>input_sequence_67908
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---------------------------------------------------------GCAGCCGGTTCTCGCTCTACAGC
ACAGTTGAAT------AGACACACAGAGAGAAACTTCCATTGCTTTGATACTTCGTAGATA---TACTAGCTAGCTAGAC
ATACCACATAGAA--TATGGGTTCTTGGAAGCGCACCATCACGACGCCGTTCAGGAAGGCGTGCACCATGCTCAGCCCGC
AGCACGGCGGCGGCAGGAGCGACGATCAGCACGGCGGCAGCGGCCATGACGGCAAGAAGACGCCGCGCACGCGCCATCAT
CTCAAGCGGTCCGGCGCGGCGGGGGCG------GCGGCGATGGCGCAGGGCGAGGTGGTGGAGAGCCCGTCCACGACGGC
GCAGCTCTACGGCGACGTGATGGCGTGCGCCTACGAGGACGTGCAGGTCATGTGGTCCATGCTCGACAACAAAGCCAAGG
TCCTCGACACCACCGCCTCGTGACCTCGCGCTCCATGACCACAGATCGATGGATCGATGGGTCGAGGAGTTTCATCATCG
ATCCAGTACATACTACTGCCACATC---CACTGCGTGCAGATTTCAGAGCCTTTGGCGCTCAATCTGCAGACCGTCGACG
ACGAGTCCTGAAACTCTTCTCCGTTTTCTTCTTTGTTGAGCCTGAAATGAATCCCCGGCACTGGCATGGTACCTGATTAA
TTAAGC--TAAGGTGCTAGCTAGCTTGGAGTGATTTGAGTGATTACCGCCACAGCGTTAGGATGGATCTC---TGATCAT
TGAGGGCATGTTTTCCTTTTCTCTTCCTTTTTGGTGTCACAGATGGATATGGATGTATTCGGTCGTGCATCGTCCGATTC
GCCAATCAATGACAAGAGTTTTT---------------------------------------------------------
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>chr1D_1_TraesCS1D01G083800
ACGACCCATCACCCTACCCAAACGAATAGAATCCAGACAAAACGGACGTCCGTTTGAGGTTGCGCGGTGGAGTTGGCCTA
AACCACTAGTAGGACCGTTACATCTTTGTGAACAGAACCATTCACTTGATAGCACAGTGACATGCCCACAATGAATGTCA
CGAGGTGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNCGTCGTACGAACGCGATGGCCGGACGCTAACGGTTCTGG-------GGCGGCGGGGCGCG
CGCGCATGCCGCTGTACGTTGCCTACCCTTCGTCCACTCATCGGCAGCGGCCATGATCCCATCCATGGTGTATCCATGTG
CGCTTGCTCCTCATCATTCGCGGAGCCACCCCCACCACGGAGCACGTGCCCGCGTATGATTCTGTTCTCACTCACTCACC
TTCCTTCATCGCCAACGGGAAATGATAAACAATCCTCTTGTGGTGCGTACCCTACGCGGTGACCTACCGGGGCTTGCGCG
CCGTCCGATC----------AGATGATCTGACGGCTGTCGACGAGAGACATGCAGCGGAAGTCCCTACCGCCCCTTGGGC
GCTCTCGCCCGCAACGTGCACCCCTACCCATCCTGTCTTCCGGATCTTGTCTCCCCCACCTTCCCCACCCCTTCTTTCCC
TCTCTCACCACCCCCCCTCTCGCCATGGATATATATCGGCTCCCAGGCCCGGGCAGGGCAGCCGGTTCTCGCTCTACAGC
ACAGTTGAAT------AGACACACAGAGAGAAACTTCCATTGCTTTGATACTTCGTAGATA---TACTAGCTAGCTAGAC
ATACCACATAGAA--TATGGGTTCTTGGAAGCGCACCATCACGACGCCGTTCAGGAAGGCGTGCACCATGCTCAGCCCGC
AGCACGGCGGCGGCAGGAGCGACGATCAGCACGGCGGCAGCGGCCATGACGGCAAGAAGACGCCGCGCACGCGCCATCAT
CTCAAGCGGTCCGGCGCGGCGGGGGCG------GCGGCGATGGCGCAGGGCGAGGTGGTGGAGAGCCCGTCCACGACGGC
GCAGCTCTACGGCGACGTGATGGCGTGCGCCTACGAGGACGTGCAGGTCATGTGGTCCATGCTCGACAACAAAGCCAAGG
TCCTCGACACCACCGCCTCGTGACCTCGCGCTCCATGACCACAGATCGATGGATCGATGGGTCGAGGAGTTTCATCATCG
ATCCAGTACATACTACTGCCACATC---CACTGCGTGCAGATTTCAGAGCCTTTGGCGCTCAATCTGCAGACCGTCGACG
ACGAGTCCTGAAACTCTTCTCCGTTTTCTTCTTTGTTGAGCCTGAAATGAATCCCCGGCACTGGCATGGTACCTGATTAA
TTAAGC--TAAGGTGCTAGCTAGCTTGGAGTGATTTGAGTGATTACCGCCACAGCGTTAGGATGGATCTC---TGATCAT
TGAGGGCATGTTTTCCTTTTCTCTTCCTTTTTGGTGTCACAGATGGATATGGATGTATTCGGTCGTGCATCGTCCGATTC
GCCAATCAATGACAAGAGTTTTTGAAGATGTGGGACCCCCTTCTGTGCCTGTATTGCACATGGTTTGTCTCCGTCCTTGT
TTGCCGACATGTCTTA----CTTTGGCAAAAGGTCACCAAGCTTAACCATATTG-TTAATTCCTGCATGGAAAGGAAGAA
TCAATCCATTTACTTATATTTTCCAACAAGTTGAGTTGCTACAGTAGTGGATACCCCAGGTTAATTACATTGGCAAACGA
AGGAGTGGTTTGTTCATGTTTGGAGAACATAATAAGCCAACTCATACCCGCCGTT-------------------------
--------GTAGGTCGAGAAGCCATTTATTAAGGTCCTCAAATATACTCTTATCTATTATAAGAGCAACTCTGGCAGCAG
ATTCCCTAAAATCCCTGACTTTAAAACTTGTTTTCGACCCTCTTTATATATTTTTATAAGTCTATAGAGCAAGTGGGCAA
ACTAAGGTTCCCTAAAACTACAGCCTTAATAATTTGACCTCATGTGTTTATTCTATATATGTGCATATAAACTCAATTTC
AACTCCAACATCGCATCAACGTGAACCGAAGTTTTCATTTTGCGACACCACACAATTCAACAACATTTCAAATCAATAAA
TTCAAATTTAAACAAATAAATAGGGTCCGAATGCAACAAATAATAAAAATTATTTAAGAGTAAATGAATTTGAACAAATC
TAGTGCTCATGTAGCTTCCACTGATGCTCGACGAGATCCTTGTGAAGCTGCTCATGTGATGGCTTGCCTTCAATCTTTCG
ATATGCCTCGACGAAAGCTTCAATTTGGTTCAGGTGCCTACGGGGTTTCAAAGTGCTGCCAACAAAGTCGTAGTCGTAGT
TCACTTGGGAACCCCTCTCATCCTCGATGATCATGTTATGCAGGATCCAGGCCCGTCGATGAGGGGGGCCAAAGTGGCCG
ACCGCACAGGGGCCCCCAAAATCTTGGGGCCCCCGATTGGAGAGAAAACGCAAGGTTTTTTTTTAGTTGGAGAAAAAAGA
GAGATAATCTGCCTCTGGGGC
>chr1B_501
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--------------------CGTCGTACGAACGCGATGGCCGGACGCTAACGGTTCTGGCCTCTGGGGCGGCGGG----G
CGCGCATGCCGCTGTACGCTGCCCGTCG-TCGTCCACTCGT------CGGCCATGATCCCATCCACGG---GTCCATGTG
CGCTTGCTCCTCATCATTCGCGGAGCCACCCC-ACCACGGAGCACGTGCCCGCGCATGATTCTGTTCTCACTCACTCACC
TTCCTTCATCGCTAACGGGAAATGATAAACAATCCTCTTGTGGCGCGTACCCTCCGCGGTGACCTACCGGGGCTTGCGAG
CCGTCCGATCGCGCGGGGGCAGGTGATCCGGCGGCTGTCGACGAGAGACATGCAGCGGAAGTCCCTACCGCCCCTTGGGC
GCTCTCGCCCGCAACGTGCACCCCTACCCATCCTGTCTTCCGGATCTTGCCTCCCCCACCTTCCCCTACCTTTCTTTCCC
TCACCACCCT-----CCTCTCTCGATGGATATATATCGGCTCCCAGGACCGGGCAGAGCAGCCGGTTCTCGCTCTACAGC
ACAGTTGCAT------ACACACAGAGAGAGAAACTTCCATTGTTTTGATACTTCGTAGATAGTATACTGCCTAGCTAGAC
ATACCACATATAGAGTATGGGTTCTTGGAAGCGCACCATCACGACGCCGTTCAGGAAGGCGTGCACCATCCTCAGCCCGC
AGCACGGCAGCGGGAGGAGCGACGATCAGCACGGCGGCAGCGGCCACGACGGCAAGAAGACGCCGCGCACGCGCCACCAT
CTGAAGCGGTCCGGAGCGGCGGCGGCGGCGGCGGCGGCGATGGCGCAGGGCGAGGTGGTGGAGAGCCCGTCGACGACAGC
GCAGCTCTACGGCGACGTGATGGCGTGCGCCTACGAGGACGTGCAGGTCATGTGGTCCATGCTGGACAACAAAGCCAAGG
TCCTCGACAGCGCCGCCTCGTGACCACGCGCTCCGTCATCACCAC-CGATCGATCGATGGGTCGAGGAGTTTCATCATCG
ATCCAGTACATACTACTGCCACATCGTCCACTGCACCCAGATTTCAGAGCCTTTGGCGCTCAATCTGCAGACCGTCGACG
ACGAGTCCTGAAACTCTTCTCCGTTTTCTT-TTTGTTGAGCCTGAAATGAATCCCCGGCACTGGCATGGTACCTAATTAA
TTAAGCTATAAGGTGCTAGCTAGCTTGGAGTGATTTGATAGATTGCCGCCACAGCGTTAGGATGGATCTC---TGATCAT
TGAGGGCATGTTTTCCTTTTCTCTTCCTTTTTGGTGTCACAGATGGATATGGATGTATTCGGTCGTGCATCATCCGATTC
GCCAATCAATGACAAGAGTTTTTGAACATCTGGGACCCCCTTCCGTGCCTGTATTGCACATGGTCTGTCTCCGTCCTTGT
TTGCCGACATGTCTTAATTACTTTGGCAAAAGGTCATCAAGCTTA-----------------------------------
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>chr1A_524
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-------------------------------------------ACGCTAACGGTTCTGG-------GGCGGCGGGGCGCG
CGCGCATGCC-------------CGTCG-TCGTCCACTCATCGGCAGCGGCCATGATCCCATCCATGGTGCGTCCATGTG
CGCCTGCTCCTCATCATTCGCGGAGCCACCCC-ACCACGGAGCACGTGCCCGCGGATGATTCTGTTCTCACTCACTCACC
TTCCTTCACCACCAACGGGAAATGATAAACAACCCTCTTGTGGCGCGTACCCTAGGCGGTGACCTACCGGGGCTTGCGCG
CCGTCCGATC----------AGATGATCCGACGGCTGTTGAGGAGAGACATGCAGCGGAAGTCCCTACCGCCCCTTGGGC
GCTCTCGCCCGCAACGTCCACCCCTACCCATCCTGTCTTCCGGATCTTGTCTCCCCCACCTTCCCCTCCCCTTCTTTCCC
TCCCTCACCG--CCCCCTCTCGCCATGGATATATATCGGCTCCCAGGCCCGGGCAGGGCAGCCGGTTCTCGCTCTACAGC
ACAGTTGCACACACACACACACAGAGAGAGAAACTTCCATTGCTTTGATACTTCATAGATAGCATACTGCCTAGCTAGAC
ATACCACATAGAA--TATGGGTTCTTGGAAGCGCACCATCACGACGCCGTTCAGGAAGGCCTGCACCATCCTCAGCCCGC
AGCACGGCGGGGGCAGGAGCGAAGACCAGCACGGCGGCAGCGGCAACGACGGCAAGAAGACGCCGCGCACGCGCCACCAT
CTGAAGCGGTCCGGAGCGGCC------------GCGGCGATGGCGCAGGGCGAGGTGGTGGAGAGCCCGTCCACGACGGC
GCAGCTCTACGGCGACGTGATGGCGTGCGCCTACGAGGACGTGCAGGTCATGTGGTCCATGCTCGACAACAAGGCCAAGG
TCCTCGACAGCGCCGCCTCGTGACCTCGCGCTCCATCATCACCAC-CGACCGATCGATGGGTCGAGGAGTTCCATCATCG
ATCCAGTACATACTACTGCCACATC---CACTGCATGCAGATTTCAGAGTCCTTGGCGCTCAATCTGCAGACCGTCGACG
ACGAGTCATGAGACTCTTCTCCGTTTTCTT-CTTGTTGAGCCTGAAATGAATCCCCGGCACTGGCATGGTACCTGATTAA
TTAAGC--TAAGGTGCTAGCTAGCTTGGAGTGATTTGATGGATTGCCGCCACAGCATTAGGATGGATCTTTGATGATCAT
TGAGGGCATGTTTTCCTTTTCTCTTCCTTTCTGGTGTCACAGATGGATATGGATGTATTCGGTCGTGCATCATCCGATTC
GCCAATCAATGAGAGGAGTTTTTGAAGATGTGGGACCCCCTTCTGTGCCTGTATTGCACATGGTTTGTCTCCGTCCTTGT
TTGCCGACATGTCTTA----CTTTGGCAAAAGGTCCTTGTTTGCCGA------------------CATGGAGGGGAAGAA
TCAATCCATTTACTTACGA-------------------------TAGTGGATACCCCA----------------------
------------TTCATGTTTGAAGTACATAA---ACGAACTCGGCGGTTCCAAAAAAAAACATATAAACGAACTCAAAC
AAGTTGTAGTAGGTCGAGAAGCCATTTATTAAGGTCCTCAAAAATACTCCGATCTAT--TAAGAGCAACTCTGGCAGCAC
ATTCCCTAAATTCGCTGACTTTAAAACTTGTTTTCGACCCTCTTTATATATTTTTAAAAGCCTACAAAGCAAGTGGGCAA
ACTAAGGTTCCCTAAAACTACAGCCTTAATAATTTGACCTCATGTGTTTATTCTATATATGTTCATATAAACTCCATTTC
AACTCCAATATCGCATCA--------------------------------------------------------------
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>chr1B_1916
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-----------------------------------------CTTAACTGTATTGCTTAATTCCTGCATGGAAAGGAAGAA
TCAATCCATTTACTTATATTTTCCAACAAGTTGAGTTGCTACAGTAGTGGATGCCCCAGGTTAATTACATTGGAAAACGA
AGGAGTGGTTTGTTCATGTTTGAAGAACATAA---GCCAACTCGTACCAGCCGTT-------------------------
--------GTAGGTCGAGAAGCCAGTTATTAAGGTCCTCAAATATACTCCTATCTAT------AGCAACTCTGGCAGCAG
ATTCCCTAAATTCGCCGCCTTTAAAACTTGTTTTCGAAGCTTTTTATATATTTTTAGAAGTCTACGGAACAAGTGGGCAA
ACTAAGGTTCCCTAAAACTACAGCCTTAATAATTTGACCTCATG-------------------CATATAAACTCCATTTC
AACTCCAATATCGCATCAACGTGAAT-GAAGTTTTCATTTTGCGACACCACACAATTCAACAACATTTTAAAACAATATA
TTCAAATTTAAATAAATAAATAGGGTCTGAATGCAACAGATAATCAAAATTATTGAAGAATAAATGAATTTGAACAAATC
TAGTGTTCATGTAGCTTCCGCTGATGCTCGACGAGATCCTTGTGAAGCTGCTCATGTGATGCCTTATCTTCAATCTTTCG
ATATGCCTCGAAGAAAGCTTCAATCTGGTTCAGGTAACTACGGGGTTTCAAAGTGCTGCCAACAAAGTCGTAGTCGTAGT
TCACTTGGGAATCCCTCTCATCCTCGATGATCATGTTATGTAGGATC---------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSS------------------------------------------------------------
------------------S----SSS-SS-----------------------------------------SS--------
--------------------------------S---------------------S-------------------------
-------------------------------------------S------------------------------------
----------------------------S---------------------------------------------------
------------------------------------------------------------------S-------------
--S------SSS--------------------------------------------------------------------
-------S---------S-----S--------------------------------------------SS----------
---------------------------------------------------------------------S----------
----------------------------------------------S-----------------------------S---
--S-----------S-------S---------------------------------------------------------
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---------S-S------------------------S-S---SSSS----S-----------------------------
----------------------------------S---------------------------------------------
------------------------------S-------------------------------------------------
--------------------------------------SS----S-----------------------------------
-----------------------------------------------------------------------S--------
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------------------------------------S----------SS-------------------------------
-------------------------------------------------------------------------S------
----------------------S---------SSS--------S----S-------------------------------
-------------------------------------------------S-------SS---------------------
----------S--S------------------------------------------S-------S---------------
--------------------------------------------------------------S-----------S-----
--------S----------------SS-----------------------------------------S---S-----S-
------------S--------------S----------S-----S---------S----S--------------------
-----S-------------S-----------------------------------------S---SS-------------
-----------S------------S----------SS-------------------------------------------
-----------S----------------------------S------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSS
>forward_85
-----------------------------------------------------------------GGTGGAGTTGGCCTA
AACCA---------------------------------------------------------------------------
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>reverse_2113
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--------------------------------TAAGCCAACTCATACCCGCC----------------------------
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