>input_sequence_63431
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------------ACATAAATATAATCCCCAGTGTACCAAGTCACATAGTTTGCCATCTCGTCGTCAAACTTCCGTCTACC
AATCCCCAAACCCTTAAAATCATCAGAAACTTGATCGATCGTACA-CATACTTTGCCATCTCTTCGTCAAACTTCCGTCT
AGCGATCCCCAAACCCTTAAGGCCGTCAGAAACTTGATCGGTCGTAGATCACCTAGTACATGGCGAGTGGCAGCAACAAG
GAACCCAAAGTGGGATCAGGTGACGAGGCCGCTAGCTCGGCA---GGTCCGCCAGGGGTGGCAGCGGCGCCGCCACAAGG
AGCTGAGCCCGGGGACGATGAGGCGGCGGCGGCCGTGCTGGCTGCTGCCCCCACCAGGCCATACTACGAGTGCGTCTTCT
GCAAGCGCGGGTTCACCACGGCGCAGGCTCTCGGCGGGCACATGAACATCCACCGCCGCGACCGTGCCAAACCCAGCGTC
CGCGACGCTCCCAGCGGCACCACCACATCAGCGTCTCCAAACGTCGAGTGCTATAATCAGTATTACAGCCACCGCCTGCC
GTATCCCACAGTGCCTCCGGCGACGGCGACGCCGATGAGCACGAGCGGAAGTTTCACGCTAGCGTACTACCAGCAACAGG
GCACAGGGAATTCGACCGGGGTCGCGCATGCGGATGCCTCCGTGAACCCTAGCAGTGCTAGCCCGAGGGAGCTCAGCCTG
TTCGGTGCGGCAGCTCGTGACCGTGACTTGCACGGCGGCGGTGGCGACGGGTCTGGCGTGGCGCCAGAAGGGTCGGATCG
GCAGGCAGGTGAGCCGCCCGAAAGGGAGCTTGACCTGGAGCTCAGGCTCGGACGTCGTCCGCATTGATCGCATGATACTC
TGCAACTGCGGTTAACCAATGCAGCTCATACAAATACTACGTATATTTATTTATTTATTGGTACAAATGCTGCGTACATA
ATGCATTAATTCATGCATATATGTGGTTTATGGAATATGTGCATGGAGTGCGTGTA------------------------
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>chr1A_1_TraesCS1A01G128800
CGGGGGCGAAGCGAACAGCCAGCAGCCGAAGGGCTGCACCGTTCGCATTCGAACTCCATTTTCGCAAAAATCTTTTCAGC
TTCTGTGTGACCTTTCGTATACCCGTAGTGCGTGGTAAAAATTTAGATATCGGTTCGGGTCATTCCCGTGGCGCGGCGCG
GCGCATCGTGCCGAGGCGGGCGGCGGAGAAGGAGCGCGCGTGGATATCCCTCTTGTTCTCATGCTCGTACAAGTGGGGAA
AAAACCTCCCTTATAAGGAGGTCCAACTCCCACTAAACTAGCAATGTGGAACTAAACTTTAGTAGTATTCTTTGCCTTGT
ACAAATGGGCTAAGTCGGCCTCTAGGATTTATTAGGAATTTCTGAAATAGTTATTGGGCTGCTCAAAATAGACTAAATTC
CTGCACGACCCGTGCTTTATTATTACGGAAAGATATATGTGGACATATAAACTAATTTTTTTTTTGCAAAAATGATTGTG
TATGCATTGCATACCCTTGAATTAGTCACCAGAACCATATATGATATATATGCATACATGGACATATAAACTAATTCGCT
TTTGCAAAAAATATTGGGTATGTGCAATTGTGCATACCCTTGAATTAGTCTT----------------------------
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----------------------GCTCTGCCCCTGGCCCCAGGGGGCAGTCGCACGAGGCCAACGCGACACGGACGACGCA
GAGGGCACTCTCACGCGGCGAGGCTCTCGGGAGACGGATACTGCAGCATCCTTTGTACTAGCAACAGTAATGATTGTGTG
CATTGAAATGATACA--GCAGCCACGGCATGCCTCCTTTTCAAAGGAAAAGAAACAGATAAGAATATAGGATACTTATGT
GTGAAGCGCCAGCTGCTCATTGAATGTTTTTACTGCAAAACAGCAGCGCACGGTACTGGATAGCGAGGCAGCTGCAAAGC
AACAAGGCCGGCCAAGACCATGTTCCATCTTTTATTCAGAAAACTGCTGATGATTCCAATGTTTTCCACTTTGTCCCCGT
CGATCCAATCATACATAAATATAATCCCCAGTGTACCAAGTCACATAGTTTGCCATCTCGTCGTCAAACTTCCGTCTACC
AATCCCCAAACCCTTAAAATCATCAGAAACTTGATCGATCGTACA-CATACTTTGCCATCTCTTCGTCAAACTTCCGTCT
AGCGATCCCCAAACCCTTAAGGCCGTCAGAAACTTGATCGGTCGTAGATCACCTAGTACATGGCGAGTGGCAGCAACAAG
GAACCCAAAGTGGGATCAGGTGACGAGGCCGCTAGCTCGGCA---GGTCCGCCAGGGGTGGCAGCGGCGCCGCCACAAGG
AGCTGAGCCCGGGGACGATGAGGCGGCGGCGGCCGTGCTGGCTGCTGCCCCCACCAGGCCATACTACGAGTGCGTCTTCT
GCAAGCGCGGGTTCACCACGGCGCAGGCTCTCGGCGGGCACATGAACATCCACCGCCGCGACCGTGCCAAACCCAGCGTC
CGCGACGCTCCCAGCGGCACCACCACATCAGCGTCTCCAAACGTCGAGTGCTATAATCAGTATTACAGCCACCGCCTGCC
GTATCCCACAGTGCCTCCGGCGACGGCGACGCCGATGAGCACGAGCGGAAGTTTCACGCTAGCGTACTACCAGCAACAGG
GCACAGGGAATTCGACCGGGGTCGCGCATGCGGATGCCTCCGTGAACCCTAGCAGTGCTAGCCCGAGGGAGCTCAGCCTG
TTCGGTGCGGCAGCTCGTGACCGTGACTTGCACGGCGGCGGTGGCGACGGGTCTGGCGTGGCGCCAGAAGGGTCGGATCG
GCAGGCAGGTGAGCCGCCCGAAAGGGAGCTTGACCTGGAGCTCAGGCTCGGACGTCGTCCGCATTGATCGCATGATACTC
TGCAACTGCGGTTAACCAATGCAGCTCATACAAATACTACGTATATTTATTTATTTATTGGTACAAATGCTGCGTACATA
ATGCATTAATTCATGCATATATGTGGTTTATGGAATATGTGCATGGAGTGCGTGTAATTAATATACAATTTTTTATATTT
TATTCCGGTTCCAGTTGTTAATATATGTATGTTTTTGTTTGTGTTTATACTGTGGACGTTGGATCTGTTGCAAATCTTAG
GACAGAGTCCACTCGACTTACTAGAATCTTTTCTTCGATATGTATAATTTATCCTGCCGGCCCTCCTCAACCCGTTGATG
TGGGAAATTTCGGCTGCTGGAGCACTGGACCGGGGGAATTGTTACTGCAGTGAAGCCTGTCACATCTCCTCTGGGGCTTC
CCCATCCCAGTCGCACGGTGAGCTGCTGGCCCTTGTGCCCTACTGCTACTGTTGATGCATATTGAAATTCATCCGAGTTC
TTACTGTTTTTAAAGCTTTCTCAGAGATCTATTTTGTGCCATTGTTTACAGT-TGATGGATCTGAGAACAACAGGATAAC
AACTGACGCTAAAGCCTCGGGAATTTCAGAATTTAAGTTTTCTAACACTCAACTTGGCATTTTCAGCGGATACACATTGC
AACGTAAGAACTTATTGTTATTTTCACTCTATGGCTCCGTTTTTGTATCATGACAATTTTTACAAGTGAATGAGTATGAT
GT-ATAGTGGGTGACATGG-AATTTCTTATCCTGGCAATTTTTGGAATGTGAA-GAACATGTTGCATAGTGGTGATATGG
CG--------------------------CCATGGCAATTTTAGAAAAAAATAGTTCAT-TTTTTTTGAAACTTTTTATCC
CAAATTCCCATGTTCTGACATGCTGATTTCGGTGCATTTTACATTTTTGAAATGTTTGTAATAGGATTAAAACTACTAAA
TTTTTATTGTCCTTCACTATAGGTCCTCATGGCA-TTTTAACTTGTGTCCCCATGGCAATTTAACAATGTGTCCCATGGC
AATTTAAGGTGTGTCCCCATGGAAA--AATATATTGTAGAAACATGGCAATTGTATTGTATATACCATGGCAAGTCCATC
ATTTCTGTTACATATATCTTTGGAAATTTTGGGGTAGGGGGGTAGGTAGG
>chr1D_481
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TATGCATTGCATACCCTTGAATTAGTCACCAGGACCATATATGATATATATGCATACATAGACATATAAACTAATTTGCT
TTTGCAAAAAATATTGGGTA--------TGTGCATACCCTTGAATTAGAGCGTGTTCTGAACTCTTCCCAACTCTCCCAA
CTCCTCAAATCCAGCTACCAAGCGCAGCTTCCAACTTCACATAGCGATTTGATCCCATTCAGCAGCCACGCTAGCTTCTC
TCATCGCTAAAAATGAGCTGGCAGCATCTATGGCCTGTCTTAGCGCCATAATGGGCCGACTCGAACCAGCCCATAATGGG
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNTCAGCCGTTGGATCTATAATCTGACGGTCATCTAGGGATGCGTTGGATCTGGTTGTAA
TAACGGACTTCTAGGGGTGTTTTTTTGAATAAATGCACGAGCTCTCTCCTTGGCCTTTGGATTTTAGATCCAACGGCTGA
GAAGCTCCCGGAGCACCTAAGTTTAGATGCTCCCGGAGCACCAGATATCTTCCCATATGAGGGGTACCGATTCGTTGAGA
GGAGGACCGTACCGCTTCGAGTTTTATTTTTTCTATCGAGCGAGGGGGGTCGAACCGGTATGTAACTTGGCGGTGGCAGA
TCGCTGTAAATAATGGGAACTCCAACTTCATGTTTTGGTGGAGCTGGGCCAACCGGGCTCCTCGTTTTTGCACTACGCGC
TGGCTAGCTTTTCAGAAGTTAGCTTCTTGGAGCCCATCCATTCGGTTCAAAATCATTCGTGGAGTTGGAAGGTGGAGTAG
TTCAGAACAGGCCCTTAGTCTAGCTCTGCCCCTGGCCCCAGGGGGCAGTCGCATGAGGCCAACGTGAGACGGACGGCGCA
GAGGGCACTCTCACGCGGCGAGGCTCTCGGGAGACGGGTACTGCTGCATTCTTTGTACTAG---CAGTAATGATTGTGTG
CATTGAAATGATACACAGCAGCCACGGTATGCCTCCGTTTCAAAGGAAAAAAAACAGATAAGAATATAGGATACTTATGT
GTGAAGCACAAGCTGCTCATTGTATGTTTTTACTGCAAAACAGCAGCGCACGGTACTGGATAGCGAGGCAGCTGCAAAGC
AACAAGGCCGGCCAAGACCATGTTCCATCTTTTATTCAG-AAACTGCTGATGATTCCAATGTTTTCCACTTTGTCCCCGT
CGATCCAATCAGACATAAATATAATCCCCAGTGTACCAAGTCACATACTTTGCCATCTCGTCGTCAAACTTCCGTCTACC
GATCCCCAAACCCTTAAAATCGTCAGAAACTTGATCGATCGTGCAG-ATACTTTGCCATCTCTTCGTCAAACTTCCGTCT
AGCAATCCCCAAACCCTTAAGGCCGTCAGAAACTTGATCGGTCGTAGATCACCTAGCACATGGCGAGTGGCAGCAACAAG
GAACCCACAGTGGCATCAGGTGACGAGGCCGCTAGCTCGGCCGCCGGTCCGCCAGGGGTGGCAGCGCCGCCGCCACAAGG
AGCTGAGCCCGGGGACGATGAGGCGGCGGCGGCCGTGCTGGCTGCTGGCCCCACCAGGCCATACTACGAGTGCGTCTTCT
GCAAGCGCGGGTTCACCACGGCGCAGGCTCTCGGTGGGCACATGAACATCCACCGCCGCGACCGTGCCAAACCCAGCGTC
CGCGACGCTCCCAGCGGCACCACCACATCAGCGTCTCCAAACGTCGAGTGCTATAATCAGTACTACAGCCACCACCTGCC
GTATCCCACAGTGCCTCCGGCGACGGCGACGCCGATGAGCACGAGCGGAAGTTTCACGCTAGCGTACTACCAGCATCAGG
GCACAGGGGCTTCGACCGGAGACGCGCATGCGGATGCCTCCGTGAACCCTAGCAGTGCTAGCCCGAGGGAGCTCAGCCTG
TTCGGTGCGGCAGCTCGTGACCGTGACTCGCACGGCCGCGGTAGCGACGGGTCTGGCGTGGCGCCAGAAGGGTCGGATCG
GCAGGCAGGTGAGCCGCCCGAAAGGGAGATTGACCTGGAGCTCAGGCTCGGACGTCGTCCGCATTGATCGCGTGATA--C
TGCAACTGCCGTTAACTAATGCAGCTCATACAAATACTGCGTATATTTATTTATTTATTGGTGCAAATGCTGCGTATATA
ATGCATTAATTCATGTATATATGTGGTTTATGGAATATGTGCATGGAGTGCGTGTAACTAATATACAATTTTTTAT--TT
TATTTCTCTTCCAGTTATTAATATATGTATGTTTTTGCTTGTGTTTATACTGTGGACGTTGGATCTATTGCAAATCTTAG
GACAGAGTCCACTCGACTTACTAGAATCTTTTCTTCGATATGTATAATTTATCCTGCCGGCCGTCCTCAACCCGTTCATG
TGGGAAATTTCGGCTGCGGGAGATCTGGACCGAGGGAATTGTTACTGCAGTGAAGCCTACCACATCTCCTCTGGGGCTTC
CCCATCCCAGTCGCACGGTGAGCTGCTGGCCCTTGTGCCCTACTGCTACTGTTGATGCATACTGAAATTCATCCAAGTTG
TTACTGTTTTTGAAGCTTTTTCAGAGATCTATTTTGTGCCATTGTTTACAGT-TGATGGATCTGAGAACAACAGGATAAC
AACTGAAGCTAAAGCCTCGGGAATTTCAGAATTTAAGTTTTCTAACACTCAACATGGCATTTTCAGCGGATACACATGGC
AACGTAAGAACTTA--GTTATTTTTACTCTATGGCTCCGTTTTTGTATCCTGACAATTTTTAGAAGTGAATGAGTATGAC
GT-ATAGTGGGTGACATG-CAATTTCTTATCCTGGCAATTTTTGGAATGTGAATGAACATGTTGTATAGTGGTGACATGG
CAAATTTTTTGGAATACAAATTTTTAAACCATGGCAATTTCAGAAAAAAAATTAGTTCATTTTTGTGAAACTTTTTGTCC
CAAATTCCCATGTTCTGACATGCTGATTTCGGAGCATTTTACATTTTTGAAATGTTTGTAGTAGGATTAAAACTACTAAA
TTTTTATTGTCCTTCACTATAGGTCCTCATGGCATTTTTAACTTATGTCCCCATGGCAATTTAACAATGTGTCCCATGGC
AATTTAAGGTGTGTCCCGATGGAAATAAATATATTGTAGAATCATGGCAATTGTATTGTATATACCATGGCAAGTCCATC
CTTTTTGTTACATATATCTTTAGAAATTTTGGGGTATGGGGGTAGGT---
>chr1B_696
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-------------------------CTCGGGAGGCAGGTACTGCAGCATTCTTTGTAGCAGTAATGA-------TGTGTC
CATCGAAATGATACA--GCAGCCACGGTATGCCTCCCTTTCAATGAAAAAAAAACAGATAAGAATATAGGATACTTATGT
GTGAAGCACCAGCTGCTCATTGAATGTTTTTACTGCAAAACAGCAGCGCACGGTACTGGATAGCGTGGCAGCTGCAAAGC
AACAAGGCCGGCCAAGACCATGCTCCATCTTTTATTCAG-AAACTGCTGATGATTCCAACGTTTTCCACTTTGTCCCCGT
CGATCCAATCAGACATACATATAATCCCCAGTGTACCAAGTCACATACTTTGCCATCTCGTCGTCAAACTTCCGTCTACC
GATCCTCAAACCCTTAAAATCGTCAGAAACTTGATCGATCGTACAACATACTTTGTCATCTCTTCGTCAAACTTCCGTCT
AGCGATCCCCAAACCCTTAAGGCCGTCAGAAACTTGATCGGTCGTAGATCACCTAGCACATGGCGAGTGTCAGCAACAAG
GAACCCAAAGTGGGATCAGGCGACGAGGCCGCTAGCTCGGCCGCCGGTCTGCCAGGGGTGGCAGCGGCGCCGCCACAAGG
AGCTGAGCCCGGGGATGATGAGGCGGCGGCGGCCGTGCTGGCTGCTGCCCCCACCAGGCCATACTATGAGTGCGTCTTCT
GCAAGCGTGGGTTCACCACGGCGCAGGCTCTCGGTGGGCACATGAACATCCACCGCCGCGACCGTGCCAAACCCAGCGTC
CGCGACGTTCCCAGCGGCACCACCACATCAGTGTCTCCAAACGTCGAGTGTTATAATCAGTACTGCAGCCACCAGCTGCC
GTATCCCGCAGTGCCTCCGGCGAGGGCGACGCCGATGAGCACGAGCAGAAGTTTCATGCTAGCGTACCACCAGCATCAGG
GCACAGGGGCTTCGACCGGAGTCGCGCATGCGGATGCCTCCGTGAACCCTAGCAGTGCTAGCCCGAGGGAGCTCAGCCTG
TTCGGTGCGGCAGCTCGTGACCGTGACTTGCACGGCCGCGGTGGCGACGGGTCTGACGTGGCGCCAGAAGGGTCGGATCG
GCAGGCAGGTGAGCCGCCCGAAAGGGAGCTTGACCTGGAGCTCAGGCTCGGACGTCGTCCGCATTGATCGCATGATA--C
TGCAACTGCGGTTAACTAATGTAACTCATACAAATACTACGTATATTTATTTAATTATTGGTACAAATGCTGCATATATA
ATGCATTAATTCATGTATATGTGTGGTTTATGGAATATGTGCATGGAGTGCGTGTAATTAATATACAATTTTTTAT--TT
TATTTCTGTTCCAGTTGTTA--------ATGTTTTTGTTTGTGTTTATACTCTGGACGTTGGATCTATTGCAAATATGTG
GACAGATTGCACTCGACTTACTAGAATCTTTTCTTCGGTATGTATCATTTATCCTGCCGGCCGTCCTCAACCCGTTCATG
TGGGAAATTTCAGCTGCGGGAGCACTGGACCGGGGAAATTGTTACTGCAGCGAAGCATGCCACATCTCCTCTGGGGCTTC
CCCGTCCCAGTCGCACGGTGAGCTGCTGGCCCTTGTGCCCTACTGCTACTGTTGATGCATATTGAAATTCATCCCAGTTT
TTACTGTTTTTGAAACTTTTTCAGAGATCTATTGTGTGCCATTGTTTACAGTCTGATGGATCTGAGAA---CAGGATAAC
AACTGAAGCTAAAGCCTTGGGAATTTCAGAATTTAAGTTTTCTAACACTCAACATGGCATTTTCAGCGGATACACATGGC
AACGTAAGAACTTATTGTTATTTTTACTCTATGGCTCCGTTTTTGTATCCTCACAATTTTTAGAAGTGAATGAATATAAT
GTAATAGTGGGTGACATGGCAATTTCTTATCCTGGCAATTTTTGGAATGTGAATGAACATGTTGTATAGTGGTGACATGG
CAATTTTTTTGG-ATACAAAATTTTAAACCATGGCAATTTCAGAAAAAAAAT-AGTTCATTTTTTA-AAACTTTTTATCC
CAAATTCCCATGTTCTGACATGCTGATTTCGG---------------TGAAATGTTTGTAGTAGGATTAAAACTACTAAC
TTTTTATTGTCCTTCACTATAGGCCCTCATGGCATTTT-AACTTGTGTCCCCATGGCAATTTAACAATGTGTCCCATGGC
AATTTAAGGTGTGTCCCTATGGAAA--ATTATATTGTAGAAACATGGCAATTGTATTGTATATACCATGGCAAGTCCATC
CTTTCTGTTACATATATCTTTGGAAATTTGGGGGTAGGGGGGTAGGT---
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
--------------------------------S--------------------------S----------------S---
--------------------SSSSSSSS--------------------SSSS----------------------------
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-----------------------------------------------------S----------S--S-------S----
-------------------------------------S-----------S-----------S------------------
---------------------------S--------S-------------S-----------------------------
-------S------------------------------------------------------------------------
---------------------------------------S----------------------------------------
-----------S-----------------------------------S--------------------------------
S--------------------S----------------------------------------------------------
--------------------------------------------------------S-----------------------
-----------------------------------------S--------------------------------------
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----------------------------------S---------------------------------------------
--------------------------------------------------------------S----------S------
---------------------------------------------------------------------------S----
--------SS---------S------------------------------------------------------------
------------------------------------S-------------------------------------------
-----------------------------------------------------------------------------SS-
----------------S-----------------------------------------------------------S---
---------------S------------------------------------------------------------SS--
----S-S-----------------------------------------------------------S-------------
--------------------------------------------------------------S-------------S---
-----------------S-----------------------------------------S--------------------
--------------------------------------------------------------------------S----S
-----------S-------S------------------------------------------------------------
------S----------------------------------------------S-----------------------S--
------------------------S------------------------S------------S-----------------
----------------------------------------------------------------S----------S----
-S--------------------------------------S---------SSSSSSSS----------------------
--------------------------------S---------------------------S-------------------
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-----------------S--------------------------------------------------------------
S----------------------------------------------SSS
>forward_238
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----------------------------------------------------------TCATGCTCGTACAAGTGGGG--
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>reverse_2799
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------------------------------------------------------------------------------TC
TGCAACTGCGGTTAACCA--------------------------------------------------------------
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>forward_2556
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--------------------------------------------------------CGCTAGCGTACTACCAGCAA----
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>reverse_3596
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---------------------------------------------------------------------------TATGG
CGCCATGGCAATTTT-----------------------------------------------------------------
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