>input_sequence_76002
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--------------------------------------------ATGGCTTCCTTCTCCTCTTCCTCCACTAGCGTGATC
ATCGTCCTCTTGCTGCTCTTGCCCGTCCTCCTTGCCCCGCCGGCGAGTGCCGTCCCTG------TACTTGCTGCATGCAA
GACCGTCGGTGGCGGGAGCACCTACTTCGACGTCACGTTCTGCCTGGAGGCCCTAGGCTCCGTCGGCGGTGGCGGTGTCT
ACCAAGACCTCGCCGCCGCTGCCGTGGGCCTCCTCGCTACCAACGCCACCAGCACGGAGGCCAAGATCGGCCGTCTGCTT
GGGGAGAGCGGCGTGAAGATTAAGGCGGGTGACGCGGCCCTGGCGAGGACCCTCCGGTCATGCCAGTCGCTGTACGGCAG
TATAGTGCACGGCGTTCCTGCGTGCACCGCCGCGGTCAAGGGCGGGAAGTTCCGCGATGCGACGGCGATCCTGGAGAAGG
CAGCGGCTGCAGCGAAGAAGTGCGAGGATGGGTTCAGGAAGAGCAACGCGTCCTCGCCGCTGACGGCGGAGGACGAGGAC
GCGTTCAAGCTCGCAAAGCTCGGCGTCGCATTGCTCGGTTTCGCTTGA--------------------------------
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>chr4A_1_TraesCS4A01G373300
CATTTTTCAGTCTGTACTAAACTGACCCTCGGTTGGATTTTGTATTTCGCTGCTCTGTTAGGGACTAGAAGGTTTAGTAT
AGAGAATCCAAACACGCAAGAAATAAGTGACCAACAATGGACGAACCAATTGCAATTCTTGGGGCGGTGAGGTTAGAGTT
TCTGGTCTTGTGGCAAGATTTGATGTCAGATGCTTCGGATCTATGCAAGGGTGCAACGGCGACGACTGTGGCTCCAAGGC
ATTGGTCCTTATGGGCACGTGCACAAAAACTTCGTGGCTATCATCGACAAGGTCAAACCGACTCTGGTAAGGGAGCGGTG
ACAGCGGCGTTTCGGCGGCTCGTTCTGGCAGCAGTATTGGTTGTTTGGGGTCTTGAAATCTCAATGTAATATTTATTACG
TTCGAGATACTTTGTACTCCGCTGAAGTTTGATTATAGATCTGGATCATTTTCGTAAAAAAAAATATATACTAATAGAAG
TATGAGTATCGGGGTACTTTCCTAAACAGCCATCAAATCAGATTAAGGATCCGCTTAAGAAGGTAAAGTTTTTTTGCAAT
TGTATGCTAAATCAGATCAATGATTCGTTTGAAAAAAAAGGTAAATTTTCTGTTAGCATATATTACCCTTTTTCTTTGCA
ACGATGTATTATAA--CAATTAATTGTCCTCCTTACAGTTTACCTTTGTTTTTCTTTGGCCTGCCAAAATAAAATTGCCT
TTGTTTTTTTGACGATGAATTGAATGTCTTTCCCCTGAAATTTCGTAGTTTAATGTTGAAATGTAAATCCAAAAGTAGCC
CTTATTATTTGTAC--TTAAGACCGGTCCATTGATACACCCGGTCAAATATGGAATCAAATCGAAAAATCCCTCAAAAAA
GGAATCAAATCGAAAATTTTATGAAATTAATTGTCCAACAACTCACACCTTATATATACATATATATACTAGACACCTGA
GGCTGAGATGTGGGCAGACTGAATCCACGAGCAAAACTGACAATATGGCTTCCTTCTCCTCTTCCTCCACTAGCGTGATC
ATCGTCCTCTTGCTGCTCTTGCCCGTCCTCCTTGCCCCGCCGGCGAGTGCCGTCCCTG------TACTTGCTGCATGCAA
GACCGTCGGTGGCGGGAGCACCTACTTCGACGTCACGTTCTGCCTGGAGGCCCTAGGCTCCGTCGGCGGTGGCGGTGTCT
ACCAAGACCTCGCCGCCGCTGCCGTGGGCCTCCTCGCTACCAACGCCACCAGCACGGAGGCCAAGATCGGCCGTCTGCTT
GGGGAGAGCGGCGTGAAGATTAAGGCGGGTGACGCGGCCCTGGCGAGGACCCTCCGGTCATGCCAGTCGCTGTACGGCAG
TATAGTGCACGGCGTTCCTGCGTGCACCGCCGCGGTCAAGGGCGGGAAGTTCCGCGATGCGACGGCGATCCTGGAGAAGG
CAGCGGCTGCAGCGAAGAAGTGCGAGGATGGGTTCAGGAAGAGCAACGCGTCCTCGCCGCTGACGGCGGAGGACGAGGAC
GCGTTCAAGCTCGCAAAGCTCGGCGTCGCATTGCTCGGTTTCGCTTGAGAGCGCGGG-ATGAATATTGTTGTTTTGAATA
AAATGAAAATTTTTATATACTATAATACGTATCTTTCTAG--------------TTGTAATCCTCGTGCTCTGTGATATC
TGATCTT----CGTGTTTGTTAGATCAGCGTTGTGTGTCGAGAGGCCAAGGTCCGATGTGATGCTATCCGCTGTCGGGCA
GTCGGGTAACAAAAATAAATCTCCTTCAAGTTTA----------------------------------------------
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-----------------------------------------------------------------------------GAA
CCTTCTCCGAAC-TGTGAAACGAATTATCGACTGACCTAATA--CCAACAACCAAAAGCATACAACAGTAATAAATTAGT
CAGACGACCAAAAAAGGGTAGCGCACAAGTGCTATCAAAATGCGACTACTCTAGCATTTTATAAGAGATAGTATTTTCAG
CACCCGGGTGCCCCTACACCCTCTATGAAAAGTAAATTCAAAACAAACTAAAAAAATCAAAAAAATCTGAAACTTTGGGA
CATCGAACATCATGAAACTTTGGATGATCTTGCAAAGTTTTAGCTAAAAATAGCATTCGAAGAGCACTCAAATAAAAAAA
CAAAATCATGTTTCAAAGTTTATGTACATTTTTTAGCAGTGATTTTGTTTTTTCCGGTGAGGGCTCCACGAAGGTTATTT
ATTGCTGAAACTTTGCAGGAACATCAAACCTTTGATAATCTTTGATCTCTGAAAGTTTCAGACTTTATTGATTTTTTTTC
AATTTTATATGAATTTACTGTTTGTGAGGGTGTAGGGGCACCCGGGAGCTGTTAGACATTTCTCATTTTATAAAGGAGTA
ACGTTTGTTGGACAGGAATCAATGCATAATTGTACTTTTTGTGTAGTTATCCAGCAACCTTTCCCCACGTTTGTGTACCC
ATATAAGTTATTATTTGATCTTTACCCAGGCATACCCACACTTGGCATAAAACTCGATCTCTACATGAATGTGTTGGACG
AAACACCTATGCCTGCTACTATCATTTGAATAGTCCATAAATAAGAGAGGGGGTAATGGTGCTAGCTAGCGGG
>chr7D_485
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----AGTATCAGGGTACTTTCTTTAACGACCATCAAATCAGATCAAGGATCCGCATTAGAAGGTAAAGTTTCTT-GCAAT
TGTATGCTGAATCAGATCAATGATTCGTTCGAAAA----GGTAAATTTTCTGTAATCGTATATTACCGTTTTTCTTTGCG
GTGATATATTATAATGCAATTAATTTCCCTCGTTTCAATCTACCTTTTTTTTGCCCGCC-------AAATAAATCTACCT
TTG-TTTTTTCACGACGAATTGAATGTCTTTTCCCTGAAATACCGTAGTTTAATGTCGAAATGCAAATCCAAAAGTAGCC
CTTATTATATGCATTATTAAGAACGGTCCATTGATACAGCCAGTCAAATATGGAATCAAATCGCAAAATACCGCAAAAAA
GGAATCAAATCGAAAATTTTATGAAATTAATCGTGGAACAACTCACACCTTACATATATATAC----ACTAGACACCCGA
GGCTGAGGTCTGGGCAGACTGAATCCACCATCAAGCTGACA---ATGGCTTCCTTCTCCTCTTCCTCTACTAGCGTGATC
ATCGTCCTCTTGTTGCTCTTGCCCGTCCTCCTTGCGCCGCCGGCAAGTGCCATCCCTG------TACTTGCCGCATGCAA
GACCGTCGGCGGCGGGAGCACCTACTTCGACGTCACGTTCTGCCTGGAGGCCCTTGGCTCGGTCGGCGGTGGCGGCGTCT
ACTGAGACCTCGCCGCCGCTGCCGTGGGCCTCCTCGGTACCAACGCCACCAGCACCCAGGCCAAGATCGGCCGTCTGCTT
GGGCAGAGCGGCGTGAAGATTAAGGTGGGGGACACGGCCCTGGTGCGGCCCCTCCGGTCGTGCCAGTCGTTGTACGGCGG
TATAGTGCACGGTGGGCCTGCATGCACCGCCGCGGTCAAGGGCGGGAAGTTCGGCGATGCGGCGGCGATTCTGGAGAAGG
CAGCAGCCGCAGCGAAGGAGTGCGAGGGCGGGTTCAGGAAGAGCAAAGCGG---CGCCGCTGACGGCGGAGGACGATGAC
ACGTTCAAGCTCGCAAAGCTCGGCGTCGCGTTACTCGGTTTGGCTTGAGAGCGCGGAAATGAATATTGTTGTTTCAAATA
AAATGAATTTTTTCATATACTATAGTACGTATCTTTCTGGTTTAGTTGTTCTACTTGTAATCCTCGTGCTCTGTGATCTC
TGATCTT----TGTGTTTGTTAGATCAGCGTTGCGTGTTGGGAGGCCAAGGCCCGATG--ATGCTATCCGGTGTCGGGCA
GTCGGGTAACCAAAACAAATCTCCTTCAAGTATATGACGCCGATATGGCGCTCACATTCGGTTTGGGAGCTCCCCAGACT
GAACTAATCGTTCCATGGTATCGATCAGATCAGTCAAACGAATACCCAGATCAAACCAACCGTTCGCTGGTATCGGTCAG
ATTGATCGAACAAATACGTTCGGGCTACAAACCAGTCCGAGCAAAAGATTCTTGTTTTGTGACGCAAACAGTGTAGAAGT
TGTTGGGGTGGTGTGTGTGTGAGGGGTGGGGGGGATGATGTCGCTCGGGGAGGTGTCGAGAAGTGGTGAAGTGCATACGT
AAGGAAAGGTGATTTGTCGGCTAAGAGAAGAGGAGACGGCGAGGGAAGGTCACCCTGGCTTGTCGGGGTGTTGGGAAGAG
GTTGACAACGGAGAACATGGTGAGGCGGCATGAAAGGCGGCAGCAACCAAGTGGTAGATATTGAGAAGAGAAGGAGGAGA
CAAGCGAAAAGGGTGTGGAGAGGCGTTAGGCTCGAGGACAGGTACCTATGTTTTACTACTTGGGTCATCTACACAACATT
TTCACACAGTAAAACGGAAGCAAGCTCATCTCATTTCCAGGACCCATGCTTTACGATCCCCAACTGACATTTACCTTGAA
CCTTCTCCGAACGTGTGAAACGAATTAACAACTGACCTAATGTGCCAACAACCAAAAGCGTACAGCAGTAA---ATTAGT
CGGACGACCAAAAAGGGGAAGCGCACAAGTGCTAGCAAAATGCGGCTACTCTAGCATTTTATAA----------------
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-------------------------------------------------------------------------AGGAGTA
ACGTTTGTTGGACAGGAATCAATGCATAATTGTACTTTTT-TGTAGTCATCCAGCAACCTTTTTCCATGTTTGTGTACCC
ATATACATTATTGTTTGATCTTTACCCGGGCATACCCACGCTTGGCATAAAACTCGATCTCTCCATGAATGTGCTGGACG
AAGTACCCATGTCTGCTACTATCATTTCAATAGTCCGCAAATAAGAGAGGGGTGATGTTCTAGC---------
>chr7A_532
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---------------------------------------------------CGTTTGAGAAGGTAAAGTTTCTT-GTCAT
TGTATGCTAAATCAGATCAATGATTCGTTTGAAAA----GGTAAATTTTCTGTAATCGTATATTACCATTTTTCTTTGCA
GCTATATATTATAATGCAATTAATTGTCCTCGTTACAATTTACCTTTGTTTTATTACCACG------AATAAGTTTACCT
TTG-TTTTTTTACGACGAATTGAATGCCTTTTCCCCGAAATACTGTAGTTTAATGTCGAAATGTAAATCCAAAAGTAGCC
CTTATTATATGCATTATTAAGAAAGGTCCATTGATACAGCCGGTCAAATATGGAATCAGATGGAAAAGTCCGC--AAAAA
GGAAGCAAATCGAAAAGTTTATGAAATTAATCGTCCAACAACTCACACCTTAT--------------ACTAGACACCCGA
GGCTGAGGTCTGGGCAGACTGAATCCACCATCAAAACTGACAATATGGCTTCCTTCTCCTCTTCCTCTACTAGCGTGATC
ACCGTCCTCTTGCTGCTCTTGCCCGTCCTCCTTGCGCCGCCGGCGAGTGCCGTCCCTG------TACTTGCCGCATGCAA
GACCGTCGGCGGCGGGAGCACCTACTTCGACGTCACGTTCTGCCTGGAGGCCCTAGGCTCCGTCGGCGGTGGCGGTCTCT
ACCGAGACCTCGCCGCCGCTGCCGTGGGCCTCCTCGCTGCCAACGCCACCAGCACGGAGGCCAAGATCGGCCGTCAGCTT
GGGGAGAGCGGCGTGAAGATTAAGGCGGGGGACGCGGCCCTGGCGCGGCCCCTCCGGTCGTGCCTGTCGCTGTACGGCGG
TATAGTGCACGGTGGGCCTGCGTGCGCTGCCGCGGTCAAGGGCGGGAAGTTCGGCGATGCGACGGCGATCCTGGAGAAGG
CAGCGGCCGCAGCGAAGGAGTGCGAGGACGGGTTCAGGAGGAGCAACGCGGCTTCGCCGCTGACGGCGGAGGACGATGAC
GCGTTCAAGCTCGCAAAGCTCGGCGTCGCGTTGCTCGGTTTCGCTTGAGAGCGCGGAAATGAATATTGTTGTTTTGAATA
AAATAAATATTTGCATATACTATAATACGTATCTTTCTAGTTTAGTTGTTCTACTTGTAATCCTCGTGCTCTTTGATCTC
TGATCCTCGTGTGTTTTTGTTAGATCAGCGTTGTGTGTCGGGAGGCCAAGGTCCGAAATGCTGCTATCCGGTGTCGGATA
GTCGGGTAACAAAA------------------------------------------------------------------
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>chr4A_1001
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--------------------------------------------ATGGCTTCCTTCTCCTGCTCCTCTAGTAGCGTGATG
GGCGTGATCTTGCTGCTCTTCTCCGTCCTCCTTGCGCCTGCGCGGTCGGCCAGCGACCAGATGATACTTGCCGCATGCAA
GACCGTCGGCGGCGGGAGCACCTACTTCGACGTCACGTTCTGCTTGGAGGCCCTCGGCTCCGCGGGCGGCTCCGGCGGCT
ACCAAGACCTCGCGGCCGTCGCCGTGGACCTCCTCGCGACCAACGCCACCAGCACGGAGGCCAAGATCGACCGCCTGCTC
GGGTGCGGCGGCGTGGAGGTCAAGGCGGATGACGCCGCCCTGGCGCGGTGCCTCCGGTCGTGCCAGTCGCTGTACGGCGG
CATAGTGGACGACGGGCCTGCGTGCACCGCCGCGGTCAAGGGCGGGAGGTTCGGCGAGGCGACAGCGATCCTGGAGAAAG
CCGCGGCCGCGGCGAAGGAGTGCGAGGGTGGGTTCGAGAAGAGGAGAGCGGCTTCGCCGCTGACGGCGGAGGACGACGAC
GCGTTCAAGCTCGCAAAACTCGCCGTCGCGTTGCTCCGTTTTGCTTGAGAGCCCGG------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSS------S----------S-S---SS--------------S------------S--------------S--S-----
-----------------------------------SSSS--------------S-S-S---------S------------
S----S-------------------------S-----S--------------S--SSSS-SSSSSS-------S--S---
---S------S----S---------------S---------SS-------------S-----------------------
--------S--S-S--------S---------------S---------------------------------S-------
-------------------------------S--------------------------S---SSSSS----------S--
-------S-S------------------S-S------------------------------------S------------
-----------------------------------S-----------------------------------S--------
---------S----------------------------------------------------------------------
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---------------------------------------------S--S----------S------------------S-
--------------SS------------------------------------S---------------------------
-------S---------S--------------------------------S-S-----------------------S---
-----------------------------S--------------------------S-----------------------
-------S-----S---------------------------------------------------------------S--
-----------S----------------------------S-----------------------------S---------
---------------S---------------S------------------------------------------------
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---------------------------S-S-----------S-----------------S----S------SSS------
-S------------S---S---------------S---------S-------------------SSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------
----------------------------------------S------S--------------SS---S------------
-----SS-----S--------------S-----------S----------------------S----------S------
--SS---S---S---------------S--------SS--------------SS-SSSSSSSSSSSSSSSSSS
>forward_256
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----------------------------------------------------------------------------AGGC
ATTGGTCCTTATGGGC----------------------------------------------------------------
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>reverse_1458
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-----------------AAGTGCGAGGATGGGTTCAG-------------------------------------------
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>forward_261
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-TTGGTCCTTATGGGCACGTG-----------------------------------------------------------
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>reverse_2778
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---------------------------------------------------------TGAGGGCTCCACGAAGGTTA---
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