCCGAGGCGACAGTTTCTGCTCGCGAGGAAGAACAGAAATCCGAATTCGATCG--------GAGACAAGAGAATTTGCTA
GTGGC------CGTAAACCATCGATGTCGTCAACCACCACGCTTAAAC------TAACGCTAACAAAGATCAGACAAGGC
GTGAGCAGAAAGATTCCGCTGGCTGGTTCTTTCTGCTCTGGGCGCAGTCCCGGCCTGACGCCGGTTTCTCTGATCCGATG
GGCGGGCGAGTATTATTTGCTGCCAGAAATGTGTTAC----TGCTGCGCAGTAGTGCTGCAGCACT-GCACTGGGCCTTC
TGCGGCAAATTT-CTGGCCTGCATTTATGCACGTGAAAATGTTCCCCTGCAGAGAGCTCGAGGGGGACAGCGATCTGAGT
CGTCGTCATCTCCTCTGTTTTCCTTGTTTCCATTCTTTTAATGGAGACTGCGAAATGTTTTGGACATGTGGAGGATGGGG
AATTTGGTTGG--------------------------------------------------------------------
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------S
------------------S-S---SS------------S-----S-S-S--S-------------S--------------
---------------------------S------------------------------S-------SS------------
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---------------------------------------------------------S-----S----------------
------SSSSS-SSSSS-SS-SS-SSSSSSS--SSSS---SSS-SSS-SSSSSSSSSS----------------------
---------------------------------------------------------S--------------S-------
-------------------------------S---------S----------S---------------------------
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-----------S--------------------------------------------------------S--------S--
---------------------------------------------SSSS-------------------------------
--------------S-S---------------------------------------------------------------
---------------S---------------------------------------------------------S------
-----------------S--------------------------------------------------------------
---------S--------------------S-----------------------------------------------S-
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----S------S----S------------------SS-------------------------------------------
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------------------------------------------S-------------------------S--S--------
-----------------------------------SSS-S----S-------------SSSS------------------
-----------------S-----------------S---SSSS-------------------------------------
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----------------------------------S--------------------------S------------------
-------------S--------------------------SSSSSSSSSSS-----------------------------
--------------------SS------------------S--------------------------------S------
---------S------------------S--------------------------S----S-----------------S-
------------------------------------------------SSSSS---------------------------
-------S------------------------------------------------------------------------
--------S----------------------------SSSS------------S-S--SSS--S-SS-------------
------------S----S--------------------------------------------------------------
-------------------S------------S-----S----S---SS-------------------------------
-----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_185
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-----TTCACCTGTAGCCTACCCCA-------------------------------------------------------
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>reverse_2840
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---------------------------------------TGGATTGTTACCGCGAGAGG---------------------
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