>input_sequence_81615
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------------------------------------------ATGTCTACTCGCTGGCGGCGACCGGGGATGTTCTTTAC
ATCGGAACCTGGCGGTGTTGGCGTGCGTGAGGGCGAGCTCGAGGAGCAGCGAGGCGCCGGGGAATCGGGCGCGGCCACGG
TGCCGCGCATGGAGGAGTCCAGGTG-----------------------------------------CCGGGCGCGTCCAT
GGTCACCGGGACCTGGCGGTGGGCATGAT-GGCAGAGGAAGCTCCAGCGCACTCAACGTGTTTGACGAAATGAGAAGCCA
AACCTGGTGGCTG-TAAGTTTTGTTGTTAACTCCTAATCAT--GCATGTATGCAACCAAACATCGGGACAAAATTGCATC
TCGATGACATGCCCCCCTAATGCAGGCAACTAATCAAATT-GACATC-----TTTTAGCCCCGTTTTCCCTCACCCAGAA
CCTGCTTAG-----------------------------------------------------------------------
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>chr5A_1_TraesCS5A01G064800
AAGCGTACGCGGTGGCTCTCTGGAAACCTGTCTGC--AATTAATCCCCCGTCCCTAATCCTA---TCAATCCCCTCTCTC
TCTCCT------TCTGCTCCAGTCGATCCCGTCGGCCGCAGCGCCGCCCTCGTCCGCGGAGTCAGCGACGCTGTTGATCA
AGAAGTGCCTTCTTCCAGCGGTGGGGCCGGCCACTTCTCCGCC-------------------GGTGTCCC----------
----------------------CAGGCTTCCCACGGGCCCAGGCTCGCCGCCTCGGGCGCGACTGTGGTGCCCCGACTCT
AGAGGCCAAGAAACGCGGCGACGAAGCCCCCCGCCCTTCTGCTCGTGGCGA-----------------------------
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----------------------------------------------------GCACCAGCGGTTCCTGCCTACAACCGCG
AGCCCCGGGCTCGCTCCCTCCGCCTTCCACGCGCTCCAAGGTGGCGCCGACCGTGGCGCTCCGGTCCAAGAAGCCGGCGA
CTTTGTCGCGCTCCAGGACGCCGCCGACCGTGGCGCTCCGGTCCAAGAAGCCGGCGACTTCGCCGCGCTCCAAGACACCG
CCGACCGCAGCACTCCGGTCCAAGAAGCCGG--------------------------------------TGCCTTAGTCG
CGCTCCAGGATGCCGCAGACCGTCGCGCTCCGGTCCAAGAAGCCGGCGCCTTAGTCACGCTCCAGGACGCCGCCGACCGT
GCCGCTCCGATGCAACAAGGTGACGCCTTCGTCGCTCTCCAGGACGCCGCCGACCGTGCCGCTCCGATGCAA-AAGGTGA
CGCCTTCGTCGCTCTCCAGAATGCTGCTCGT-------------------------------------------------
-----------GGCCCTGTTGGTCTTGTCCGAGGCCCCAGCGAGCCCCCCGGCAACGCCCACGAGACCAACCAGACGAGC
GCCAGGAGCCGCGCCGGGTAGCGTCGCCTCGGCGAGCCTCGACCTAGTGAGCCGCACCGTGTCCGGGAGCCCCGGCACAA
GGAACGGCTCCGTGGGCGACGCGAGGAGCAGCGAGGCCCGCGACCATCGTCGTCTGCGATGCCTGCAGCAACTCCATCAA
GCGCGACTGGACTCATCGCCTCGCTGGTCAAGGAGGACGGCCATGTCTACTCGCTGGCGGCGACCGGGGATGTTCTTTAC
ATCGGAACCTGGCGGTGTTGGCGTGCGTGAGGGCGAGCTCGAGGAGCAGCGAGGCGCCGGGGAATCGGGCGCGGCCACGG
TGCCGCGCATGGAGGAGTCCAGGTG-----------------------------------------CCGGGCGCGTCCAT
GGTCACCGGGACCTGGCGGTGGGCATGAT-GGCAGAGGAAGCTCCAGCGCACTCAACGTGTTTGACGAAATGAGAAGCCA
AACCTGGTGGCTG-TAAGTTTTGTTGTTAACTCCTAATCAT--GCATGTATGCAACCAAACATCGGGACAAAATTGCATC
TCGATGACATGCCCCCCTAATGCAGGCAACTAATCAAATT-GACATC-----TTTTAGCCCCGTTTTCCCTCACCCAGAA
CCTGCTTAGACTGGCTCGTTTTCC--CTCTAAGTCAAGCCCAGCAGCAAAAGTAACCAAACACGTCCTAGGCTGTCCAAC
CATACGTACAGGGACAGTTTCAGAGTCCGATTGGAGATGCTTAAGATGTAGGTAAAATAAAACATAAAAAGACAGGAGTC
TA------CCAGATGGTACCTTTTTGAACGTCCGGGGGTCCGGCTACTAGCTGTGGTCTAGG--------GTCATTTTTC
TAGAGGGCACCATATGGTGATGTTTCTGGTGTTAACCTGACCCTGACGCCAGGCCCCTCGACATGAAGCTCCGACTCATA
TATGTGTGCATT-----------------------------AACTGATTGATTCGTACCATTCTCAAAAGCAAGACAACC
CAAAAAAACTGATTGATCCGTACTGCATGCATGCAGGAGGTCAGAGTCACCAGCTGGAGAGCAGGGCCATCACGATGCTT
GGGGGACACAAGCGGCAGCGGCAGCGGCAGCAGCAAC---AACAACAATGGTGCCGCCTTACCTGACGACCTCCGAACCT
CATGATAATGAACACATGATGCCGGAGAGCGGA---------ATGGCACGGCCAGCAGCCCCACGCCGTGGAAGGCCGTC
ACCGAACAACACCAGCAGC----------------------------------AGCGGCAGTGACGACGTCGACGAGACC
GAGAGCTTC---------------------------------GGATGGCTGGCGTTGACGCGGCGGCGCTACGATGACGG
CGGCGATGGGGACTGTGCAGGCGACCGTGAGCTGCAAGGCGCGGCCATGGTTATGGATCCGAGCCTGGAGATGAGGCTGG
GGAGGCAGGGGTGGGAGCAGATGGAGCCCTCGGCGTCGGCCTCCAAAGAGCTAACCCCGATCCTCAAGTGCTTGTGAAAT
GATTATAATAAGTACTCGTGGGATTAATATGTTGTTGATTAATTATTACT--GTACTCAACAAAAGCAAGAGCAACCGTG
TGACCTC-AAAGCTAGCTAGCGAGCTAGTCCTCTGATC-GTTTTAACTGAGTTTTAACAGTTTTGCTAGAACTCATCTAA
ATGAGATTTAATTTGGT
>chr3A_3
GCGTACGTG-GGTGGCTCTTTGGAAACATGGCTGC--AGTTAATCCCTCATACTCAATCCTA---TCAATCCCCTCTCTC
TCTCTCTCTCCCTCTGCTCTAGTCGATCCCGTCGGCTGCGGTGCCGCCCTCGTCCGTGGGGTCGCCGGCGTTGTTGATCA
AGAGGCGCCTTCTTCCAACGGTGGGGCCGACCACTTCTCCGCCAGTGTGCCCGTCGACCGCCGGTGTCCC----------
----------------------CAGGCTTCCCGCGGGCCCAGGCTCGCCGCCTCGGTTGCGGCTGTGGTGCCCCGACTCT
AGAGGCCAAGAACCGCGGCGACGAAGGCCCCCGCCCTTCTGCTCGTGGCGA-----------------------------
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----------------------------------------------------GCCCCAGCGGTTCCTGCCTACAACCGCG
AGCCCCGGGCTCGCTCCCTCCACCTTTCATGCGCTCCAAGGCTGCGCCGACTGTGGCGCTCCGGTCCAAGAAGTTGGCGA
CTTTGTCGCGCTCCACGATGGCGCCGACAGTGGCACTCCGGTCCAAGAAGCCGGCGACTTCGTCGCGCTCCAGGACGCCG
CCTACCGTGGCGCTCTAGTCCAAGAAGCCGG--------------------------------------TGCCTTAGTCG
CGCTCCAGGACACGACAAACC--------------------------------GTCGCGCTCCAGGACGCCGCAGACCA-
-------------------------------TCGCGCTCCAGGACGCCGCTGACCGTGCCGCTCCGATGCAACAAGGCGA
CGCCTTCGTCGCTCTCCAGGA-----------------------------------------------------------
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>chr5D_11
----------GGTGGCTCTCTGGAGACGTGTTTCTCGAGTTAATCCCTCTCTCTTTTCCTAATCCTCAATCCCC------
-CTCTCTCTCCCTCTGCTCCAGTCGATCTCGTCGGCCGCGGCGCCGCTCTCGTCCGCGGAGTCGTCGGCGCTGTTGATCA
AGAAGCGCCTTCTTCCAGCGGTGGGGCCGGCCACTTCTCCGACGGTGTGCCCGTCGACCGCCGGTGAGTGCCTCAGCTGC
GTGCCTCAGCACCAACGGTGTGCATGCATGCGGCCGGCGCAGGGGACGGTCC----TTGCTGCTGCGTTTCCCGATCCGG
CACCGCCGTGCGTGTTCGTTCGTCAGCGCGCCTCTCTCTCTCCTATCACGGCGACCCATAGGATCGGAATCCACCCGACC
AGATCGAGCTCAGGCGAGGACGGACGCACGCACGCACGCACGCACGGACCCAAATTCCATCGCTCTGCTCCGCTACGATC
TTCCATCGATTTGCCTCGTCACCTGCCGTGCCCGACAAAGCCCGTTGCACCGGGAACGGAGGTTCGCGCCGGAGTCCGCG
AGGCCCATGCCGAGCTCCGTCACCTGCTCGCGCGGGAACTGGGTGAGGCTGCCGAAGCAGACGT----------------
--------------------------------------------------------------------------ACACCA
CCGACCGCGCGGGCTTCGTGTCGACCTAGCTCAGCACGCGTGCGGCCTCCGCGGCGGCACTCGGCTCCCCGCCGCGGCCG
CGCTCCAGGAC---------------------------------------------------------------------
------------------------------------------------GTCATCGCCGTCGCCGTTGAGGAGGCAGACCG
GCCCGACGGCGAACACCGGCTTCCCGGTGTCCTTCTCGTAGTGCTCGATGTATCTCTCCTCAAGGTCGGCAAACGAGTTG
ATGACCCAGCCGGCCATGGCGCGCTCGATGTCAAACATGCGGTTGAAGAACTCCCGCGAGT-------------------
--------CCGCGCCGGGGAGCGTCACCTCGGCGAGCCTCGACCTGGTGAGCCGAACGGCTCCGTGC-------------
-------CTCCGTGGGCGACGCGAGGAGCAGCGAAGCTCGCGACCGTCGTCGTCTGCGGT-CCTGCGGCGACTCCATCGA
GTGCATCTGGACTCATCGCGTCGCTGGTCAAGGAGGACGGCCACGTCTACTCGTTGGC----------------------
----------------------ATGCGTGAGGGCGAGCGCGAGGAGCAGCGAGGCGCCGGCGAGCCGGGCGCGGCTACGG
TACCGCGCATGGAGGAGTCCAGGTGCCGGGAGCTGGT-------------------------------------------
------------------GTGGGCATGATGGGCAGAGGAAGCTCTGGCGCACTCAACGTGTTCGACGAAATGAGAAGCCA
AACCCGGTGGCAGTTAAGTTTTGTTGTTAACTTCTAATCATATGCATGTATGCAACCAAACGCCGGGTCAAAATTGTATC
CCGATGACAAGACCCCCTAATCCAGGCAACCAATCAAGTT-GACATCTACGTTTTTGGCCTCGTTTCCCCTCACCCAGGA
CCTGCTCAGCCTGGCTCGTTTTTCCACTCTGAGCCAGGCCCAGCAGCGAAAGTAACCAAACAC-----------------
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>chr7D_380
ACG-----------------------------------------------------------------------------
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-------------------------------------------GCGCTGACCGTGGCGCTCCGGTCCAAGAAGCCGGTGA
CTTCGTCGCGCTCCAGGACGCCACCGACCGTGGCGCTCCGATCCAAGAACACGGCGCCTTAGTCGCACTCCAGGACGCCG
CAGAACGTCGCGCTCCGGTCCAAGAAGCCGG--------------------------------------CGCCTTAGTCG
CGCTCCAGGAC---------------------------------------------------------------------
------------------------------------------------GCCGCCGATGCCGCTCCGATGCAACAAGGCGA
TGCCTTCGTCACTCTTCAGGATGCTGCTCGT-------------------------------------------------
-----------GGCCATGTTGGCCTCGTCCGGGGCCCCAGCG------------------------------AGACGAGC
GCTAGGAGCCGCGCCTTGGAGCGTCGCCTCAGCGAGCCTTGACCTGGTGAGCCGCACCGCGTCCGTGAGCCCCGGCACGA
GGAACGGCTCCGTGGGCGACCCGAGAAGCAGCGAGGCCCGCGACCATCGTCGTCTGCGATGCCTGCGGCGACACCATTGA
GCGCGCCTGGACTCATCGTGTCGCTGGTCAAGGAGGACGGCCACGTCTACTCGCTGGCGGCGACCGGGGATGTTCGTTAC
ACCGGAACCTGGCGGTGTTGGCATGCGTGAGGGCGAGCGCGAGGAGCAGTGAGGCGCCGGCGAGCCGGGCGCGGCCACTG
TGCC-----------------------------------------GCGCATGGAGGAGTCTAGGTGCCGGGCGCGTCCAT
GTTCGCCGGGAGCTGGCGGTGGGCATGATGGGCAGAGGAAGCTCCGGCGCACTCAACGTGTTCGACGAAATGAGAAGCCA
AACCTGGTGGCTGTTAAGATTTGTTGTTAACTCCTAATTATATGCATGTATGCAACCAAACGCCTGGTCAAAATTGCATC
TCGATGACAAGACCCCCTAATGCAGGCAACCAATCAAGTT-GACACC-----T---------------------------
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>chr6D_916
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-------------------------------------CCGCGACTGTCGTCGTCTGCGATGCCTGCGGCGACTCCATCGA
GCGTGCCTCGACTCAACGTGTCGCTGGTCAAGGAGGACGGCCACGTCTACTCGCTGGCGGCGACCGGGGATGTTCTTTAC
ACCGGAACCTGGCGCTGTTGGCGTGCGTGAGG------------AGCAGCAAGGTGCCGGCGAGCCGGGCGCGGCCACGG
TGCCGCGCATGGAGGAGTCCAGGTGCCGGGCGCGTCCACGATGCTGCGCATGGAGGAGTCCAGGTGCCGGGCGCGTCCAT
GGTCGCTGGGAGCTGGCGGTGTGCATGATGGGCAGAGGAAGCTCCGGCGCACTCAACGTGTTCGACGAAATGAGAAGCCA
AACCTGGTGGTTGTTAAGTTTTGTTGTTAACTCCTAATCATATGCATTTCTGCAACCAAACGCCGGGTCAAAATTGCATC
TCGATGACAATTCCCCCTAATACATGCAACCAATCAAGTTAGACATCTACATTTTTGGTCTCGTTTTCCCTCACCCAGGA
CCTG-TCAGCCTGGCTCATTTTTCCTCTCTGAGCCAGGCCCAACAGCGAAAGTAACCAAACAC-----------------
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>chr5D_1452
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------------------------------------------------------------------CTAGGCTGTCTAAC
CATACATATAAGGACAGTTTGAGAGCCCAGTTGGAGATGCTTAATATGTAGGAAAAATAAAATAGGTAAAATAAAGACTT
GAATCCGGCCAGATGGTACCTTTGAAC----------GTGCGGTTACTAGCTGTGGTCTAGG--------GTCAC-TTTC
CAGAGGGCACCATATGGTGATGTTTCTGGTGTTAACCTGACCCTGACGCCAGGCCCCTCGACATGAAGCTCCGACTCATA
TATGTGTGCATT-----------------------------AACTGATTGATTCGTAC----------------------
---------------------------TGCATGCAGGAGGTCAGAGTCACCAGCTGGAGAGCAGGGCCATCACGATGCTT
GGAGGACACAAGCGGC---GGCAGCAGCAGCAACAAC---AACAATAATGGTGCCACCTTACCTGACGACCTCCGAACCT
CATGATAATGAACACATCATGCCGGAGAACGGA---------ATGGCACGGCCAGCAGCCCCACGCCGTGGAAGGCCGTC
ACCGAACAACACCAGCAGC----------------------------------AGCGGCAGCGACGACGTCGACGAGACC
GAGAGCTTC---------------------------------GGATGGTTGGCGTTGACGCGGCGGCGCTA---------
---CGATGAGGACTGTGCAGGCGACCGTGTGCTGCAAGACACGGCCATGGTTATGGCTCCGAGCCTGGAGATGAGGCTGG
GGAGGCAGGGGTGGGAGCAGATGGAACCCTCGGCGTCGGCCTCCAAAGAGCTAACCCCGATAGTCAGGTGCTTGTGAAAT
GATTATAATAAGTACTGGTGGGATTAATATGTTGTTGATTAACTATTACGCAGTACTCAACAAAAGCAAGAGCAACCATG
TGAACTCAAAAGCTAGCTAGCGAGCTAGTCCTCTGATCTGTTTTCACTGAGTTTTA------------------------
-----------------
>chr5B_1577
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-------------------------------------GTCCGGCTACTAGCTGTGGTCTAGGCCTCTAGGGTCAC-TTTC
TAGATAGCACCATATGGTGATGTTTCTGGTGTTAAACTGACACTGACGCCAGGCCCCTCGACATGAAGCTCCGACTCATA
TATGTGTGCGTT-----------------------------AACTGATTGATTCGTAC----------------------
---------------------------TGCATGCAGGGGGTCAGAGTCACCAGCTGGAGAGCAGGGCCATCACGATGCTT
GGGGGACACAAACGGCAGC------------AGCAAC---AACAACAATGGTGCCACCTTACCTGACGACCTCCGAGTCT
CATGATAATGAACACATCATGCCGGAGAACGGA---------ATGGCACGGCCAGCAGGCCCACGCCGTGGAAGGTCGTC
ACCGAACAACACCAGCAGC----------------------------------AGCGGCAGCGACGATGTCGACGAGAGC
GAGAGCTTC---------------------------------GGATGGTTGGCGTTGACGCGGCGGTGCAGCGATGAGGA
CGGCGATGGGGACTGTGCAGGCGACCGTGTGCTGCAAGACGCGGCCATGGTTATGGCTCCGAGCCTGGAGATGAGGCTGG
GGAGGCAGGGGTGGGAGCAGATGGAGCCATCGGCATCGGCCTCCAAAGAGCTAACCCCGATCCTCAAGTGCTTGTGAAAT
GATTATAATAAGTACTCGTGGGATTAATGTGCTGTTGATTAACGTAC------TACTCAACAAAAGCAAGAGCAACCATG
TGAATTCAA-AGCTAGCTAGCGAGCTAGTCCTCTGATCTGTTTTCACTGATTTTTA------------------------
-----------------
>chr5D_1610
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------------------------------------------------------------------------------TC
TAGAGGGCACCATATGGTGATGTTTCTGGTGTTAACCTGACACTGACGCCAGGCCCCTCGACATGAAGCTCCGACTCATA
TATGTGTGCATTAACTGATTGATTCGTACCATTCTAAAAA-AACTGATTGATTCGTAC----------------------
---------------------------TGCATGCAGGAGGTCAGAGTCATCAGCTGGAGAGCAGGGCCATCACGATGCTT
GGAGGACACAAACAGC---GGTAGCAGCAGCAACAACGATAACAACAATGGTGCCACCTTACCTGACCACCTCCGAACCA
AATGATAGTGAACACATCATGCCGGAGAACGGA---------ATGGCACGGCCAGCAGCCCCACGCCGTGGAAGGCCGTC
ACCAAACAACACCAGCAGC----------------------------------AGCGGCAGCGACGACGTCGACGAGACC
GAGAGCTTC---------------------------------GGATGGTTGGCCTTGACGCGGCGGCGCTACGATGAGGG
CGGCGATGGGGACCGTGCAGGCGACCGTGGGCTGCAAGACGCGGCCATGGTTATGGCTCCGAGCCTGGAGATGAGGCTGG
TGAGGCAGGGGTGG--GCAGATGGAGCCCTCGGCGTCGGCCTCCAAAGAACTAACCCCGATCCTCAAGTGCTTGTGAAAT
GATTATTATAAGTACTCGTGGGATTAATATGTCGTTGATTA---------------------------------------
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>chr5B_1610
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------------------------------------------------------------------------------TC
TAGAGGGCACCATATGGTGATGTTTCTGGTGTTAACCTGGCCCTGACGCCAGGCCCCTCGACATGAAGCTCTGACTCATA
TATGTGTGTATTAACTGATTGATTCGTACCATTCTAAAAAAAACTGATTGATTCGTAC----------------------
---------------------------TGCATGCAGGGGGTCAGAGTCACCAGCTGGAGAGCAGGGCCATCACGATGCTT
GGGGGACACAAGCGGC---GGCGGCGGCAGCAACAACAATAACAACAATGATGCCACCTTACCTGACGACCTCCAAACCT
TATGATAACAACCTGCTTTTAGTAGCTCATGATCCTAGATACAAGGCACGTACAGAACGTTATAGTAGCAGTTGTATGTG
AAGCCGTTACACACAGAGATACATGAGAATACGACCTGAAATTATGTGGGACGAGCGGCAACCGCGAATAAACAAAACTG
CATGTTATGTGGCAAGCCCGCATAAGCCCACTTAATTACGCGGGCTGATGCGGCGTGATGCGGGCGTCCCGCGGGGCGTC
CCACTTGCAGCCTGA-----------------------------------------------------------------
---------GGTGGGAGCAGATGGAGCCCTCGGCGTCGGCCTCCAAAGAGCTAACCCCGATCCTCAAGTCCTTGTGAAAT
GATTATAATAAGTACTCATGGGATTAATATGCTGTTGATTAACTATAT-----TACTCAACAAAAGCAAGAGCAACCATG
TGAATTCAA-AG--------------------------------------------------------------------
-----------------
>SNPs
-S-SSSSS-S-----------------S----------S--------S-S-S-S--------------------------
----SS---------------------------------S-----------------------SS--S------------
-----S--------------------------------------------------------------------------
--------------------------------S-----------------------SS---S------------------
------------S-------------------------------------------------------------------
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---------------------S-------S-----------S--------------------------------------
--------------------------------------------------------------S---------S-------
--------S--S--------------------------------------------------------------------
----------SS-SS--S---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---S----------------S----SS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S-----------------------------------------S--
-------------------S------------------------------------------------------------
---------------S------S--S-----S----------SSSSSSSSSS-SSSSSSSSSSSSSSSSSSS--------
--S---------------S--------------------------S-------------S------------------S-
------------------------------------------------------------------S--S--------S-
-----S-------------S-----------------------S------------------------------------
-S------------------------------------S---------------------S--SS---------------
--------------------------------------------------------------------------------
----S------S---------------------------------S----------------S-----------------
-------------------------------------------------------------SS----S------------
---------S-S------------------S------S------------------S---S-----------------S-
------S--S------------S-------S--S--S----------S---------------SSS----------S---
-----S--S-S---------S----S--SS--------------S-------S---------S-SSS---SSS-S--S-S
S----------------------SSSSSSSSSSSSSS-------------------------------------SS----
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----------------------------------------------------------SSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------------------------------------------
-------------------------------------------------------S------------------------
-----------------S----------S---------------------------------------------------
-------------------------------------------------------------S------------------
------------------------------------------------S----------------------------S--
-----------------------------S--------S-----------------S-----------------------
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------------------------------------------S------S---------------------------S--
---S----------------------------------------S-----------SSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSS
>forward_54
----------------------------------TGCAATTAATCCCCCGTCCC--------------------------
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>reverse_2186
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-------------------------CATGCATGCAGGAGGTCAGA-----------------------------------
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