>input_sequence_77621
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---------------------ATGATGAATAGAGAGGATTTCATCCATTTCTCCGGTTTTACCCAACAACCGGGGCGCCT
CAGCCTTCCTAGGGCGCCATCAACCTCAGGCTCTTCCTCGGGAGATCCCAATGGGCAAGAAGGCCTCCTGCCGATCGCCA
ACGTGGGGCGGATCATGAAGCACGTGCTGCCGCAGGAGGCCAAGGTCTCGAAGCACGCCAAGGAGGTGATCCAGGAGTGC
GCCACGGAGTTCATCGGCTTCGTCACGGGCGAGGCCTCGGAGCGGTGCCGGCGGGAGCGGCGCAAGACGGTGAACGGCGA
CGACATCTGCCACGCCATGACCACCCTTGGCCTCGACAACTACGCCGGTGCCATGCGCAGGTACCTGCAGAGGTACCGCG
AGGGCGAGGAGCTCGCGGCGGCGCTCAACAACCACAGCAGGTCACCGGCTCCGCCGCCGCCAGGTGACGGCATGATCCAG
ATCGATGTCTGGGGCGAGCTGTCCAACTCCAGGGGCAACGAGAAGCATGGCAGGGATTAA--------------------
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>chr3D_1_TraesCS3D01G450000
GGCAGCGAGTGGACGACGGCACAGCGCGGCGGTCTGGTGGGCGACATCGACGACA-GAGGTGTGGTGGTGCAGCAGGCGG
TGGTGTGAGGGCTTCCGGCGGCGATGTGTGGCGGGGGCATGGTGGTCGGGCGATTGGTCGGGCGGCAGTCCGGTGAGTAT
CGACTATGGACTAGCGTCATTTGCAGCGGCGTGCTAACGTGGTATGCATTGGAAAAATTATAGGTCTTCCCCTCTATATA
GGGGAAGAAGGGGTGTTTTTTGGGTGAGCACCAAAAAATTGCTGG-----------------------------------
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------------------TTGACAATCTTTCGGTGGTCATTTTGCTCAAAATACATGC-CCAAGTACTCTGCACTTGTAC
ATCAAAATGTTCTAAACGAACCATTTTTGTAGTTAAATAAGCTAGCTAGTTGCATATTTTTGAT----ATGATGGAGCAT
CACCAAAATTTGCTTGTCAACAATATTTCGATGGCCATTTTGCTCAAAAGATATATACAAGTACTCTACACTTGTAATTC
AAAATGTTGTAAAATCCTTTACTTTCTATTCAACAAGCTTGTTGGATTGTTTTTCAATTT-GATGCACCATTGTTGAAAA
TTTGCAGGCCAATAATCTTTGAGTGGACATTTTGCTCAAATGATATACGCATGTACTCAGCACTTGTAGTTAAAAATGTT
CAAGATAGGCCTTTCTTTTTTATTCCACAAGCTAGTTGGATATTTTTAATCTCGCAGGCAAATAAATGTAACGGGCGTAA
TTTTTAAA-TTATAATGACGAATCATTTACCAGCATGGAGTGGTGGACAACTGGGTCACGACATACATTCCACACTTTTT
AAGCAGAACGAGATAAAAGTTGGGTAAGCAAGGCAAAAAGCCACGGCTCTCAGTGTATAAAAAGAGCCGCGGCTCTTCAG
CATTGGCAATATGAGTACCAGTGCGAAGACTACTTTCGGCGTGACCGAACTATATATCTTGTTGTGACGAAGATCACATA
CATACCTTATCCACACTAAATATGATGAATAGAGAGGATTTCATCCATTTCTCCGGTTTTACCCAACAACCGGGGCGCCT
CAGCCTTCCTAGGGCGCCATCAACCTCAGGCTCTTCCTCGGGAGATCCCAATGGGCAAGAAGGCCTCCTGCCGATCGCCA
ACGTGGGGCGGATCATGAAGCACGTGCTGCCGCAGGAGGCCAAGGTCTCGAAGCACGCCAAGGAGGTGATCCAGGAGTGC
GCCACGGAGTTCATCGGCTTCGTCACGGGCGAGGCCTCGGAGCGGTGCCGGCGGGAGCGGCGCAAGACGGTGAACGGCGA
CGACATCTGCCACGCCATGACCACCCTTGGCCTCGACAACTACGCCGGTGCCATGCGCAGGTACCTGCAGAGGTACCGCG
AGGGCGAGGAGCTCGCGGCGGCGCTCAACAACCACAGCAGGTCACCGGCTCCGCCGCCGCCAGGTGACGGCATGATCCAG
ATCGATGTCTGGGGCGAGCTGTCCAACTCCAGGGGCAACGAGAAGCATGGCAGGGATTAACTATATACCATCCCGATCGA
TCGATTGCTC-------TGAAGTTGTTTCGATCTTCTTGTGTTTTCGGTCTTCGATCTAGCTAGCTATTGCTTATGCAGT
GCTATGTTCGGTTCCTACAAAAACTGCACCGACATTGTACTATTGTTACTTCTATCTACTAATGCAATCGATATGTACCT
------GCTGTACCTGAAATTATTTCGACTTGTATTAATTGTTTTTAGCATGCATGACATCTTTAGAATGATTTTTTTAC
--AAGAATTTGAGCAAATTTTGTTTGCTGTCAGAATAATCTCTATTTTTTAATAAATAGTGCGTAC--------------
------------------------------------------------------------------------GTACTATT
TAGTACCATTTGTAATGCAGAATGATTAGCACACCTGGTCCTGACGCGCGTCTCACTATTTGGCAGAAGTTTTGTGGAAA
GAAGATGAGAAACTAGAAAGCATGGCCCATAGG-CTCCAACTGGCTGCATATTCTGGGTAAAGAAAGCAACGCAATCGAT
CTGAGCTATTGGGTCTTTTGATTGCTCTCAGGTGTAGCCAGAGGGTTTTTCTATCCCATTGCTCTATGGTGGGTTGTATT
AAATTCATGTGCACCCAATGGCATAAGAAGATGGTTGGATCGAAGAGCTCAAAAGGGCATCGTAACTTAGGGTGAATTTG
CACTGCACTATAAAGTTTGTAGGGACCACTTCTTGCACAATTCCTTCCCCTTTTCATATTTGGATGTCAGTATTCGTCGT
GCTGAAAGACTTCCGCATCGTACATCACGCGCGGTTGTTATATATTTGTTGCCCGGGAAAGCGATTTCTGCGGCATAAGG
CTGTTCGACAACAAGTGTCAAGTTGCGAAGTGAGGATTGTCCAGAAACGCACTACGTAATAAAATTTTATCACCTCGGGT
GATGCAATTAATGATGATGTTCGCATGCAGTGAGGTTCTTTTTGCACAAACACCGCCCACTCATTGGCGCTTGTAAGGGT
GCCTGCAACTATAAGAAGCAATAGCTTAATAGTAGTATTTTT-
>chrUn_26
-------------------------GCGGCGGTCTAGGGGGCGACATCGACGGTGGGAGGCGTGGTGGTCCGGCGGGCGG
CGGCGTGAGGGCATCCGATGATGATATGTGGAGGGGGCATGGTGGTCCGACAA-TGGTCGGGCGATGGTCCGGCGAGTAT
CGACAATGGACTAGCGTCATTGGCAGTAGCATGCTAATGTGGCATACATTGGAAAAATTATAGGTCTTCCACTCTATATA
GGGGAAGAAGGGGTGTTTTTTAGGGGAGCACCAAAAGAATTTTGGGAATAGGGAAGCAACAGGAGTGCATTTTTTGTGCC
AACTTTCACTAACCATTTTTTCCGAATAGGGGAGCTGCTGGAGATACTCTAAGTAGCATAATATCAACTTCATCTTATCT
TTGCATATGGTTTAGTCTTAATTTTACCATGTATTTTAGGATTCCTTTGGTTTTCCTATTCTTGTGAATCAAACACAATT
CTGAAAATTTCTATTTTTTGTAGTTCTTTGTTTCGCACATGCAATGCTACCCTATTCCATGTATTGTTCTATATTGCATT
TTTAAAATCCTGGGAATCAAAAGAGGCCCTTAGAGCAACTCTAGCTGATGGGTTGCGGTCTGCTACTAGCCAATCTTCCT
CTGCCGCTTCTTCTGTTGAGATGGCGCGGCGAAACCACCGCCCCCAAGTGGTTTGTCCCCGGCGACAGTGGTTTAGGTCT
CCGGCTCATACTATTTCAAATTACCGGATTGCGTTTTTCTTTTATGTTCTAGGCCCTCTTTGTAAGAAGCAAGGACTGGT
CTGTGATTTTCTTTTCTCGGAGGGCCCTTGGGTAAGGTGCATTTGTACCGTTACCTGATATTTCTAATGCACTCGGGGGT
CCTTCAGACCCTCTTCTAAAAATATCCTTTGTGCACGGCGTCGCCGGCGCCCGTTGCAAACCCAACCAGCTAGCTTCGGT
CTCGACACTGGTCCGGGAGGATCCAGGAGGGCACGTGCCGCGGCGCTGGAAGCCATGATCGCTCGCCATGCGAGGCTTGT
CGGCAGGTGTCGCGCCCCCATCCACCACCCCCACCCCGGGGGCTACCCAAAAGCACGCCGCCTGATTGGCCTGGCCGAGC
TGTGCATATATCGATCCAGCTACCACCACATGCTACTGGCATCGACTTTCGTACGCGCGTACCCTCGCACGCACCAAAAG
AGGCTGCCGCGTACTCAGCGCTGGCTAGCGTAGGGGTGGTGTAAGATAGTGTATGTAGACGTCGATCGAGCACGCTCACA
ATGGCATGGTATACAGGCGTATATCGTACGTATGTACAAACTGCATTCCGGACTATATATGCTCGTGTGCTTGTGGGTAC
TACCGATCGGTGCCTACCCCATGCGTATAGTTCAAAATGTTCTACACACAACCTTTTCTTTTACCCAACATGGTATCTAT
TTTTATTTTTTTCAAAAATGAGGATAACCACGGCCTCTGCATCAAGCGATGCACGCAGCCATCAACATGGTAGTTAAATA
TATTTGATATGATGCAAGATCACTGCAAATTTGCTTAGCGACAATCTTTCGGTGGTCCCATTTCGCTCAAACTCGATATA
CACAAGTACTCTTCACTTGTACTTCAAAATGTTCCAAGCAAGCCTTTTGTTGTGTAACGCGCTAGTAGGATATTTTCAAT
ATGCCTCACCATTTTATCTTGACAATATTTCGGTGGGCAGTTTGCTCAAAAGACATGC-CCAAGTACTCTGCACTTGTAC
ATCAAAATTTTCTAAACAAACCATTTTTGTAGTTAAATAAGCTAGCTAGTTGCATATTTTT----TATATGATGGACCAT
CACTGAAATTTGCTTGTGAACAATATTTGGATGGCCATTTTGCTCAAAAGATATATACAAGTACTCTAAACTTGTAATTC
AAAATGTTGTAAAAACCTTTACTTTCTATCCAACAAGCTTGTTGGATTGTTTTTTTGATACGATGCACCATTGTTGAAAA
TTTGCATGCCAATAAT----------------------------------------------------------------
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>chr3A_274
AAATTTC-------------------------------------------------------------------------
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----------------------------------------GCTGG-----------------------------------
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------------------TTGACAATCTTTCGGTGGCCAGTTTGCTCATAAGACATGCTCCAAGTACTCTGCACTTGTAC
ATCAAAATGTTCTAAACGAACCAATTTTGTAGTTAAATAAGCTAGCTAGTTGCATGTTTTTGATATATATGATAGACCAT
CACTGAAATTTGCTTGTGAACAATATTTCGATGGCCATTTTGCTCAAACGATATATACAAGTACTCTACACTTGTAGTTC
AAATTGTTGTAAAAACCTTTACTTACTATTCAACAAGCTTGTTGGATTATTTTTTC-ATACGATGCACCATTGTTGAAAA
TTTGTATACCAATCATCTTTGAGTGGACATTTTGCTCAAACGATATACGCAGGTACTCAGCACTTGTAGCTAAAAATGTT
CAGGATAAGCCTTTCTTTTTTATTCCACAAGCTAGTTGGATATTTT-AATCCCGTGGGCGAATAAATGTAACGGGCGTAA
TTTTTAAAATAATAAAGACGAATCATTTACCCGCGTGGAGTGGTGGACAACTGGGTCACGACATACATTCCATACTTTTT
GAACAGAACGAGATAAAAGTTGGGTAAGCAAGGCAAAAAGCCACAGCTCTCAGTGTATAAAAAGAGTCGCGGCTCTTCAG
CACTCGCAATATGAGTACCAATGCGAAGACTACTTTCGGCGTGCCCGAACTATATATCTCGTTGTGACGAAGATCACGTA
CATACCTTATCCACACTAAATATGACGAATAGAGAGGATTTCATCCATTTCTCCGGTTTTACCCAACAACCGGGGCGCCT
CAGACTTCCTAGGGCGCCATCAACCTCAGGCTCTTCCTCGGGAGATCCCAATGGGCAAGAAGGCCTCCTGCCGATCGCCA
ACGTGGGGCGGATCATGAAGGACGTGCTGCCGCCGGAGGCCAAGGTCTCGAAGCACGCCAAGGAGGTGATCCAGGAGTGC
GCCACGGAGTTCATCGGCTTCGTCACCGGCGAGGCCTCGGAGCGGTGCCGGCGGGAGCGGCGCAAGACGGTGAACGGCGA
CGACATCTGCCACGCCATGACCACCCTTGGCCTCGACAACTACGCCGGTGCCATGCGCAGGTACCTGCAGAGGTACCGCG
AGGGCGAGGAGCTCGCGGCGGCGCTCAACAACCACAGCAGGTCACCGGCTCCGCCGCCGCCAGGCGACGGCATGATCCAG
ATCGATGTCTGGGGCGAGCTGTCCAACTCCAGGGGCAACGAGAAGCATGGCAGGGATTAACGATATACCATCCCGATCGA
TCGATTGCTCATCTGACTGAAGTTGTTTCGATCTT-TTGTGTTTGCGGTCTTCCATC----TAGCTCTTGCTTATTCAGT
GCTATGTTCCGTTCCTACAAAAATTGCACCAACATTGTGGTATTGTTACTTCTATGTACTAATGCAATCGATATGTACCT
GCTCCTGCTGTACCTGAGAATATTTCAACTTATATTAATCGGTTTTAGCATGCATGTCATGTTTAGAATGATTTTGTTTA
CAAAAAAATTGAGCAATTTTTGGATGCTGTCAGAATAATCTCGAATTGTTAATGAA------------------------
----------------------------------------------------------------------------TATT
TAGTACCAATTGAAATGCAGAATGATTAGCACACCTGGTCCTGACGCGCGTCTCACTATTTGGCAGAAGTTTTGTGGAAA
GAAGATGAGAAACTAGAAAGCATGGCCCATAGG-CTCCAACTGGCTGCATATTCTGGGTAAAGAAAGCAACGCAATCGAT
CTGAGCTATTGGGTCTTTTGATTGCTCTCAGGTGTAGCCAGAGGGTTTTTCTATCCCATTGCTCTATGGTGGGTTGTATT
AAATTCATGTGCACCCAACGGCATAAGAAGATGGTTGGATCGAAGAGCTCAAAAGGGCATCGTAAGTTAGGGTGAATTTG
CACTGCACTATAAAGTTTGTAGGGACCACTTCTTGAACAATTCCTTCCCCTTTTCATATTTGGATGTCAGTATTCGTCGT
GCTGAAAGACTTCCGCATCGTACATCACGCGTGGTTGTTATATATTTCTTGCCCGGGAAAGCGATTTCTGCGCCATAAGG
CTGTTCGACAACAAGTGTCAAGTTGCGAAGTGAGGATTGTCCAGAAACGCACTACGTAATAAAATTTTATCACCTCGGGT
GATGCAAATAATGATGGTGTTCGCATGCAGCGAGGTTCTTTTTACACAAACGCCGTCCATTCATTGGTGCTTGTAAGGGT
GCCTACAACTATAAGAAGCAATAGCTTAATAGTAGTAATTTTT
>chrUn_598
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-----------------TTTAATTGGACATTTTTCTCAAACGATATACGCAGGTACTCAGCACTTGTAGTTAAAAATGTT
CAGGATAGGCCTTTCTTTTTTATTCCGCAAGCTAGTTGGATATTTTTAATCTTCTGGGCGAATAAATGTAACGGGCGTAA
TTTTTAAA-TAATAAAAACGAATCATCTACCCATGTGGAGTGGTGGACAATTGAGTCACGACATACATTCTATACTTTTT
GAACAGAACGAGATAAAAGTTGGGCAAGCAAGGCAAAAAGCCACGGCTCTTAGTGTATAAAAAGAGCCGCGGCTCCTCAG
CACTGGCAATATTAGTACCGGTGCGAAGACTACTTTCGGCGTGACCGAACTATATATCTCATTGTGACGAAGATCACGTA
CATACCTTATCCACACTAAATATGACGAATAGAGAGGATTTCATCCATTTCTCCGGTTTTACCCAACAACCGGGGCGCCT
CAGCCTTCCTAGGGCGCCATCAACCTCAGGCTCTTCCTCGGGAGATCCCAATGGGCAAGAAGGCCTCCTGCCGATCGCCA
ACGTGGGGCGGATCATGAAGGACGTGCTGCCGCCGGAGGCCAAGGTCTCGAAGCACGCCAAGGAGGTGATCCAGGAGTGC
GCCACGGAGTTCATCGGCTTCGTCACCGGCGAGGCCTCGGAGCGATGCCGGCGGGAGCGGCGCAAGACGGTGAACGGCGA
CGACATCTGCCACGCCATGACCACCCTTGGCCTCGACAACTACGCCGGTGCCATGCGCAGGTACCTGCAGAGGTACCGCG
AGGGCGAGGAGCTCGCGGCGGTGCTCAACAACCACAGCAGGTCACCGGCTCCGCCGGCGCCAGGTGACGGCATGATCCAG
ATTGATGTCTGGGGCGAGCTGTCCAACTCCA-------------------------------------------------
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>chrUn_1492
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--------------------------------GGGCAACGAGAAGCATGGCAGGGATTAACGATATACCATCCCGATCGA
TCGATTGCTCATCTGACTGAAGTTGTTTCGATCTTCTTGTGTTTGCGGTCTTCGATC----TAGCTCTTGCTTATGCAGT
GCTATGTTCGGTTCCTACAAAAATTGCACCAACATTGTACTATTGTTACTTCTATGTACTAATGCAATGGATATGTG---
---CCTGCTGTACCTGAAATTATTTCGACTTGTATTAATTGTTTTTGGCATGCATGTCATCTTTAGAATGATTTTTCTAC
--AAGAATTTGAGCAAATTTTCTTTGCTGTCTGAATAATCTCGAATCTTTAATAAATAGTACTCCCTCCGTCCCTTAATT
TAGGATGTTTTTGCAGTTTAAATTGAACTGCAAAAACGTCTTATCAAACATTTTATATTATGGGACAGAGTAGTACTATT
TAGTACCATTTGAAATGCAGAATGATTAGCACACCTGGTCCTGACGCGCGTCTCACTATTTGGCAGAAGTTTTGTGGAAA
GAAGATGAGAAACTAGAAAGCATGGCCCATAGGGCTCCAACTGGCTGCATATTCTGGGTAAAGAAAGCAACGCAATCGAT
CTGAGCTATTGGGTCTTTTGATTGCTCTCAGGTGTAGCCAGAGGGTTTTTCTATCCCATTGCTCTATGGTGGGTTGTATT
AAATTCATGTGCACCCAATGGCATAAGAAGATGGTTGGATTGAAGAGCTCAAAAGGGCATCGTAAGTTAGGGTGAATTTG
CACTGCACTATAAAGTTTGTAGGGACCACTTCTTGAATAATTCCTTCCCCTTTTCATATTTGGATGTCAGTATTCGTCGT
GCTGAAAGACTTTCGCATCGTACATCACATGCGGTTGTTATATATTTGTTGCCCGGGAAAGCGATTTCTGCGGCATAAGG
CTGTTCGACAACAAGTGTCAAGTTGCGAAGTGAGGGTTGTCCAGAAACGCACTACGTAATAAAATTTTATTACCTCGGGT
GATGCAAATAATGATGATGTTCGCATGCAGTGAGGTTCTTTTTACACAAACACCGCCCACTCATTGGCGCTT--------
-------------------------------------------
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSS----------S-S--------------SSS-----S--------S-S--S-----
S--S--------S----SS-SS---S-----S---------------S-S-S-S----------SSS------S------
----S----------------S----SS--S------S----S--S------------------------S---------
---------------------S--S-----------S-S-----------------------------------------
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------------------------------------S--S-----------S----------------------------
----------------------------------------------------------------------------S---
---SS------------S--------------------------------------------------------------
--------------S---------------------------------------SSSS-S--------------------
------S---------------------------------S----------S----------------------------
--S---------------------------------------------------SS---S--------------------
----------S----S---------------S--S-------------------------------------S-------
S-S-----------------------------------------------------------------------------
--S--------------------------------------------------------S-----------------S--
-------------------------S------------------------------------------------------
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--------------------S------------S----------------------------------------------
--------------------------S-----------------------------------------------------
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-------------------------------------------------------------S------------------
--------------------------------------------S------------SSSS-----S-------------
-----------------------S------S------------------------S------------------------
--------------------------------------------------------S-----------------------
------------------------------------------S-S---------------S-SSS---------------
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------------S-------------------------------------------------------------------
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-----------------------------------------------------------------S--------------
-----------------------------------S--------------------------------------------
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-------S-----------------------------------S------------------------------------
----S--------------------------------S-----
>forward_188
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--------GACTAGCGTCATTTGCAGCG----------------------------------------------------
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>reverse_2594
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---------------------------------AGGAGGCCAAGGTCTCGAA----------------------------
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>forward_2581
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--GTGGGGCGGATCATGAAGC-----------------------------------------------------------
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>reverse_3666
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-----------------------------------------------------------------CTTAGGGTGAATTTG
CACTGCA-------------------------------------------------------------------------
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