>input_sequence_83285
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-----------------------------------------------ATGGCCGCCACCATGAAGCTGTCACTCACCTTC
GTCCTCCTCCTCTCCGGTAAGCCTCCATTCGCATCCTTGCTTGTGTTTTCTATGATCAAG--------------------
-----------------------CATCACTCCCTCTCACGATTATGTATCCTTGCTTGTG-------TTTGTTGTGGATC
GAGCAGCGCTGGTGGTGTTCGGGGACGCGC---AGGCGACCTGCGACAACATCCGGTGCATCCAGGGAGGGTACATCACC
TGCAAGAACTACCCCGGCCAGAAGCTCGACGGGTGCGCCTGCGTGTGCGCGCCCGAGGACGGCAAGGGCTGCGTGCTCCA
CCTCGACAGCGGCTCCACCAACAAATGCACCAAGTACTGA----------------------------------------
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>chr4A_1_TraesCS4A01G250400
GACCGGGTCCGCGAGATCTGACTAAGACACATGTCCACACGTCCTCCGATGAAGCTAGACACACTATCGAGATGGGAATC
GAATGTGGGAGACATTATTCCTGCCGAGGGACATCACTGCCGTCACACAACCCTAATGAAGACACTAAACCTAACAAAAG
CGGGAGTAGAGTCCCTCCCGCGGGTGGGGGCCGAGGTCCTC-------CACTATTATTTGGCCCATAGGCCATAGCAGAC
GGGGTGGACTGGCGGCAGTGCCGATGGGAGGAGGAGGAAAGACTGAGATCTTTTTTTTTGTAGAGGAGGAAAGAGGCTAG
CCAACTGTTTTGTAAAGATCCAAGTTGAGCCTCCATACTTCAACTCGAAGCAGTGAACCTGCCATATGCGTGATGGTCGA
TGGACCTCGATAAGCAGCTCTGGAAATAAAGAAATGTAATGGTGATGATTGTTTGACTGGACCATTTTGGATCCAGAGCA
CAATGTTGAATGCAAGATAAC--TTTTCAAGCTCAAAGAAGTAGGCCGAAAGCTTTGCAGGTCACGTCCCACTGTTTGTG
ATCTGTGAACTCGACGACTGAGACTTTTGAGCGGTACGTCAACCCGATCCACATCGAAC------AAACAGTGGTACGGG
TTGGCCGCTGATCCATCCAGCACGGCAACACCTCACAAACGAAGAGGCGCTCGACCAAGTCGGCAACCTCCTCTGACTTT
CTGCCCTCAATCGGCCGGACAAATCATGCTGCCTGAGATCGACGGGAAACGTGGCCATAGTTCTGAAATCCACGAAGCCG
CCGTCGACGCAAGCACGTACGTATTGGAGC--------ACAT-AG--------TATCGCCTGCCATGTG-----------
-----ATCTTGTTTCAAATCCCCGGTGA----A-----CCTACGTGGCACAAAGTCAGAGAGGGCGGCGGATCCAGCATG
CAGTTTGGCTGAGCTGAACCGAAGCC-------------------------TCCCTATATAAACGCACCGGCACCGCGCT
GCAACCACAGAT-----CGCACGACGCACAGAGACGAACGCGCAAGCATGGCCGCCACCATGAAGCTGTCACTCACCTTC
GTCCTCCTCCTCTCCGGTAAGCCTCCATTCGCATCCTTGCTTGTGTTTTCTATGATCAAG--------------------
-----------------------CATCACTCCCTCTCACGATTATGTATCCTTGCTTGTG-------TTTGTTGTGGATC
GAGCAGCGCTGGTGGTGTTCGGGGACGCGC---AGGCGACCTGCGACAACATCCGGTGCATCCAGGGAGGGTACATCACC
TGCAAGAACTACCCCGGCCAGAAGCTCGACGGGTGCGCCTGCGTGTGCGCGCCCGAGGACGGCAAGGGCTGCGTGCTCCA
CCTCGACAGCGGCTCCACCAACAAATGCACCAAGTACTGAACCGGATTACACGCGTTCG---------------TCATTT
TCATCTCTGCTCTCGTGTTTGAGTTCGAGCTAAATAAAGCTGCACGTGTGTCGTACGTACATGGAGTA--AATAACGAAT
GGAATGTAAGTTTGTGTCGTGGAATG-AAATGGAATGCAATCCGTTGATCAAGTTTTGTAGCAGGGCTAAGCA-------
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-----------------------------------------------------CCGGGGAAAAAAGCATTAGAAGGAAAG
A---AACTGAAAAAACACAGAACTAGCTCAGTTTTTGGACCCCGG--TAGTTGGCGAACTCGTTTGCTGTGAGGGATGAC
ATTTGCGAACGTTTTTCTTGGCAGATTCTTCAGAGATGCATGCCATTTTCTTCAGAGACACATGGC------TGGGAAGA
ATAAAATTTGACGCA-AAAACGAGCGGAAACTGTTAGCGTTTGATCTCGCGTCGCAACTAAACCATCAGCAAGCG----T
TCGTGGAATAACCGAGGAATGGAATGCTAGATTGTGTC-GTGCAAATATGCAATGGGTAACAGGACAAAGCACATACAAA
AAG-------------------------------AAAGAGAAACAAGCATCGCTAGTAAGAAAAAGAAACTGAAAAAAAA
CAGAACTAGCTAGCACTTTTTTTGAGGATCTCCAGAACTAGGTAGCTGTATTTGAAACAACTGAGCGAGCGCACATGATC
AGAGCATTGCACTAACCCAGGTCCAGCTGGATTGGGACGAACTCCTCCGTGACGTCCATAGATATTGCATTAGAGTATCT
CCAACATTAACCTCTAAGACGGGCATTGTATTTGTCCGCGAAATCATGGGAAGACAAACTCGAGCTCCACACCTGCTCCT
GAGCTGCTGAGGCTTGAGAGGAAGCCTCATTGCAGAAGGGGGCGATGTCAGCATCCCTGATAGAGCAACCCTACTATCTA
GTGACCAAGACAACTCGTTGCGAGTTATGATCGTCTCTGCAAGGCTAACCAGGGTCACTGGGCCTACTAGGTGTGCGAAG
GACCGACCCATCCTCAACACTACTAAATGCCAACTGCAAGATAGAG
>chr4D_6
-----GGTCCACGAGATCTGACGAAGACACACGTCCACACGTCCTCCGATGAAGCTAGACACACTATCGAGATGGGGATC
GAATGTGGGAGACATTATTCCTACCGAGGGACATCACTACCGCCACACAACCCTAATGAAGACACTAAACCTAACAAAAG
CGGGAGCAGAGTCCCTCCTGCGGGCGGGGGCCGAGGTCCTCACTACAACACTACTATTTGGCCCAAAGGCCATAGGAGAC
GGGGCGAACTGGCGGCAGCACGGATGGGAGGAGGAGGAAAGACTTC------TTTTCTTGTAGAGGAGGAAAGAGGCTAG
GCAACTGTTGTGTAAAGGTCCAAACTGAGCCTCCATACTTCAACTCGAAG---TGAATCTGCC--ATGCGTGATGGTCGA
TGGACCTCGATAAGCAGCTCTAGAAATAAAGAAAGGAAACAATGATGATTGTTTGACTGGACCATTTTGGATCCAGATCA
CAATGTTGAATGCAAGATAACTTTTTTCAAGCTGAAAGAAGTAGGCCGAATGC-TTGCAGGTCACGTCCCACTGTGTGTG
A--------------GATTGAGAC-TTTGAGCGGCACGTCAACCCGATCCGCATCGAAC------AAACAGTGGTACGGG
TTGGCGGCTGATCCATCCAGCACCGCAACACCGCACAAACCAAGAGGCGGGCGACCAAGTCGGCAACCTCCTCTGACTTT
TTGCCCTCGATCGGCCGGACAAAGCATGCTGCCTGAGATCGACGGGAAACGTGGCCATAGTTCTGAAATCTACGAAGCCG
CCGTCGACGCAAGCACGTACGTATTGGAGC--------ACAT-AGCCACATACTATCGCCTGCCTCCCATGTGATCTTGC
TTCAAATC------------CCCAGTGA----ACCTACACTACACGGCACAAAGTCAGAGAGGGCCGCGGATCCAGCATG
CAGTTTGGCTGAGCTGAACTGAAGCC-------------------------TCCCTATATAAACGCACCGGCACCGCGCT
GCAACCACAGAC-----CGCACGACGCGCAGGCACGGAAGCGCAAGCATGGCCGCCACCATGAAGCTGTCGCTCACCTTC
GTCCTCCTCCTCTCCGGTACGCCTCCATCCTTACTCCCGTATCCTTACGCTTCAACGGCGCACAG---------------
-----T--------------------------CTCTGACGCTT---TATCCTGGCTTGTG-------TTTGTTGTGGATC
GAGCAGCGCTGGTGGTGTTCGGGGACGCGC---AGGCGACCTGCGACATCATCCGGTGCAAACAGGGAGGGTACATCACC
TGCAAGAACTACCCCGGCCAGAAGCTCGACGGGTGCGCCTGCGTGTGCGCGCCCGACGACGGCAAGGGCTGCGTGCTCCA
CCTCGACGACGGCTCCACCAACAAATGCACCAAGTACTGAACCGGATTACACGCGTTCG---------------TCATTT
TCGTCTCTGCTCTCGTGTTTGAGTTCGAGCTAAATAAAGCTGTATGTGT----------------------GTAACGAAA
GAAATGTAAGCTTGTGTCGTGGAATG-AA-TGGAATGCAATCCGTTGATCAAGTTTTGTAGCAGGGCTAAGCACGAGAGG
GCACCTCCTGCACCCATGGGCATATGCACCCACTTACCAAAAAATGCACTTCAAGCACATTTTAAAAAGTCAAAAAATTC
AAAAGAAAATTTCACGCATACATGTTCGCAAATGTGTGTGCGAGGCACAAAGTTTTGTGAAAAAGTATCTTTTTGTTTTG
TCTCTGTAAAAAAGACAAATTTCAGTGCTTCTAAATAGCGTTTCACGACATAATTTTTTGTCTTTTTTGCACACGCCACA
AAAAAAAAAGCTATTTTTCCGTGAAAATCCGTACAACCATTTTCAGATTTTTTTTAAGCATTTAGAAATATGTTTTTCGA
AGTAGGTTCATATGTACCTGGGTTCATCCATACACTTCCCGGCTAAGCACCAGCCGGGAAAAAATGCATTAGAAGGAAAG
AAAGAACTGAAAAAACACAGAACTAGCTCAGTTTGTGGACCCCAG--TAGGTGGCGAACA--TTTGCTGTGAG-------
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>chr4B_9
--------CCGCGAGATCATGTGGAGACATACCTCCACATGATCCCCGACGAAGTTAGAAGCACCATAGGGAT-GGGATC
AAACTTGAGAGACATTACTCCTATTGGGGAACATCATCGTCGCCACACAACCCCAATCAAGACGCTAAACCTAACAAGA-
CGAGAGCAGGGCCCCTCCCGCAGACTCGAGCCGAGGTCCTTCGCACCTCCA-------TGGCCCAAAGACCATCGCAGAT
GTGGCGGACCGGCGACCGCGCTGACGGGAGGAGGAGGAAAGGCTGAGATA--TTTTCTTATGGAGGAGGAAAAAGGCTAG
ACAGCTGTTTCGTAAAGATCCAAGTTGAGCCTCCATACTTCAACTCGAAGCAGTGAATCTCCC--ATTCGTGATGGTCGA
TGGACCTGGATGAGCAGCTCTAGAAATAAAGAATGGAAAAAATGATGATTGTTTGACTGGACCATTTTGGATCCAGAGCA
CAATGTTGGATGCAAGATAAG--TTTTCAAGCTCAAAGG---AGGCCGAAAGC-TTGCAGGTCACGTCCCACTGTGTGTG
A--------------GACTGAGACTTTTGAGCGGTACGTCAACCCGATCCATATCGAAATCGAAGAAACAGTGGTACGGG
CTGGCCGCTGATCCATCCAGCAGGGCAA-ACCCCACAAACCAAGAGGCGCTCGACCAAGTCGGCAACCTCCTCTGACTTT
TTGCCCTCGACCGGCCGGACAAAGCATGCTGCCTGAGATCGACGGGAAACGTGGCCATAGTTCTGAAATCCACGAAGCGG
CCGTCGACGCAAGCACGTACGTATTGGAGC--------ACAT-AG--------TATCGCCTGCCATGTG-----------
-----ATC------------CCCAGTGA----A-----ACTACGCGGCACAAAGTCAGAGAGTGCGGCGAATCCAGCATG
CAGTTTGGCTGTGCTGAACTGAAGCC-------------------------TCCCTGTAGAAACGCCCCGGCACCGCGCT
GCAACCACATACATATTCGCACGGCGCACAGACACGGAAGCGCAAGCATGGCCGCCACCATGAAGCTGTCACTCACCTTC
GTCCTCCTCCTCTCCGGTAAGTCC--ATCCTTAATCCCGTATCCTTACGCTTCAACGACGCACAG---------------
-----TATCTGACGCTTCAACAACAGCACTCCCTCTGACGCTT---TATCCTTGCTTGTG-------TTTGCTATGGATC
GAGCAGCGCTGGTGGTGTTCGGGGACGCCG---GGGCGACCTGCGACAACATCCGGTGCATCCAGGGAGGGTACATCACC
TGCAAGAACTACCCCGGCCAGAAGCTCGACGGGTGCGCCTGCGTGTGCGCGCCCAAGGACGGCAAGGGCTGCGTGCTCCA
CCTCGACAGCGGCTCCACCAACAAATGCACCAAGTACTGAA---------------TCG---------------TCATTT
TCATCTCTGCTCTCGTGTTTGAGTTCGAGCTCAATAAAGCTGCATGTGTGC----CGTACATGGAGTA--AGTAACGAAT
GGAATGCTAGTTTGTGTCGTGGAATGAAA-TGGAATGCAATCCATTGATCAAGTTTTGTACTAGCAG-------------
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----------------------------------------GGCTAAGCACCGGCCAGGAAAAAATACATTAGAAAGAAAG
AAAGAACTGAGAAAACACAGAGCTAGCTCAGTTTTTGGACCCCCTAATAGCTGGCGAACG---TCGCTGCGACGGATAAC
ATTTGCGAACATTTTCCTTGGCAGATTCTTCAGAGACGCATAACATCTTCTTCAGAGACAAATGACAGTTTCTGGGAAGA
ATAAAAATTTAAAATGAAAACGAGAAGAAACTGTCATCGTTTGATCTCGCGTCACAACT---------------------
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>chr4B_299
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-----------------------------------------------------------------GAGGAAAGAGGCTAG
ACAGATGTTTCGTAAAGATCCAAACTGAGCCTCCATACTTCAACTCGAAGCAGTGAACCTGCC--ATGCGTGATGGTCGA
TGGACCTCGATAAGTAGCTCTAGAAATAAAGAAAGGAAATAGTGATGATTGTTTGACTGGACCATTTTGGATCCAGATCG
CAATGTTGAATGCACGATAAG--TTTTCAAGCTGAAAGAAGTAGGCCGAAAGCTTTGCAGGTCACATCCCACTGTGTGTG
ATTTGTGAACTCCACGAGTCAGACTTTTGAGCGGTACGTCAACCCGATCCACATCGAAATCGAAGAAACAGTGGTACGGG
CTGGCCGCTGATCCATCCAGCAGGGCAA-ACCCCACAAACCAAGAGGCACTCGACCAAGTCGGCAACCTCCTCTGACTTT
TTGCCCTCGACCGGCCGGACAAAGCATGCTGCCTGAGATCGACGGGAAACGTGGCCATAGTTCTGAAATCCACGAAGCGG
CCGTCGACGCAAGCACGTACGTATTGGAGATTTGAAGCACATCAG--------TATCGCCTGCCACGCG-----------
-----ATCTCGCTTCAGGTCTCTAGTGA----A-----CCTACGCGGCACAAAGTCAGAGAGGGCGGCGGATCCAGCATG
CAGTTTGGCTGAGCTCAACTGAAGT-----CCCACATCCAACCATCCAGAGTCCCTATATAAACGCACCCGCACCGCGCT
GCAACCACAGA-----TCGCACGACGCACAGACACGAAAGCGCAAGCATGGCGGCCACCATGAAGCTGTCACTCACCTTC
GTCCTCCTCCTCTCCGGTATGCCTCCGTTCGCATCCTTGCTTGTGTTTACTATGATCAAG--------------------
-----------------------CAGCACTCCCTCTGACGCTT---TATCCTTGCTTGTG-------TTTGTTGTGGATC
GAGCAGCGCTGGTGGTGTTCGGGGACGCGC---AGGCGACCTGCGACATCATCCGGTGCAAACAGGGAGGGTACATCACC
TGCAAGAACTACCCCGGCCAGAAGCTCGACGGGTGCGCCTGCGTGTGCGCGCCCGAGGACGGCAAGGGCTGCCTTCTCCA
CCTCGACGACGGCTCCACCAACAAATGCACTAAGTACTGAA---------------TCGGATTACACGCGTTCGTCATTT
TCATCTCTGCTCTCGTGTTTGAGTTCGAGCTCAATAAAGCTGCATGTGTGT----TGTACATGGAGTA--GGTAACGAAT
GAAATGTAAGCTTGTGTCGTGGAAGG-AA-TGGAATGCAATTCGTTG-ATAAGTTTTGTAGTAGGGCTAAG---------
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>chr4D_738
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--------------------------------CTGAGATCAACGCGAAGCCTGGCCATTGTTCTGAAATCCACGAAGCAG
GCGTCGACGCAAGCACGTACGCACCGGAGT--------ACATCAG--------TACCGCGCGCCACGTG-----------
-----ATGTCGCTTCTAGTCTCCAGTGAACCCA-----CGTACGCGGCACAGGGTCAGAGATC---------CCGGCATG
CAGTTTGGCTGAACCCAAGCCGGACGTACACCCACATCCCCGG---------CCCTATATAAACGCAACGGCGCCGAGCT
CCAAACACAGA-----TCGCACCGCGCAAACGCAGC-ACACGTAAGCATGGCTGCCACCATGAAGCTCACAATCACCTTC
CTCCTCCTCGTCTCCGGTACGTCCCCAGTCGTGTGCTTAACTCCTTATGCTTCAGACCATGTACGCACACCTGTGTGACA
CGCTTT--------------------------CTCTGACGCTC---TATGCTTTGCTTTGCTTGTTCTTTGTCGTGGATC
GAGCAGCGCTCGTGGTGTTCGGCGACGCCAAGAAGGCGCCGTGCGCCGTGGT---GTGCGTCCAGGGAGGGCACATCACC
TGCGACAACTACCCCGGCCAGAAGCTCGACGGGTGCGACTGCCAGTGCGCGCCCAAGGACGGCAAGGGCTGCGTGCTCCA
CCTCAACAGCGGCTCCACCAACCAGTGCACCA------------------------------------------------
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>chr2A_1197
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--------------------------------------------------------TGCATCCAGGGAGGGTACATCACC
TGCAAGAACTACCCCGGCCAGAAGCTCAACGGGTGCGCCTGCATGTGCGCGCCCGAGGACGGCAAGGGCTGCGTGCTCCA
CCTCGATAGTGGCTCCACCAACAAATGCACCAAGTACTGAA---------------CCGGCC--------TTCGTCATAT
TCATCTCTGCTCTCGTGTTTCAGTTCGAGCTCAATAAAGCTGCGTGTGTGT----CGTACATGGAGTAGGGGTAACGAAT
GGAATGTAAGCTTGTGTC----------A-TGGAATGAAATCCGTTG-TCAAGTTTTGTAGCAGGGCTAAGCAGCGG---
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-------------------------------------------------------GGAAATAAAGGCATTAGAAGGAAAG
AAAGAACTGGAAAAACACAGAACTAGCTCAGTTTTTGGGCCCCTG-ATAGCTGGCGAACGAGTTCGCTGTGAGGGGTGAC
ATTTACGAACGTTTTTCTTGGCAGATTCTTCACAGGCGCATGCCATTTTCTTCAGAGACAAATGGCAGTTTTCAGGAAGA
ATAAAAAATTGAGGC----------AAAAACTAACATCATTTCATCTTGCCTGGCAATTAAAACTGCCAGCAAACAGCAT
TCGTGGAATAAGTGAAGAATGGAATGCTAGTTTGTGTCTGTGCAAATTTGCAATGGGTAACGGGTGTAATTCAATCTGTC
GATCAGTTTGCGTAGCAGGGCAAATCAAATTAGAAAATAGAAACAAGCATCATTAGTAAGAAAAAGAAACTGAAAAAACC
CAGAACTAGCTAGG--------------------------------TGTATTTGAAACAACTGAGCGAGCGCACATGATC
AAAATACTGCATTAACCCAGGTCCAGCTGGATTGGGACGAACTCCTCCGT------------------------------
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>SNPs
SSSSS-----------------S--------S--------------------------------------------S---
----------------------S-------------------S-------------------------------------
------S-----------------S----------------------------S-----------S--------------
----S-------------S--S---------------------------SSS----S-----------------------
S--------------------------------------------------------------SS---------------
---------------------S------------S-S---S---------------------------------------
---------------------------------------------------------------------------S----
--S---------S-------------------------------------------------------------------
--------------------------------S-------S---------------------------------------
S-------S--------------S--------------------------------------------------------
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---------S-S-----S-----S--------------------S-----------------------------------
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-----------S--------------------S-----------------------------------------------
------------------------------------------------S-------------------------------
-------------------------S----------S---S--SSS----------------------------------
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--------------------------------------------S------SSSS----------------S--------
-----------------------------S--------------------------------------------------
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----------------------------------------------------------S-----S---------------
-------------------------------------------S------S--------SS-------------------
------------------------------------S-----------------------S-------------------
------S--S-S-SS---------SS--------S-S-------------------------S-SS-SSSS-SSS-----
-----------SS--S--------------S----------------S-------------S--SSS--SSSS--SSSSS
S-S----------------------------------S-------------SS-------------------------SS
-------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------------------------
-S-SS-S----S--------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_890
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----------------------------------------------------------------------ATCGCCTGCC
ATGTGATCTT----------------------------------------------------------------------
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>reverse_2851
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--------------------------------------------------AGGGTCACTGGGCCTACTAG----------
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