>input_sequence_67184
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--------ATGGTGACGCCTCCTACGGGTCCTCCGCTACGGATAACCCACCCCTCCCACCCAGGGCACGTGCTCACGCTG
TACGCGACCGGCGGCGCCCTGTTCCAGTGCGACGGCTGCCGGCACTACGGCGAGGACGACCGCAGGTACCGGTGCGACCC
GTGCGACTTCGACCTTCACGTCTGCTGCGTCCCCTTCAAGGTGGAGGACCTGACGCTCACGCATCCTTTCTTCAAGGGCT
GCACCTTCGACTTCCGCTACAGCCCTCCCGGCGGCGCCCTGGCCGGCCGCGGCAGCTTCTGCGGCGCTTGTGGAGACCAG
GTGCTCGGCTTCATGTTCCACGACGGCCACCGCCAGATCGGCCTCCACCCGCAGTGCGCCAACCTGGCAGAGCGCGTGGT
CCAGCACGACGGTGCGTTCGACCTCCTCAAGGAGTCGCCCGCCCATGGTAGCTGCGGGTTGTGCCGGCAAGGGCAAGGCG
GCCGCCGCGACAGCTTCTGGTGCTACAGCTACCTCGATGGTCACCGACAGCCCGCGTACACGCACGTGGCGTGCATGATG
GAAGCTTGCTACAAACGCTCTCAGGTCGCGCAGGTGAGCGCGCCCACGACATGGGCGGTGGGAATGCCGACGACATGGGA
GGTGGGCATGCCGCAGAGCGCGCCGACGACATGGGAGGCGGGCACGCCACAGGGCGCGCCAACGGCATGGGACACTGGGT
TGTCGTCCAGCATCAGCAAGGTCTCGCTTTTCTGCAAGGTTGCGGTGGCCGTCGCCAGGGTCGCCTCCGCCGTCTCCACT
GGCACGGGGGGTGACCCGTTGTGGATTGACACGACGGCTGCGGAACCCACCGAAT-AA----------------------
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>chr3D_1_TraesCS3D01G024600
ATAGGGTGCCGGATTTGATATATCCGGCCGTAGATGCTCTAAACTAACAAAGGTCACTGAAGAAACACGAGGTAAACTGG
AAGCAACGTCACTTCAACTATGTAAGAGCGGCCACAACGTATGTCAAATTGTTGTTCCAAATGCAGTTTCTGTCTTGGGA
GTTGACGCGCACCAAGTAGTGCCGAATAAAATAAAAAACCTGGGAACGGACCAAGTAGTTGCTCCCATGTCAAATGTTGA
CAACAAATAAAATATTCATTGGAAATGTCGAGAATGATGAAGAAACGGTGTATCAAA--ATCAAAATGTTTGTTGGCAAG
TTGTATAGCATAGAAAATGCCAACTCGTACTCAACTTGCCACTGTTGCAAATAAAATATCCAAATGGA-AAAAAGACCAA
GCACATATCCGAT------AAGGGTAGAGAAAGCTTGTGGAGCTGTGAAGCATATACG--GGACCCTTCCAAAATCAACA
AGGTTATAGCTACAGATGATTCTTACGAAATTAACTTGCAGGATGACACGCCCTTTTGTGATTGGAAATGAT--------
----------AGTGAAATTCAGAGCAAGAGATTAGTGCGGTCTGCGGTGGAGAGTGATCCGTAGGTTTCATCCGTAAGTT
TAGCATTT------------------------------------------------------------------------
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------------------------------------------------TTGCTTCCGAACCGATCAACACGCAG------
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-----------------------------GCTATATCCGGAAAATGCAAGCAGAAAAGTCTCAAGACAGCCA--------
--------------GGGCTTCTCGTAGCGGAATCGTCCAAGTTTTTTCTATTGTTGTCGAGGACATGTCAACTTGTAGCG
AACCTGTCACTCGTTTAAAAAATTGCGTGTGAAGGTATTTTATTTTTGAGGAACCGGCGGAAGCGCTGGCCTTTCATGGG
TGAAGCAAAAGACATTTGACAGGGTCATGCCAACTCGTACTCGACCTGTTACTCTTGCAAAATATTTCATCTACAAATAC
ATGTTGGTCTCTTGTTAGCTTTGCAAGGCAAAGCGCCTTGCCAGTTTCTTTGG--GAGAGAGAGAGGGAGAGAGCTCCAA
AGACAAGCATGGTGACGCCTCCTACGGGTCCTCCGCTACGGATAACCCACCCCTCCCACCCAGGGCACGTGCTCACGCTG
TACGCGACCGGCGGCGCCCTGTTCCAGTGCGACGGCTGCCGGCACTACGGCGAGGACGACCGCAGGTACCGGTGCGACCC
GTGCGACTTCGACCTTCACGTCTGCTGCGTCCCCTTCAAGGTGGAGGACCTGACGCTCACGCATCCTTTCTTCAAGGGCT
GCACCTTCGACTTCCGCTACAGCCCTCCCGGCGGCGCCCTGGCCGGCCGCGGCAGCTTCTGCGGCGCTTGTGGAGACCAG
GTGCTCGGCTTCATGTTCCACGACGGCCACCGCCAGATCGGCCTCCACCCGCAGTGCGCCAACCTGGCAGAGCGCGTGGT
CCAGCACGACGGTGCGTTCGACCTCCTCAAGGAGTCGCCCGCCCATGGTAGCTGCGGGTTGTGCCGGCAAGGGCAAGGCG
GCCGCCGCGACAGCTTCTGGTGCTACAGCTACCTCGATGGTCACCGACAGCCCGCGTACACGCACGTGGCGTGCATGATG
GAAGCTTGCTACAAACGCTCTCAGGTCGCGCAGGTGAGCGCGCCCACGACATGGGCGGTGGGAATGCCGACGACATGGGA
GGTGGGCATGCCGCAGAGCGCGCCGACGACATGGGAGGCGGGCACGCCACAGGGCGCGCCAACGGCATGGGACACTGGGT
TGTCGTCCAGCATCAGCAAGGTCTCGCTTTTCTGCAAGGTTGCGGTGGCCGTCGCCAGGGTCGCCTCCGCCGTCTCCACT
GGCACGGGGGGTGACCCGTTGTGGATTGACACGACGGCTGCGGAACCCACCGAAT-AAGCATCTCGATCGGCTACAAAAT
CAATCAATTATTACTACAAGCGGACGT----GTGTTAATTTTATTTTACCGCAGTTGTCTGGTTTGTATCTATTTTC-TA
GTGGTCGTCTATTTTCTGTGACTTTTTTGCTCTGTCGTGAATTATTATTTTATCTAGTTGTGTGATATATAGAAGGGTGT
ACATCAACACATCAATGTATATGTATTTTTCCCCGCAAAAAAAAATGTATATGTATTTTCTTATGAATGAAGACCCACAA
TTCATTTTCATTCAGGGTGTGTCTAGAACTTAGTCGGCTGAGACTTAACAAAGTCTCAGTGGAGGGACGTCAGTGTAATT
GTGGTGTTACGATCGGCATGCCTGGATGCTGTAAACGGCGACGAAAAATATAATGGCACTATTGCGAGCAACGACAACAT
ATGCAACAACCGTTCTAACTAAAATGCTACAACCGCCAATGGAGAATGTTACGAACAATGAGATGACGTGCTACAATCGA
CAATTGGATGACATGCTACGACTAGTAAGATTGATGCTGCAACTGATAGGAAGAAATGTTGCAAACGATGGGACAAAATG
TTGCAGGGTCGACTGAGACTTCGTTAAATCTCAGTTGACTAAGTTTTAGCAAGCCCGTTTCATTAACTTAGAGGACAGCT
GCATCTGAATAGAGAATTGGTCATATTTTGGGCTCTAATCGATGGGTTAGGTTTCGAATTTGGACCTTGCAACACCGATT
TGTTAAACATAGGCCTAAAAGTTTGGGATTATTTTAAGTTTATCATTCGTATAGAAGGTAGAATTAACCTAAAGAGGACA
TCCTTCCATCCGTGGACAGGGCTGCAAGAAAAGCTCGAGGCTCATGAGTCCCTCAAGATCGACTCGTCTTTTAGCTCGAG
TCGAGATCGACTCAAAACGAAATGAGCTGAGTACGAGCGGTTTATATATGCAGCTCAATCGTGAAATGAGTTAATCTTGA
GCCAACATTGGCTAGCTCGATGT
>chr3B_1
ATAAGGTGCTGGATTTGATATATCCATCTATAAATGCTCTAAACTAACAGAGGTCACTGAAGAAACAAGAGGTAAATTGG
AAGTCACTA-----CAACTATGTAAGAGTAGCCACAACGTATGGCAAATTGTTGTGCCAAATGCAGTTTTTGTCTTGGGA
GTTGACGCGCACCAAGTAGGCTGAATAAAATGAAAAAACCTTGGAACGGACCAAGTAGTTGCTCCCATGTCAAATTTTGA
CAACAAATAAAATATTCATTGGAAATGTCGTGAATGATGAAGAAACGGTGTATCAAAATATCAAAATGTTTGTTGGCAAG
TTGTATAGCACGGAACATGCCAACTCGTACTCAACTTGCCACTGTTGGACATAAAATATCCAAATGGA-AAAAAGACCAA
GCACATATATATCCGATAG--GGATAGAGAAAGCTTGTGAAGCTGTGAAGCATATACG--GGACCCTTCCAAAATCAACA
ATGCTACAGCTGCAGATGATTCTTAAAAAATTAACTTACAGG-TGACACGCCCTTTTGTGATTGAAAATGATGGGAGAAG
GAGAACACATAGTGAAATTCAGAGGAAGAGATTACTGCGGTGGA-----GAGTGTGATCCGTAGGTTTCATCCGTAAGTT
TAGCATTCTTGCTTCCTTTTTTATTTTTTTGCGGGTA-------------------------------------------
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-----------------------------------------AGCATTCTTGCTTCCGAACCAATCAACACGCAGTGATAC
AAAAGAGCGCCCCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCTCGGGCGGGGAGCC
TCGGATCCATGGCGGCGGCCCTGGCTGGTGACACGCGGCGCAGCTTGGCGGCGGGCGGCACCGGCATGGACAGGTGGGCC
ACTTCCCTGGCCATGTGGATGGCGGGGAGGTGGTGGGCTTCGGCTGCGGCGGCGGTTCCTCCCTAGATGTTGGTGGCCAT
GGCGATGTTCGTCCTCGACCCCGATCTGCAGCGGATCCGGCCCTTGGTGGCTTCGGTCGCCGTTCTTGGGTGCTGGCCTT
GCAGATCCGGTGGCTGGAAGGGTTCCGGGGGAATCTCTTGGCCGGCGTGGCGGTCACTCCGATGACAATGCCTTTGGGTG
TTGCTTCCCTCGATGGAGGCTTCAGAGAGGACCTCCTTCCTTCCACCCCTCCCAGGAGCTCAGGTGAAAACCTCAGACCT
CCCTGTTGCAAGCGACGACGACACCACGGTGGCGTGCTCCTTCCTGAAGGTGTTGCTCGGGGGCTGCTCAAGCGGCGGTG
GACGTGGTGGCGGTTCGGTGTCGACACATGCATTCTGGAGGCTGCAGCGACGTAGGCGACGCTCGTCTGGTGGAGCTACT
GCCGATGGTCGAGGCATCGTCGATAGTCTGCGCCATCAGGCTCGGGGTGCTCAGGGGGAAACCCTAGATCTGGGTATTCC
GGATCGAATGAGGATGGCGTTCTATCGTTTTCCCTTCTGGGGGCATCGTTTTGGAGCAAGTGCTGGCTGGAGGGATGGTG
GAGCGGTGCTTCATCTCACACATTGATGGCAGCGGAGATCGATGGCATGGCGCTGTGGAGACTCGACGTCCGATGCGTGG
AGATGGGCTCGCGCAGGAGGAGGTTGCTGTCCGGCGTCATGGTGACGTCGATGGCTGAGTGGCCAGACAAGGTAGAAGTC
TCAATATGATCTGAAGACATGTGTAAGATGGCGGCGACGACACACGAGTGCGTCTGACCGGATTGTGCCCCACACCCGGT
ATGTGGCTCGGCTGGGCTTCAGAATGAGTTTCGGCTTCCGGCTTTTGATGTTAGGCTTAGGTGAGTGGTTAGAGTAGTGG
CCCAGCTAGCACCCCTTCATCATATTGGATATGAGTGGCGGCATATGTTGCCAAGATGGTGGATTCAGGCATATTGTTGT
AATACTTTGTACGGTCCTCGAGAACAATCAATAAAGTGGCCGTATGCATCTCCCAGATGCAGATGCAGAGGCCGGGGGTC
ATCCTCCTTTTTTAAAAAAACACACGCAGGCTAGATCAGGAAAATGCAAGCAGAAAAGTCTTAAATGACAGCCAGGACTT
TTCGCAGTGGAATCG-----------------------AAGTTTTTTCTATTGTTGTCGCGGACATGTCAACTTGTAGCG
AACCTGTCACTCGTATAAAAAATTGAGTGTGAAGGTATTTTATTTTTGAGGAACTGGCAACAAAGCTGGCGTTTCATGGG
TGAAGCAAAAGACATTTGACAGGGTCATGCCAACTCGTACTCGACCTGCTAAT-TTGCAAAAGATTTCTTCTACAAATAC
ATGTCGCTCTCTTGTTAGCTTTGCAAGGCAAAGCGCCTTGCCAGTTCCTTTGG--G--------AGAGAGGGAGCTCCAA
AGACAACCATGGTGACGCCCCCTACGGGTCCTCCGTTACGGATAACCCACCCGTCCCACCCAGGCCACGTGCTCACGCTG
TACGCCACCGGCGGCGCGCTGTTCCAGTGCGACGGCTGCCGGCATTACGGCGAGGACGACCGCAGGTACCGGTGCGACCC
GTGCGACTTCGACCTTCACGTGTGCTGCGTCCCCTTCAAGGTGGAGGACCTGACGCTCACGCATCCTTTCTTCAAGGGCT
GCACCTTCGACTTCCGCTACAGCCCTCCCGGCGGCACCCTGGCCGGCCGCGGCAGCTTCTGCGGCGCCTGCGGAGACCAG
GTGCTCGGCTTCATGTTCCACGACGGCCACCGCCAGATCGGCCTCCACCCGCAGTGCGCCAACCTGGCGGAGCGCGTGGT
CCAGCACGACGGCGTGTTCGACCTCCTCAGGGAGGCGCCTGCCCATGGTAGCTGCGGGTTGTGCCGGCAAGGGCAGGGCG
GGCGCCGCGACAGGTTTTGGTGCTACAGCTACCTCGACGGCGGCGGCCAGCATGCGTACACGCATGTGGCGTGCATGATG
GAAGCTTGCTACAAACGCTCTCAGGTCGCGCAGGTGAGCGCGCCGACGGCATGTGCGGTGGGAACGCCGACGACATGGGA
GGTGGGCATGCCGCAGAGCGCGCCGGGGACATGGGAGGTGGGCACGCCGCAGAGCGTGCCGACGACATGGGACACTGGGT
TGTCATCCAGCATCAGCAAGGTCTCCCTTTTCTGCAAGGTTGCGGTCGCCGTGGCCAGGGTCGCCTCCGCGGTCTCCACT
GGCACGGGGGGTGACCCGTTATGGATTGACACGACGGCTACAGAACCCACCGAAT-AAGCATCTCCATCTGCTACAA---
-AATCAATTATTACTACAAGCGGACGTACGTGTGTTAATTTTATTTCATCGCAGTTGTCTGGTTTGTATCGTTTTTCCTA
GTGCTCGTCTATTTTC----------------------------------------------------------------
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>chr3A_2
TAGA-GTGTCGGATTTGATGTACCCGGTTGTAGATGCTTTAAACTAACAGAGGTCACTGAAGAAACACGAGGTAAATTGG
AAGTCACAA-----CAAGTATGTAAGAGCAGCCACAACGTATGGCAAATTGTTGTGCCAAATGCAGTTTTTGCCTTTGGA
GTTGACGTGCACCAAGTAGTGCCGAATAAAATAAAAAACCTGGGAACGGACCAAGTAGTTGCTCCCATGTCAAATTTTGA
CAACAAAT-AAATATTCATTGGGAATGTCGTGAATGATGAAGAAACGGTGTATCAAAATATCAAAATGTTTGTTGGCAAG
TTGTATAGCACGGAACATGCCAACTCGTACTCAACTTGCCACTGTTGCAAATAAAATATCCAAATGGACAAAAAGACCAA
GCACATATATATCCGATAGAAGGATCGAGAAAGCTTGTGAAGCTGTGAAGCATATACGCAGGACCCTTCCAAAATCAACA
ATGCCACAGCTACAGACGA---------AATTAACTTGCAGGATGACACGCCCTTATCTGATTGGAAATGATGGGAAAAA
GGATTAG-----------------------------------TGCGGTGAAGAGTGATCCGTAGGTTTCATCCGTAAGTT
TAGGCCTCCTTCGATTCATAAGATAGGATTATCATAGAAATACGAAACTTATAGAAAATTAGATAACACTATAAGTAAGA
ATAGGGGAAAAAATGTCATTTGTTTCACATCATAGAAATTTTTTCATTGAGTCTAGGCTCATGTTTGTTTTTCTTTGAAA
TGTGAAGGACATATGCCAATCCTATATAGGAATAGAAATCCGTTTCTATAAACCAAAAGACTTAGAAAAATTCTATAAGA
ATCATATCCTATACAATTCCTCCAAACCAAAGGAGGGCCTTAGCATTCTTGCTTCCGAACCAATCAACAA----------
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-------------------------GCAGGCTAGATCCGGTAAATGCAAGCAGAAAAGTCTTAAGACAGCCA--------
--------------G-----------------------AAGTTTTTTCTATTGTTGTCGACCCAT---------------
-------------------------AGTGTGAAGGTACTTTATTTCTGAGGAACCGGCAGAAGCGCTGGCCTTTCATGGG
TGAAGCAGAAGACATTTGACAGGGTCATGCCACCACGTATTCTGACCTGCTAC----------------TCTACAAATAC
ATGTTGGTCTCTTGTTAGCTTTGCAAGGCAAAGCGCCTTGCCAGTTTCTTCGGGAG--------AGAGAGGGAGCTCCAA
AGACAACCATGGTGACGCCCCCTACGGGTCCTCCATTACGGATAACCCACCCCTCCCACCCAGGGCACGTGCTCACGCTG
TACGCCACCGGCGGCGTGCTGTTCCAGTGCGACGGCTGCCGGCACTACGGCGAGGACGACCGCAGGTACCGGTGCGACCC
GTGCGACTTCGATCTTCACGTCTGCTGCGTCCCCTTCAAGGTGGAGGACCTGACGCTCACGCATGCTTTCTTCAAGGGCT
GCACGTTCGACTTTCGCTACAGCCCTCCCGGCGGCGCCCTGGCCGGCCTCGGCAGCTTCTGCGGCGCCTGCGGAGACCAG
GTGCTCGGCTTCTTGTTCCACGACGGCCACCGCCAGATCGGCCTCCACCCGCAGTGCGCCAACCTGGCCGAGCGCGTGGT
CCAGCACGACGGCGTGTTCGACCTCCTCAAGGAGTCGCCTGCCCATGGTAGCTGCGGGTTGTGCCGGCAAGGGCAAGGCG
GCCGCCGCGACAGCTTCTGGTGCTACAGCTACCTCGATGGTCACCGAGAGCTTGCATACACGCACGTGGCGTGCATGATG
GAAGCTTGCTACAAACGCTCTCAGGTCGCTCAAGTGAGCGCGCAGGCGACATGGGCGGTGGGAACGCCGACGACATGGGA
GGTGGGCATGCCGCAGAGCGCGCCGACGACATGGGAGGTGGGCACGCCGCAGAGCGTGCCAACGACGTGGGACAGCGGGT
TGTCATCCAGCATCAGCAAGGTCTCGCTTTTCTGCAAGGTTGCGGTGGCCGTCGCCAGGGTCGCCTCCGCGGTCTCCACT
GGCACGGGGGGTGACCCGTTGTGGATCGACACAACGGCCGCGGAACCCACCGAATAAAGCATCTCGATCGGCTACAA---
-TATCA---ATTACTACAAGCGGGCGTACGTGTGTTAATTTTATCC-----CAGTTGTCTGGTTTGTATCGTTTTTC--A
GTGGTTGTCTAT--------------------------------------------------------------------
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>SNPs
---S------------------------S--------------------S--------------------------S---
---SS--SSSSSSS---------------S-------------S-----------S-------------S----------
---------------------------------------------------------------------------S----
------------------------------S-------------------------------------------------
----------SS---S----------------------------------------------------------------
--------SSSSS----------S---------------S----------------------------------------
-S-S--S------------------SS-----------------------------------------------------
------------------------S---------S------S--------------------------------------
-------S------------------------------------------------------------------------
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-------------------------------------------------------------S------------------
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---------------------------------S---------------------------S------------------
---------------SSSSSSSSSSSSSSSSSSSSSSS------------------------------------------
--------------S----------S--------------------------------S---------------------
------------------------------------------------S--S-S--------S-----S-----------
--------------------------------------------------------SSSSSSSS--S---S---------
------S------------S---------------S--------------------------------------------
-----S-----------S--------------------------------------------------------------
--------------------------------------------------------------------------------
-------------------------------------------------------------------S--S---------
--------------------------------------------------------------------S-----------
------------S-S------------------------S----------------------------------------
---------------------------------------------------SS---------------------------
--------------------------------------------S-------------------S---------------
--------------------------------------S---------S---S---S-------S---------------
----S-----------------------------------------------------------------S---------
-----------------------------------------------------------------------------SSS
S---------------------------------------------S-S---------------------SS--------
----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSS
>forward_2516
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----------------GCTTCTCGTAGCGGAATCGT--------------------------------------------
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>reverse_3999
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------------------------------------------------------------------------------TT
GTGGTGTTACGATCGGCA--------------------------------------------------------------
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