>input_sequence_66131
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-------------------------------------------ATGGACATGGCACGCTACGTCGCGTTCCACCAGCAGT
GGATCGCGGGCCAGCAGGCGGGCCTCCGCGAGCTCGCGGAGGCGGCAGCCAATGCCGCCGCCGGGCGCGCCACGGACGCA
GAGCTGAGGGCCGTGGTTGAAAGGTGCATGCGCGGGTACCAGGAGTACGCCGCCAGCCGGCGTGCCTTGGCGCGCGAGAA
CGGCGCGGCCTTCGTCGCCCCGCCCTGGTGCACGGCGTTTGAGAACTCCGTGCTCTGGCTCGGGGGCTGCCGCCCGTCTC
TGGCCATCCGGCTTCTCTACTCAATCTCCGGCGAGGGCTTGGAGGAGGACATCGAGGAGTTCGTCAGAGGCCGCGGGCGC
GGCCTCGCGGAGGGTATGGGCCTCGTCGGGATCACGGCCACGCAGCTGCAGCAGATCAACGACCTCCACCGCTGCACGCT
GCGCGACGAGGGTTACCTGACGGAGCGTCTGGCGAGTCTGCAGGAGAACATCGCCGACCGGCCGCTGCTTCCGATCGTTC
GGGAGCGCGCCGCGGCGGCGGCAGCAGCATTAGCCGGCCAGGACCGGAGCGCTAAGCGCGACGACATTCCCGGACGGCCC
GTGGCAGCAGAATCGTCAGGAGGACTCGCCGCCGAGGTGGACGCGGCGATGGAGAGCTACTCGGCCGGGCTGGCCAGGCT
CCTGGAGGAGGCGGACGAGCTGCGCATGTCGACGGCCAGGGCGCTGGCCACGGAGATCCTGACGCCGCGGCAGGCGGTGG
AGATGCTGATGGCAGCCAAGCAGCTGCACCTGGCGGTGCGCGACTGGAGCCGCCGGAAGGAGGAGGGCGCCCAGAACGCG
CGTCTGCCGCTCGCAGCCGCAGCGACGACCGCCCCCTCGGGCTCAAAACCATGA--------------------------
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>chr3A_1_TraesCS3A01G306200
TAGATTTTATTTCAATTTTTATTTTTGTTTTTGTTTTAATTTTATTTTCCTAAAACAATCTTATTCGAACACACACGGGA
CCCACAACAATGAAATTCAGACAAGCGGCAATCATCCGAGCATAGAATGAAGAAGGGAAATATACTTGAAATTGTTTTTT
TCCGAATGAGAAAGCCTTTGGCAAACTCCTTGCAAATATGTTTTTGCCGGGCACAATACATATCTGCCCAGTCACAAATA
ATTCTCATGCCACTAATCCATTACTTTTTAGAAAACATGTTTTTACAAAAATTTCACTAGCATATACTCCCTTCGTCTCA
TAATATAAGAACATTTTTTTTACACTAATGTAGTGTTAAAAACGTTCTTATATTTTGAGACAGAAGGAGTATTTATTTAG
CCAGGTAACGAATTAGCCCACCTCAATTTGCCTATGTGTGAG--------------------------------------
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-----------------------------------GCCTTTACGTGGTTGGCTTGCAC------TTCACAACCATGCAAT
ATGGCCGGCCTTCCATGTACTCGATGGGAGCAACCAATGCGTCA-------ATTTTGAAGAAAATAAAATGAGGTAATAA
TACTAGTGCTGCTTCAACTCGCCATCTATGTTCACTTTGGTGTCTGAATTTAAAAAATATATCGAACTGGTTCTATAACT
TGGCAGTATGGTTTAAATACAATTCAAATTACGTCTAGATATGTACGTATTGTTGACTAGACATGC--------------
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---------------------------------------------------------------AGAGAGAGCCATCACCA
CACCTGATTCACCTCCGTCCTGAAATGTAAAACGTTTTTTTGATACTATTCTCTCCATTTGAACTAAAACCAAAACGAGT
AATTTGGAAGGAGGGAGTACAAGACATAAACAAACCACAAGAACCATACTAGAAGAATCTAGAGATTCAGAGCATAGGAG
AAGACAAAACTGCTCCGAGGAGCAGGGCGTGTACATAGGAGGAGTCACACTGGCGTAGGCCAGTCTTGCTTACTCACAAG
TCAGTCCCGTCACTCCCTGTCGCGCGCGAGAGACCAGATCGCCATGGACATGGCACGCTACGTCGCGTTCCACCAGCAGT
GGATCGCGGGCCAGCAGGCGGGCCTCCGCGAGCTCGCGGAGGCGGCAGCCAATGCCGCCGCCGGGCGCGCCACGGACGCA
GAGCTGAGGGCCGTGGTTGAAAGGTGCATGCGCGGGTACCAGGAGTACGCCGCCAGCCGGCGTGCCTTGGCGCGCGAGAA
CGGCGCGGCCTTCGTCGCCCCGCCCTGGTGCACGGCGTTTGAGAACTCCGTGCTCTGGCTCGGGGGCTGCCGCCCGTCTC
TGGCCATCCGGCTTCTCTACTCAATCTCCGGCGAGGGCTTGGAGGAGGACATCGAGGAGTTCGTCAGAGGCCGCGGGCGC
GGCCTCGCGGAGGGTATGGGCCTCGTCGGGATCACGGCCACGCAGCTGCAGCAGATCAACGACCTCCACCGCTGCACGCT
GCGCGACGAGGGTTACCTGACGGAGCGTCTGGCGAGTCTGCAGGAGAACATCGCCGACCGGCCGCTGCTTCCGATCGTTC
GGGAGCGCGCCGCGGCGGCGGCAGCAGCATTAGCCGGCCAGGACCGGAGCGCTAAGCGCGACGACATTCCCGGACGGCCC
GTGGCAGCAGAATCGTCAGGAGGACTCGCCGCCGAGGTGGACGCGGCGATGGAGAGCTACTCGGCCGGGCTGGCCAGGCT
CCTGGAGGAGGCGGACGAGCTGCGCATGTCGACGGCCAGGGCGCTGGCCACGGAGATCCTGACGCCGCGGCAGGCGGTGG
AGATGCTGATGGCAGCCAAGCAGCTGCACCTGGCGGTGCGCGACTGGAGCCGCCGGAAGGAGGAGGGCGCCCAGAACGCG
CGTCTGCCGCTCGCAGCCGCAGCGACGACCGCCCCCTCGGGCTCAAAACCATGACAGGCTCGCCATTCCTCAACTAGCTT
GCTTTGCCG--CCAACTTAAGTGTACAGAGTCTGAATAATCTGTTTATTCTGGATTTCTAGA---TATTAATATCGTTGT
TTCTCTGCCATTGTATAACCTGCCTGCACAAACTGCATGCTTGTGTTCTAAAGTCGAAGTTCCTCCTACTACTCCTGTTC
AATACAGTAGTATATATGTATCCGTAACGGAAGGAGTAG-----------------------------------------
--------------------TAGTTTATTCATAATTCCTTGGATTGGAATCCTGAAGAGCGGAGGAAATGAGACGGACGG
GAACTGCGAGACGAGAGGAGCGGTTAGTTTATCGCCTTCCGTTTCCCGTCGCTTTCGCCCCGGCGCCGCGCACGGCGCAC
TGGTGGCGCGACGCGATCTGGGGGTGGCGCCAGGTCCGCATGGCCCGGTGTCGCTC--------GCGTCGCGCGGCGCGC
GGCGCGCGTCCTTTGGTTTGGTCGCGTACG------GCGTGGCCGCCGCATGGGCGAAGGAGCCGCGCGTGTTTGCGCAT
GCTGGACGCGTGGGCCGTGGCCCGTGGAGCATGCAATGCGTTCTGTTCTAATCTGCTCGGCGGGGGCAGGCACTGGTCGC
GGCGTGCTTCCTGCTGACGGACCGCCGAGGAGTGTCAGCCTGTCTCATAGTCTATCTAGTCTA----------GCTTTTG
AGACGGGCTACACCGTTTGATGGCGTCGGAGGCCGATTTTGGTGTTAGAACATCTACAACCGGCACCCTAAACCCTTCGC
CTAAAACGTCCGGGCCGGCATCGTTGACTGGTCACGGGTCGCCCGGTCACTGACCGTCATCGAATTTCGACCTAGCCACG
CGTCTGAAATGGGTCTCAAACGTCCGGATTGACCAGCATCCCTTATATCCAGCTTAAGTATGGAGCGGATATAGAGCGCC
AGAGCGTGCCCACTACGTACGACTAACGAAGGGGTCCCACGCGGAATCGTTTGAAAACTCAACAGTCCAAAACTCGTCTC
ATCCGTTAGATCGATGTCGCCGCT
>chr3D_390
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---------------------------------------------------------------------TATTTATTTAG
CCAGGTAACAAATTAGCCCGACTCAATTTGCCTATGTGTGAG--------------------------------------
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-----------------------------------GCCTTTACGTGGTTGGCTTGCAC------TTCACAACCATGCAGT
ATGGCCGGCCTGCCCTGTACTCGATGGGAGCATCCAACGCGTCA-------ATTTTGAAGAAAATAAAATTGGCTGATAC
AAATTCATGTAAGTCAATTCTGATAGAAAACCGACTTGCCCAAATTATG----------------------------TTT
TCAGGCGACTTGTCCCTAGCTAGTCCAAAACTTTCCTGCAGCCGCGGGGAGCTCTTCCGTTTCTGGTCTGTTTCGCACCA
--CCAGCCGATAAGGATCCATCCATGCACGCCACATCAGAAGCT------------------------------------
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------------------------------------------TAATTCTCCTCATTACCGTCAAGAGAGAGCCATCACCA
CACCTGGTTCACCTCCTGCCTAGTACTA----------------------------------------------------
-------------------CAAGAAATAAACAAACCACAAGAACCATACTAGAAGAATCTAGAGATTCAGAGCATAGGAG
AAGACAAAACTGGTGCGAGGAGCAGGGCGTGTACATAGGAGGAGTCACACTGGCGTAGGCCAGCCTTGCTTACTCACAAG
TCAGTCCCGTCACTCCCTGTCGCGCGCGAGAGACCAGATCGCCATGGACATGGCACGCTACGTTGCGTTCCACCAGCAGT
GGATCGCGGGCCAGCAGGCGGGCCTCCGCGAGCTCGCGGAGGCGGCAGCCAATGCCGCCGCCGAGCGCGCCACGGACGCG
GAGCTGAGGGCCGTGGTGGAGAGGTGCATGCGCGGGTACCAGGAGTACGCCGCCAGCCGGCGTGCCATGGCGCGCGAGAA
CGGTGCGGCCTTCGTCGCCCCGCCGTGGTGCACGGCGTTTGAGAACTCCGTGCTCTGGCTCGGGGGCTGCCGGCCGTCGC
TGGCAATCCGGCTGCTCTACTCCATCTCCGGCGAAGGCCTGGAGGAGGACATCGAGGAGTTCGTCAGCGGCCGCGGTCGC
GGCCTCGCAGAGGAGATGGGCCTCATCGGGATCACGGCCACGCAGCTGCAGCAGATCAATGATCTCCACCGCTGCACGCT
GCGCGACGAGGGTTACCTGACGGAGCGCCTCGCGAGTCTGCAGGAGAACATCGCCGACCGGCCGCTGCTTCCGATCGTCC
GGGAGCGCGCCGCGGCGGCGGCAGCA---TTAGTCGGCCAGGGCCGGAGCGCTAAGCGCGACGACATTGCCGGACGGCTC
GCGGCAGCAGAATCGTCAGGAGGACTCGCGGCCGAGGTGGACGCGGCGATGGAGAGCTACTCGGCCGGGCTGGCCAGGCT
CCTGGAGGAAGCGGACGAGCTACGCATGTCGACGGCCAGGGCACTGGCAACGGAGATATTGACGCCGCGGCAGGCGGTGG
AGATGCTGGTGGCAGCCAAGCAGCTGCACCTGGCGGTGCGCGACTGGAGCCGCCGGAAGGAGGAGGGCGCCCAGAACGCG
CGTCTGCCGCGCGCAGCCGCAGCGACGACCGCCCCTTCCGGCTGAACCCCATGACAGGCTCGCCATTCCTCAACTAGCTT
GCTTTGCCGCTCCAACATAAGTGTACACAGTCTGAATAATCTGTTTATTCTGGATTTTTAGA---TATTAGTATCGTTGT
TTCTCTGCCATTATATAACCTGCCTGCACAAACTGCATGCTTGTGTTCTAAGTT-GAAGTTCCTCCTACTACTCCTGTCC
AATACAGTAGTATATATGTATCCGTAACTAGTTTCTTGTGTGCTTGCAGTTGCATATGTTCGCTCTCTAGTCTGATCCGT
TCTTTTTTTTATAGTAGTACTAGTTTATTCATAATTCCTTGGATTGGAATCCTGAAGAGCGGAGGAAATGGGGCGGACGG
GAACTGCGAGACGAGAGGAGCGGTTAGTTTATCGACTTCCGTTTCCCGTCGCTGTCGCC-----------CACGGCGCAC
CGGTGGCGCGACGCGCTCTGGGGGTGGCGCCAGGTCCGCATGGCCCGGTGTCGCTCGCCGGCTCGCGTCGCGCGGCGCGC
GGCGCGCGTCGTTTGGTTTGGTCGCGTACG------GCGTGGCCGCCGCATGGGCGAAGGAGCCGCGCGTGCTTGCGCAT
GCTGGACGCGTGGG-------CCGTGGAGCATGCAATGCGTTCTGTTCTAATCTGATCGGCGGGGGCGGGCACTGGTCGC
GGCGTGCTTCCTGCTGACGGACCGCCGAGGAGTGTCAGCCTAGCTGCTGATGGGAACAGGGCGGCGCCGGTAGGCTTTTG
AGACGGGCTACACCGTTCGATGGCGTTGGAGGCCGTTTT-----------------------------------------
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>chr3B_390
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---------------------------------------------------------------------TATTTATTTAG
CCAGGTAACGAATTAGCCCAACTCAATTAGCCTGTGTGTGAGACTGAGGCCTTTACGCAATAATCCTAGACCTACGAAAG
CTGTAACTTAATGTTACGTGATTTTCCTTAACCAACCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTTTCTTTCCTCCAACCAAAACAGACCAAGTCAGTTTTTTCATAACTT
ACGTAGGAACTTTTACGTAGATGTAACATTGCTCGGCCTTTACGTTGTTGTTTTGCATGATCGATTCACAACCATGAAAT
ATGGCCGGCCTGCCCTGTACTCGATGGGAGCATCCAACGCGTCACGCACTGATTTTGAAGAAAATAAATTTGACTGATAC
AAATTCATGTAAGTCAATTCTGATAGAAAACCGACTTGCCCAAATAATATTTTCAGGCGACTTTTTTTGACAAGTTATTT
TCAGGCGACTTGTCCCTAGCTAGTCCCAAACTTTCCTGCAGCCGCGGGGAGCTCTTCCGTTTCTGGTCTGTTTCGCAACC
ACCCAGCCGATAAGGATTCATCCATGCACGCCACATCACAAGCTAGCATCTTCTAACAGGCGCACAAAAATTGCTTCGCG
CCCTAAAATTTGTGTTTTTCGTGTGCTGGATAGCCCTAGCAAAAGCTGCAAAATAGTGCACGCGTAAAATAGATTTGGGC
ACGCGCTAAAAAGCGCTATCAAAAGCTGCAAGTTTGGGGCGTCAGATTACGCGCGCTTCATAATTTACACTGCGTGTTTT
TCTAGACACGCGTTTTAAAGTATCTGCTAAACAAATGTTGGGTCTGCTAAACAAATGTTGGGTCCGGCGAGCTAAAATGC
TACAGTGGCACGCGCGAAACTTTTGTTCGCGCCTGGATGTTCTAACTCTCCTCATTACCGTCAAGAGAGAGCCATCACCA
CACCTGGTTCAACTCCTGCCTAGTACTC----------------------------------------------------
-------------------CAAGAAATAAACAAGCCACAAGAATCATACTAGTAGAATCTAGAGATTCAGAGCATAGGAG
AAGACAAAACTGGTGCGAGGAGCAGGGCGTGTACATAGGAGGAGTCACACTGGCGTAGGCTAGCCTTGCTTACTCACAAG
TCAGTCCCGTCACTCCCTGTCGCGCGCGAGAGACCAGATCGCCATGGACATGGCACGCTACGTTGCGTTCCACCAGCAGT
GGATCGCGGGCCAGCAGGCGGGCCTCGGTGAGCTCGCGGAGGCGGCAGCCAATGCCGCCGCCGGGCGCGCCACGGACGCG
GAGCTGAAGACCGTGGTGGAGAGGTGCATGCGCGGGTACCAGGAGTACGCCGCCAGCCGGCGTGCCATGGCGCGCGAGAA
CGGCGCGGCCTTCGTCGCCCCGCCGTGGTGCACGGCGTTTGAGAACTCCGTGCTCTGGCTCGGGGGCTGCCGGCCGTCGC
TGGCCATCCGGCTTCTCTACTCCATCTCCGGCGAAGGCTTGGAGGAGGACATCGAGGAGTTCGTCAGCGGCCGCGGCCGC
GGCCTCGCAGAGGAGATGGGCCTCATCGGGATCACGGCCACGCAGCTGCAGCAGATCAACGACCTCCACCGCTGCACGCT
GCGCGACGAGGGTTACCTGACGGAGCGCCTCGCGAGTCTGCAGGAGAACATCGCCGACCGGCCGCTGCTTCCGATCGTCC
GGGAGCACGCCGTGGCGGCGACAGCA---TTAGTCGGCCAGGACCGGAGCGTTAAGCGCGACGACATTCCCGGACGGCTT
GCGGCAGCAGAATCGTCAGGAGGACTCGCCGCCGAGGTGGACGCAGCGATGGAGAGCTACTCGGCCGGGCTGGCCAGGCT
CCTGGAGGAGGCGGACGAGCTGCGCATGTCGACGGCCAGGGCGCTGGCCACGGAGATCCTGACGCCGCGGCAGGCGGTGG
AGATGCTGATGGCGGCCAAGCAGCTGCACCTGGCGGTGCGCGACTGGAGCCGCCGGAAGGAGGAGGGCGCCCAGAACGCG
CGTCTGCCGCGCGCAGCCGCAGCGACGACCGCCCCCTCCGGCTCAAACCCATGACAGGCTCGCCATTCCTCAACTAGCTT
GCTTTGCCGCTCCAACTTAAGTGTACACAGTCTGAATAATCAGTCTATTCTGGCTTCCTAGATATTATTAGTATCGTTGT
TTCTCTGCCATTATATAACCTGCCTGCACAAACTGCATGCTTGTGTTCTAAGTT-GAAGTTGCTC---CTACTCCTGTCC
AATA------TATACATATATCCGTAACTAGTTTCTCGTGTACTTGCATTGAG-------CGCTCTCTAGTGTGATCCGT
T------------------CTAGTTTATTCATAATTCCTTGGA-----ATCCTCAAGAGCGGAGGAAATGGGGCGGACGG
GGACTGCGAGACGAGAGGAGCTGTTGGTTTATCGCCTTCCGTTTCCCGTCGCTTTCGGCCCGGCGCCGCGCACGGCGCAC
CGGTGGCACGACGCGATCTGGGG--GGCGCCAGGTCCGCATGGCCCGTTGTCGTTC--------TCGTCGCGCGTAA---
-----------TTTGGTTTAGTCGCCTACTGCTACTGCGTGGCCGCCGCATGGGCGATGGCGCCGCGCGTGCTTGCGCAT
GCGGGACGCGTGGG-------CCGTGGAGCATGCAA---------------TCTGCTCGGCGGGGGCGGGCACTGGTCGC
GGCGTGCTTCCCGCTGACGGACCGCCAAGGAGTGTCAGCCTATCTGATAGACTATCTAGTCTA----------GCT----
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------
--------------------S-----------------------------------------------------------
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-----------S--S-----------------S----S--------------------------------SS-S-S---S
S-S-SSSSS-SSS----S--SSSSSSS-SSSSS----SSSSSSS-S-SS--SSS-SSSSSS-SSSSS--SSSSSS--SS-
-SSSSSS-SSSS-SSSSSS-S-S--S--SSSSS--SS-SSSSSSSS-SSSSS-SSS-SSSSSS--S--------------
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------S---------SS---SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSS-----S-------------------------------------------------------
------------S-S------------------------------------------------S----------------
---------------------------------------------------------------S----------------
-------------------------------------------------------------------------------S
-----------------S--S---------------------------------------------S-------------
------------------------S-----------------------------------------------S-----S-
----------------------S-----------S--------------------------------S--------S---
--------S----SS---------S-------------------------------------------------------
---------------------------S--S-----------------------------------------------S-
--------------------------SSS----S--------------------------------------------S-
-S------------------------------------------------------------------------------
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--------------------------------------------------------------------------------
----------S---------------------------S--------S--------------------------------
---------------------------S------------------------------------------S---------
------------S--------------------------------------SS-S-----------------------S-
----------------------------SSSSSSSS-SS-----------------------------------------
----------------------------------------------------------------------S-S-------
--------------------------------------------------------------------------------
S-------------------------------------------------------------------------------
----------S------------------------------------------------------------S--------
--------------SSSSSSS----------------------------------------------S------------
-----------------------------------------S---S----------------------------------
-----------------S--------S--------S---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSS
>forward_1542
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--CCTGATTCACCTCCGTCCTG----------------------------------------------------------
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>reverse_3495
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------------------------------------------------------TACAACCGGCACCCTAAACC------
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------------------------
