>input_sequence_61601
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----------------------------ATGGCGGACGGCGACCAGAGCCAGCAGCCGCCGCGCTACTGGTTCCCCTACT
GGAGCGGGCCGCCGCCCCCGGTGCGCCCGCAGATGTCGCGCCGCCTCTCCCCGCCCCAAGCGCCCTCCTCGCCCGCAGTG
CCGTCCTCGCCGCGCCGCCCCTCGCCGTCCCACCCCCGCCAACCCA---------------------CTCCTCGTGCGGC
TCAGAGCCAGGCGTCCTCCCGCC------------------CGTCCCCGTCCCCGTCCCGGGCATCGCCGCTCGCGCCCA
CCCGAGAGCTGCC---------CAACAGCAACTCCGTCTCCAAC------GCCAGGCCGCCTCCTAAGCCGGTCGCTCTG
CCCGCGACGCCCAAGCCCAAGGACGTCGACGTCGTCCCGCAGCCGGAGAAAACCTCCGTGCACCCGCCTGCTGCTGCGGC
TGAGACCAAGCATGGCCACAGGGCAGCGCATCACAACAAGGAGAAGGAGGTTGACAAGGAGAAGAAGGACGAGCACAAGA
GCAAGGACAAGAAGCACCACGCCGGCGAGGACAGCAAGCAC---AAGGACAAGGAGAAGAAGAACCATGCCGACGCCGGC
GAGGAG---AGCAAGCACGG---------GAAGGAGAAAGACAAGGAGAAGAAGCACCATGCGGACGCCGTCGAGGAGGG
CAAGCACAAGGGGGAGGAGAAGGAGGCCAAGGCGGAGCACGGGAAGCTGCACGGGGAGCTCAA---------GGCGGGCG
TCGCCGACATGGTGCGCAGGGCCACCGGCTCCGGGCACCAA------------GGGGCGAGCGTGATCACGCTGGCGGGG
GAGAACAAGGGCGCGTCCATGAAGGTGGGCGGCGGCATGGGCAAGGACGGCTCGTGGAAGGAGCACCACGGCGGGCACCG
GCTGGACGGCGGCGCGGCGGACGGGAAGCCGGACGGGCAGAAGAAGCAGGGGATGATGACGGCGCTGATCAACAGCAACG
TGCAGGTGATCAACAACTCGCTGCTGCTGCACAGCTCATGCAGCGGCAGCGACCCCGGCGTGCACCTCAAACTCTCCGCC
AAGTCC---GCCAACAAAGACAAGCAGAAGCACGCCGCCGGTGCAGACAAGGA---------TGCCGCTGCAAAGAAATG
A-------------------------------------------------------------------------------
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>chr3B_1_TraesCS3B01G001500
AACCCTAACCCGTGCCGCCGCCGCCGCCGCGCCCCTTCGTTGCCGCGCCCGCGCTTCCGCCCGCCCCCGCTGCGCCGCCA
CCAGCCGCGCCGCCTTCTTCCTTGCCGCGCCGCTGCACCCCTCCCTCTTGGCCATGGCCTCCCTCGGTTCCACTAGTTGA
GGTTGTGGCCCACTTTGTACTCCATATATACGTGCGCTTTGCACATATTCAACAGAAACTATGTTCAGATCATGTGTGGT
AAGGTCACCACTAATGATAAGTGATGACAACACCTTATGCAGTTTGCAACCAAACAATGTGTGTTATGTGCGCCTAGTGC
AACACACGCGACCAAGCGGTGGGTCAATATTAGTTACCTCGTGCTACTAGTCTAGATGCGGGCAACCAAACTATGCGCAG
ATATGTTGGTTTTTGGGGTGTTTGACGTCAGCCAGGCCCGTTGAGGCCCATTAGAGAAACACATGTAATGTAGGCAAAAT
CGGTGCAGACAACCAAACAG-----GCCTCAAGATGTCCTGTGCTCGAGTCTCACCCCCATCCATTTATTTTTCAGCATC
TCTTTCTTCCCGCTGACAGGAAGGGCCCACTCTGTCGATCCAAAAACAAAA-GTAGATTTTTTGTGTGTGTA--CAGAAG
TCCCTGGATG-----GACATGGATTCCCTTCCTTGTAAAAGCAGCAAAAGGCACTAGTGGAAAACTTGAGAGACAGGACA
GAGC----------AGAGAGAG------------------ATATTCCAAGTGTAGGTAGGTGTAGGAGGGCAAAGCAAAG
GCGCGGCGAGGCACACGTCGTCGCCGACCTTGAGCCCAGAGTGCACGCAGCATCAGATTCCATTTCCATT--GCCGATCA
TCCTCGATCGTCTGCTACCT------------TCTCGATTGAGATCGCCTTTCCTACTG-----TATAAATCTGGCCGCC
GTCGCCGTGCGTGTAACCAACCAGCCAA-ACACATTGCCATCGCCGGCCCGTGTCTTGAGCTTGCTCCCCTCCCAGTACG
TACGTAC-------GTACGTTCAAAGCCATGGCGGACGGCGACCAGAGCCAGCAGCCGCCGCGCTACTGGTTCCCCTACT
GGAGCGGGCCGCCGCCCCCGGTGCGCCCGCAGATGTCGCGCCGCCTCTCCCCGCCCCAAGCGCCCTCCTCGCCCGCAGTG
CCGTCCTCGCCGCGCCGCCCCTCGCCGTCCCACCCCCGCCAACCCA---------------------CTCCTCGTGCGGC
TCAGAGCCAGGCGTCCTCCCGCC------------------CGTCCCCGTCCCCGTCCCGGGCATCGCCGCTCGCGCCCA
CCCGAGAGCTGCC---------CAACAGCAACTCCGTCTCCAAC------GCCAGGCCGCCTCCTAAGCCGGTCGCTCTG
CCCGCGACGCCCAAGCCCAAGGACGTCGACGTCGTCCCGCAGCCGGAGAAAACCTCCGTGCACCCGCCTGCTGCTGCGGC
TGAGACCAAGCATGGCCACAGGGCAGCGCATCACAACAAGGAGAAGGAGGTTGACAAGGAGAAGAAGGACGAGCACAAGA
GCAAGGACAAGAAGCACCACGCCGGCGAGGACAGCAAGCAC---AAGGACAAGGAGAAGAAGAACCATGCCGACGCCGGC
GAGGAG---AGCAAGCACGG---------GAAGGAGAAAGACAAGGAGAAGAAGCACCATGCGGACGCCGTCGAGGAGGG
CAAGCACAAGGGGGAGGAGAAGGAGGCCAAGGCGGAGCACGGGAAGCTGCACGGGGAGCTCAA---------GGCGGGCG
TCGCCGACATGGTGCGCAGGGCCACCGGCTCCGGGCACCAA------------GGGGCGAGCGTGATCACGCTGGCGGGG
GAGAACAAGGGCGCGTCCATGAAGGTGGGCGGCGGCATGGGCAAGGACGGCTCGTGGAAGGAGCACCACGGCGGGCACCG
GCTGGACGGCGGCGCGGCGGACGGGAAGCCGGACGGGCAGAAGAAGCAGGGGATGATGACGGCGCTGATCAACAGCAACG
TGCAGGTGATCAACAACTCGCTGCTGCTGCACAGCTCATGCAGCGGCAGCGACCCCGGCGTGCACCTCAAACTCTCCGCC
AAGTCC---GCCAACAAAGACAAGCAGAAGCACGCCGCCGGTGCAGACAAGGA---------TGCCGCTGCAAAGAAATG
AGCGCCGTCGCCGACTCGCCGGCCGGCCGGCCACTGTAAACGGCGCTAGATGCTAGCCATCCACATGTGACTATATGCAA
ATAAAAGCAACCCCAACCGATCCTCTAATCGGTTAGACAGGAAAATACGAGCTAAGCGTATTTCTAACCGATCCCTAATA
ATCGATTAGAGGAGTAAAATTCTTCTAACCAAAACCTAACCGATCCCTAATCGACGCTAGTGAAGTAAAAATCACACTCA
AGCCGCCGTGAATCTCCCTATATTTACTCCACCGCTTGGCGATCGAGTAAAAAAAATCCCANNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACGCCCGTGGTTCATCGTCTAGGGGCGCATCCTCGAAC
CGGCGCCACTCGTCCGATCCACCCGCTCCCACCCAGTTCGCCGACTTTCCGGACCTCTCTTCGGCGCGGCCACCACACAG
GACATACTCGGCGTCCGGTAGCAGTCGTGGAGGACATGGGTGGCGGAGATCACCAACTGGGAGACCCACAAGAGGAAGTG
GGCCGGGTCGTTCCACACGACGGAGATCACGGAGATGGAACATGACCGGTGGCAAGTCCGGTTCCACGGCTCTGCCGTGA
GGCTGAACTTCCCGTTCGGGACGGCGCCAGTCCACCTCGTC
>chrUn_457
AAG-----------------------------------------------------------------------------
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-----------------------------------------------------------CACAAGCAATGTAGGAAAAAT
GGGCGCAGACAACCAAACACCGTTCGCCTCAAGATGTGTTTTGCTCGAGTCTCACCCCCATCCATTTATTTTTCAGCATC
TCTTTCTTCCTGCTGACAGGCAGGGCCCACACTGTCGATCCAAAAACCAAAGGTAGATTTTTATTTTATTTTTGCAGAAG
TCCCTGGATG-----GACATGGATTCCCTTCCTTGTAAAAGCAGC-AAAGGCACTACTGGAAAACTTGAGAGACAGGGCA
GAGCCGGAGGGAGCAGAGAGAG------------------ATATTCCAAGTTTGTGTAAGTGTATGTAGGGGT-------
--------------------------------------GAGTGCACGCAGCATCTGATTCCATTTCCATGCCGCCGATCA
TCTTCGATCCTCTGCTAGCTTCGCCTTCCCCCTCTCGATTGAGACCGCCTTTCTCCACTATAAATAGCAATCCCACCGCC
GTCGCCGTGTAGTCAACCAG-CAGCCAA-ACACATTGCCATCGCCGGCCGGTGTCTTCAGCTTGCTCCCAGTCCCA----
---GTAC-------GTACGTTCAAAGCCATGGCGGACGGCGACCAGAACCAGCAGCCACCGCGCTACTGGTTCCCCTACT
GGAGCGGGCCGCCGCCCCCGGTGCGCCCGCAGATGTCGCGCCGCCTCTCCCCGCCCGCAGCGCCGTCCTCGCCAGCACTG
CCGTCCTCGCCGCGCCGCCCTTCGCCCTCCCACCCCCGCCAACCCACTC------------------CTCCTCGTGCGGC
TCAGAGCCAGGCGTCCTCCCGCC------------------CGTC------CCCGTCCCGGGCCTCGCCGCTCGCGCCCA
TCCGAGAGCCGCC---------CAGCAGCAACTCCAACGCCGGTGCTACTGCCAGGCCGCCTCCAAAGCC----------
-----------CAAGCACAAGGACGTGGACGTCGTCCCGCAGCCGGAGAAAGCCGCCGTGCACCCGACTGCCGCGGCGGC
TGAGACCAAGCACGGCAAGGCCGCCCAACACCACCACAAGGAGAAGGAGGCCGACAAGGAGAAGGAGGACGAGCACAAGA
GCAAGGACAAGAAGAACCACGCCGGTGAGGACAGCAAGCAC---AAGGATAAAGAGAAGAAGCACCATGCCGACGCCGGC
GATGAGGACAGCAAGCACAAGGAGAAGGAGAAGGAGAAAGACAAGGAGAAGAAGCACCATGCCGACGGCGGCGAGGAGGG
CAAGCACAAGGGGAA------------------GGAGCACGGGAAGCTGCACGGCGAGCTCAA---------G-------
--GCCGACATGGTGCGCAGGGCCACCGGCTCCGGGCACGGGCA------CCCGGGGGCGAGCGCGATCACGCTGGCGGGG
GAGAACAAGGGCGCGTCCATGAAGGTGGGCGGCAA---GAGCAAGGACGGCTCATGGAAGGAGCACCAGGGCGGGCACCG
GCTGGACGGGAAGCCGGT------------GGACGGCGAGAAGAAGCAGGGGATGATGAGGGCGCTGATCAACAGCAACG
TGCAGGTGATCAACAACTCGCTGCTGCTGCACAGCTCCTGCAGCGGCGGCGACCCAGGCGTGCACCTCAACCTCTCCGCC
AAGTCCTCCGCCAGGAAAGACAAGCAGAAGCACGCCGCCGGAGCCGACAAGAGCGACAAAGCTGCTGCTGCAAAGAAATG
AGCGCCGTCGCCGACTCGCCGGCC--------------------------------------------------------
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>chr3A_539
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---------------------------------------------------------------ATTTATTTTTCAGCATC
TCCTTCTTCCTGCTGATAGGCAGGGCCCACACTGTCGATCCAAAAACCAAAAGTAGATTTTTT-----TTTTTGCACAAG
TCCCTGGATGGACAGGACATGGATTCCCTTCCTTGTAAAAGCAGC-AAAGGCACTAGTGGAAAACTTGAGAGACAGGGCA
GAGC----------AGGGCAGGGCCGCCGGAGAGACATGCATATTCCAAGT--------------------GT-------
--------------------------------------AAGTGCACGCAGCATCAGATTCCATTTCCATGCCGCCGG---
---TCGATCGTCTGCTAGCTTCGCCTCCCCCCTCTCAATTGAG-------------------------------ACCGCC
GTCGCCGTGTAATCAACCAG-CAGCCAACACACATTGCCATCGCCGGCCGGTGTGTTCAGCTTGCTCCCAGTCCCA----
---GTACAAGTACAGTACGTTCAAAGCCATGGCGGACGGCGACCAGAACCAGCAGCCGCCGCGCTACTGGTTCCCCTACT
GGAG------------CCCGGTGCGCCCGCAGCTGTCGCGCCGCCTCTCCCCGCCC---------TCCTCGCCCGCAGTG
CCGTCCTCGCCGCGCCGCCCGTCGCCCTCCCACCCACGCCAACCCACTC------------------CTCCTCGTGCGGC
CCACAGCCAGGCGTCCTCCCGCCCGTCCCCGTCCCCGTCCCCGTC------CCCGTCCCGGGCCTCGCCGCTCGCGCCCA
TCCGAGACCGAGAGCCGC---CCAACACCAACTCCAACGCCGGTGCTACTGCCAGGCCGCCTCCTAAGCCGGTCGCTCTA
CCCGCGACGCCCAAGCCCAAGGACGTCGACGTCGTCCCGCAGACGGAGAAAGCCGCCGTGCACCCGACTCCTGCTGCGGC
TGAGACCAAGCACGGCAAGGCCGCCCAACACCACCACAAGGAGAAGGAGGCTGA--------------------------
-CAAGGACAAGAAGCACCACGCCGGCGAGGACGGCAAGCAC---AAGGACAAGGAGAAGAAGCACCACGCCGACGCCGGC
GAGGAG---AGCAAGCAC------------AAGGAGAA------------GAAGCACCATGCGGACGCCGGCGACGAGGG
CAAGCACAAGGGGAAGGAGAAGGAGGCCAAGGCGGAGCACGGGAAGCTGCACGGCGAGCTCAA---------G-------
--GCCGACATGGTGCGCAGGGCCACCGGCTCCGGGCACGGGCA---------GGGGGCGAGCGTGATCACGCTGGCCGGG
GAGAACAAGGGCGCGTCCATGAAGGTGGGCGGCAA---GGGCAAGGACGGCTCGTGGAAGGAGCACCACGGCGGCCACCG
GCTGGACGGGAAGCCGGT------------GGCCGGGCAGAAGAAGCAGGGGATGATGACGGCGCTGATCAACAGCAACG
TGCAGGTGATCAACAACTCGCTGCTGCTGCACAGCTCATGCAACGGCGGCGACCCCGGCGTGCACCTCAACCTCTCCGCC
AAGTCC---GCCAACAAAGACAAGCAGAAGCATGCCGC------------------------------TGCAAAGAAATG
AGCGCCGTCGACGACTC---------------------------------------------------------------
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>chr3B_1000
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---------------------------CATGGCGGACGGCGACCAGAACCAGCAGCCGCCGCGCTACTGGTTCCCGTACT
GGAGCGGGGCGCCGCCCGCGGTGCGCCCGCAGGTGTCGCGCCGGCTGTCCCCGACTA------------------CAGCG
CCGTCCTCGCCACGCCGCCCGTCTCCTTCCCACCCCCGCCAACCGACTGCACCGGCGACCAGGGGCGCCGCTCCTCCGAC
TCCTCCTCATGCGTCCTCCCGG------------------CCGTC------CCCGTCCCGGGCCTCGCCGCTCGCGCCCA
TCCGTGAGCTGCCTCCCCAGTCCAACACCAACTCGAACGCCGCCGCGCCGGCCAGGCCGCCTCCTAAGCCGGTCGCCCTG
CCCGCCACGCCCAAAACCAAGGACGTCGACGTCGTCCCGCAGCCGGAGAAAACCGCCGTGCACCCGACTGCTGC---GGC
TGAGACCAAGCACGGCAAGGGCGACGAACACCACCAC------AAGGAGGCCGACAAGGAGAAGAAGGATGAGCACAAGA
GCAAAGACAAGAAGAACCACGCCGGCGAAGACAGCAAACACGGGAAGGGCAAAGAGAAGAAGAACAATGCCGACGCCGGC
GAGGAG---AGCAAGCAC------------AAGGAGAAAGACAAGGAGAAGAAGCACCATGCCGACGCCGGTGAGGAGGG
CAAGCACGGA---------AAGGAGGCCAAGGCAGAGCACGGGAAGCTGCACGGAGAGATCAAGGCGGGCGTG-------
--GCCGACATGGTGCGCAGGGCCACTGGCGCCGGACACGGGCAGGGGCACCCGGTGGCGAGCGTGATCACGCTGGCGGGG
GAGAACAAGGGCGCGTCCATGAAGGTGGGCGGCAA---GAGCAAGGACGGCTCGTGGAAGGAGCACCACGGCGGCCACCG
GCTGGACGGCGGCACGGTGGACGGGAAGACGGACGGCCAGAAGAAGCAGGGGATGATGACGGCGCTGATCAACAGCAACG
TGCAGGTGATCAACAACTCGCTGCTGCTGCAGAGCTCTTGCAGCGGCGGCGATCCCGGCGTGCACCTCAAGCTCTCCGCC
AAGTCC---GCCAAGAAAGACAAGCAGAAGCACGCCGCCGGCCCCGACAAG-----------------------------
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>SNPs
--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S-S--------S-----
S--S---------------S-----------------SS-S---------------------------------------
----------S---------S---------S----------------S---------------S-S-S-S-S--------
---------------------------------------------S-------------------------------S--
---------------------------------------------------S-SS---S-----S-SS--SSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------------------S----------
--S--------------S--------------------------S--------SSSSSS-------SS----SSS-----
---------SSSSS-----SS----------------------------S-------S-----------SSS--SSSSSS
SSS--------------------------------------------S--------------------------------
--------------------------------------------------------SS------S---------------
--------------------S-----S-----------------------------------------------------
---------------------------------------------SSSSSS------------S----------------
S----------------------------------SS-S--SS-------------------------------------
------------------------------------------------------S-----------S-------------
------------S---S-SS-S--S-SS--S---S---------------S-----------------------------
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------------------SS--------------------------------------------------S---------
-------------S----------------------------------------S------------------SSSSSSS
SS------------------------------------SSS---------------------------------------
---------------------------------SSSSS------------------------------------------
-------------S---S----------S---------------------------------------------------
-----------------------------------------------S----------------------S---------
-----------------------------------------S--S------SS------------S--------------
------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_500
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CGGTGCAGACAACCAAACAG------------------------------------------------------------
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>reverse_1545
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------------------------AGCGCATCACAACAAGGAGA------------------------------------
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>forward_1402
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----------------------CAACAGCAACTCCGTCTCCA--------------------------------------
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>reverse_3138
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-----------------CGACGGAGATCACGGAGATG-------------------------------------------
-----------------------------------------
