>input_sequence_62109
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----------------------------------------------------------ATGGAGGGGCTGACGGAGAGCG
AGGTCGCCGGCTTCGCGGTGGGCGCCTTTCTGCTCGGCGCCAGCATCGCCGCGCAGAGGGTCGACGGCTTCGTCGCCGCT
TCGCAGAGAAGGTCCCTGCTCCTCCTTGCCCGCTTCTTGCTTGCCTGCTTTTTTGCCCGCTTCAGTGCCATCTTCAATTA
CGTCCAGCAGGTAGAACATCAACAGCACTGCGACTGAGGCAAAAGTCGAATTACCACGAATTGTTTCGTTCGTGTCACCA
AAATCACAAGAATGAATGAACGCATGAATAGCAGTATACAAACTATATATAACTTGGCAATGAGCTAAACATCATCACTT
ACGCCCTGATTGGATTGGCGTTTCACAGCGCCATACCCCTGTAAAATATGCAGACCTCCATCGGTCTACCAGTGAACTGT
ATATACCAAGCAGTTCCAACAATGTATCAATGTACTGTACTGTAGCTCGGAATATCTGGTAGGAGTAGATAGCAAAACAG
TTCCTGGGAAATAACTGAAATCAGATGGCACTGTATTTCCTTCAGATCTCAGATAGATGAATCCCTTTCGACGCCAATGG
ACTACTGTATCTGTCATTTTCTCTTCTTGTATGCCGTGCTTCAGAATTA----GTATTATTTTGCTTTGACAACACAACA
CTTTATGACATGCTTTAGACTTAAGTAAAGTGAAAACTC-----CCTGGATCCATGGATTAAACTTAA------------
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------------------ATAAACAAACTTGCCAACGATTTCTTATCAGAAAATTCATAGTGCAATGAAATTATGAAACC
CAAGTAGTATCCTTACTTCACTTAAAAAAATTGCTACTGCATTGCAGCTCTTTAAACATGTGCAAGCGCTGTGGTGATCT
TCGGATGGTGGCATGTTCACAATGCAAAGGAGTAGGCTCTGTTAGGAAAGGCGGAACCTTCACATTCGGCGTGCTTGAGG
ACATCTATGAATCTCTTGGAGCTGAAACCAAGGCAGCTGATTTGGTCCCTTGCTCAAAGTGCCGTTCTAAAGGCCGCCTC
CCGTGTGCAGAGTGCGCCAAGGTCAGATGA--------------------------------------------------
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-----------------------------------------------------------------------------
>chr3A_1_TraesCS3A01G076200
GTGTGATGGGCCGCCTGTGCGGTTGTGGGACTTCATGTCGTGTGAGTAGTTCATCTGTGCTCCGTTTGTATTGGTTTTCA
TCTGGTTTTTCATTAATTAATTGGGCAACTATTTTCTTCTTAATTAATTAACGAAACAAAACTTTTGCCTCTGTT-----
-AAAAAAACACACATGCTTATCTATTTGTATTCACATATTTTGTAATTGCAAATTTATCTTTTTGCCAACAATATGACAA
AAGTCATTTGTCATGAATTTTTTTCTTTAACACAGTACAGATGCAAGTACTCATATATACGCGCATACATGCACCCTTAT
AAACGCACACACACCCTATCCCTATGAGCACCTCCAAAAGACTGAGCCGGCATGTCATCTTGAGATTTTACGAAGTCACC
GTAGGCGCCTCGTAGTCGACGGAAACGTCTCCTTCCACTGAACGCGTATCGTTGAAAATCCTGAAATAAATTTAGAATAA
ATGCGAGCACCATGATTTGAACATTGGTGAGGTGAGGATACCACAATCCAACCACATTTTATCATAATATACTTTACATT
GTATTAATAACACACTAAAAATGTTTTTTGCAAAAAAATTTGAAATACATTTGACTTCTTTTTACTATTTTAATTTATTT
GTGTTTGCTAAATCGGGCACATGTGCACCCAG-TTCTAAAAATCCACGCCGA----CAGCTCCCTTATCCTCTTCCTTCT
TCCCTTGGCGACGGGCGGCCTCTCCGCCAAACATCCTCCCGCCCAAGCGCATCACCTGCAGAGAGCTTCTTCCTCCCCTA
GTCGCGGCTGCCCTCCTCCGCGACCGTGGCACCGATCGATCTCTCA-------TTCTTCCAGCTCTAGGTGACGAATTAA
TCATAGCTTTTTTGCTTGGATTATTAAGGATGATCTGTTCTGTTGTGGCCGTTCGTTCCGTTCTAATCCGAATCTCCCCT
TGTTACCCGAACCATGCAGTTGTTTCTGCGGATTCGTTCGAAGCGCGAGCCAGCGAGCATGGAGGGGCTGACGGAGAGCG
AGGTCGCCGGCTTCGCGGTGGGCGCCTTTCTGCTCGGCGCCAGCATCGCCGCGCAGAGGGTCGACGGCTTCGTCGCCGCT
TCGCAGAGAAGGTCCCTGCTCCTCCTTGCCCGCTTCTTGCTTGCCTGCTTTTTTGCCCGCTTCAGTGCCATCTTCAATTA
CGTCCAGCAGGTAGAACATCAACAGCACTGCGACTGAGGCAAAAGTCGAATTACCACGAATTGTTTCGTTCGTGTCACCA
AAATCACAAGAATGAATGAACGCATGAATAGCAGTATACAAACTATATATAACTTGGCAATGAGCTAAACATCATCACTT
ACGCCCTGATTGGATTGGCGTTTCACAGCGCCATACCCCTGTAAAATATGCAGACCTCCATCGGTCTACCAGTGAACTGT
ATATACCAAGCAGTTCCAACAATGTATCAATGTACTGTACTGTAGCTCGGAATATCTGGTAGGAGTAGATAGCAAAACAG
TTCCTGGGAAATAACTGAAATCAGATGGCACTGTATTTCCTTCAGATCTCAGATAGATGAATCCCTTTCGACGCCAATGG
ACTACTGTATCTGTCATTTTCTCTTCTTGTATGCCGTGCTTCAGAATTA----GTATTATTTTGCTTTGACAACACAACA
CTTTATGACATGCTTTAGACTTAAGTAAAGTGAAAACTC-----CCTGGATCCATGGATTAAACTTAA------------
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------------------ATAAACAAACTTGCCAACGATTTCTTATCAGAAAATTCATAGTGCAATGAAATTATGAAACC
CAAGTAGTATCCTTACTTCACTTAAAAAAATTGCTACTGCATTGCAGCTCTTTAAACATGTGCAAGCGCTGTGGTGATCT
TCGGATGGTGGCATGTTCACAATGCAAAGGAGTAGGCTCTGTTAGGAAAGGCGGAACCTTCACATTCGGCGTGCTTGAGG
ACATCTATGAATCTCTTGGAGCTGAAACCAAGGCAGCTGATTTGGTCCCTTGCTCAAAGTGCCGTTCTAAAGGCCGCCTC
CCGTGTGCAGAGTGCGCCAAGGTCAGATGACCATTTGGTAGCGTTTTT-GTGATTATTGATCAGAGT----ATGGCCATT
TAATAGAGTTTTGTGATTGTTGATATC--AGAATAAGCTGCCCCATTTTGTAAACGCTGATATGTACGGACTGATCGAAC
TATGGATGAGTGCTTTTATAATCACTCCGGAAATTCGTAGGGGCACGCACCTGCTGAGCCATGTCCAGTTTTAAGTTTGT
AGTTTTCTTGCTCATTTTTACCAAGTTTCATAGATAAAATTTTAAGATATTTTTTTGTTGATCATAGGCACAAAAAGCAT
GATTTTATTGGTCACCCATATCAATTTTGAAGAGTTGAAATTGACATTTATTTTCAAAGTTGATCAAAAGTATTCAAAAT
GGATCGTGAAAGCCCTCATCACGAGAAACACAAATATATAAACAGAACTTAATTTAAACTTTCTATTCGAAAGATATAAA
CGTTTCAAAAATAATTGAAAGCCAGAAGAAAAAACATGTGTGAGGGACTCAGTGCCCACACACTTGTGTCCTAAATCCGC
TTCCTAATCACTCGGCCGGAACAACGGTAAATGTCCCTAATCCGCACTGGGACGGAGGGAGTATCTATATCTATATCTAT
ACTCTATATCTACTAGTAGAATGCCCGTGCGTTGCCACGGGCCAACAAATGAAATTGTGTAAACAATGCTCATTTTCCTC
CCCAGAAACGAGCATATTGCACGCAATGTTCAACCACAACACAAATGCAAGCATATTCTTCTCTCTATTCTTACAAACAT
GACACACCCCTCTAGCCGCCCTTTCCCATTAAACTTGCCGTTCATCACCTTCTCTGTCCATACATCATTCACCCTCTCAA
TCTATTGCCCCTTAATTTTGCATGTAGCTTCCATGTCATTGTTTCGTTGTCTCGGACGGTAGAAAAAAACCCTACCACGT
CACCTTCTTCTAGATCTATTCCTAATCCAAAGAAGCTAAATCTAGTTGAATGACCGTGCGTTGCCCTGAAAAATAAA
>chr3D_1
GTGTGGCGGGCCGCCTATGCGGTTGTGGGGTTTCATGCCGTGTGAGTAGTTAGTCTTTGCTCCGTTTGTATCGGTTTTTG
ACCGGTTTTTTATGAATTAACTGGGCAATTCTCTTCTTCTTG----ATTAATAAGGCAAACTTTTTGCCTCCGTTTTGAT
AAAAAAAGCACGCAAGTTTATCTATTTGTATTCACATATTTTGTAGCTGCAATTTTATCTTTTTTG--------------
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-----------------------------------------------CCAACAAAAAACTTTATTAATTTATTTGACAAT
GC-----------------------TTTTGCAAGAAAGTTTCAAATATATTTGACTT-TTTTTACTATTTTAATTTATTT
GTTTTTGCTAAATGGGGTACATCTGCACCCAGGTTCCAAAAATCCACACCGGCACGCAGCTCCCTTATCCTCTTCCTTCT
TCCCTTGGCGACGGACGGCCTCTCCTCCAAACACCCTCCCGCCCAAGCGCATCACCTGCAAAAGAG--------------
------------CTTCTCCGCGACCGTGGGACCGATCGATCTCTCA-------TTCTTCCAGCTCCAGGTGACGAATTGA
TCATAGCTTTTTTGCTTGGATTATTAACGATGATCTGTTCTGTTGTGGCCGTTTGTTCAGTTCTAATCCAAATCTCTCC-
--TTCCCCGAACCGTCCAGTTGTTTCTGCGGATTCGTTTGAGGCGCGAGCGAGCGAGCATGGAGGGGCTGACGGAGAGCG
AGGTCGCCGGCTTTGCGGTGGGCGCCTTTCTGCTCGGCGCCAGCATCGCCGCGCAGAGGGTCGACGGCTTCGTCGCCGCT
TCGCAGAGAAGGTCCCTGCTCCTCCTTGCCCGCTTCTTGCTTCCTTGCTTCTTTGCCCGCTTCAGTGCCATCTTT-----
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------------------AATCAGATGGCACTGTATTTCCTTCAGATCTCAGATAGATGAATCCCTTTCGGCACCAATAG
ACTACTGCCTCTGTCCTTCTCTCTTCCTGTGTGCTGTGCTTCAGAATTAGTACGTATTATTTTGCTTTGACAGCACAGCA
CTTTATGATGTGCTTTAAACTTAAGTAAAGCGAAATCTC-----CAA--------GGATTAAACTTGA------------
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------------------ATAAATAAACCTGCCAACAATTTCTTATCGCAAAATTCAA-GTGCAACCAAAGTATGGAACC
CAAGTACCCACATTTTGCTTT----AAAAATTGGTACTGCATTGCAGGTCTTTAAACATGTGCAAGCGTTGTGGTGATCT
TCGGATGGTGGCATGTTCACAATGCAAAGGAGTAGGCTCTGTCAGGAAAGGTGGAACCTTCACATTCGGTATGCTGGAGG
ACATCTATGAGTCGCTTGGAGCTGAAACAAAGGCAGCAGATTTGGCCCCTTGCTCAAAGTGCCGTTCTAAAGGCCGCCTC
CCTTGTGAAGAGTGCGCCAAGGTCAGATGACCATTTAATAGCTTTTTT-GTGATTATTGATCGGAGTTTGCATGACCATT
TAATAGAGTTTTGTGATTATTGATATCT--GAATAAGATGCCCCATTTTGTAAACATTGATACGTACGGACTGATCGAAC
TATGGACGAGTGCTTTTATAATCACTC-----------------------------------------------------
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>chr3B_529
CATTTTGTCATGAA------------------------------------------------------------------
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----------------------------------------------------------------------ACTTTACATT
TGAGTAATACACCGGC----ATTTTTTTTTTCAAAATAGTTCAAATATATTTGACT--TTTTTACTATTTTAATTTATTT
GTTTTCGCTAAATCGGGTGCATGTGCACCCAGGTTCCAAGAATCTACGCCGGCA----GCTCCCTTATCCTCTTCCTTCC
TCGCTTGGCGACGGACGGCCTCTCCGCCAAACATCCTCCCGCCCAAGCGCATCACCTGCAAAGAGCCTCTTCCTCTCCTG
GTCGCTGCTGCCCTCCTCGGTGACCGTGGCAGGTGGCACCGATCCATTCCCCGTTCTTCCAGCTCTAGGTGACGAACTGA
TCATAGC---TTTGCTTGGATTATTAACGATGATGTGTTCTGCTCTGGCCGTTTGTTCCGTTCTAATCCAAATTTCCCCT
TGTTCCCCGAACCATGCAGTTGTTTCTGCGGATTCGTTGGAAGCGCGAGCCAGCGAGCATGGAGGGGCTGACGGAGAGCG
AGATCGCCGGCTTCGCGGTGGGCGCCTTTCTGCTCGGCGCCAGCATCGCCGCGCAGAGGGTCGACGGCTTCGTCGCCGCT
TCGCAGAGAAGGTCCCTGCTCCTCCTTGCCCGCTTCTTGCTTGCCTGCTTGTTTGCCCGCTTCAGTGCCATCTTTAATTA
CGTCCTGCAGATAGAACATAAACAGCATTGCGACTGAGAAAAAAGTCGAATTACTACGCATTGTGTCGTTCGTGTCACCG
AAATCACAAGAATGAATTA---------------------------------------------CTATACATCATTACTT
AATCTGTTCTT---------------------------------------------------------------------
-----CCAAGCAGTTCCAACAATGTA-------------CTGTAGCTCAGAATATCTGGTAGGAGTAGATAGCAAGAGTT
TA--TGGGAAATAACTGAAATCAGATGGCACTGTATTTCCTTCAGATCTCAGATAGCTGAATCCCTTTCGGCGCCGACAG
ACTACTGTATCTGTCCTTCTCTCTTCTTGTATGCTGTGCTTCAAAATTA----GTATTATTTTGCTTTGACAACACAACA
-TTTATGATGTGCTTTAAACTTAAGTAAAGTGAAAACTCAAGTGCCTGGATCCACGGATTAAACTTACATAAATAAAGAG
GTAAATACACTGATGGTGCTTGAACTTGTCATCGATGTTCACTTTAGTGCCTGAACTTGAAAAATACGTTGAACTGGTTC
TATAACTTGACACGAACGTGCAAATACGGTGCTAATCACATTCGTAGACGTAAAGTGCGTCGACGTGGCACTGACATGGC
ATGGGGCCCACTTGTAGGTACGAAACAGAATTACTTGAGTACTATATATGACTCTATGACTAGTGGGCCTGCCTGTCAGT
AATTAGTAAGAAAATCAACATAAAAATGTACTGGTCGGGCATCGAATATGCGACCTGACGCTTGGGAGATATATGCGCTC
ACAATTCCACCAAACATGTTTTTTTGTCAACAACATCAGACTCTCATAATCAATGTAATTGAACCAAAAACTCTTGTATA
CATAAATGGGTTGCAGTTTGTGGCCCATTTTCCACAGGTTATTTTTTTAATGTAAAATGTATGTTAACAATAATCATAAT
AATAAACGCTAGATTTGAATATTCATGTGTTATTAATAATTACTTCATGCTACACTAATATCTTGTGCACACCAAATAAA
TATAGAGAGGTATGTATTAAAACAACTTACTTAAAATCTGCCTGTAATTTTTAGAAATATTAACATGTTATTAGGAAAAT
ACTATTTTAAATATAACCCATGAGTGCTTTAAAATGTTTGTAAATAGTAACATATAAAATATTTTTTCTAAATAATAATT
ATTTTCTGAAAATATTATTTTCTAAATAATAAGTTAATATTTCTAAACATTGCCCGAATAGTTTTTAGTAAGTTATTTTA
TTACATACGGTATACATCTATATACTTAATTACTTTGTGTGCACATGGATATTTGCACATGAATATTGAATCTTACTTTT
ATCATTATGATTATTATTCACGCACATTTTACATATTTTTAAAAAAATAACGTGTGCAAAATGGTCCACTGGCTACAGCC
CATTTATAGACACATGAGTTCTGGCTTATGTACATGAAGATTTAGGGGCCATCCGGATGTTAAAGCTTCTTCGGTGTGGT
GGCTAGCATGGGCAGCGCGCAAGCGTCTGGCTACTGGTTCGATTCCTGTGAAACGAATTTTTCATATTATTTTTGTCTAA
GGTACTGACAAGCGGGCCCACTAGTCATAGAGATATTCAAGTAATTCTGTTGGGTAGTTATAAGTGAGCCCCATGCCATC
TCTGTGCCACATCAGTGATATACACTGCCACGTCGACGCACTTTATGTCTACGGGTGTGATTAGCACCGTATTTGCACGC
TCGTGTCAAATTTTAGAACCAGTTCGACGTATTTTTCAAGTTTAGGCACTAAACTGAACATCCATGGCAAGTTGAAGCAC
CACGGGTGTATTTACCTCATAAATAAACTTGCCAACAATTTCTTATCAGAAAATTCAAAGTGTAATGAAAGTATGAAACC
CAAGTAGTACCCTTACTTCACTAAAAACAATTGGTACTGCATTGCAGGTCTTTAAACATGTGCAAGCGTTGTGGTGATCT
TCGGATGGTGGCATGCTCGCAATGCAAAGGAGTGGGCTCTGTTAGGAAAGGTGGAACCTTCACATTCGGCATGCTGGAGG
ATATCTATGAGTCGCTTGGAGCTGAAACAAAGGCAGCAGATTTGGTCCCTTGCTCAAAGTGCCGTTCTAAAGGCCGCCTC
CCGTGTGCAGAGTGCGCCAAGGTCAGATGACCATTTGGTAGCGTTTTTTGTGATTAGTGATCAGAGT----ATGGCCATT
TAATAGAGTTTTGTGATTATTGATATATGAGAATAAGATGCCCCATTTTGTAAAC-------------------------
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>SNPs
-----SS---------S------------SS------S-------------SS---S--------------S------SS
S-S-------S--S------S-------S-S-S--------SSSSS-----SS-SS----SS---------S--------
-------S---S--S-S----------------------------SS-----S-----------SSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----S-S-SSS-S-SS----S-----------
-S-S-----SSS-SSSSSSS--S------------------S-----S---------S----------------------
--S--------------S------------------S--------------S----------------------------
--------------S---------------------------------------------S-----S--------S---S
-----S------------------------------------------------------------------------S-
---------------------------S-------------------------S---------------S----------
----S---------------------------------S-----------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------S-----------------------S-----
-----S----S--------S-------S----------SS--------------S---S-----S--------------S
-----------------S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---S-------S----
-SS-SS-SS--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSS---------------------SSSSSSSSSSSSS---------S--------------------------S-SSS
-SSS------------------------------------------------------------------S-------S-
---------------S--S---------------S---------------------------------------------
--------SS-------S------------------------------------S-------------------------
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-----------------------S------------S--------------------S------------S---------
---------S------------S----------S-------------S--------------------S-----------
---------------------------------------------------S------------------S----S----
----------S--S--------------S--------S------------------------------------------
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------------------S------------------S-----------------SS-----S-----------------
------S--------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_369
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-----------------------------ACCTCCAAAAGACTGAGCCG-------------------------------
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>reverse_1386
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-------------------------CAGCGCCATACCCCTGTAAA-----------------------------------
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>forward_1171
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-------------------------------GCTTCTTGCTTGCCTGCTTT-----------------------------
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>reverse_4154
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-------------------------------------------------------------------------TTTCCTC
CCCAGAAACGAGC-------------------------------------------------------------------
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