>input_sequence_62544
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-------ATGGCCGCCGCCGTCGCCGCAGTGACCTCGCCGGATCTCTTCTCGTTCCACGCGTCCATCGCGCCCTTGCCGG
CACCTCCGGTGGGCGCTGAA------GACGACGACGGCGACTTCGAGTTCCGCATCCCGGCGGCGGTGGCCGCGCTCTCC
GCCGCTGACGAGCTCTTCTCGGACGGAAAGCTCGTGCCTCTCCTCCCGCTGCTGAATCCCGCCTCGACCTGCTCGGCTCC
GCCGTGCCCGGAGGAGGAGCCTCCCTCGGAGCCCGCCTCTCCCCGCGCGCCGCGGTGTGCTGGGCGGCGGTGGCGTGATC
TCCTCCTCCTCGTTACAAAGAAGCCCAAAGCCGGCGAGACCAAGGGTCGCACGGAAGCGTCCGTGGGGCGTCGGGAGGCG
CATTCGCGGCCGCTCCTCTCGCGCGACTCCTCCTCGTCCTCGTCGGCCTCCTCGTCCGACTCCGGCAGGAACGCGCGCCG
CCCGCCGCCGCCGTCGCGCCCACCCCTGCGGACGCGCTCCGCGCCGGTGGCGAGCCTCCTCCACCTCATGTCCAAGAAGA
ACGCCGGCGGCTGCAGGAACGGCGCCGCCGCGGCCGCGGCCCCGAAACAGCGCCAGCAGCAGCAGGCGTGCGCGCACCCG
CTCCTGACCCGGGCCTCCTCGTCGTCCTCGGCCTCCTCCTCGGACTCCGGCAGGAACTCCCGTCCGCCGTGGCATCCGCG
CGGCCCCGCGCGGCCATGGCGCCCCGCGATAGCCGCCGAGAGCCCGCGCGTCAGCGCGTCCGGGCGCGTGGTGTTCCGGG
GCCTGGAGCGGTGCTCGAGCACGCCCGCCGCGGGGGGCGTCGGCGGCCTGCGGCGGCCGCGGCCGAGGGGCATGGAGCGC
TCGTACTCGACCAATGTGCGCGTGGATCCGGTGATCAACGTGTTCGGCTTCGGGCACCTGTTCTTCCCAGCTTCGCCGTC
CAAGGAGAAGAAGGCCGACGCCGCGGGCGGCGGCCGGAGGAACAGGCCGGAGAAGCTGGCGATGATGCTGAGAGATCCGC
AGGATTAG------------------------------------------------------------------------
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>chr2D_1_TraesCS2D01G462800
TAACATATGAGTAGTTCATTATTTTTTTAAATCCAATGGAAATATTGCCATTACATATTGGGAGGTAAGATGATGTCTAT
GATCTTGTAGGACTAATATGGGCATTTTTACTTTTTAAAATAGGAAAACAAATCATATCACTAGTACAACAAAACAACAC
CAAATAAAAGGCGATATAATATTGTCAATTAATGCTCTCTATATCTTCCATTTTGGTTGTGTATACTATAATTTTCAGTA
TTGGCACATGGTACAATATATGCTAGTATAACAAAGATTCATGTGGCAAATGATTTCCAAATAAAGATTATTGTCACACA
ATACTTATGAATCTTTTTCATAGAAACACTTAGTAATGTAGACC-AAAAACATGACATTAATGCGCATATAATACTTACA
A-ATGCACGCTTTAAGTACATATAAATATATTGGCTATTTATAAAAAATTAATATACATATAAATATATTGGCTATTCAT
ATG------------------TCATACTACTATAGTGATATCACATATGAATATTAAGTACAAAATATATAATCATTGAA
TATTTATCATTAAAAATACCACCTTTAGATGTCTCTGTGACGCGCATAATCTCCATCTTCTTCTTTTTTTCCTTAGATTA
A-AAAAGGGTGAGGCCTGCACGGTTGCACAACTGTATAGTGCAAGATACAAATATAGTTGTTTTCAAAATAAAAATAAAA
TAAAATATACTACTAACAGTGAGTACAAACAGGT-T-TGGTGACCCGCAAAAAAAGAAAAGGTTTTGGTCAACCACCC--
------------------CCGACGTCGGCACACGCACTATCCATCGGTTGCCTCGTATACCCTCTTCCCGGGCCCAGAGC
CGCCTTCGCTTCAGACCCGGTAACCCAGAAACGACCCGCTTATATACTCCAGCGTTCGTTGACACGGCGACGACGAAGTT
AAACAACTCCCT----CCTCCCTCGCCCCCGCACACAGACCACCGACGGCAACCACCTCCAGCGTTAATGCTCCACCGAC
GCCGCTAATGGCCGCCGCCGTCGCCGCAGTGACCTCGCCGGATCTCTTCTCGTTCCACGCGTCCATCGCGCCCTTGCCGG
CACCTCCGGTGGGCGCTGAA------GACGACGACGGCGACTTCGAGTTCCGCATCCCGGCGGCGGTGGCCGCGCTCTCC
GCCGCTGACGAGCTCTTCTCGGACGGAAAGCTCGTGCCTCTCCTCCCGCTGCTGAATCCCGCCTCGACCTGCTCGGCTCC
GCCGTGCCCGGAGGAGGAGCCTCCCTCGGAGCCCGCCTCTCCCCGCGCGCCGCGGTGTGCTGGGCGGCGGTGGCGTGATC
TCCTCCTCCTCGTTACAAAGAAGCCCAAAGCCGGCGAGACCAAGGGTCGCACGGAAGCGTCCGTGGGGCGTCGGGAGGCG
CATTCGCGGCCGCTCCTCTCGCGCGACTCCTCCTCGTCCTCGTCGGCCTCCTCGTCCGACTCCGGCAGGAACGCGCGCCG
CCCGCCGCCGCCGTCGCGCCCACCCCTGCGGACGCGCTCCGCGCCGGTGGCGAGCCTCCTCCACCTCATGTCCAAGAAGA
ACGCCGGCGGCTGCAGGAACGGCGCCGCCGCGGCCGCGGCCCCGAAACAGCGCCAGCAGCAGCAGGCGTGCGCGCACCCG
CTCCTGACCCGGGCCTCCTCGTCGTCCTCGGCCTCCTCCTCGGACTCCGGCAGGAACTCCCGTCCGCCGTGGCATCCGCG
CGGCCCCGCGCGGCCATGGCGCCCCGCGATAGCCGCCGAGAGCCCGCGCGTCAGCGCGTCCGGGCGCGTGGTGTTCCGGG
GCCTGGAGCGGTGCTCGAGCACGCCCGCCGCGGGGGGCGTCGGCGGCCTGCGGCGGCCGCGGCCGAGGGGCATGGAGCGC
TCGTACTCGACCAATGTGCGCGTGGATCCGGTGATCAACGTGTTCGGCTTCGGGCACCTGTTCTTCCCAGCTTCGCCGTC
CAAGGAGAAGAAGGCCGACGCCGCGGGCGGCGGCCGGAGGAACAGGCCGGAGAAGCTGGCGATGATGCTGAGAGATCCGC
AGGATTAGGTGGTGGCCATGCTGGAA-ATAACGCATGAGATTCTTCCTGTCGCGGATTCTTCTCTGTATTTCTCATCTTG
TTTTTTCAGTTTTTTGTAATATATACTGCTGCTGCTCCTGTTGTTTAGAACTAGATCTCTCAAATTTCAGAGACCTCATG
CGAATCTGAACCTACTCTGAACTTGTCTTCAGAGTGTCGATGTAT-------AAAATTTCTCATGAACAGAAGAACACTT
TGGTTCCAAAACCCAGCTAGTTTTGCTTCAAGCTGAAGATCACTGTGAAAC-----------------------------
---------CGGATGAGGATGCAGCGTAC-TTTTTAAATTTGGAAATAAGGATGTGGCGTCAAATAGCAACAGTTGGAGC
AACGGGACATCAAAGTTTTGAAATTTATCTGGCTGTCCCCGACAGTACAATAGA----ATAGGGTGCAGTGACTGCCCTG
CCGCTG---------------GTGGCAGGAAAGGAGAACTGGGTCCGTGATCTGTGCTCTGCTGCCCCCACCC------T
CCCGCCTGTGGTGCTACAATTCAAAAGCCTCTTAAATTTGTTGTATGTGTACACTACTCGTAGAGTACACATGTGTGGAA
CTGACAAGCCTGCATTTTGGAGTTTTAAAGAAATAT--------------------------------------------
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-----ATGGATGGCAATATGGCATAGTGCTGATTTGATTTGAAA-CCATTTTGACTTATTTTACTCA------TATCACA
CATGGGGATCTCCGGGGACGTGATGGTTTAGAGGCACCTACCATTGTGTCTATGACATGTTGGCTCAACAGGTGGCTGGC
CCACATGTCAGTGACACAAAGGCAGGTGCCTTTAAGGCACCGAAGCTGCGTCCATCTCCACTCGTTCGGCCCTCAGGCGC
AACCGGCAATTGTGGTTTGGCCCTTCGGCCAGCGCGTTTTTGGCCCCGAGGGCGATCTAGTTTTCAGTCACGCCTCCAAG
TTCGGCCCCAAGACGCGTATAAATTCAAACATGATATTTCCCGCTACAAAAAAAGACGCCACAAGTTCGGCGATCACCAT
ACCACAATTCGACGAT
>chr2A_1
TAACATATGAGTAGTTCATTTTCTAT---AATCCAATGGCAATATTACCATTACATATTGGGAGGTAAGACGATGTCTAT
GATGTTGTAGGAGTAATATGAACATTTATAA-TTTTAAAATAAGAAAACAAATCATATTGCTAGTACAACAAAACAACAG
CGAATAAGAAAAGATATAATGCTGCCAATTAATGCTATCTATATCTTCCATTTTGGTTGTGTATAATATAATTTTCAGTA
TTGGCACA---TACAATATATGCTAGTATAACAAAGATTCATGTGGTAAATGATTTCCAAATAAAGCTTATTGTCACACA
ATACTTATGAATCTTTTTCATAGAAACACTTAGTAATGTAGACC--AAAACATGACATTAATA-----------------
---------------------------------------------------------------------------TATAA
AATACCACATATGAATCTTTTTCATACTACTATAATGATATCACATATGAATATTAAATACAAAATATATAAACATTGAA
TATTTATCATTAAAAATATCACCTTTAGATGTCTCTATGAGGCACATAATTTCCATCTTCTTCTTCTTCTTTTTTTAAAA
AGAAGAGGGCGAGGCCTGCACGGTTGCACAACTCTATGGTGCAAGGTACAACTATAGTTGTTTTCAAAATAAAAATAA--
--------------AACAGTGAGTACAAACTGGTTT-TGGTGACCCGCGAAAAAAGAAAAGGTTTTGGTCAACCACTCCC
ATATCGCCAAGACATCAGCCGACGTCGGCACACGCACTGTGCATCGGTTGCCTCGTATACCCTCTTCCCGGGCCCAGAGC
CGCCTTCGTTCCAGACCCGGTAACCCATAAACGACCCGCTTATATACGAAC-CGTTCGTTGACACGGCGACGACGAAGTT
AAACAACTCCCTCCCTCCTCCCCCGCCCCCGCAGACAGACCACCGACGGCAACCACCTCCGGCGTTAATGCTCCACCGAC
GCCTCTAATGGCCGCCGCCGTCGCCGCAGTGACCTCGCCGGATCTCTTCTCGTTCCACGCGTCCATCGCGCCCTTGCCGG
CGCCTCCGGCGGGCGCTGAA------GACGACGATGGCGACTTCGAGTTCCGCATCCCCGCGGCGGTGGCCGCGCTCTCC
GCCGCTGACGAGCTCTTCTCGGATGGGAAGCTCGTTCCTCTCCTCCCACTGCTGAATCCCGCCTCAGCCTGCTCGGCTCC
GCCGTGCGTGGAGGAGGAGCCTCCCTCGGAGCCCGTCTCTCCCCGCGCGCCGCGGTGCGCTGGGCGGCGGTGGCGTGATC
TCCTCCTCCTCGTGACAAAGAAGCCCAAAGCCGGCGAGGCCAAGGGTCGCGCGGAAGCGTCTCTGGGGCGTCGGGAGGCG
CATTCGCGGCCGCTCCTCTCGCGCGACTCCTCCTCCTCCTCCTCGGCCTCCTCGTGCGACTCCGGCAGGAACGCGCGCCG
CCCGCCGCCGCCGTCACGCCCGCCCCTGCGGACGCGCTCCGCGCCGGTGGCGAGCCTCCTCCACCTCATGTCCAAGAAGA
ACGCCGGCGACTGCAGGAACGGCGCCGCCGCGGCCGCTGCCCCGAAGCAGCGCCAGCAGCAGCAGGCGTGCGCGCACCCG
CTCCTGACCCGGGCCTCCTCGTCGTCCTCGGCCTCCTCCTCGGACTCCGGCAGGAACTCCCGCCCGCCGTGGCACCCGCA
CGGCCCCGCGCGGCCATGGCGCCCCGCGATAGCCGCCGAGAGCCCGCGCGTCAGCGCGTCCGGGCGCGTGGTGTTCCGGG
GCCTGGAGCGGTGCTCGAGCACGCCCGCCGCGGCGGGCATCGGCGGCCTGCGGCGGCCGAGGCCGAGGGGCATGGAGCGG
TCGTACTCGACCAATGTGCGCGTGGATCCGGTGATCAACGTGTTCGGGTTCGGGCACCTGTTCTTCCCAGCTTCGCCGGC
CAAGGAGAAGAAGGCCGACGCCGCGGGCGGCGGCCGGAGGAGCAGGCCGGAGAAGCTGGCGATGATGCTGAGAGATCCGC
AGGATTAGGTGGTGGCCATGCTGGAACATAACGCATGAGATTCTTCCTGTCGCGGATTCTTCTCTGTATTTCCCATCTTG
TTTTTTCAGTTTTTTGTAATATACACC---GCCGCTCCTGTTGTCTAGAACCAGATCTCTCAAATTTCAGAGACCTCATG
CGAATCTGAAC------------TGCCATCAGAGTGTCGTGTCGATGTAAAGAAGATTACTCATGAACAGAAGAACAC--
---------------------TTTGCTTCAAGCTGAAGATCACTGTGAACTTTTCAAAAAAAAAAAAGAGAAGAAGATCA
CTGTGAAATCGGATGAGGATGGGGAGTAC-TTTTTAAATTTGGAAATCGGGATGTGGCGTCAAATCGCAACAGTTGGAGC
AACGGGACATCAAAGTTTTGAAATTTATCTGGCTGTCCCCGACAGTACAATAGAATAGATAGGGTGCAGTGACTGCCCTG
CCGCTG---------------GTGGCAGGAAAGGAGAACTGGGTCCGTGATCTGTGCTCTGCTGCCCCCACCCTCACCCT
CCCACCTGTGGCGCTACAATTCAAAAGCCTCTTAAATTTGTTGTATGTGTACACTACTTGTAGAGGACACATGTGTGCGA
CTGACGAGCCTGCATTTGGAGTTTTTAAAAACAATATATATGGGTGTGTCTAAGGCACATCTAAATATGCTCTAATTATT
GCACATCTAAGTAAGTAAATCAAGCATAAAGAAAAAAAGGAAAAAGAGAAAGAAAATATTCACACGAATCTCAATGTGTG
AATTAATGATATGACTTAGATGTACAATACTTATGGCACATCTAGACGTGGTTTAGCAAAACTGTATATATATATATATA
TGG--ATGGATGGCAATATAGCATGGTGCTGATTTGATTTGAAA-CCATTTTGACGTATTCTACTCGTACTACTACCACA
CATGGGGATCTCTGGGGACGTGATGGTTTAGGGCTCC-------------------------------------------
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>chr2B_251
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----------GTACAATATATGCTAGTATAACAAAGATTTATGCCGTAAATGATTTCCAAATAAATAATATTGCCGCAGA
ATACTTATGAAT-TTTTTCATAGAAACACTTAGTAATGTAGACAGAAAAACATGACATTAATGCACATATAATACTTAAG
ATATGCACGCTTTAAGTACATA--AATATATTGGCTATTTATTAAAGATTAATATACATACTACTACTATATTCTTATAA
GATATCACATAT--------------------------------ATATGAAGATTAAGTGCAAAATATATAATCATTGAA
TATTTATCATTAAAAATATCACCTTTAGATGTCTCTATGACGCACACAATTTTCATCATCTTTTTTTTAAAA--------
-------GGCGAGGCCTGCGCGGTTGCACAACCGTATAGTGCAAGATGTAACTATAGTTGTTTTCAAAATAAAATTAAAA
TAAAATA------TAACAATGAGTACAAACAGGT-TATGGTGACCCGCAAAAAAAGAAAAGGTTTTGGTCAACCACTCCC
ATATCGCCAAGACATCAGCCGACGTCGGCACACGCACTATGCATCGGTTGCCTCGTATACCCTCTTCCCGGGCCCAGAGC
CGCCTTCGTTTCAGACCCGGTAACCCAGAAACGACCCGCTTATATACGAG-GCGTTCGTTGACACGGCGACGACGAAGTT
AAACAACTCCCTC---CCTCACTCGCCCCCGCACACAGACCACTGACGGCAACCACCTCCAGCGTTAATGCTCCACCGAC
GCCGCTAATGGCCGCCGCCGTCGCCGCAGTTACCTCGCCGGATCTCTTCTCGTTCCACGCGTCCATCCCGCCCTTGCCGG
CACATCCGGTGGATGCGGAAGACGGCGACGGCGACGGCGACTTCGAGTTCCGCATCCCCGCGGCGGTTGCCGCGCTCTCC
GCCGCTGATGAGCTCTTCTCGGACGGAAAGCTCGTGCCTCTCCTCCCGCTGCTGAATCCCGCCTCAACCTGCTCGGCTCC
GCCGTGCCCGGAGGAGGAGCCTCCGTCGGAGCCCGTCTCTCCCCGCGCGCCGCGGTGCGCTGGGCGGCGGTGGCGCGATC
TCCTCCTCCTCGTCACAAAGAAGCCCAAGGCCAGCGAGACCAAGGGTCGCACGGAAGCGTCTCTGGGGCGTCGGGAGGCG
CATTCGCGGCCGCTCCTCTCGCGCGACTCCTCCTCGTCCTCGTCGGCCTCCTCGTCCGACTCCGGCAGGAACGCGCGCCG
CCCGCCGCCGCCGTCGCGCCCACCCCTGCGGACGCGCTCCGCGCCGGTGGCGAGCCTCCTCCACCTCATGTCCAAGAAGA
ACGCCGGCGACTGCAGGAACGGCGCCGCCGCAGCCGCTGCCCCGAAGCAGCGCCAGCAGCAGCAGGCGTGCGCGCACCCG
CTCCTGACCCGGGCCTCCTCGTCGTCCTCAGCCTCCTCCTCGGACTCCGGCAGGAACTCCCGCCCGCCGTGGCATCCGCG
TGGCCCCGCGCGGCCATGGCGCCCCGCGATAGCCGCCGAGAGCCCGCGTGTCAGCGCGTCCGGGCGCGTGGTGTTCCGGG
GCCTGGAGCGGTGCTCGAGCACGCCCGCCGCGGCGGGCATCGGCGGCCTGCGGCGGCCGCGGCCGAGGGGCATGGAGAGG
TCGTACTCGACCAATGTGCGCGTGGATCCGGTGATCAACGTGTTCGGGTTCGGGCACCTGTTTTTCCCAGCTTCGCCGTC
CAAGGAGAAGAAGGCCGACACCGCGGGCGGCGGCCGGAGGAACAGGCCGGAGAAGCTGGCCATGATGCTGAGAGATCCGC
AGGATTAGGTGGTGGCCATGCTGGAACATAACGCATGAGATTCTTCCTGTCGCGGATTCTTCTCTGTATTTCTCATCTTG
TTTTTTCAGTTTTTTGTAATATATACT---GCTGCTCCTGTTGTTTAGAACTAGATCTCTCAAATTTCAGAGACCTCATG
CGAATCTGAAC------------TGCCATCAGAGTGTCGTATCGATGTAAAAAAAATTACTCATGAACAGATT-------
-----------------------------------------ACTGTGAACTTTTCAAAGAAA--------AAGAAGATCA
CTGTGAAATCGGATGAGGATGAGGAGTACATTTTTAAATTTGGAAATGAGGATGGGGCGTCAAATCGCAACAGTTGGAGC
AACGGGACATCAAAGTTTTGAAATTTATCTGGCTGTCCCCGACAGTGCAATAGA----ATAGGGTGCAGTGACTGCCCTG
CCGCTGCGGCCGCCTGCCGCTGTGGCAGGAAAGGAGAACTGGGTCCGTGATCTGTGCTCTGCTGCCCC------CACCCT
CCCACCTGTGGTGCTACAATTCAAAAGCCTCTTAAATTTGTTGTATGTGTACACTACTTGTAGAGTACACATGTGTGCGA
CTGACAGGCCTGCATTTGGAGTTTTTAAAAGCAA----------------------------------------------
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----------------------------------------------------------------TATATATATATATATA
TAGGAATGGATGGCAATATGGCATGGTGCTGATTTGATTTGAAAACCATTTTGACGTATTTTACTCGTACTACCCCACAT
----GGGATCTCTGGGTTCGTGATGGTTT---------------------------------------------------
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>SNPs
--------------------S-S-S-SSS----------S------S-----------------------S---------
---S--------S-------SS-----S--SS----------S---------------SS-------------------S
-S-----S-SSS--------SS--S-----------S----------------------------S--------------
--------SS------------------------------------S---------------------------------
----------------------------------------------------------------S-------------SS
----------------------SS------------------S---S-------------SS-S--SSS-SSSSS-SS-S
-SS-------------------------------S---------------------------------------------
------------------S-----------------S------S------S-----------------S-SS--SS-SS-
----S----S-----------------------------------------S----------------------------
-------SSSSSS---------------------------------------------------------------S---
----------------------------------------S---------------------------------------
--------S--------------------------------------SSSS-----------------------------
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----------------------------------------------------------S---------------------
-----------------------------------------------------------------S--------------
-----------------------------------S---------------------S----------------------
-------------S-----------------------------------------------SS-----------------
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---------S---------------------------S--------S---------------------------------
--------------------------------------------------------------S-----------------
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---------------------------------S----S----------------------------------------S
-----------------------------------------------S--------------------------------
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---------------------------SSS--------------------------------------------------
-----------SSSSSSSSSSSS--S-S-----------SSSSSS-------------S-------------------SS
SSSSSSSSSSSSSSSSSSSSS----------------------------SS-----------------------------
---------------------SS-S----------------------S-----------------S--------------
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---S------------------------------------------------------S------------------SS-
-----------------S-SSS-------S-S-SSS--------------------------------------------
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------------------------S------------------------------S----------S--------S----
------------S------------------S-SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSS
>forward_611
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------------------------------GTCTCTGTGACGCGCATAATC-----------------------------
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>reverse_1968
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-----------------------------------------------CTTCGGGCACCTGTTCTTCC-------------
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>forward_1374
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--------------------------------------------------------------------------GTGATC
TCCTCCTCCTCGTT------------------------------------------------------------------
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>reverse_3264
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---------------------------------------------------------------TCAGTCACGCCTCCAAG
TTC-----------------------------------------------------------------------------
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