>input_sequence_77766
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---------------------ATGTCCCCGAAGCACGT------TATGACCCCAGTTCCCAAACCCACGTT---------
----------CCCGAATCACGGCGGCGGCGGCGAGGCTTTTCAGGCCGCCGGCGGCGAGGCGTTTCAGGCCGGCGGCGGT
GCTGGTTTTTTCAGGCCAGCGGCTGTGCGGGTCTTCAGGCCGA---------------------CGATGGCTGGACGAAG
GCGGCGGCCGCCATGGCTGTTATGTCTGGGCGCCGGCAACGAACGGAAGATGGGCGGCG-GGGCCAACCCAAGGTCGACG
AATGGAAGATGGGCGGCGATCAC---------------ATCATCACAGGTGTTGAATCTCTCCCC-------CCATCTCT
CTGTCTCAGTAG-------GGTAGTACACTGAAAGGGGATTTTTTTTTCGATGTTCAGGATGTG--------GTGGTCCC
CAAGTTCGATTTTGGGGTGCCCAGGAACCAGTTTGATGCTGAGAAAGTTGCCCAGGAACCAGTTCGATTTTGGGCTGCCC
AGGCACAAAATGCAGAAGAAGATAATGTCAAGGATGAACAAGGA----GAGACTGGACTGTAG-----------------
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>chr1D_1_TraesCS1D01G446800
ATTAAGTGAGTTCGATATGTATGCATGCATAGGGTGCAGGTGTAGCAACTAGTCACATAATTATACTTG--------GCC
AATATATATTACTACTAGTATATGCTTGGCTCGGTCGCCATCAATGGATATCTAAAAAAGAGAAGGGCCTTTGCCCTTGT
TCAATGGATTGCTTGAAATA-TGTTCAATGGATTACCTAAAATCATGATGTAAAAGATTTCGTAAGTTACCCCATGGGTG
TGAAAAAGTCGGCTTCGGGAGAAGAGCTGGCGTCGCTCCTCAGCCATGAGCCTCCTCACCACGTGTCGAAGCGCCGCCGC
CATGGATCGATCAATACTACTTGGGGAGAAAGCCTTGTGTTTATTTCTTCAACTCACGGTTTACAAGTTACAGGGTGCAT
AG--------------------------------------GTAGGTATATATAAGATGCCAATACTACTACTCGGAGAAG
GCTAGGAAACTAACACGATCTGGAA----------ATTTTCCTTAGGTGGCTAGCCGGGCTAGGGTTATTCTCCGTTTCC
TTCTCCTCGCTACACCAACTCCAAACACAACACGATCGAGATCGACGCGGACACGTACCTACATACGTACGTTCGAACGT
TTTCCTTTTTTTTTCTTGATTGATAGACAAAAAAGAAGTTGGGTTTTCCTTTCCAATCGATGCAAAGAGGGGACCCCCTT
TCAGGCCGGCCCATATGATGATGTATTTTTAGGGAAGCCATCAGTTTTTTGGAACCTTCTGTAAGTTTCCACGTCTGTTT
TAGAGGCAAATACACCAATGGTACAACAAGTTGCACTTGATGACCACTTTGGTGCTTGAAGTTGAAAAATACACAAAACT
GGTGCATAAACTTGTGTTTTGGTGCACGTACAGTTCAAAACCCAGATGCGGTCTTGTACGACGCCAGCTGGGCGTGACAG
CGTGGCGCAGT-CCCGCTTGTCAGTGGCTGGAAGACATTATGCGGGATGAAGCGTGCATTGTTTGCAGATACCCCCCTCC
TTTTATGTGGATTATC---ACATGTCCCCGAAGCACGT------TATGACCCCAGTTCCCAAACCCACGTT---------
----------CCCGAATCACGGCGGCGGCGGCGAGGCTTTTCAGGCCGCCGGCGGCGAGGCGTTTCAGGCCGGCGGCGGT
GCTGGTTTTTTCAGGCCAGCGGCTGTGCGGGTCTTCAGGCCGA---------------------CGATGGCTGGACGAAG
GCGGCGGCCGCCATGGCTGTTATGTCTGGGCGCCGGCAACGAACGGAAGATGGGCGGCG-GGGCCAACCCAAGGTCGACG
AATGGAAGATGGGCGGCGATCAC---------------ATCATCACAGGTGTTGAATCTCTCCCC-------CCATCTCT
CTGTCTCAGTAG-------GGTAGTACACTGAAAGGGGATTTTTTTTTCGATGTTCAGGATGTG--------GTGGTCCC
CAAGTTCGATTTTGGGGTGCCCAGGAACCAGTTTGATGCTGAGAAAGTTGCCCAGGAACCAGTTCGATTTTGGGCTGCCC
AGGCACAAAATGCAGAAGAAGATAATGTCAAGGATGAACAAGGA----GAGACTGGACTGTAGGATAGGATGATTCTGTA
TTCTGTTTTCAAGATTTTTGGCCTGTGATTG----------------GAAGTGATTGGAAGTGTAATGGATGGAGTA---
--ATTGATGCATGTACTGAATGTATTAT-TTTTCAGCATTTTGAATGGAAACGTTGCTTTTGAGGTGCAAAATTCAGTAA
TATGCCTCTATTTTGCTTCAGCTGAGATTTGCACAAGTATAATAGGAAAGGGAACGATTACATTTAACATGATATAAGAT
GTATACAGTGGATCATTAAAAGTAGAATAGGCCTCTCATACTGGAGCAACGATCATGAGAGTACATACTAACTAGACAGC
AAAACGTGTGATACTAAGGCCGCGTTCGGATTCCCTCCGCTCCGCATGATTAAGGCCATAATTTGTGGAGTTGGTTAAAG
CTCCGCGGAGGACTGCCGAACGCGGCCTAAGATGCACATGAAACAGACAATATGTATATTTTGTCAGCCAAATAGCCATG
ATGTATATTGATGTTTGCAGGCACAACAAGATGCATTTACTGTTTTCAAAATGCTTTAACAGCACAAGGACGAACTATGA
ACAACACAGCAAGATGCATATACTATTTGCTGGCACAGCAAGATGAATATACTGCTGGTAAAATGCATAAAAAGGCAAAC
GGCAAGTGCTTATCACAGCAA----------AATTACCACTGCAGCACCATCTTAACACGATCACAGTACATATCACTTC
AAATTAAGTTCAGTACATATACTTGTAAACGAAAGGCTTCAGGCCAAGTTCAGTACATGCAAAAGATAACTAATGGGTTC
AGACCAAGTTCAGGCCAAT---------------------------------TTCATTCATGAATTTCATGTTTTGAATT
TGTGCATCACTGGGATAGGAAATCATGAGGCCATTCATCATCAGGTGCATTCTGAGTGATCAGAACTTCTTCCTCGGCCA
GCATGAAATTTGCTGCTTCAGTCCAAGTTCTACTAGATCCATCATCTCCAAAACGGAGGTTGTAGAAGCCAGGAGCTGCA
GCTCTTGC
>chr1D_1
ATTAAGTGAGTTCGATATGTATGCATGCATAGGGTGCAGGTGTAGCAACTAGTCACATAATTATACTTG--------GCC
AATATATATTACTACTAGTATATGCTTGGCTCGGTCGCCATCAATGGATATCTAAAAAAGAGAAGGGCCTTTGCCCTTGT
TCAATGGATTGCTTGAAATA-TGTTCAATGGATTACCTAAAATCATGATGTAAAAGATTTCGTAAGTTACCCCATGGGTG
TGAAAAAGTCGGCTTCGGGAGAAGAGCTGGCGTCGCTCCTCAGCCATGAGCCTCCTCACCACGTGTCGAAGCGCCGCCGC
CATGGATCGATCAATACTACTTGGGGAGAAAGCCTTGTGTTTATTTCTTCAACTCACGGTTTACAAGTTACAGGGTGCAT
AGATAGGCAGCGTATATATGTATGCTCAGAAAAAAAAAAGGTAGGTATATATGTGTCGTGTTTAATTCTAACAGCA----
-----------------ATCTGGAAATTTCGATAGATTTTCC---------------GGCTAGGGTTATTCTCCGTTTCC
TTCTCCCCGCTATGCCGACTCCAAACACAACACGATCGAGAGCGACATGGACACGTACGTAC------------------
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>chr1D_1
ATTAAGTGAGTTCGATATGTATGCATGCATAGGGTGCAGGTGTAGCAACTAGTCACATGTGTATATAGATAGATGGAGCC
AATATATATTACTACTAGTATATGCTTGGCTCGGTCGCCATCAATGGATATCTAAAAA-GAGAAGGG-------CCTTGT
TCAATGGATTACTTGAAATTTTGTTCAATGGATTACCTGAAATCATGAGGTAAAAGATTTCGTAAGTTACCTCACGGGTG
TGCATGAGTCTGCTTGGGGAGAAGGGCTGGCGCCGGTCCTCAGCCATGAGCCTCCTCGCCACGTGTCGAAGCGCCGCCGC
CATG----GATCAATACTACTTGGGAAGAAAGCCTTGAGTTTATTTCTTCAACTCACGGTTTGCAAATTACAGGGTGCAT
AG--------------------------------------GTAGGTATATATAGCCAATAC-TACTACTACTCAGAGAAG
GCTAGGAAACTAACACGATCTGGAAATTTCGGTAGATTTTCCTTAGGTGGCTAGCCGA-CTAGGGTTATTCTCCGTTTCC
TTCTCCTCGCTACGCCGACTCCAAACACAACACGATCGAGAGCGACGCGGACACATACGTACGTACGTACGTACGTACGT
TTCCTTTTTCTTTTTCTT--------------------------------------------------------------
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>chr5D_745
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-AGAGGTAAATACACCAGAGGTACAACAAGTTGCACTTGATGACCACTTTGGTGCTTGATGTTGAAAAATACACAAAACT
AGTGCAAAAACTTGTGTTTTGGTGCACGCACGGTGCAAAACCCAGATGCCGCAGTGTACAGCGCCAGCTGGACGTGACAG
CGTGGCGGCGGGCCCGACTGTCAGTGGCTGCAAGCCTGCATGCAGGCTGAAGCTCGGTTTGTTTGCAGATACCCCCCTCA
TTTGATATGGATTATAATAGAAAAAGTCCCAGAACGTTATGACATATGACCCCAGTTCCCAAACCCACGTTGCGAAATCG
CAGCTTATTCCCCAAATCGCGGCAGCGGCGGTGAGGCTTTTCAGGCCGGTGGCGGTGAGAG-------------------
-------TTTTCTGGCCGGTGGCTATGCGGGTTCTCAGACCGGTGGCGGAGCGCGTTTCCCGACCGACGGCTGGACGAAG
GCTGCGGCCGCCGTGAGCGTTAGGTCTGGGCGCCGGGGACGAACGGAAGATGGGCGGCGCGGGCGAACCCAAGGTCGACG
AATGGAAGATGGGCGGATGTGTACTACAACCCGAAGAGATCATCACAGGTGTTGAATCTCCCCCAGCCCCTACCCTCTCT
CTGTCTCGATGGTTTTTGTGGTATTGAACTGGAAGGGGCTTTTTTCAATTTTCAGGACGATAAACAGAGGATGAGCTGCA
CAAGTTTGATTTTAGGTTGCTGCAGAACTAGTTTGATGCTGAGAAGGTTGATGAGAAGGCAA------------------
------AAAATGGAGAAGAAGAATATGTCAAGGATGAACAAGGAGATCGAGACTGGACTGTAGG----GATGCTTCTGTA
TTCTGTTTTCATGATGTTTGGTCTGTTATTAAGTTTGAAGCAGCTCAGAAGTGATTAGAAGTATAATAGATGTAGTAGTA
GTATTGGTGCTTGTACTGAATGTTATTCATTTTCAGAATTTTGAATGGAAATGTTGCTTTTGAGGTGCAAAATTCAGTAA
TTTGCCTCTATT-TGCTTCAGGTGAAGTTTGCGCAAGTATAACAGGACATGGAACAGTCACATTTAACATGACATAAGAT
GCATAGAGTGTATTATTAGTAGTACAATAGGCCTCTCAAACTGGAGGAATTATCATAACAGTACAACTGACTA-------
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-----------ACTGACTTACCCAACAGTAGAACAAGATGCAACTAACTGACTTACCCAATAGT----------------
----------------------ACAGCAAGATGCATAAACTGTTGGTAAAATACAATAACCTCACAAGGATGAACTATG-
ACAGCACAACAAGATGCATATACTATTTGCAGGCACGGCAAGATGCATATACTGCTGGTAAAATGCATAAACAAGCAAAT
AACAAGTGATTATCATAGCAAAATGCATAAAAATGACCAGCGCAAGCCCATCTTAACATGATCACAATACATATCACTTC
AAATTAAGTTCAGTACATATATTTGTAAACA-------------CAAGTTCAATACGTGCAAAATGAAACTAATGGGTTC
AGAACAAGTTCAGGCCAAGTTCATCCATGAACTTAAGTTTATCAAAAGCAAGTTCATTCATGAACTTCATATTTTGAACT
TTTCCATCACATGGATAGGAAATCGTCGGGCCATCCATCATCAGGTGCATTCTGAGTTATCAGAACTTCTTCCTCGGCCT
GCATGAAATTTGCTGCTTCAGTCCAAGTTCTGCTAGCTCCATCATGTCCAAAAACGAGGTTGTAGAAGCCAGGAGCTGCA
GCTCTTGC
>chr4D_745
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-AGAGGCAAATACACCAATGGTACAACAAGTTGCACTTGATGACCACTTTGGTGCTTGAAGTTGAAAAATACACAAATCT
GGTGCATAAACTTGTGTTTTGGCGCACGTACAGTTCAAAACCCAGATGCGGCCTTGTACGACGCCAGCTGGGCGTGACAG
CGTGGCGCAGT-CCTGCTTGTCAGTGGCTGGAAGCCATCATGCGGGATGAAGCGTGCATTGTTTGCAGATACCCCCCTCT
TTTTATGTGGATTATCTCAACATGTCCCCGAAGCACAT------TATGACCCCAGTTCCCAAACCCACGTT---------
----------CCCGAATCACGGCGGCGGCGGCGAGGCTTTTCAGGCCGCCGGCGGCGAGGCGTTTCAGGCCGGCGGCGGT
GCTGGTTTTTTCAGGCCGGCGGCTGTGCGGGTCTTCAGGCCGA---------------------CGACGGCTGGACGAAG
GCGGCGGCCGCCATGGCTGTTATGTCTGGGCGCCGGCGACGAACGGAAGATGGGCGGCG-GGGCCAACCCAAGGTCGACG
AATGGAAGATGGGCGGCGATCAC---------------ATCATCACAGGTGTTGAATCTCTCCCC-------C-ATCTCT
CTGTCTTAGTAG-------GGTAGTACACTGAAAGGGGATTTTTTTTCCGATGTTCAGGATGTG--------GAGGTCCC
CAAGTTTGATTTTGGGCTGCCCAGGAACCAGTTTGATGCTGAGAAAGTTGCCCAGGAACCAGTTCGATTTTGGGCTGCCC
AGGCACAAAATGCAGAAGAAGATAATGTCAAGGATGAACAAGGA----GAGACTGGACTGTAGGATAGGATGATTCAGTA
TTCTGTTTTCAAGATTTTTAGCCTGTGATTG----------------GAAGTGATCGGAAGTGTAATGGATGGAGTA---
--ATTGATGCATGTACTGAATGTATTAT-TTTTCAGCATTTTGAATGGAAACGTTGCTTTTGAGGTGCAAAATTCAGTAA
TATGCTTCTATTTTGCTTCAGCTGAGGTTTGCACAAGTATAATAGGAAAGGGAACGGTTACATTTAACATGATATAAGAT
GTATACAGTGGATCATTAAAAGTAGAATAGGCCTCTCAT-----AGCAACGATCATGAGCGTACATACTAACTAGACAGC
AAAACGTGTGATACTAAGGCCGCGTTCGGATTCCCTCCGCTCCGCATGATTAAGGCCATAATTTGTGGAGTTGGTTAAAG
CTCTGCGGAGGACTGCCGAACGCGGCCTAAGATGCACATGAAACAGACAATATGTATATTTTGTCAGCCAAATAGCCATG
ATGTATATTGATGTTTGCAGGCACAACAAGATGCATTTACTGTTTTCAAAATGCTTTAACAGCACAAGGACGAACTATGA
ACAACACAGCAAGATGCATATACTATTTGCAGGCACAGCAAGATGAATATACTGCTGGTAAAATGCATAAAAAGGCAAAC
GGTAAGGGCTTATCACAGCAA----------AATTACCACTGCAGCACCATCTTAACACGATCACAGTACATATCACTTC
AAATTAAGTTCAGTACATATACTTGTAAACGAAAGGCTTCGGGCCAAGTTCAGTACATGCAAAAGATAACTAATGGGTTC
AGACCAAGTTCAGGCCAAT---------------------------------TTCATTCATGAATTTCATGTTTTGAATT
TGTGCATCACTGGGATAGGAAATCATGAGGCCATTCATCATCAGGTGCATTTTGAGTGATCAGAACTTCTTCCTCGGCCT
GCATGAAATTTGCTGCTTCAGTCCAAGTTCTACTAGATCCATCATCTCCAAAACGGAGGTTGTAGAAGCCAGGAGCTGCA
GCTCTTGC
>chr5D_746
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--GAGGCAAATACACCAATGGTACAACAAGTTGCACTTGATGACCACTTTGGTGCTTGAAGTTGAAAAATACACAAATCT
GGTGCATAAACTTGTGTTTTGGTGCACGTACAGTTCAAAACCCAGATGCGGCCTTGTACGACGCCAGCTGGGCGTGACAG
CGTGGCGCAGT-CCTGCTTGTCAGTGGCTGGAAGCCATCATGCGGGATGAAGCGTGCATTGTTTGCAGATACCCCCCTCC
TTTTATGTGGATTATCTCAACACGTCCCCGAAGCACGT------TATGATCCCAGTTCCCAAACCCACGTT---------
----------CCCGAATCACGGCGGCGGCGGCGAGGCTTTTCAGGCCGCCGGCGGCGAGGCGTTTCAGGCCGGCGGCGGT
GCTGGTTTTTTCAGGCCGGCGGCTGTGCGGGTCTTCAGGCCGA---------------------CGACGGCTGGACGAAG
GCGGCGGCCGCCATGGCTGTTATGTCTGGGCGCCGGCGACGAACGGAAGATGGGCGGCG-GGGCCAACCCAAGGTCGACG
AATGGAAGATGGGCGGCGATCAC---------------ATCATCACAGGTGTTGAATCTCTCCCC-------CCATCTCT
CTGTCTCAGTAG-------GGTAGTACACTGAAAGGGGATTTTTTTT-CGATGTTCAGGATGTG--------GAGGTCCC
CAAGTTTGATTTTGGGCTGCCCAGGAACCAGTTTGATGCTGAGAAAGTTGCCCAGGAACCAGTTCGATTTTGGGCTGCCC
AGGCACAAAATGCAGAAGAAGATAATGTCAAGGATGAACAAGGA----GAGACTGGACTGTAGGATAGGATGATTCAGTA
TTCTGTTTTCAAGATTTTTGGCCTGTGATTG----------------GAAGTGATCGGAAGTGTAATGGATGGAGTA---
--ATTGATGCATGTACTGAATATATTAT-TTTTCAGCATTTTGAATGGAAACGTTGCTTTTGAGGTGCAAAATTCAGTAA
TATGCTTCTATTTTGCTTCAGCTGAGGTTTGCACAAGTATAATAGGAAAGGGAACGGTTACATTTAACATGATATAAGAT
GTATACAGTGGATCATTAAAAGTAGAATAGGCCTCTCAT-----AGCAACGATCATGAGCGTACATACTAACTAGACAGC
AAAACGTGTGATACTAAGGCCGCGTTCGGATTCCCTCCGCTCCGCATGATTAAGGCCATAATTTGTGGAGTTGGTTAAAG
CTCTGCGGAGGACTGCCGAACGCGGCCTAAGATGCACATGAAACAGACAATATGTATATTTTGTCAGCCAAATAGCCATG
ATGTATATTGATGTTTGCAGGCACAACAAGATGCATTTACTGTTTTCAAAATGCTTTAACAGCACAAGGACGAACTATGA
ACAACACAGCAAGATGCATATACTATTTGCAGGCACAGCAAGATGAATATACTGCTGGTAAAATGCATAAAAAGGCAAAC
GGCAAGGGCTTATCACAGCAA----------AATTACCACTGCAGCACCATCTTAACACGATCACAGTACATATCACTTC
AAATTAAGTTCAGTACATATACTTGTAAACGAAAGGCTTCGGGCCAAGTTCAGTACATGCAAAAGATAACTAATGGGTTC
AGACCAAGTTCAGGCCAAT---------------------------------TTCATTCATGAATTTCATGTTTTGAATT
TGTGCATCACTGGGATAGGAAATCATGAGGCCATTCATCATCAGGTGCATTTTGAGTGATCAGAACTTCTTCCTCGGCCT
GCATGAAATTTGCTGCTTCAGTCCAAGTTCTACTAGATCCATCATCTCCAAAACGGAGGTTGTAGAAGCCAGGAGCTGCA
GCTCTTGC
>SNPs
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-----------------------------------------------------S-SS-SSSS------------------
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-------------S--S------------------------S----------------S---S---------S--S----
--S-S----S----SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
S-------------------------------------------------------------------------------
---------------------------------------------------S----------------------------
----------------------------------S---S-----------------------------------------
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-----------------S-------------------------------------------------S------------
-------------------------------------S------------------------------------------
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-----------------------------------------------S-------------------------S------
------S---------S---------------------------------------------------------------
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--------------------------S-----------------------------S-----------------------
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---S----------------------------------------------------------------------------
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------------------------------S-------------------------------------------------
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----------------------------------------S---------------------------------------
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>forward_577
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-----------------------------------------------------------------------------TCC
TTCTCCTCGCTACACCA---------------------------------------------------------------
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>reverse_1537
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----------------GTGCCCAGGAACCAGTTTGA--------------------------------------------
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>forward_1527
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-------------------------------------------------------------------ATGTGGTGGTCCC
CAAGTTC-------------------------------------------------------------------------
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>reverse_2441
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----------------------------------------AGGCCAAGTTCAGTACATGCA-------------------
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