>input_sequence_85838
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-------ATGAACGGTGGCATCGGGGGCACGGCGGAGGGGGCACCGCACCCGAGCACGGACTGGGGCCCGATCATCGTGG
CGGTGATCCTGTTCGTGGTGCTGTCGCCGGGGCTGCTGTTCCAGCTGCCGGCCAGGACCAGGGTGGTGGAGCTCGGCAAC
ATGGCCACCAGCGCCATCGCCATCCTCGTCCACGCCGTCATCTTCTTCTGCATCCTCACCCTCGTCGTCGTCGCCATCGG
CGTGCACGTGTACGCCGCCTAG----------------------------------------------------------
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>chr3D_1_TraesCS3D01G427000
TAATTTTGTCACTGTACAATGACCATCCCTATAATGCCCTCCTACACACCCTGCTAACTTTGTAGTGAGTACAAAGGATG
AGTTACTCTTACTTTGTTGTTGTTTCGACAATATGTACAATGTGTATGATATGTCCTTAGACATGAGAATGCCATATGTA
CCCTTTCTATATATGCATGAACATAAAACGTCGCACGACTAAAAAGCTATTGCATTCTCTTTTTGTTTATAAGGCATGTA
TGTTTAGAATGTGAATCCAATAATAGTATAATACACGGACAAGTACATTTGGCTTTCGGGTGTATATGCAGCTGGTATGA
AAAAGATAATTTACTAGTTGCAAAAAAAGCCAAAAAAATCTGA---AACTTCTTTAAAACAAACTTAACCTTCCGTTTTA
CTCGTG--TAAAAACCTTACTCATTCAAATCGTGATCTGCGTTAACTAGAATTG--GAGTCACAATGGGTGCCGGGGCAT
CTACCC-TCTTGTCTTGCGGCAAGCAAGCAATGCAGCATCTGTAAAAAGCAGCAGTAGGAAA-ACGGGAGCAAGAAGAAC
CGGAGAAGAGGGGAAAGCATCAG--CTGCAGTGCGGCCACCGCAAAACGCGTCGCCTTTGGCTTTGCTCTGCTCGGCTTC
TTTTCGCTACCGGCCGGCTTCTCCAGCCTTCCTCTTGCTTTCGGCC--------------------------CTAGCTGG
AGGCTGGAGGCTGGAGCCCCCTCTCACACTGTAAAGCCACAGAAAAGCGG-----CGGCAGTACGTACTCTGTTCAGTTC
TTGTACCCTTCCTTAGCTCGCAAGCAGAGTATGCATTCCTTCCTTGTCCCTCGCCGACGCATCCACCGCCAAGCAACCTC
GCTACATATGCGCCGTTCCTTCGTCTACCCCCATTGTTCTACCAAACTCGTCGGCCGGTGAGC-----CCATACATACAC
ACGCACAGGTCGGATCAGAGGTCAGAGCACGTGTACAGGTAGATAGCTGGAGCCTGGAGGCCGGTGGCGAGAGGATCATC
GCTTGTCATGAACGGTGGCATCGGGGGCACGGCGGAGGGGGCACCGCACCCGAGCACGGACTGGGGCCCGATCATCGTGG
CGGTGATCCTGTTCGTGGTGCTGTCGCCGGGGCTGCTGTTCCAGCTGCCGGCCAGGACCAGGGTGGTGGAGCTCGGCAAC
ATGGCCACCAGCGCCATCGCCATCCTCGTCCACGCCGTCATCTTCTTCTGCATCCTCACCCTCGTCGTCGTCGCCATCGG
CGTGCACGTGTACGCCGCCTAGCTATCTCATATAGTACTCCAGATCAAGATGGGTTTTGTCTTTCTTCAGTGCTGCCCTG
CCCAGCCCTGCCCCTGTTTGCCTGTTTGATTTGGCCGGCTGTAAACTGCAGAAACACTGCTGGCTTAAAACAGTACGTAT
ATA----TGTTCTTGGATGAGGAATTAGTTGCTTGTAATTACTTCTCTGTGTCGATAATTGATGAAATGCCTTTGAAATT
GATTCCGGCAGAACCGTTTGCACCAACTATTCACTGAATCAGCACTCTTCAAGGGCTCCTCTACTTCAGATTTTGTTTTG
T--TTTGTTAAAGAGCATACTGATGCTGCAACTTTGGAAAGTGCTACCGGGGAAATTAAGAAACATATTTGTCCTCCAAA
AAAATTAA-AGTGAAAATTCCATCTTAAAGGATATATTTTGCGACATAATGACAGGTCGAACCACGTTTTACTTTCGGAA
ATGATAAATTCCGAAAATTCGGATTTTAACCATGGCAATCCG-ACATTTTTCATGGCAACTTGAGTTCACGCAAGATTGA
CAAACATGGCAATTTTCTAACAAAAAACAAATTGGGAC-AAAGTTGCCATGTTTTAACAACTAAAGTTGCCACCTCGTGT
CAACTAAAATTGCCATGAAAAAACGTACAGGATGACATGCTTAAAATCCGAACGTTTGGGGTTTATCAGGCCACTAGGAA
TCGGATTTTCACACATTTTAGCATTCTATTTTGAACGACATTTTAGTATTAGAAGTGGCTCTCACATGATTGCCCAACTC
GTTAGGGTAACAACGCTGGGCAACTAGGACATGCATTTCACAAAGAGGCTTTCGACATAAAAACAGGCATATTTTTATAT
ATTTGAAATCTCGGCGACGAAAGCTTTAAAACTCAATTTTGGATACATTTGACATAATTATTTTGGAATCACTTCTTTGA
AATAGTACGGCAAACACTTTATACATTTTACATAATTATTTTGGAATCACTTCTTAATCACTATTTAGTTT
>chr3A_342
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---------------------AAAAAAAGACCAAAAACAATTCTGGAACTTTTCTAAAACAAACTTAACCTTCTATTTTA
CTCGTATATAAAAACTTTACTCATTCAAATCGTGATCCGCGTTAACTAGACTTATAGAGTCACAATGGGTGTCGGGGCAT
CTACCC-TCTTGTCTTGCGGCAAGCAAGCAATGCAGCATCTGTAAAAGGCCGCAGTAGGAAA-ACGGGAGCAAGAAGAAC
CGGAGAAGACGGGAAAGCATCAG--CTGCAGTGCGGCCACCGCAAAACGCGTCGCCTTTGGCTTTTCTCCGCTCGGCTTC
TTTTCGCTACT----GGCTTCTCCAGCCTTCCTCTTGCTTTCGGCC--------------------------CTAGCTGG
A-------GGCTGGAGCCCCCTCTCACACTGTAAAGCCACACAAAAGCGGCGACACGGCAGTACGTACTCTGTTCAGTTC
TTGTACCCTTCCTTAGCCCGCAAGCAGAGTATGCATTCCTTCCTTCCCCCTCGCCGACGCAGCCACCGCCAAGCAACCTC
GCTACATATGCGCCGCTCCTTCGTCTACCCCCATCGTTCTACCAAACTCGTCGGCCGGTGAGTCCATACCATACACACGC
ACGCACAGGTCAGATCAGAG-------CACGTGTACAGTTTGGTAGCTGGAGCCTGGAGGCCGGTGGCGAGAGGATCGAC
---AGCCATGAACGGGGGCATCGGGGGCACGGCGGAGGGGGCGCCGCACCCGAGCACGGACTGGGGCCCGATCATCGTGG
CGGTGATCCTCTTCGTGGTGCTGTCGCCGGGGCTGCTGTTCCAGCTGCCGGCCAGGACCAGGGTGGTGGAGCTCGGCAAC
ATGGCCACCAGCGCCATCGCCATCCTCGTCCACGCCGTCATCTTCTTCTGCATCCTCACCCTCGTCGTCGTCGCCATCGG
CGTGCACGTGTACGCCGCCTAGCTGTCTCATACAGTACTCCAGGTCAAGATGGGTTTTTTCTTTCTTCAGTGCTGCCCTG
CCCTGT-----CCCTGTTTGCCCGTTTGATTTGGCCGGCTGTAAACTGCAGAAACACTGCTAGCTGAAGACGGTACGTGT
ATAAATGTGTTCTTGGATGAGGAATTAGTTGCTTGTAATTACTTCTCTGTGTCGATAATTGATGAAATGCCTTTGAAATT
GATTCCGGCAGAACCGTTTGCACCAACTATTCACTGAATCAGCACTCTTCAAGGGCTCCTCTACTTCAGATTTTGTTTTG
T--TTTGTTAAAGAGCATACTAATGCTGCAATTTTGGAAACTGCTACCAGGAAAAT------------------------
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>chr3B_462
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--------------------------------------------------------------------GTGTCGGGGCAT
CTAACCATCTTGTCTTGCGGCAAGCAAGCAATGCAGCATCTGTAAAAAGCCGCAGTAGGAAAAACGGAAGCAAGAAGAAC
CGGAGAAGAGGGGAAAGCATCAGCTCTGCAGTGCGGCCACCGCAAAACGCGTCGCCTTTGGCTTTTCTCTGCTCGGCTTC
TTTTCGCTACCGGCCGGCTTCTCCAGCCTTCCTCTTGCTTTCGGCCAGAACTACGCGAAAGAGCGAGCGGCCCTAGCTGG
AGGCTGGAGCCTGGAGCCCCCTCTCACACTGTAAAGCCGCAGAAAAGCGGCGGCAGTA-----------CTGTTCAGTTC
TTGTACCCTTCCTTAGCCCGCAAGCAGAGTATGCATTCCTTCCTTGTCCCTCGCCGACGCATCCACCGCCAAGCAACCTC
GCTACATATGCGCCGTTCCTTCGTCTACCCCCATTGTTCTACCAAACTCGTCGGCCGGTGAGC-----CCATACATACAC
ACGCACAGGTCGGATCAGAGGTCGGAGCTCGTGCACAGTTTGATAGCTGCAGCCTGGAGGCTGGTGGCGAGAGGATCATC
GGTAGCCATGAACGGGGGCATCGGGGGCACGGCGGAGGGGGCGCCTCGCCCGAGCACGGACTGGGGCCCGATCATCGTGG
CGGTGATCCTGTTCGTGGTGCTGTCGCCGGGGCTGCTGTTCCAGCTGCCGGCCAGGACCCGGGTGGTGGAGCTCGGCAAC
ATGGCCACCAGCGCCATCGCCATCCTCGTCCACGCCGTCATCTTCTTCTGCATCCTCACCCTCGTCGTCGTGGCCATCGG
CGTCCACGTGTACGCCGCCTAGCTATCTCATATAGTACTCCAGATCAAGATGGGTTTTGTCTTTCTTCAGTGCTGCCCTG
CCC----------CTGTTTGCCTGTTTGATTTGGCCGGCTGTAAACTGCGGAAACACTGCTGGCTGAAAACAGTACGTAT
ATAATTGTGTTCTTGGATGAGGAATTAGTTGCTTGTAATTACTTCTCTGTGTCGATAATTGATGAAATGCCTTTGAAATT
GATTCCGGCAGAACCGTTTGCACCAACTATTCACTGAATCAGCACCCTTCAAGGGCTCCTCTACTTCAGATTTTGTTTTG
TGTTTTGTTAAAGAGCATAGTGATGCTGCAATTTTGGAAAGTGCTACTGGGGAAATTAAGAAACATATTTGTCCTCCAAA
AAAATTTAGAGTGAAAATTCCATCTTAAAGGATATATTTTGCGACATAATGACAGGTCGAACCACGTTTTACTTTCGGAA
ATGATAAATTCCGAACGTTCGGATTTTAACCATTGCAGTCCGAACATTTTTCATGGCAACTTGAGTTCACGCGAGATTGA
CAAACATGGCAATTTTCTAACAAAAAATTAAACTGAAATAAAGTTGTCATGTTTTAACAACTAAAGTTGTCACCTCGTGT
CAACTAAAATTGCCATAAAAAAACGTTCAGGATGACATGCTTAAAATCCGAACGTTCGGGATTTATCGGGCCACTGGGAA
TCGGATTTTCACACATTTTAGCATTCTATTTTGGACGACATTTTAGTATTAGAAGTGGCTCTCACATGATTGCCCAACTC
GTTAGGGTAACAACGCTGGGCAACTAGAACATGCATTTCACAAAGAGGCTTTCGACATAAAAACAGGCATATTTTTATAT
ATTTGAAATCTCGGCGATGAAAGCTTTAAAACTCAATTTTGGATACATTTGACATAATTATTTTGGAATCACTTCTTTGA
AACAGTACGGCAAACACTTTATACATTTGACATAATTATTTTGGAATCACTTCTTAATCACTATTTAGTTT
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSS--------S-S-----SSS-SS--------S-S-------------------SS-----
-----S---------S---------------------S------------S--S-----------------S--------
--------------------------------------------------S-----------------------------
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-----------------S--------------------------------------------------------------
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-----------------------S--------------S-S---------------------------------------
-S-S-S---------S--------------------------S-------------------------------------
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---S-SSSSSS------------------------------------------------------S--------------
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-------------------------------S------------------------------------------------
------S-------------------------------------------------------------------------
---------------SS----------------S---S----------------------------------S-------
---------------------------SS--SSS-S-S--------S----------------------S----------
----------------S---------S-----------------------------S---S------S-------S----
---------------------------------S----------------------------------------------
---------------------------S----------------------------------------------------
-----------------S--------------------------------------------------------------
--S-------------------------S------------------------------------------
>forward_984
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----ACAGGTCGGATCAGAGGTCA--------------------------------------------------------
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>reverse_1872
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-------------------------------TTGGGACAAAGTTGCCATGT-----------------------------
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