>input_sequence_73478
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------------------------------------------CCCATTCCTTCTCCTCT--CGTCTCCAGCTCCTCCTCC
TTCC-T------CGCGCGCGCTCCTCTGCTCTGTTCTCCTCTCCTTGTGCGCTAGTGTTCACCAAGATCAGGCAAACGGC
CACGCGCGAGCTCGCCATGGAGCGTACCGGCGGCAAGGGCGACGACGACTCGCGGCTGATGCGCGACCTCTGCACGCTGC
TCGTCACCATCATCGCCCCCGTCGCGGCGGCGTCCTCGACGAACTCGCCCCGGAGGCCCGTGGCGCGGCGCCCGCGGGGC
GGCATGTCGCCGGCGGGCGCGGCGTCGATGCTTCTGGGCGCGTCGATGGCGCTGATGCTGTGCGGGTCCGTGACGTTCGC
CATCGGCTTCCTCCTCATGCCGTGGGTCGCCGGCGTCGCGCTGCTCTTCGGCTTCGCCGGCGTCATCTCCACCCTCTCCT
CCGGCCTCCTCCCCTCGTCCTCCTCC---------------AAGGAGCAACGGCTGCGGACGCCGACGCAAGGGCGTGTC
CGTGCCTCTGCC---CCGATGAGCTCTGTCCCGGATAAGCTCGTGGCGTGGCGTTGAGCTGTTCTTGAAATTTAGTTAAT
TAATTA--AATTAGGGCGGGATTAGGATGGGTAATTCCTGTGTAAAAAA-GCTTCCCTTTTGCT----------------
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>chr3D_1_TraesCS3D01G427500
TTGCTTATCTTGCTTAGCATAAGTTGTTGGTGCACTTAGGTGAGCCTAGTTGTTGTAGGTTTTGTGCTTGACAAATTAAC
CGTTAGGTTTATTCCGCATTTGTTCAAGCCTCTACCGTAATTATTTTAAAACGCCTATTCACCCCTCCCCCTCTAGGCGA
CATCCACGATCTTTCACTCGGTGGCCGCCTCCTGCAGTGGCGGCAGGGACCGCCGCCTCCTGGCGTGGCGACAGGTGCCA
CGTGTCGCCTGCCGCACCTGCCGCCACTAGTGAGGGGGTTCTTTTTTGACAATTTTATTCGCAGGTAGTCCTTTTTGGCA
ATAGGTTCGACGGGGGGCCTTTTGGACAAAAAATCTAACATTTCTTGTACTATCAGTAGACTGTAGTACCCAAAGTCCGG
CATTAACATTTCTCGAAAAGATGCACCGCAAAGATTTGCCATGTGGGGCCGGCCAGCTCTCGCAGCTTCCCCACCTCCCC
GTCGCCGCAGCCCGCACGTCGGCTGACGCTTCCCGTTTCGTCCGCCATCATTTTTCCGTTCCTCGGGAACGGCGCGATGA
CGTGCCCCGCAACAGTTCTTCTGCGCCGGAAAGCCCCGCAGCCACACAGAAACGCTTCCCCCCGCCGCCGCGTGGGCCGA
CCTGTCAGGGAACGGATAACGCCCAATCAACTAGACGATGCGGCCATGACTCGGCCGAGGACGCGTGCAGCTTTTCTTTT
CTCTTCTTTACCCTATCCGGAACGCCCATCATC-GCCTCGACCCAACGGAATGCCCAAAACGGCATTCGTTCTCGTCCCA
CTGGCTGACGCTGGGCCGGGGCGCTTCCGGGTCCCACATGTCCGCGTCTAAACAGGCCACGGGGG-CCGCAGTTTGTTGG
TTCGTTAGGTGCCGTGCGTGGACTGTGATGCTGACCGGGCCCCAACTGGGGATCGAAGGAGCGGGGCCCGCGCGAGCCAC
TGGGCCGTGGGGCATATATATGCCCTTTTCCCGCCGGCGAATCCCATTCCTTCTCCTCT--CGTCTCCAGCTCCTCCTCC
TTCC-T------CGCGCGCGCTCCTCTGCTCTGTTCTCCTCTCCTTGTGCGCTAGTGTTCACCAAGATCAGGCAAACGGC
CACGCGCGAGCTCGCCATGGAGCGTACCGGCGGCAAGGGCGACGACGACTCGCGGCTGATGCGCGACCTCTGCACGCTGC
TCGTCACCATCATCGCCCCCGTCGCGGCGGCGTCCTCGACGAACTCGCCCCGGAGGCCCGTGGCGCGGCGCCCGCGGGGC
GGCATGTCGCCGGCGGGCGCGGCGTCGATGCTTCTGGGCGCGTCGATGGCGCTGATGCTGTGCGGGTCCGTGACGTTCGC
CATCGGCTTCCTCCTCATGCCGTGGGTCGCCGGCGTCGCGCTGCTCTTCGGCTTCGCCGGCGTCATCTCCACCCTCTCCT
CCGGCCTCCTCCCCTCGTCCTCCTCC---------------AAGGAGCAACGGCTGCGGACGCCGACGCAAGGGCGTGTC
CGTGCCTCTGCC---CCGATGAGCTCTGTCCCGGATAAGCTCGTGGCGTGGCGTTGAGCTGTTCTTGAAATTTAGTTAAT
TAATTA--AATTAGGGCGGGATTAGGATGGGTAATTCCTGTGTAAAAAA-GCTTCCCTTTTGCTGTTGTTGTACGTTTCC
AGTCGCAAGAGATGCCGATGATTTA---CTACCGGCAGAAGCAACATTTGTTATATGTGTTGATTGTTTCGTGTCGAGAA
TTCTGTGCACGGATGGCAAACGTGCTTCGCTACTCTGCTTCGTCAGACCAGAAAACTGAGACGTCTCTCCGGTGCACGTA
TATATCTCTCAATCTCTGTCCGCGTCGATCTCGTAATTTCTGCAGTGTGTACTACTTTGCCACGGCAACTTT-TGTGTTT
TGTCGTGGTGAGACGT----------------------------------------------------------------
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-----------------------------------------------GAGAGAGGTGTGCAAGTACAAGCATGGCTTGGG
ATGCACTGGTCGTCGGGGCTAACTGAAGCCTGAAGGCGATGTGAATGTTGGGTGTGCGCTTTACCTGATCGGGTTGGGCG
ATTACGTGTTAAAGTGCTTGGAAGCAACGAGCAGCTCAACTCTTGTGGTTGTTGTCAGATGATTATGGGGGGATTTCATT
TTCACGCCCGAGCTCTCTTCGTTGCTGTAGCACTAATCAGTGTCTACGTTCGGGACCTGTTTCAGCTGCCATTCCCTGCT
CCTGAACTGTCATGTTCATCATCGAAGTTTCAGCACGCCTGACTCACGGGACCCGCAGGGCAGCGACTCCCAGAGCAACC
ACGCTGCCCAATGGCCCGCACGGCCCAGACGGCCCACGC-----------GGGCCGAAGTGGGCCAACTGAAGCCACGCC
ACGCCACGGCACTACTTCAGGCG-ACCCACATGGAAGGAGGAGCATCCAGTGG-TCAGATGGCAAAGGCGGCATCGGCTA
CCCCTACAA-AATTCCGCACTCGCATCAACCCTAGTTCTTTCATTCATGTAATTCTCTTGTACTCGAATCAAACCAGAGA
TTGAGACCGTTGCTGTAATAGAGATTCCCGGTTCGTGCCTAACACCAGGTATCAGAGACCAGTCCACCTCCCTTCCATCA
CAACACTCTGGCCCAAATCATCGAGACACGACGTGTGCGGTAGGCGCGACCACAACTAGCCGCCATGGACCCA
>chr3B_387
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------------------------------------------------------------------TACCCAAAGTCCGA
CATTAACATTTCTCAATAAGATGCACCGCAAAGATTTGGCATGT--GGCCGGCCAGCTCTCGCAGCTTCCCCACCTCCTC
GTCGCCGCAGCCCACACGTCGGCTGACGCTTCCCGTTCCGTCCGCCATCATTTTTCCGTTCCTCGGGAACGGCGCGATGA
CGTGCCCCGCAACAT---TTCTCCGGCGGAAAGCCCCGCAGCCGCACAGAAACGCTT-CCCCCGCCGCCGCGTGGGCCGA
CCTGTCAGGGAATGGATAACGCCCAATCAACCAGACGATGCGGCCATGACTCGGCCGAGGACGCGTGCAGCTTTTCTTAA
CCGGCCTTCGCCCTATCCGGAACGCCCATCATTTGCCTCGACCCAACCGAATACCCAAAACGGCATTCGTCCTCCCCCCA
GTCGCTGACGGCGGGCCGGGACGCGTCCTGGTCCCGCATGCCTGCGTCTAAACAGGCCGC-GGGGTCCGGAGTTTGTTGG
TTCGTTAGGTGCCGTGCGTGGACTGTGATGCTGACCGGGCCCTAAGCGGGGATCGGAGGAGCGGGGCCCGCGCGAGCCAC
TGGGCCGTGGGGCATATATACGCCCTTTTTCCGCCGGCGAATCCCATTCCTTCCTCTCCCACGTCTCCAGCTCCTCCTCC
TTCCCTTCCTCGCGCGCGCGCTCCTCTTCTCCGCTCTCCCCTCCTCGTGCGCTCGTGTTCACCGAGATCAGCCAAACGGC
CACGCGCAAGCTCGCCATGGAGCAGACCGGCGGCAAGGGCGACCACGACTCGCGGCTGATGCGCGACCTCTGCACGCTGC
TCGTCACCATCATCGCCCCCGTCGCGGCGGCGTCCTCGGTGGACTCGCCCCGGAGGCCCGTGGCGCGGCGCCCGCGGGGC
GGCATGTCACCGGCGAGCGCGGCGTCGATGCTTCTGGGCGCGTCGATGGCGCTGATGCTGTGCGGGTCCGTGACGTTCGC
CATCGGTTTCCTCCTCATGCCGTGGGTCGCCGGCGTCGCGCTGCTCTTCGGCTTCGCCGGCGTCATCTCCACCCTCTCCT
CCGGCCTCCTCCCCTCGTCCTCGCCGTCCTCCTCCAAGGATAAGGAGCGACGGCTGCTGATGCCGACGCAAGGGCGTGTC
CGTGCCTCTGCC---CCGATGAGCTCTGTCCCGGATAAGCTCGTGGCGTGGCGTTGATCTGTTCTTGAAATTTAGTTAAT
TACTAATCAATTAGGGCGGGATTAGGATGGGTAATTCCTGTGTAAAAAACGCTTCCCTTTTGCTGTTGTTGTACGTTTCC
AGTCGCAAGAGATGCTGATGATTTA---CTACCGGCACAAGCAACATTTATTATATGTGTT-ATTGTTTCGTGTCGAGAA
TTCCGTGCACGGATGGCAA-CGTGCTTCGCTACCCTGCTTCGTCAGACCAGAAAACTGAGACG---------------TA
TACATCTCA--------GTCTGCGTCGATCTCGTAATTTCTGCAGTGTGTACTACTTTGCCACGGCAACTTT-TGTGTTT
TGTCGTGGTGAGACGTGAGGCCAACTCCACCGCGTGAACATATCCTATCCGGTCCGTCCGTTTAGTATAAAAAGGACAAA
TCGGGCCGCCCAGCGTGCGGGAGCAAATGGATTTTTGTCTGTTTTGTGTCCGTTTTTGACCCATCTGCGGTCCAAGTTTG
CGCCGCTTTTGGGGTGAAACGGACGTCACGCGGATGCGCCGGCCGTCTGCGCGTTCCTCCCCTGACCCGCCTGTCGGTGG
CACAGGACGTGCCTGTTTCTATCCGCCCCCTCCCTCCTTCCGGCCGCACCCCACTCCACTTTTCTCCATTCTTCCCACTG
TTCCCCTCGCCGCCGCCGCCGCTCCCATTGCAGCCGTGCAGCCCGGACGCGCGCTCGCCCAGCCCCTTCCCCTCGGTGCC
GCCGAGCTACCCAAACCACGGCCACCTGGTTTGCGCACCCGCCGGTCGGATTTGGGGCGGATCCGGTCGGTCTTGAGCTC
GCCCAGCTGTGGGAGGCCGGGCACCTCGCCGGAAGGCCCTGGCAGGGCCGCAAGGCCACATGCAGGCAGTGGCTCGTCCT
CTGGCCGCTCGAATCTGCACCGTCGGTGGTTCGTCGGCAGATACACGAATGGTGGCCGGCCGGGCTCGGTGCTTGCCCAA
AAGCTCGTCGGCGCACCGTTGCCACTCACTAAGTGCGAACACTGCCCAAGGATGGTCGTGCGCCGCGTGTCTACAACGCC
GGACATCCCGGATGGGTGTTCATCAAGTGCTTAAACGATGGGGTATGCGCTCTTTTTAGCTTCGGTTTGTGCTCTCGGAT
TAGACTAGTTGTGCTAACTTCAAATTTTATTGTGTAGAATGGATGCAAGTTTTGGTATTGGGAAGAAGAGTACATCAATA
TATTGATAGAGCGAAATTTAGTACATATTCGTGCACTTTTAGCTAGCATAGAGGTTGTAGATGAGATAAGTGCACTTATT
GCTAGATTAGAGGCTAGACACGAGACTAGGTGTGAGGAAGCAACATCGACTTCTGGCTTGAAGAAGAAAGGAGTATGCCA
GATCGAGTCTCCTCCACAGATAAACAATGAGTGCATCGAGAAGGCCCTAACCCAACTCAAGGGAGCAGTTATGGAAGTTG
GGTATTTTCTTAAATGTATTCTTGTGGTTCTTGTTTTCTTTGGCCTTGCTTTATTCATCAAAATGTGATGACGTATTGTC
ATGTATCAAAAATGAATGATAAAAAAAAGTTAAAGACTTGCAAAGAAATGTGCACACGGACAAGATGCAGCCGGGATGCG
TCCACGTGTTGGGTGCACGGCCACCGTATCCCAGAACAAGACCGGACACGACCTCATTGCCCTATCCAAACGAACATAAT
CCGAACAAAACGGACGTCCGTTTGAGATCGCGCGGTGGAGTTGGCCCGAGAGAGGTGTGCAAGTACAAGCATGGCTTGAG
ATGCACTGGTCGTCGGGGCTAACTGAAGCCTGAAGGCGATGTGAATGTTGGCTGTGCGCTTTACCTGATCGGGTTGGGCG
ATTACGTGTTAAAGTGCTTGGAAGCAACGAGCACCTCAACTCTTGCGGTTGTTGTCAGATGATTAGGGGGG-ATTTCACT
TTCACGCCCGCGCTCTCTCCGTTGCTGTAGCAGCAATCAGTGTCTACGTTCGGCACCTGTTTCAGCTGCCATTCCGTGCT
CCTGAACTGTCTTGTTCATCATCGAAGTTTCATCGAAGT---CTCACGTGACCCGCAGGGCAGCGACTCCCACAGCAACC
ATGCTGCTCAGCGGCCCACACAGCCCAAACGACCCAACCCACGTGTCAGTGGGCCGGAGTGGGCCAACTGAAGCCACGCC
GCGATAC-----TACTTCAGGCGGACCCACACGGAAGGAGGAGCATCCACTGGATCAGACGGCAACGGCGGCATCGGCTA
CCCCTACCCCAATTCCGCACTCGCATGAACCCTAGTTCTTTCATTCATGTAATTCTCTTGTACTCGAATCAAACCAGAGA
TTGAGATCGTTGTTGTAATAGAGATTCTCGGTTCGTGCCTAACACCAGGTATCAGAGACCAGTCCACCTCCCTTCCACCG
CAACACTCTGGCCCAAATCATCGAGACACGGCGTGTGCGGCAGGCGCGATCGCAGCTAGCCGCCATGGTCCCA
>chr3A_400
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-------------------------------------------------------------------------------G
CATTAACATTTCTCAAAAAGATGCACCGCAAAGATTTGGCATGTGGGGCCGGCCAGCTCTCGCAGCTTCCCCACCTCCCC
GTCGCCGCAGCCCGCACGTCGGCTGACGCTTCCCGTTCCGTCCGCCATCATTTTTCCGTTCCTCGGGA-CGACGCGGTGA
GGTGCCCCGCAACAG---TTCTCCGCCGGAAAGCCCCGCAGCCACACAGAAACGCCT-CCTCCGCCGCCGCGTGGGCCAA
CCTGTCAGGGAACGGATAACGCCCAATCAACCAGACGATGCGGCCATGACTCGGCCGAGGACGCGTGCAGCTTTTCTTTT
CTCTTCTTTACCCTATCCGGAGCGCCCATCATC-GCCGCGACCCAACGGAATGCCCAAAACGGCATTCGCTCTCGTCCCA
CTCGCTGACGGCGGGCCGGGGCACGTCCTGGTCCCGCATGTCTGCGTCCAAACAGGCCGC-GGGG-CCGCAGTTTGTTGG
TTCGTTAGGTGCCGTGCGTGGACTGTGATGCTGACCGGGCCCCAACTGGATACCGGAGGAGCGGGGCCCGCGCGAACGAC
TGGGACGTGGGGCATATATACGCCCTTTTTCCGCCGGCGATTCCCATTCCTTTTCCTCT--CGTCTCCAGCTCCTCCTTC
CTTCCT------CGCGCGCTCTCCTC------------CTCTCCTCGTGCGCTCGTGTTCACCAAGATCAGCCAAACGGC
CACGCGAGAGCTCGCCATGGAGCAGGCCGGCGGCAAGGGCGACGACGACTCGCGGCTGATGCGCGACCTCTGCACGCTGC
TCGTCACCATCATCGCCCCCGTCGCGGCGGCGTCCTCGACGGATCCGCCCCCGAGGCCCGTGGCGCGGCGCCCGCGGGGC
AGCATGTCGCCGGCGGGCGCGGCGTCGATGCTGCTGGGCGCGTCGATGGCGCTGATGCTGTGCGGGTCCGTGACGTTCGC
CATCGGCTTCCTCCTCATGCCGTGGGTCGCCGGCGTCGCGCTGCTCTTCGGATTCGCCGGCGTCATCTCCACCCTCTCCT
CCGGCCTCCTCCCCTCGTCCTCCTCCTCCTCC---------AAGGAGCAACGGTTGCGGACGCCGACGCAAGGGCGTGTC
CGCGTCTCTGCTCCTCCGATGAGCTCTGTTCCGGATAAGCTCGTGGCATGGCGTTGAGCTGTTCTTGAAATTTAGTAGTT
AATTAATTAATTAGGGCGGGGTTAGGAT-GGTAATTCCTGTGTAAAAAA-GCTTCCCTTTTGCTGTTGTTGTACGTTTCC
AGTCGCAAGAGATGCTGATGATTTAGTACTACCGGCACAAGCAACATTTGTTATATGTGTTGATTGTTTCGTATCGAGAA
TTCTGTGCACGGATGGCAA-CGTGCTTCGCTCCTCTGCTTCGTCAGACCAGAAAACTGAGACGTCTCTCCGGTGCACGTA
TATATCTCT--------GTCTGCGTCGATCTCGTAATTTCTGCAGTGTGTACTACTTTGCCACGGCAACTATGTGTGTTT
TGTCGTGGTGAGACGT----------------------------------------------------------------
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-----------------------------------------------GAGAGAGGTGTGCAAGTACAAGCATGGCTTGAG
ATGCACCGGTCGTCGGGGCTAACTGAAGCCTGAAGGCCATGTGAATGTTGGGTGTGCGCTTTACCTGATCGGGTTGGGCG
ATTACGTGTTAAAGTGCTTGGAAGCAACGAGCAGCTCAACTCTTGTGGTTGTTGTCA-ATGATTAGGGGGG-ATTTCACT
TTCACGCCCGAGCTCTCTCCGTTGCTGTAGCACCAATCAGTGTCTACGTTCGGGACCTGTTTCAGCTGCCATTCCGTGCT
CCTGAACTGTCTTGTTCATCATCGAAGTTTCAGCACGCCTGACTCACGGACCCGCA--GGCAGCGACTCCCACAGCAACC
ATGCTGCCCAGCGGCCCGCACGGCCCAAACGACCCAACCCACGCGTCAGTGGGACGGAGTGGGCCAACTAAAGCCACGCC
ACGACAC-----TACTTCAGGCG-ACTCACATGGAAGGAGGAGCATCCAGTGGATCAGACGGCAACGGCGGCATCAGCTA
CCCCTACCCTAATTCCGCACTCGCATGAACCCTAGTTCTTTCATTCATGTAATTCTCTTGTACTCGAATCAAACCAAAGA
TTGAGATAGTTGTTGTAATAGAGATTCTCGGTTTATGCCTAACACCAGGTATCAGAGACCAGTCCACCTCCCTTCCACCG
CAACACACTGGCCCAAATCATCGAGACACGGCGTGTGCGGCAGGCGCGATCGCAGCTAGCCGCCATGGACCCA
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------
--------------S-----------------------S-----------------------------------------
-------------------------------------S------------------------------------------
---------------SSS----S----------------------------------S----------------------
-------------------------------S------------------------------------------------
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--S-------SS------------S---S------S------S---------------S-S-------------------
-------------------------------------------------------S------------------------
--------------------S--------S--------------------------------------------------
---------------------------S---S-S-----------S-------S-----------------S--------
-----------------------SS-------------------------------------------------------
-----------------------------------------S--------------------------------------
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--S-S---------------------------------------------------------------------------
---------------S---------------------S------------------------------------------
-------------------S------------------------------------------------------------
---------SSSSSSSS---S-----------------------------------------------------------
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------------------------------------------------------------------------------S-
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-----------------------------------------------------------------S-----S------S-
------------------S--------------S-----------------------------------------S----
-----------S------------------------------------------------------------S-------
-S--------SS---------------S---S----SS------------------S-----------------------
---S---SSSSS-----------------------------------------------S-----S--------------
-------SS-----------------S-----------------------------------------------------
------S-----S--------------S-------------------------------------------------S-S
------------------------------S---------S--------S-S--S------------------
>forward_618
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--------------------------------------CAGCCACACAGAAACGCTTC----------------------
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>reverse_1851
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----------AATCTCTGTCCGCGTCGATC--------------------------------------------------
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