>input_sequence_64810
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-----------------------------------------------G--TATATAAACCCATGGGAGTCGCGCAGGCGA
GCTCACCACCTCGTCCACCATGGCTCCACTGTTCCACGTGGAGGCTCTTCTCCCGAGCTCGATCTCACCCAAGATCGACT
CCATCCTCCACTCCCACATCTACCCGCAGGTAGGTCACGTCTTCCGCGCCGTCGCCAGGTTCAGGGCCCTGCTCGTCGAC
GTGATACTCAGCAAGAAGAAGACGGCCGCCGCGAGAGCTGGCAGCGGCGGGTACGGCTACTACGGCCGCTCGA-------
--CGAG---GAGGAGCCGCGGCAAGAAGAGGACGAGCAAGATCGCCGGCTTCGTGAAGATGCATTTCGTCGGCTCCTCCG
GCCCG---GCTCGGGCAAGGGATCGGCTGGACGCCAGCCGCGCGCCCTGCTATCCGTCGTACTCGTACTACGAGTACTCG
GCGGCGTGGAACGCTGTGGTTCCAGCGACGCCGGCGGCCGTGGAGGAGGAGGTCGTGGAGGTGTGCGACGACACGGCGGA
GTGCGGGTACCTGTGTTGGCTGGAGGAGGAGACGTCGTCGGGTGGCACGCCGGCGGGCGAGGGCGAGGG---CGAGGCTA
GTCCGGCGGTGAACGAGATCGACAAGCTGGCGGAGAAGTTCATCGCGAGGTTCCACGCAAAGTTCTTACTGGAGAAGCAG
GAGTCGTACCGGAGGTACCAGGAGATGATCGCCAGGAGCATATGAACCACGAGATCCATGGCGATCCGTCGAGGATTCAT
CCATTGCGCCGGGCGGCTTGGTGTCCGGACTCTGAGCATCCGGAGTACTGCGTGAGTACGAATTTGATGTTGAGCAGTGA
GT----GATTCATGGTGCAGCTCTTCGTGGCCGTGCCTCGAAATTGGAGTCATTTAATTT--------------------
----------TCGTGTGTGTGTGTGT------------GTGGATTCATGTAAGGTTG-----------------------
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---------------------------------GGTTACGGCCGAAGCGAGATTATTCTTCGGGAGGTCAAGAA------
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>chr2A_1_TraesCS2A01G488100
ATTTCGTCAGGGTCAGTACTACTTCGGCGGTAACGGCGTTGGTTATTCCGTTGTTTTGGGAGGACGTATAGGTATGATTG
TCCATTCATCCTATCGTCGTCTTCATCTCCATGTCGTGGACGATCCTTCAGGTTCGACTCAGTCGGCACTTCCCGACAGC
GATCACCGACTTTCCAGTTGCATGTATGGGTAA-ATTTTTTGTTCCAACGACGATGTGGAACTCCAATGCGGCATTGGTG
TGCCATTCGCATGTGCAGCATGAAGAGGATTGAGGATTCTACTTTGTTGTGTCTTCCTTTCTTTTACGGTCCTTCTTGTA
TTGCTGGTATTTGATTCATAAAGAGCTTCGACTCTTTCTAGGAAAGTAATGTGTGGGATCAACAAAACAA-------AGT
ACAGACAATGGAATTGGAGAATTCTTGATGCTTCTTTCGATCAAGACTTGTTGAGGGGTACAGCCGCAGCTGCTCTGAGA
GATCATAAAGGAAATTTTATTGCTGAGGGGAAATGGAGACTTGATTGGTGTACAGGTGCCCTAACAGAGGG---ATTGGC
GCTACGATTTGGATTATCCCGAGCGCAAAGGGCTGGGTGCAGTCGACTTGTTATCAACTCGGGTAATTTGGAGGTCATTA
AAATCATGAAGAGCGGAGGAACCTATGCAGAAGCAGCAGCAGTGATTTTTTATGATTGCTAT------------------
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----------------------------------------------------------CATTTGGCCCGTGATTTTTCTT
TCACTAGTTTTGAACATTGTAATAGAGAAGCTAATAAGGTAGCTTATGATCATGCGAGATTAGCTAGGTTTTCTACGACA
AATGATTGGTTTGAGCAGCCTCTCAATGTTATTGTACCACTCCTACTGACGATTTAACTGTTATTTTTAATTACTAAAAT
ACCTTTGTTGTATAAAAAAAGAAGTACAGACAATCTAAGTCAGAGTGAGTAAGCCAGCTTAGCATTGGGCTAACTGACAG
TACGGATGGCTTGACACATTTCGCCACACGACACGCAGGGGCCTTGTG--TATATAAACCCATGGGAGTCGCGCAGGCGA
GCTCACCACCTCGTCCACCATGGCTCCACTGTTCCACGTGGAGGCTCTTCTCCCGAGCTCGATCTCACCCAAGATCGACT
CCATCCTCCACTCCCACATCTACCCGCAGGTAGGTCACGTCTTCCGCGCCGTCGCCAGGTTCAGGGCCCTGCTCGTCGAC
GTGATACTCAGCAAGAAGAAGACGGCCGCCGCGAGAGCTGGCAGCGGCGGGTACGGCTACTACGGCCGCTCGA-------
--CGAG---GAGGAGCCGCGGCAAGAAGAGGACGAGCAAGATCGCCGGCTTCGTGAAGATGCATTTCGTCGGCTCCTCCG
GCCCG---GCTCGGGCAAGGGATCGGCTGGACGCCAGCCGCGCGCCCTGCTATCCGTCGTACTCGTACTACGAGTACTCG
GCGGCGTGGAACGCTGTGGTTCCAGCGACGCCGGCGGCCGTGGAGGAGGAGGTCGTGGAGGTGTGCGACGACACGGCGGA
GTGCGGGTACCTGTGTTGGCTGGAGGAGGAGACGTCGTCGGGTGGCACGCCGGCGGGCGAGGGCGAGGG---CGAGGCTA
GTCCGGCGGTGAACGAGATCGACAAGCTGGCGGAGAAGTTCATCGCGAGGTTCCACGCAAAGTTCTTACTGGAGAAGCAG
GAGTCGTACCGGAGGTACCAGGAGATGATCGCCAGGAGCATATGAACCACGAGATCCATGGCGATCCGTCGAGGATTCAT
CCATTGCGCCGGGCGGCTTGGTGTCCGGACTCTGAGCATCCGGAGTACTGCGTGAGTACGAATTTGATGTTGAGCAGTGA
GT----GATTCATGGTGCAGCTCTTCGTGGCCGTGCCTCGAAATTGGAGTCATTTAATTT--------------------
----------TCGTGTGTGTGTGTGT------------GTGGATTCATGTAAGGTTG-----------------------
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---------------------------------GGTTACGGCCGAAGCGAGATTATTCTTCGGGAGGTCAAGAAATAATA
TCAGGAGTGGTTTATATATACAAGATTCACACGGCCAAAAGAGATTCAGGTCCTGGCATGAAACAGCGATGAAAGCTCAT
GCTTTTGTAGCAAAAATGGCTATGTGCAGGACAAGTTTTTAGTTGGATAAAAATAATGCATGAACACCCAT---CTAGAG
CAGTGGCGATTCCACTAGGGAGGCTTCAATAGGCTTAAGCCTACCCTCCAAAATCATATTTAAGCTAAACATACAACTTG
ACAAATATATTCTGGTGCTTTACATGCAACAATTACACTGCATTTGCTAATTAGACTTACGAAATTTATGTTTTAAGCCT
ACCCTCCAATGTCCTGCTAGATTCGCCACTGATCTAGAGTCTATACCAAGTACTTGCTGGTATATATTTT-CTCAAAAGT
CAAGCTTCATCAACTTTGACCAAATTTATAGAAACAATTATCTACATCTATGATACCAAATAAATATCATTAGATACATC
ATGAGATATACGTTTATATTACATTTATTTGATATTTTTAAAGATGATAACTTTCTCAGTAATATTGCTCAAACTTTACA
AGGTATGACTTCTGAAAGAAAAAAACACTTTGCGCACTA--TTATGAAATGGAAAAAGTTGGCGGGTAAGTGTATGCACA
TATGCGCTTCACGAGAAAAAAAATCTAATTGATGCAGCTATAGTAGTAAATGGAATTATGAGAAATAATACTGCCTCCGT
CGGAAATTAGTTGACGTTTAAACAGATATATCCCGATACATGGTCTAATATTCCACTCAAATTTGCTAGCACACTCACTT
GAAAGGTAGAAAATATCAAGTCCTACAAAAAGCATACATGGAAAGTTTATATTTTAAATGCTATGATTTTGGTTGACGGA
TTGTCTTGGTTCTGCTTCACTTATTCTTAT---GAGTTGCTTTCAAAAAAACAAATATGAAGACCCGAAAAAGATTGGCT
TATCAAACAAGTAAAATATAAAAGCTAGTTGTAAAAATCAGAT
>chr2D_3
TTCA--TCAGGGTCAGTGCTACTTCGGCAGTAACGGCATTGGTTATTCCGTTGTTTTGGGAGGACATCTAGGTATGATTG
TCCATCCATCCTGTCGTCGTCTTTATCTCCGTGTCGTGGATGATCGTTCAGGTTCGACTCCGTCAGCACTTCCCAACAAC
CATCAGTGACTTTCCAGTTGCCTGTATGGGTAATATTTGTTGTTCCAACGACGACGCGGAACTGCAGTGCGGCATCGGTG
TAGCATTCGCATGTGTAGCATGAAGAGGATTGAGGATTCTACTTTGTTGTATCTTCCTTTCTTTTACGGTCCTTCTTGTA
TTGCTGGTATTTGATTCATAAAGAGCTTCGACTCTTTCTAGGAAAGTAATGTGTGGGATCAACAAAACAAAGTACAGAGT
ACAGACAATGGAATTGGAGAATTACGGATGCTTCTTTCGATCAGGACTTGTTAAGGGGTACGACTTGGGCTGCTTTGAGA
GATTATAAAGGAAATTTTATTGCCGAGAGGAAATGGAGACTTGATTGGTGTACATATGCTCTAACAGATGAGGTATTGGC
GCTACGATTTGGATTATCCCGAGCGCAAAGGACTGGGTGCAGTCGACTTGTTATCAACTCGGATAATTTGGATGTCATTG
AAATCATGAAGAGCGGAGGAACCTATGCGGGAGCAGCAGCTGTGATTTTTGATGATTGCTACTTTTTTTTTAGAAAAGGA
GGATGACCCCCGGCCTCTGCATCTGGGAGATGCATGCGGCCATTTTATTGATTATTCTCGAGGACCTTACAAAGTAGTAC
AATAATATGCCTGAATCCGCCATCTTGGCAACATATGCCGCTACTCCTATCCATATGATGAAGGGGTGCAAGCCGGGCCA
TATACCCAGGCCTCTCACCTAAGCCTAACATCTAAAGCTGGAAGCCTCGACCGAGCCACATACCGGGTCCGGGGCATAAT
CCAGTCCGACGCACTCACATGTGTCGTCGCCACCATCTTCCACTTGTCCATCTTCAGAGCAGATTGAGGTACCAACCTTG
GCAGGTTCCTCCGCCATCGACGCCACCATGACGCCAAATGACGACCACCACCTATGCCAGTCCATCTCCAAGCCGAAGGA
GCGCTACCACAAGATGAAGACCGGCAGTAGAATAGATGAAACGTTGCACACATTGCCGCCGCCAAACACCTCACACGCAC
CGCAAAGCGCCCACCGTGCTTCCGGAAACCCGAGGCGACGCCTTCAAGAAGGAGCACGACGAGGGTACGACGCCGTCGCC
CACAAGGGGAACTAGAGCTTTCGCCCAAAAGAAGAGCACAGTGATGATTGCTACTTACCATTTGGCCTGTGATTTTTCCT
TCACTAGTTTTGAAGAT----------AAGCTAATAAGGTAGCCCATGATCATGCGAGATTAGCTAGGTTTTCTACGACA
AATGATTGGTTTGAGTAGCCTCTCAATGTTACTGTACCACTCCTACTGATGATGTAACTGTTATTTTTAATTAGTAAAAT
ACTCTTGTTGTATAAAAAAAGAAGTACAGATAATGGAAGTCAGAGTGAGTAAGCCAGCTTAGCATCGGGCTAACTGACAG
TACGGATGGCTTGACACATTTCGCCACAGGACACGCAGGGGCCTTGTG--TATATAAACCCATGGGAGTCGTGCAGGCGA
GCTCACCACCTCGTTCACCATGGCTCCACTGTTCCACGTGGAGGCTCTGCTCCCGAGCTCGATCTCACCCAAGATCGACT
CCATCCTCCACTCCCACATCTACCCGCAGGTAGGTCACGTCTTCCGCGCCGTCGCCAGGTTCAGGGCCCTGCTCGTCGAC
GTGATACTCAGCAAGAAGAGGACGGCGGCCATGAGAGCCGCCAGCGGCGGGTACGGCTACCGCGGCCGCTCGA-------
--CGGCGAAGAGGAGCCGCGGCAAGAAGCGGACGAGCAAGATCGCCGGCTTCGTGAAGATGCATTTCGTCGGCTCCTCCG
GCCCG---GCTCGGGCGAGGGATCGGCTGGAGGCCAGCCGCGCGCCCTCCTATTCGTCGTACTCGTACTACGAGTACTCG
GCGGCGTGGAACGCTGTGGTTCCAGCGACGGCGGCGGCCGTGGAGGAGGAGGTGGTGGAGGTGTGCGACGACACGGCGGA
GTGCGGGTACCTGTGTTGGCTGGAGGAGGAAAGGTCGTCGGGTGGCACGCCGGCGGGCGAGGACGA---CGCCGAGGCTA
GTCCGGCGGTGAACGAGATCGACAAGCTGGCGGAGAAGTTCATCGCGAGGTTCCACGCAAAGTTCTTGCTGGAGAAGCAG
GAGTCGTACCGGAGGTACCAGGAGATGATCGCCAGGAGCATATGAACCACGATATCCATGGCGATCCATCGAGGATTAAT
CCATTGCGCCGGGCGGCTTGGTGTCCGGACTCTGATCATCCGGAGTACTGCGTGAGTACGAATTTCATGTTGAGCAGTGA
GTGATTAATTCATGGTGCAGCTCTTCTTGGCCGTGCCTCGAAATTGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCTACGGTCGAAGCGAAATTATTCTTCGGGAGGTCAAGAAATAATA
TCAGCAGTGGTTTATATATACAAGATTCACACGGCCAAAAGAGATTCAGGTCCTGGCATGAAACAGCGATGAAAGCTCAT
GCTTTTGTAGCAAAAATGGCTATGTGCAGGACAAGTTTTTAGTTGGATAAAAATAATGCATGAACACCCAT---CTAGA-
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--------------------------------------GTCTATACCATGTACTTGCTGGTATATATTTT-CTCAAAAGT
CAAGCTTCATCAACTTTGACCAAATTTATAGAAACAATTATCTACATCTATGATACCAAATAAATATCATTAGATACATC
ATGAGACATACGTTTATATTACATTTATTTGATATTTTTAAAGATGATAATTTTCTCAGTAACATTGCTCAAACTTTACA
AGGTATGACTTCTGAAAGAAAAAAACACTTTGCGCACTACATTATGAAATGAAAAAGGTTGGCGGGTAAGTGTATGCACA
TATGCGCTTCACGAGAA--AAAATCTAATTGATGCAGCTATAGTAGTAAATGGAATTGTGAGAAATAATACTGCCTCCGT
CGGAAATTAGTTGACGTTTAAACGGATATATCTCGGTACATGGTCTAATATTCCACTCAAATTTGCTAGCACACTCACTT
GAAAGGTAGAAAATATCAAGTTCTACAAAAAGCATACATGGAAAGTTTATA-TTTAAATGCTATGATTTTGGTTGACGAA
TTGTCTTGGTTCTGCTTCACTTATTCTTATTATGAGTTGCTTTCAAAAAAACAGATATGAAGACCCGAAAA-GATTGCCT
TATCAAACAAGTAAAATATAAAAGCTAGTTGTAAAAATCAGAT
>chr2B_890
AAAAGAAG------------------------------------------------------------------------
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-----------------------GTACAAATAATGGAAGTCAGAGTGAGTAAGCCAGCTTAGCATCGGGCTAACTGACAG
TACGGATGGCTAGACACATTTCGCCACACGACACCCACGGGCCTTGCGTATATATAAACCCATGGGAGTCGCGCAGGCGA
GCTCACCACCTCGTCCACCATGGCTCCACTGTTCCACGTGGAGGCTCTGCTCCCGAGCTCGATCTCACCCAAGATCGACT
CCATCCTCCACTCCCACATCTACCGGCAGGTAGGTCACGTCTTCCGCGCCGTCGCCAGGTTCAGGGCCCTGCTCGTCGAC
GTGATACTCAGCAAGAAGAGGACTGCCGCCGCGAGAGCCGGCGGTGGCGGGTACGGCCACTACGGTCGCTCGACGACGAA
GTCGGCGAAGAGGAGCGGCGGCAAGAAGCAGACGAGCAAGATCGTCGGCTTCGTGAAGATGCACTTCGTCGGCACCTCCT
TCCCGCCAGCTCGAGCGAGGGATCGGTTGGACGCCAGCCGCGCGCCCTGCTATTCGTCATACTACGACTACGAGTACGCG
GCGGAGTGGAACGCTGTGGTTCCGGCGACGGCGGCGGCCGTGGAGGAGGAGGTGGTGGAGGTGTGCGACGACACGGCGGA
GTGCGGGTACCTGTGTTGGCTGGAGGAGGAGAGGTCGTCGGGTGGCGTGCCGGCGGGCGAGGACGACGGCGCCGAGGCTA
GTCCGGCGGTGAACGAGATCGACAGGCTGGCGGAGAAGTTCATCGCGAGGTTCCACGCGAAGTTCTTGCTGGAGAAGCAG
GAGTCGTACCGGAGGTACCAGGAGATGATCGCCAGGAGCATATGAACCACGAGATCCATGACGACCCATCGAGGGTTCAT
CCATTGCGCCGGGCGGCTTGGTGTCCGGACTCTGAGCATCCGGAGTACTACGTGAGTACGAATTTGATGTTGAGCAGTGA
GT----AATTCATGGTGCAGCTCTTCGTGGCCGTGCCTCGAAATTGGAGTCGTTTTCGCTGGGGGCGTGTCGTGTGTCGT
GTGTCGTGTGTCGTGTGTGCGTGTGATGATTTAATTTGGTGGATTCATGTAAGGTTG-----------------------
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---------------------------------GGTTACGGTCGAAGCAAAATTATTCTTCGGGAGGTCAAGAAATAATA
TCAGCAGTGATTTATATA--CAAGATTCACACAGCCAAAGGAGATTCAGGTCCTGGCATGAAACAACGATGAAAGCTCAT
GCTTTTGTGGCAAAAATGGCTATGTGCAAGGCAAGTTTTTAGTTGGATAAAAAAAATGCATGAACACCCAACAACTAGA-
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--------------------------------------GTCTATACCAAGTACTTGCTGGTATATATTTTCCTCAAAAGT
CAAGCTTCATCAACTTCAACCAAATTTACAGAAACAAATATCGACGTCTATGATACCAAATAAATATCATTAGATACACC
ATGAGACATACTTTTATATTACATTTATTTGATATTTTTAATGATGATAACTTTCTCAGTAACATTTCTCAAACTCTACA
AGGTATGACTTTTGAAAAATAATT--ACTTTGCGCACAAGATTATGAAATGAAAAAAGTTGGCGGGTAAATGTATGCACA
TATGCGCTTCACGAGAA--ATAATCTAATTGATGTAGCTAGAGTAATAAATGGAATTGTGAGAAATAATAATCTCTCTGT
CCGAAATTAGTTGACGCTTAAACGGAG-TATCTCGGTACATGGTCTAATATTCCACTCAAATTTGTTAGCACACTCACTC
GAAAGATAGAAAATATCAAGTCCCACAAAAAGCATACATGGCAAGTTTATACTTTAAATGCTATGA-TTTGGTTGACGAA
TTGTCTTGGTGGTTCTGCTTCA----TTCTTATGAGTTGCTTTCG-AAAAACGGATATGAAGACCCAAAAAAGATTGGCT
TATCAAACAAGTAAAAGATAAAAGCTAGTTGTGGAAATTAGAT
>SNPs
--SSSS-----------S----------S--------S---------------------------S-S------------
-----S------S----------S------S---------S----S--------------S---S---------S---S-
S----SS--------------S----------------S---------------S-S------S--S--------S----
-SS------------S----------------------------------S-----------------------------
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-----------------------SSS-----------------S--------S--------SS-SSSS------S-----
---S-------------------S---S--------------------------SS---S--------S-S---------
-------------------------------S------------------------------S---------S------S
----------------------------S-S---------S---------S----------S------------------
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-------------------------------------------------------------------S----------S-
--------------S--SSSSSSSSSS----------------SS-----------------------------------
---------------S---------------S-----------------S---S-------------------S------
--SS--------------------------S---SS-----------------------------S--------------
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------------------------------------------------S-------------------------------
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-------------------S------------------S-----------------------------------------
----SS----------------------S---------------------------------------------------
----------------S------------------------------------S--------------------------
------------------------------S----------------------S--------------------------
--------------------------------S-----------------------------S---S-------------
-------------------------------------------------------------------S------------
-------------------------------------------------------------------S------------
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------S--------------------------------------------S---SSSS---------------------
-------------------S-----S------------------------------------------------------
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-----------------------------------------S--------S-----------------------------
----S---------------------------------------------------------------------------
-------------------------------------------------------------------------------S
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------------------
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------S-------------------------------------------------------S-----------------
---------------------------------------------------S----------------------------
-----------------SS--------------------------------------S----------------------
-----------------------S--------S--S--------------------------------------------
---------------------------------------------------S--------------------------S-
-----------------------------------------------------S--------------------------
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>forward_29
---------GGGTCAGTACTACTTCGGCG---------------------------------------------------
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>reverse_2308
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-------------------------------------------------------------------ACTGGAGAAGCAG
GAGTCGT-------------------------------------------------------------------------
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>forward_182
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--TCACCGACTTTCCAGTTGCA----------------------------------------------------------
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>reverse_3124
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---TGGCGATTCCACTAGGGAGG---------------------------------------------------------
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