>input_sequence_82169
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--ATGCCGGAGAGCAGAGGGGAGTGGGAGGACTACCGGACGCCGCACGGGCTGCTGATGGCGGTGGTGATGGGGGCGGTG
GTGGCGGGGCCGCTGTTCGTCTTGGACGGCGGCGAGGCGCTGCGCGAGGCCCTGTCGGAGCTGCTCGGGCCTGTGGGGCT
CCCGCTGCTGCCACTCGGCCTCGTCGTCCTCATCCGCGTCCTCTCCTCCGGCTATCGGCTCGTCGACGTCTTCGGCTTCG
CCCTGGGAGAGTCGCTCGACGCCGCCTACCGCTCCGGGCGGGGATCGCCGGTGGGGGTCGTGATCGCTCTGCTGCTCTTC
CTGCTCGCGGTGTACTACAGGTCGTGGTCGCCGTTCGGCGGCGGCGACGACGAGTAG-----------------------
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>chr2D_1_TraesCS2D01G111800
TGTCGTTCTA-AAATTGCACGTCCTGCTGCTCCGAATTTGCGCACGAC---ATTGCCAATCCGCACAGTAGCCAGAATAG
GCTTCAGGCCTGGGAAAATCACCAGCCCCTCGTACGTAACCACCGCCCTCCCCCAAATTTAGGCTCCGCGACCCCTCTTC
CCTCATAAAGCACCGCCCCCTTGCACATGCGACCGTCGTCCGTCCGCACGTCGTCCCTCCCGCGTTCCGACCTCCGTCCG
CGCGCCC-----CCGAGAGGCGTCCTCTTCGCCGAGAAATGCCGGCGAGGAGGGTGGCCATCGATCTGCTCCGGAACGCC
TCCCGCGAGGCCTTCCAGGCGGCCGTCTCCACCATGCTGAAGCCGCCCACCTCCAAGCCCCTCCACCACGACCACCGGTG
AAGAGGCAG----CCAGCGCGGCGGTCGGGCTC----TCGGAACAACGCATCCGCTTCGCCTCGCAGCAAGCAACCCCAG
CAACCGCGTACGTGCGTGCGTACGCACGGGGCGGCATGCAACG----CGACGTGTCTCCACCCACTACGTACCTTCTTCC
TG----CGATCCATGGCTCCGGATTGGACGGACGCCGTGTCTCCGGTAGACGAAGCTC---CGTCGTCATATTCTATGTG
TGTGCGTTTGGCTCCACTGTGCGTCACTCCCGTGTACTACAATGTTAAGCGTGAAGACGTACGTAGTGTACCATACAT--
--ATACATGGATAATATATCTCCAATGGCAAGGAGGAGCCATGCATACACCTCGTCAGCAAAGTGTGCCTTGTGGTAGCT
ACGAGGGGAGCCCGGTCAAGGTCGCCGGCCCTCGCCGGTATCGTCTCGCTGTCACTCCCAAATATACAATGCTCACCGAA
CGAACGACCGCAGTTGGGAACGTGGGAGTGGGATCGATAAGAATCGGCGATGTGCCCCGGGTCAATGGCAGGGCCGAACG
AGCCAACGAGCGTAACGCCATTTGCAGCCGGCTAGCGAGCTCGGGACGGA----------CCGGAGGCCGGAGGGAGCGA
TGATGCCGGAGAGCAGAGGGGAGTGGGAGGACTACCGGACGCCGCACGGGCTGCTGATGGCGGTGGTGATGGGGGCGGTG
GTGGCGGGGCCGCTGTTCGTCTTGGACGGCGGCGAGGCGCTGCGCGAGGCCCTGTCGGAGCTGCTCGGGCCTGTGGGGCT
CCCGCTGCTGCCACTCGGCCTCGTCGTCCTCATCCGCGTCCTCTCCTCCGGCTATCGGCTCGTCGACGTCTTCGGCTTCG
CCCTGGGAGAGTCGCTCGACGCCGCCTACCGCTCCGGGCGGGGATCGCCGGTGGGGGTCGTGATCGCTCTGCTGCTCTTC
CTGCTCGCGGTGTACTACAGGTCGTGGTCGCCGTTCGGCGGCGGCGACGACGAGTAGCTGGCGTCGGCCGTGGCCGGTGA
--------------TGCGGGTTTGCATGTGTGATGCATGTGC--GATCGGCAGCCTGCTGCTTAGTTGTAAATTTGTAAT
CGGCAAAAATAACA-TTGA-------------------------------------------------------------
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-----------------------------GCCTCTTTGATTCGAAGAATTTTTAGAGGTTTCTAATCCTAT---------
----------------------------------GCATGTTTTCTACCTGAGTTCTTGGATTCATAGGATTGCAAACCAC
ACGAAATTTTTGT-----------------------------------------------TAAGATTTATTTGTAGTTTT
GTACTAGGTTTTATACTCCCTCCGTTTCATATTAATTGTCGCTGATTTAGTAGTAGCAAAATTTCCATCCACCTTAACCT
CTTGAAAAACAATTCTACGTCCTTCCTGCACGCAATCAAACAGCCATTCATTTC--TGTTTGGGGATCCTGCAACGCAAT
CAAACAGCCATTCATTTCTATGTTTGGGGATGGAAGCTTTGAACATCAATTAAG--TCTGTGGTACCTGCTCTGATGGTG
AGTCTGTGCTGTTCCAGCTAAACATGTATTTCTTGGTTTATTTACCCATGGAATGGTGGTAGTGAGTAGTATCTGTGCGA
GGGATAGGACCCACCCCCGCGTCGCCAACCCTAGGCGACACGGGGGGC--------------------------------
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--------------------------------------GACCACGCCGCCGGCCCTAGGCCCCCTCCCCTCGCCTCCTCC
GTCCTGCCGCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNGGTGGCGTTTTTTTCGGGCGGTGGCGGCGCATCGTTCGACGCAGATCCGACGGC
AAGGAGCGGCGAGATCCCTACGGCATGCGTGACGACGGCGTCAGCAGA
>chr2B_1
TGTCGTTCTA-AAATCGCATGTCCTGCTGCTCTGAATTTGCACACGACATTATTGCCAATCCGCACAGTAGCCAGAATAG
GCTTCAGGCTTGGGAA-ATCGCCAGCCCCTCGTACGTAACCGCCCTCCTGCCCCAAATTTAGGCTCGGCGAACCCTCTTC
CCTCATAAAGCACCGCCCCCTTGCACATGCGACCGTCGTCCGTCCGCACGTCGTCCCTCCCGCGTTCCGACCTCCGTCCG
CGCGCCC-----CCGAGAGGCGTCCTCTTCGCCGAGAAATGCCGGCGAGGAGGGTGGCCATCGACCTGCTCCGGAACGCC
TCCCGCGAGGCCTTCCAGGCGGCCGTCTCCACCATGCTGAAGCCGGCCACCAACAAGCCCCTCCACCACGACCACCGGTG
AAGAGGCAGGCAACCAGCGCGGCGATCGGGCTCGCTCTCGGAACAACACACCCGCTTCGCCTCGCAGCAAGCAACCC-AG
CAACCGCGTACGTGCGCACGCACGCACGGGGCGGCATGCAACG----CGACGTGTCTCCACCCACTACGTACTTTCCTCC
TGCGATCGATCCATGGCTCCGGATTGGACGGGCGCCGTGTCTTCGGTAGACGAAGCTCCTTCGTCGTCATATTCTATGTG
TGTGCGTTTGGCTCCACTGTACGTCACTCCCGTGTACTACAATGTAAAACGTGAAGACGTACGTAGTGTACCATACAT--
--ATACATGGATAATATATCTCCAATGGCAAGGAGGAGCCAT----ACACCTCGTCAGCAATGTGTAGCCTCT-------
-------GAGCCCGGTCAAGGTCGCCGGCCCTCGCCGGTATCGTCTCGCTGTCACTTCCAAATATACAATGCGCGCCGAG
CGAACGACCGCAGTTGGGAACGTGGGAGTGGGATCGATAAGAATCGGCGATGCGCCGCGGGTCAATGGCAGGGCCGAACG
AGCCAACGAGCGTAGCGCCATTTGCAGCCGGCTAGCTCTGGACGTACCGGAGGCCGGAAGCCGGTCGCCGGAGCGAGCGA
TGATGTCGGATCAGAGAGGGGAGTGGGAGGACTACCGGACGCCGCACGGGCTGCTGATGGCGGTGGTGATGGGGGCGGTG
GTGGCGGGGCCGCTGTTCGTCCTGGACGGCGGCGAGGCGGTGCGCGAGGCCCTGTCGGAGCTCCTCGGGCCCGTGGGGCT
CCCGCTGCTCCCCCTCGGCCTCGTCCTCGTCATCCGCGTCCTCTCCTCCGGCCTCCGGCTCGTCGACGTCTTCGGCTTCG
CCCTGGGAGAGTCGCTCGACGCCGCCTACCGCTCCGGGCGGGGATCGCCGGTGGGGGTCGTGCTCGCGCTGATGTTCTTC
CTGCTCGCGGTGTACTACAGGTCGTGGTCGCCGTTCG---GCGGCGACGACGAGTAGCTGCCGTGGGCTGTGGCCGGTGA
GATCGGGCGTACGGTGCGGGTTTGCATGTGTGATGCATGTGC--GATCGGCAGCCTGCTGCTTAGTTGTAAATTTGTAAT
CGGCAAAAATAACA-TTGA-------------------------------------------------------------
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-----------------------------GCCTCTTTGATTCAAAGAATTTTTAGAGGGTTCTAATCCT-----------
--------------------------------AGGCATGTTTTCTACCTGAGTTCTTGGATTCATAGGATTGCAAACCAC
ATGAAATTTTTGT-----------------------------------------------TAAGATTTATTTGTAGTTTT
GTACTAGGTTTAATACTCCCTTAGTTCCATATTAATTGCCGCTGATTTAGTAGTAGCAAAATTTCCATCCACCTTAACCT
CTTGAAAAACAATTCTACGTCCTTCCTGCACGCAATCAAACAGCCATTCATTCTTGTGTTTGGGGATCCTGCAAATCAAA
GAG---GCCCTTCGTTTGCTGGAAC-----TGGAAGTGTTGAACATGAATTAAG--TCTGTGGTACCTGCTCTGATGGTG
AGTCTGTGCTGTTCCAGCTAAACATGTATTTCTTGGTTTATTTACCCATGGAATGAAAGCAATGTTCCACAGAATCCCAG
CAAAGACCATTTTTCTCTCGCTGAATGTTTGTTAACGCTGCCAACAGATGGAAACGGAAGACAAGCTTCTTTCTGCTGAT
CCCTTATTAAAGGGGGGCTGCTACGCGCGTAAAAGATCCGTCGGATCTGACACGGATCTAGCGGGGTGAATGTCCTTTCT
CTACTTTGCAACAGGAATCTTGTTGCAGAAACATTTGTAACAGAGGTTGTGTTGCGGAATTTTTGTGCAACATAGATTGT
ATTGCGGAATTTTTTTTGCAACCGAAGTTGTGTTGCGGATTTTTTTACAACAAAGGTCTTGTTGCTGATTTTTTTTGCAA
CAGCAGTGATGTTGCAAAAGTGGATGGCGCCTTGCCGTCGTCGGTGTCGAGTGAAGGTCGTCTTCTTCATCACTCGGTAC
CAACAGGAGCGGGCATCGTCGATCGAGAAGGAGGAGAGAGAGTCGGTGGTGGTGGAGGCGGCCGACGACCACGTCGGGGG
AGCACATGCTTGCCGGCATCAGCGACGGCACAACGGGGGTGCTCGCGGCGTCCAGCGCCTTGTCTGGATGAAGGAGAGAC
TAGGGAGGAGGAGAGAGGGTGGATGGTGGTGGAGGCGGCCGATGACCGTGACGGTGGAGCGCGTGCTCGCCGGCATCAGC
GGTGGCGCAGCGAGGGTGCTAGATGTCGGCGCGGCTGCCAGCGCTTGGTCTAGATGAAGGTGAGATGCGAGAGAAAGATG
AGATTATAGTGGGTAACGAACCGGATTTGGTCGTTGTTTCAGGAAGGTGGAACGTGTGAGACCCACAAGGCACGTGTCAT
GCGCACAAGACTGCACAAGACTGCGGATGGGAATTGCATGATCGGCTGGCTGGGTGATCTCAATTAGTTCCCCTTATTAA
CGCATCCCCCAAACTCTTGTATTTCAACTTATGTACGTATTTTGAACTAAACATCGATGGCAATTTAACACAAGAAGGTG
GAGTAAGTATCAGCGATGTCAATGGCTTTAGGCCGGAGTTAGCCTCGCCCGACCTCGGAGAAAAGATGGCAGTGAGGGTG
CGTGCGTGCGTGTGGGCGCGGGAGGGGGGGTCATAGTGGTGCCGGGGCTAGCCGTGGCAGGAAAACTTCCTTTGTGCTGA
GATACAGAGGTAGCAGCCAAGGCCATGGCAGGACTCCACAGCTTCTTGTGGCTCCCCATCAGCCTTATTATCCCCCCATC
CCCCCCTCAACCCAAGCGATGGATATTGTGGGAGCCCGGTCAAGGTCGCCGGCCCTCGCCGGTATCTTCTCGCTGTTACT
TCCAAATAT-----------------------------------------------------------------------
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>chr2A_1
TGTCGTTCTAAAAATCGCATGTCCTGCTGCTCTGAATTTGCACGCGACATTGT---CAATTCGCACAGTAGCCAGAATAG
GCTTAAGGCCTGAGAAAATC-CCAGCCCCTCGTACGTAACCGCCGCCC-CCCCCAAATTTAGGCTCCGCGACCCCTCTTC
CCTCATAAAGCACGGCCCCCTTGCACATGCGACCGTCGTCCGTCCGTACGTCGTCCCTCCCACGTTCCGACCTCCGTCCG
CCCCGCGCGCCTCCGAGAGGCGTCCTCTTCGCCGAGAAATGCCGGCGAGGAGGGTGGCCATCGACCTGCTCCGGAACGCC
TCCCGCGAGGCGTTCCAGGCGGCCGTCTCCACCATGCTGAAGCCGCCCACCTCCAAGCCCCTCCACCACGACCACCGGTG
AAGAGGC---CAACCAGCACGGCGGTCGGGCTCGCTCTCGGAACAGCACACCCGCTTCGCCTCGCAGCAAGCAACCC-AG
CAACCGCGTACGTGCATGCGTACGCACGGGGCGGCATGCAACGCGCACGACGTGTCTCCACCTACTACGTACCTTCTTCC
TG----CGATCCATGGCTCCGGATTGGACGGACGCCGTGCCTTCGGTAGACGAAGCTCCGTCGTCGTCATATTCTATGTG
TGTGCGTTTGGCTCCACTGTACGTCACTCCCGTGTACTACAATGTAAAACGTCAAGACGTACGTAGTGTACCATACATAC
ATATACATGGATAATATATCTCCAATGGCAAGGAGGAGCCATGCATACACCTCGTCAGCAAAGTGTGCCTTGTGGTAGCT
ACGACGGGAGCCCGGTCAAGGTCGCCGGCCCTCGCCGGTATCGTCTCGCTGTCACTGCCAAATATACAATGCGCGCCGAG
CGAACGACCGCAGTTGGGAACGTGGGAGTGGGATCGATAAGAATCGGCGATGCGCCCCTGGTCAATGGCAGGGCCGAGGG
AGCCAACGAGCGTATCGCCATTTGCAGCTAGCGAGCGAGCTCGGGACGGA----------CCGGAGGCGGGAGCGCGCGA
TGATGTCGGAGAGGAGAGGGGAGTGGGAGGACTACCGGACGCCGCACGGGCTGCTGATGGCGGTGGTGATGGGGGCGGTG
GTGGCGGGGCCGCTGTTCGTCCTGGACGGCGGCGAGGCGCTGCGCGAGGCCCTGTCGGAGCTGCTCGGGCCCGTGGGGCT
CCCGCTGCTGCCCCTTGGCCTCGTCGTCCTCATCCGCGTCCTCTCCTCCGGCTATCGGCTCGTCGACGTCCTCGGCTTCG
CCCTGGGAGAGTCGCTCGACGCCGCCTACCGCTCCGGGCGGGGGTCGCCGGTGGGGGTCGTGCTCGCGCTGCTGTTCTTC
CTGCTCGCGGTGTACTACAGGTCGTGGTCGCCGTTCG---GCGGCGACGACGAGTAGCTGGCGTGGGCTCTGGCTGGTGA
GATCGGGCGTGCGGTGCGGGTTTGCATGTGTGATGCATGTGC--GATCGGCAGCCTGCTGCTTAGTTGTAATA---TAAT
CGGCAAAAATAACA-TTGAGCCTCTTTGATTCGAAGAATTTTTAGAAGGTTCTGATCGTAGGCATGTTTTCTACCAGAGT
TGTTGGATTCATAGGATTGCAAACCGTACAATTTTTTTCGGTTGTTATAAGATTTATTTGTACGTTTTGTAGCAAATTTT
TCCATCCACCTTAACCTCTTGAAAACGAATTCTACATCTCTCATGTACGCAATCAAACAGCCATTATGCATGCCTGCTGC
TTAGTTGTAATCGGCGGAAATAACATTGAGCCTCTTTGATTCAAAGAATTTTTAGAGGGTTCTAATCCTTAGGCATGTGT
TTCTTTTCTTTCTTTCTTTTTTTGAACTGCTTAGGCATGTTTTCTACATGAGTTCTTGGATTCATAGGATTGCAAACTAT
ACAGGTTGTTACAAGATTTATTATTTGTCGGCTTTATAGCAAAAATATT---GGTTGTTATAAGATTTCTTTGTAGGTTT
TA---------------------------------------------------TAGCAAAATTTCCATCCACCTTAACCT
CTTGAAAACGAATTGTACGTCATTGATGTACCCAATCAAACAGCCATTCATTTCGATGTCTGCG-----TGCACATCAAA
GAG---GGCCTTTGTTCGCCAGATGCGTTGA----------AACATCAATTAATTTTCTGTGGTAGCTGCTCTGATGGCA
AGTC--TGCTGTTCCAGCTAAACATGTATTTCTTG-TTTATTTCCCCATCGAA---------------------------
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>chr2B_826
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---------------------------------------------------------CCAAACATACAATGCGCGCCGAA
CGAACGACCGCAGTTGGGAACGTGGGAGTGGGATCGATAAGAATCGGCGATGTGCCGCGGGTCAATGGCAGGGCCGAACG
AGCCAACGAGCGTAGCGCCATTCGCAGCCGGCTAGCGAGCTCGGGACGGA----------CCGGAGACCGGAGCGAGCGA
TGATGCCGGAGAGGAGAGGGGAGTGGGACGACTACCGGACGCCGCACGGGTTGCTGATGGCGGTGGTGATGGGGGCGGTG
GTGGCGGGGCCGCTGTTCGTCCTGGACGGCGGCGAGGCGGTGCGCGAGGCCCTGTCGGAGCTCCTCGGGCCCGTGGGGCT
CCCGCTGCTCCCCCTCGGCCTCGTCCTCGTCATCCGCGTCCTCTCCTCCGGCCTCCGGCTCGTCGACGTCTTCGGCTTCG
CCGTGGGAGAGTCGCTCGACGCCGCCTACCGCTCCGGGCGGGGGTCGCCGGTGGGGGTCGTGCTCGCCCTGATGTTCTTC
CTGCTCGCGGTGTACTACAGGTCGTGGTCGCCGTTCG---GCGGCGACGACGAGTAGCTGCCGTTGGCTGTGGCCGGTGA
GATCGGGCGTACGGTGCGGGTTTGCATGTGTGATGCATGTGCTCGATCGGCGGCCTGCTGCTTAGTTGTAAACTTGTAAT
TGGCCAAAATAACTCTTGA-------------------------------------------------------------
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-----------------------------GCCTCTTTGATTCGAAGAATTTTTAGAGGGTTCTGATCCGTAC--------
----------------------------------GCATGTTCTCTACACGAGTTCTTGGATTCATAGGATTGCAAACCAT
ACAATTTTTTCCGGTTGTT-TTATTTGTCGGTTTTATAGCCAAAAAAAATTCGGTTGTTGTAAGTTTTATTTA-------
-----------------------------------------------------TAGCAAAACTTCCATCCGCCTTAAGCT
CTTGAAAACGAATTCTACGTCTTTCATGTACGAAATCAAACAGCCATTCATTTCGGTGTTTGAG-----TGCACATCAAA
GAG---GCCATTTATTTGCCGGATGCGTTGA----------AACATCAATTAATTTTCTGTGGTAGCTGCTCTGATGGTG
AGTC--TGTTGTTCCAGCTAAACATGTATTTCCTGGTTTATTTACCCTTGGAA---------------------------
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>SNPs
---------------S---S------------S--------S--------------------------------------
--------------------S--------------------S--------------------------------------
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----------------------------------------------------------------S---------------
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-----------------------------------------------S--S--------------------------S--
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------------------------------------------S-------------------------------------
--------------------S------------------------S--S-------------------------------
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----S---------------------------------------------------S---------------S-S-----
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--------------S----------------------------------------------------------S------
-------------S------------------------------------------------------------------
---------------------S-------------------------------------------------S--------
------------S-------------------------------------------------------------------
--------------------------------------------------------------S----S------S-----
-------------------------------------SSS------------------------S---S-----------
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----------------------------------------------------------S----------SS---------
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-----------S---------SS---S-----------S-----------------------------------------
--------------------------------------------------------------------------SS---S
S-SSSS-----------SSSS-S-SS-SSS------SS------------------------------------------
-------------------------------------------------------SSS-S-S--SSSSSS-SSSSSS-SS
SSS-S-SS-SSSSS-S-SSSS-SSSSSSSSS-SSS--SSS-SSSSS-S--------------------------------
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---------------------------------------S-S-S-S----------S-S-SSSS--SS-----SSSSS-S
SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_805
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-----------------------------------------------------------------TGCCTTGTGGTAGCT
ACGAG---------------------------------------------------------------------------
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>reverse_2312
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-----------------------------------------------------------------------TCTGTGCGA
GGGATAGGACC---------------------------------------------------------------------
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