>input_sequence_55573
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---------------------------------------------ATGTCGTCGGGGAAGCAGGAGACGGCGGCGGTGCG
CGTGCTGGGCAGGTGGCCGAGCCCGTTCGTGATCCGGGTGCTGATAGCTCTTGGGCTCAAGGGCGTGGACCACGAGCTCG
TGGAGGAGGCGGCGGGCAACAAGAGCGAGCTGCTGCTCGCCTCCAACCCCGTGCACAAGAAGATCCCCGTGCTCCTGCAC
CACGGCAGGCCCGTCTCCGAGTCCCTCATCATCGTCCAGTACGTCGACGAGGCCTGGGCCTCCCAAGCCCCGGCGCTCAT
CCCGTCCGACCCCTACGCCCGCGCGGCCGAGCGGTTCTGGGCCCAGTACGTCGACGACAAGGTAAAAAGACAAGGCAATC
CAGTTCCGATTTTTGCTTTGATCCTCTCAGTTCTCTCAGAAACAAAATGATGGTATGAGATTANNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAAACGTGTGCTCACTGGTCAATGGATGCGCAGTTTCCTACGG
CGATCCGGGTCCTGAGGGGAAGGCTGGACGGAGACAAGGAAGAAGCGGCGGCTCAGGTGTGCGCCGCTCTGCAGCACCTG
GAGGTGGCCTTCGTCGAGTGCGGCCAAGGGAAGGATTACTTCGGCGGCGACGGCGTCGGTTACCTGGACATTGCTCTCGG
GTCGCACCTCGGATGGGTCAGGGCGGTAGAGAGGATCGCTGAAATCAGGCTGCTCGACGCGGCCAAGGTTCCTAAGCTGG
CGGCGTGGGCGGATCGGTTCTGCGCCCACCCGGCGGTGGCGAACGCCATGCCTAACGTGGACAGGTTCGTGGAGTTCAGC
GTCAAGAATGACGGCGTTCTGAAGGCGGCTAGTGCTAATTCCAAGTGA--------------------------------
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>chr1A_1_TraesCS1A01G187000
GGAATCCCTCCTCTTTTGAGGACCCGCGGCGTTATGTTAACACTTTAGCAGGGCGATCTAAAAGGGTGTTCTGAGTAGGC
TGGGCTGCGATCTGTTGGGCGCTCTGGACTACGAGAAATAAGTTCACTATTGAACACACTTTCCCGGCTAACCCTGTCAG
TTGCTTATTTAAAGCCAATATCTTTTTTGCAGCAGTGGAGATCATTGACTAATGGAGGGGACCTAGAGGCCTTCGACGAC
ATGCTATCTATGATGAGATCTACGGCGTCTTCAAGGATGGCTTAGTTTCGGCTTTCTTTGGGAATCTCTGCTGGCCTACG
TGCCTTATTTGGCTGGTTGCCATGTACCTGTACTCTTTAACTATGTTGTGGTCGGAGTGTGTTGTTTGGTTGGCTCCGTT
GTGACTCTGCCTGGTGGTTTTATTTATAAAGTCGGGCGTATGCCTTTTCTCTAAAAAAAGAAGTGACCTTTCAGTGCAAA
TTGGAATGGATTCCATAATCACGGTGAAGCTGATCCAAGCTTCAGAGGTTGACAGATCGGTTTACTCGTCCATCGTCAAG
GAGATTAGATATCTTATGTCTTTAAGAGAAAATTGTATTACTCATGTTCATCGTAGCCAAAATAAAGTTAGTGATAGCTT
AGCAAAGCTTTGCTCGTATTGAGGGTAAAACCATGACCTGGTTAGGGGCTGGTCCTCCTGATACTTTGGTATTGGCTGCG
ATGGATTGTAAGGGTTCTGAAGTTTGAGTAATACAATTTTTCATCCCAAAAAAAAAGGGCTCGCAT-AAGTCATCAAGAA
ACGTGCGTCCAGCTCACTGGTAGTCTGGTACACAAGTCGAGCGAGGCACGGCTTCAAACCATGACGCAAGCGACGACGTC
GAAGCCGTAGTGGCCGACCGCCCCGTCGATGCTTCAAATCCACTTCATATAATAGACATACCACACCTCAGCTCAGTCCT
CACTGCAGAAACACCACACGATCTG----AAAAAACCGACAGAACATGTCGTCGGGGAAGCAGGAGACGGCGGCGGTGCG
CGTGCTGGGCAGGTGGCCGAGCCCGTTCGTGATCCGGGTGCTGATAGCTCTTGGGCTCAAGGGCGTGGACCACGAGCTCG
TGGAGGAGGCGGCGGGCAACAAGAGCGAGCTGCTGCTCGCCTCCAACCCCGTGCACAAGAAGATCCCCGTGCTCCTGCAC
CACGGCAGGCCCGTCTCCGAGTCCCTCATCATCGTCCAGTACGTCGACGAGGCCTGGGCCTCCCAAGCCCCGGCGCTCAT
CCCGTCCGACCCCTACGCCCGCGCGGCCGAGCGGTTCTGGGCCCAGTACGTCGACGACAAGGTAAAAAGACAAGGCAATC
CAGTTCCGATTTTTGCTTTGATCCTCTCAGTTCTCTCAGAAACAAAATGATGGTATGAGATTANNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAAACGTGTGCTCACTGGTCAATGGATGCGCAGTTTCCTACGG
CGATCCGGGTCCTGAGGGGAAGGCTGGACGGAGACAAGGAAGAAGCGGCGGCTCAGGTGTGCGCCGCTCTGCAGCACCTG
GAGGTGGCCTTCGTCGAGTGCGGCCAAGGGAAGGATTACTTCGGCGGCGACGGCGTCGGTTACCTGGACATTGCTCTCGG
GTCGCACCTCGGATGGGTCAGGGCGGTAGAGAGGATCGCTGAAATCAGGCTGCTCGACGCGGCCAAGGTTCCTAAGCTGG
CGGCGTGGGCGGATCGGTTCTGCGCCCACCCGGCGGTGGCGAACGCCATGCCTAACGTGGACAGGTTCGTGGAGTTCAGC
GTCAAGAATGACGGCGTTCTGAAGGCGGCTAGTGCTAATTCCAAGTGAGCGAACTGTTGTGGGCACTAGACAGCGCTCGA
TGGCATAGCCAGAATAAG----------------TAACCTGCTGGCTGTTGGTGTAAACCCTCTTTTATTATATGGCAAT
TGATAAATCTCGAATGTTTGGATTTTAAGGTGGCAATCCAAAA-------------------------------------
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-----------GTTTTTCATGCAACTTTAGTTCACGCAAAGTTGACAAACATGACAATTTTCTGACAAAAAAATAAACTG
AGACAAAGTTGTTATGTTTTAACAACTAAAGTTACCACCTCATGTCAACTAAACTTGCCATGAAAAAATGTTTGGGATGA
CATGCTTAAAATCCGAACATTCAAGATTTATCAGGGTCTTTTTTATATAATGAAGAAAAGAGCTCTCGGTGCAATGCAGC
TCGATACTGTTCAGGAATAACTAGAGGAACTTATGATAAG-AAAAATAACTACATAAACCTGCTCGCTTTTTTATGTTTT
TATATATAATTAGTTTT---------------------------------------------------------------
-------------------------------------TTAATACAGTACAAACTTAGACGTTCATACATACGCACATATA
TTTACCCTTATGAACGCACGCACGCACATCCTACCTATATAAGCATCTTCGCAAGACTAAGCCAACACATCATCTTTGCC
GTGCCCGATCATAACTTCCTTCGTTTGGCCTCTACTTTGTAGCTGCGCAATCATTTGTGTAACAGACCCGGAGTTTATCC
GTTTATCCTAAATTAGAATTAGATTTTTATTTTACTTTTTCCATCATCATTGCACCAGACTCATCTCATAAACCTATTCG
CCAA-AAAAAACTCATCTCATAAACCTTGCATTAGCATCATATTGCATTCAATG-AAATGAAGATTTAATTAACTCTCAG
TTTTTTATTAAAAACCCTAAAACCCT-GATTATGCCAATTGTCCTAAATGCTCTTTCTAAACCATGATTTTTTTTGGCAA
TGGCCTCATATTTGTTATGTAGGCGCTAGCAATTGTTTAGTGATTAGAAGGACATTTTTTGGATTTTTGGATTAAATCCT
AATATTAATATTTATG
>chr1B_774
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-----------------------------------------------------AAAGGGCTCGCATCAAGTCATCAAGAA
ACGTGCGTCTAGCTCACTGG--------TACACAAGTCGAGCGACGCACGGCTTCAAACCATGACGCACGCGACGACGTC
GAAGCCGTAGTGGCCGA------------TGCTTC-AATTCACTTCATATAGACATACCG-----CCTCAGCTCAGTCCT
CACTGCAGAAACACCACACGATCTG----AAAAAATCGACAAAACATGTCGTCGGAGAAACAGGAGACGGCGTCGGTGCG
CGTGCTGGGCAGGTGGCCGAGCCCGTTCGTGATCCGGGTGCTGATAGCTCTTGGGCTCAAGAGCGTGGACCACGAGCTCG
TGGAGGAGGCCGTGGGCAACAAGAGCGAGCTGCTGCTCGCCTCCAACCCCGTGCACAAGAAGATCCCCGTGCTCCTGCAC
CACGGCAGGCCCGTCTCCGAGTCCCTCATCATCCTCCAGTATGTCGACGAGGCCTGGGCCTCCCAAGCCCCGGCGCTCCT
CCCGTCCGATCCCTACGCCCGGGCGGCCGAGCGGTTCTGGGCCCAGTACGTCGACGACAAGGTAAAAAGACAAGGCAATC
CAGTTCTGATTTTCGCTTTGAACTTCTCAGT--TCTCAGCAACAAAATGATAGTATGAGATTACAAAGCTTTCCCCTAAA
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-------------------------------------CAAACGTGTGCTCCCTGTTCAATGGATGCGTAGTTCCCTACGG
CGATCCGCGTCCTGAGGGGAAGGCTGGACGGAGACAAGGACGAAGCGGCGGCTCAGGTGTGCGCCGCTCTGCAGCACCTG
GAGGTGGCCTTCGCCGACTGCAGCCAAGGGAAGGATTACTTCGGCGGCGACGGCGTGGGTTACCTGGACATTGCTCTGGG
GTCGCACCTCGGATGGATCAGGGCGGTAGAGAGGATCGCTGAAATCAGGCTGCTCGACGCGGCCAAGGTTCCTAAGCTGG
CCGCCTGGGCGGATCGGTTCTGCGCCCACCCGGCGGTGGCGGACGCCATGCCTGAGGTGGACAGGTTCGTGGAGTTCAGC
GTCAAGAATGGCGGCGCTGTGAAGGCGGCTAGTGCTAATTACAAGTGAACGAACTGTGGTGGACACTAGACAGTGCTCGA
TGGCATAGCAAGAATAAGTAACCTGCTGGCTAAGTAACCTGCTGGCTGTCGGTGTAAACCGTCCTTTTTACACGAAAA--
TGATAAATCCCGAACGTTCGGATTTAAGCATGGCAATCTAAATGTTTTTATGACAACATTAATTCACGTGAGGTTGACAA
ACATGTTTTAACAACTAAAGTTGTCACCTCGCATCAACTAAACTTGTCATGAAAAAACATTCGGAATTACATGTTTAAAA
TCCGAAAATCGGGATTTATTGGGGTCTTTTTTATAATGAAGAAAAGAGCTCTTGGTGAAATGCGGCTCAATACTGTTTAG
AAATTCTAAATGTTTTTATGGCAACATTAGTTCACGTGAGGTTGACAAACA-----------------------------
--------------TGTTTTAACAACTGAAGTTGCCACCTCGCATCAACTAGACTTGCCATGAAAAAACATTCGGAATGA
CATGCTTAAAATCC-AAAAATCGGGATTTATTGGGGTC--------ATAATGAAGAAAAGAGCTCTTGGTGAAATGCGGC
TCGATATTGTTTAGGAATAACTAGAGGAACTTATGATTAAAAAAAATAACTAGAGGAACATGCTCGCTTTTTTGTATGTT
T-------------------------------------------------------------------------------
--------------------------TGATATTTTTCTTAATACAGTACAAACTTAGACGCTCATGCATACCCACATACA
CTTACTCCTATGAACGCACACACGCACACCCTACCTCTATAAGCATCTTCGCAAGACTAAGCCGACAAATCATCTTTGCC
GCACCCGATCATAACTTCCTTCGTTTGGCCTCTACTTTGCAGCTATGCTATCATTTGTCTAACAATCTGGTA--------
GTTTATCCTAAATTAGTACTTGATTTTTTGTTTCCTTTTTGCATCATCATTGTACCAAGCTCATCTCATAAACCTATTCA
CACAGAAAAAACTCATCTCATAAACCTTGCATTAGCATCATATTGCATTCAATG-AAATGAATATTTAATTGACTCTTAT
ATTTTTATTAAAAAA-CTAAAACCTTAGATTATGCCAATTGTCCTA-ATGCTCTTTCTAAACCTTAATTTTTTTTGGCAA
TGGCCTCTTATTTATTATGTAGGCCCTACCAACTGTTTAGTGATTAACATGACTTTCTTTTTATTTTTGGATTAAACCCT
AATA------------
>chr1D_780
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-----------------------------------------------------------CTCGCATCAAGTCATAAAGAA
ACGTGCGTCCAGGTCACTGG--------TACACAAGTCGAGCGAGGCACGGCTTCAAACCATGACGCACGCGACAACGTC
GAAGCCGTAGTGGCCGGCCGCCCAGCAGGTGCTTC-AATCCACTTCATATAGACATATCG-----CCTCAGCTCAGTCCT
CAATGCAGAAACACCACACGATCTGGAAAAAAAAATCGACAGAACATGTCGTCGGAGAAACAGGAGACGGCGGCGGTGCG
CGTGCTGGGCAGGTGGCCGAGCCCGTTCGTGATCCGGGTGCTGATAGTTCTTGGGCTCAAGGGCGTGGACCACGAGCTCG
TGGAGGAGGCCGTGGGCAACAAGAGCGAGCTGCTGCTCGCCTCCAACCCCGTGCACAAGATGATCCCCGTGCTCCTGCAC
CACGGCAGGCCCGTCTCCGAGTCCCTCATCATCGTCCAGTACGTCGACGAGGCCTGGGCCTCCCACGCCCCGGCGCTCCT
CCCGTCCGACCCCTACGCCCGGGCGGCCGAGCGGTTCTGGGCCCACTACGTCGACGACAAGGTAAAAGGATTAGGCAATC
CAGTTTTGATTTTCGCTTTGAACTTCTCAGT--TCTCAGCGACAAAATGATAGCCTACGCAG-------TTTCCCCTGAA
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-------------------------------------CAAACGTGTGCTGACTGCTCAATGGATACGTAGTTTCCTACTG
CGATCCGGGTCCTGAGGGGAAGGCTGGACGGAGACAAGGACGAAGCGGCGGCTCAGGTGTGCGCTGCTCTGCAGCGCCTG
GAGGTGGCCTTCGTCGAGTGCGGCCAAGGGAAGGATTACTTCGGCGGCGACAACGTCGGTTACCTGGACATTGCTCTGGG
GTCGCACCTCGGATGGGTCAGGGCGGTAGAGAGGATCGCTGAAATCAGGCTGCTCGACGCGGCCAAGGTTCCTAAGCTGG
CGGCGTGGGCGGATCGGTTCTGCGCCCACCCAGCGGTGGCGGACGCCATGCCTGACGTGGACAGGTTCGTGGAGTTCAGC
CTCAAGAATGACGGCGCTCTGAAGGCGGCTAGTGCTAATTCCAAGTGAACGAACTGTTGTGGACACTAGACAGTGCTCGA
TGGCATCACATAGCGGTTAGTGCTAA------------------------------------------------------
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------------------------------TTCTAATGATGCAAATGGAATAACATAATATGTTACCATAG---------
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------------------------------------------------------------------------TAGTTCTT
AATGTATAATGAGTCTACAAAGTAATAAATGAAGCCCTCTATGTTATCACATCTATAACACTACCCACTATGGAGGTATT
ACTAATATAGACTAGTAACATATGCATGTTACTAGTCTTAAGTTACTCCCCACTAGGACTAGCT----------------
---------------------------------------TAAGCACCTCCGCAAGACTAAGCCGACACATTATCTTTGCC
ACGCCCGATCATAACTTCCTTCGTTTGGCCTCAACTA--------CGCAATCATTTGTGTAACAGTCTGGGA--------
GTTTATCCTAAATTAGAACTTGATTTTTTATTTTTCTTTTGCATCATCATTGCACCAAGCTCATCTCATAAACCTATTCG
CAAAAAAAAA-CTCATCTCATAAACCTTGCATTAGCATCATATTGCATTCAATAAAAATGAAGATTTAATTAACTCTTAA
ATTTTTATTAAAAAA-CTAAAACCCT-GATTATGCCAATTGTCCTAAATGTTTCTTCTAAACCATAA-TTTTTTTGGCAA
TGGCCTCATATTTGTTATGTAGGCCCTATCAATTGTTTAGTGATTAAAAGGATTT--TTTTTATTTTTGGATTAAATACT
AATATTATTATTTATG
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------------------
--------------------SSSSSSSS----------------------------------------S-----------
-----------------------S-SS-S------S---------------SSSSSSSSSSSSSS---------------
-----------------------------------S-------------------S---S--------------------
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----------S-S-------------------------------------------------------------------
------------------------------------------------------------------------------S-
---------------------S----------------------------------------------------------
------S------S-------S-S-------SS------S-----------S-----------SSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------S------------S------------
----------------------------------------S---------------------------------------
-----------------------------------------------------------------------------S--
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-----------------------------------------S-----------S--------------------------
----------------S-------------------------------S-------------S----------S------
---------S---------------------------------------S----------S--S---S-SSSSSSSS-SS
---------S----S---S------S-SSS--------S---S-------------------------------------
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-----------------SSS-----S----------SS-S-----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSS-------------S-----S-------SSS-------S----------------SS--S--S----
--------------S--S-S--SS-------SS-----SSSSSSSS--------------------S----S-----S--
------S----S-------------------------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--------------------S-SS---SSSSSSSS
------------------S-S-------SS---S------S----------------SS---------------------
-S---------------------------------------------------------------------------S-S
S-------------SS-------------------------------------------------S--------------
------------------------S---S-----------------S------S--S---SS------------------
-------S--------
>forward_165
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-----------------------------------------------------------------GGCTAACCCTGTCAG
TTGCT---------------------------------------------------------------------------
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>reverse_1895
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------------------------------------------------------GTCAATGGATGCGCAGTTTCC-----
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>forward_319
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-----------------------------------------------------------GGGAATCTCTGCTGGCCTAC-
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>reverse_2289
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------------------------------------------------GCGAACTGTTGTGGGCACTA------------
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