>input_sequence_54139
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------------ATGTTCATCATGCACCGCCCTCCTACTAATATCGCTCCCAACACCCACCACCCACCACCTTGCTTGGT
CCATGTTGGGGCTAGAGCTAACTGGTCTCGCTCCGGCCACCTCGACATGCTCTCCGGCCAATCCCACCATATGAAGGTTC
TCGCCGTTCCGGCTTCCAGCTCCCAAGGCAACTCCAACAACAACATCAGCCAACATACAAAACTAAGGTTCTTGTAAATG
AAACTATTTCACATCCATTGGTATTTGGTAGAACAA--------------------------------------------
-----------------------------------TAATCTCGTCAAATAGCTTCATATATTTGTGGTTTCTTTCATAAA
ATTCAATTAGGACGGACAAGTTCTTCGAAGTGGAGATGGCCGGCCATGACAACGAACTTGACGAGTATGGAGTCGTTAAC
AACGCCATTTATGTTGCTTACATCCACAACGGTTGGCACCAAAATGATGTTTGTTTGCAGTAGAGTTCGGGTTCTTTACC
CTTTATGTACACAATCTTGATTCTTACTTTAAATCGTCTGCAGCTCGAGAGGAGCTGGCTGCGAGCATTGGCTTCAGAAT
GGCCTCCGTAGCACGCACCGGCAACGCGATGGCGCTCCTGGAGCTGAACCTCAAGTACTTCAAGCCTCTACGAGTATGTA
CACACATACTCCCTCTATTGTAATTTAATTAAAGTTCAAGATTTATCCCAGGTCAA-CTTATCTATATTTTACCAAGTGT
ATAAGAAAATGTGCTAACATTTATTGAACATAAAATATGTATAGTATGCAAATACATATTATGATGAAACTAATATGT--
CGTAGATATTGATATATCGTTCTATAGACTTTGGTCAAAGTTTGTAACATGTTTGACTGAGGACAAAGCTAGGACTCCAA
TTAATTTGCAATGGATAAAGTATGTCGCATCCGAAACCTCTGAGACCGGAAATCTCAAGTTTTTTAGTTCCCGAACTCTC
AAATAGAAGAGATTTAATAACCACGCTCTCTACGCACATTTGATTAATGTGCAGCGAGGTGCCAAGTTTGTCGTCAAGGT
TAGGATTGTCCAGATAAAGGGCGTGAGGATACTTGTTGATCACTTCATCGAGACGCTGCCGGATCATAAGGTACATGCAC
AAGCAATTGGTATTGCTCAACATGAACGCGCCGTGTCCTTTATACTGATAGATCTCAAACACACACTATTGATCAACCCC
ACACGC--ACGCTCGTGCTGGTCTCCTCTAATGGCAGCTTGTATTGGAAGCGACAGCGACCGTCGTCTGCCTCAGCAAGG
GCTACCGTCCGACCCGCGTCTTCCCAGAGATGTCATCTAAACTGCATCAGTTCTTCTCATCCAAGGATAGTTAG------
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>chr3D_1_TraesCS3D01G031700
TGTAACATGCTCCCTCTTATCCCATCTTTTCACCTAAGAGGTAAGAAGGTAAGAGTTAATCAGACCACTAGTTAATCAAA
TCAATGGCTCAGATCATGTCAAAATGGGAGGTAAGAGGGAGCATGCTAAAATTTGCCTTACACCGAAGCTTGATAGTTAT
GTACTCTAGTCATCTACTATTTGTTAATTAGATTTATGCACCCATAACGCTCTACAAGTTTTGT-AGATATAGTAAGACT
ACTACATACATGGACACTTATAAA-CCATTAATTATGATATAAATTCATCTCTAGCACAATATGATAGTTTATATTTGTT
TAAATTTGAACTGAGACCCATCATAAAAAAAT-CTTAAATAATGCAAACTAAATTACTAAAATGAAACAACTTACCATAA
AACAAATTTTACATTAGCATAACAGAGTGTATTTGTAATAAAGCTATTAGAATTGTATGATATAT--TCATTTCAGAAGT
TTATTATTAGCGATAGGGGCAGAGCCAACATATACTCGAGGTGAACTCAATGAAATTAGTCAA-TCCCATCAAATGACTG
TACTTATTTGTTGTTTGCATCGAAAAATTTATATGCACTACATTATGAAACGGAG-GGAGTTTAATTTAACCTTTAATTT
AGAACATAACATACCCAATTATGAAATATTTCTACTGGCATTTTTTTAAATGTGACTAGCCCTGATTAGTGGAAGATGAA
ACCAAAGAAGATAACATACTTCATTAACCCCCCCCCCCTCCCAAGAAGAAAAACAGACTTCATTAAGGCCTTGTTCGGTT
AATCCTCCTCTCAAGGGGATTGAAGAGGATTGGAGGGGATTTTGGCTTGTAGAGGATTTAATCCCCCTCAATCCCTGCCA
ATCTCCTTCAAAATCCACCTCAACCGAACAAGGCCTAA------------------------------------------
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---GCGGGCATCTGTTCCATGTGGCAAGAATGAAACGACACACATGTACACTATATATAGATGGGCACCATGAGACCTAA
CAATACACTTCCATGTTCATCATGCACCGCCCTCCTACTAATATCGCTCCCAACACCCACCACCCACCACCTTGCTTGGT
CCATGTTGGGGCTAGAGCTAACTGGTCTCGCTCCGGCCACCTCGACATGCTCTCCGGCCAATCCCACCATATGAAGGTTC
TCGCCGTTCCGGCTTCCAGCTCCCAAGGCAACTCCAACAACAACATCAGCCAACATACAAAACTAAGGTTCTTGTAAATG
AAACTATTTCACATCCATTGGTATTTGGTAGAACAA--------------------------------------------
-----------------------------------TAATCTCGTCAAATAGCTTCATATATTTGTGGTTTCTTTCATAAA
ATTCAATTAGGACGGACAAGTTCTTCGAAGTGGAGATGGCCGGCCATGACAACGAACTTGACGAGTATGGAGTCGTTAAC
AACGCCATTTATGTTGCTTACATCCACAACGGTTGGCACCAAAATGATGTTTGTTTGCAGTAGAGTTCGGGTTCTTTACC
CTTTATGTACACAATCTTGATTCTTACTTTAAATCGTCTGCAGCTCGAGAGGAGCTGGCTGCGAGCATTGGCTTCAGAAT
GGCCTCCGTAGCACGCACCGGCAACGCGATGGCGCTCCTGGAGCTGAACCTCAAGTACTTCAAGCCTCTACGAGTATGTA
CACACATACTCCCTCTATTGTAATTTAATTAAAGTTCAAGATTTATCCCAGGTCAA-CTTATCTATATTTTACCAAGTGT
ATAAGAAAATGTGCTAACATTTATTGAACATAAAATATGTATAGTATGCAAATACATATTATGATGAAACTAATATGT--
CGTAGATATTGATATATCGTTCTATAGACTTTGGTCAAAGTTTGTAACATGTTTGACTGAGGACAAAGCTAGGACTCCAA
TTAATTTGCAATGGATAAAGTATGTCGCATCCGAAACCTCTGAGACCGGAAATCTCAAGTTTTTTAGTTCCCGAACTCTC
AAATAGAAGAGATTTAATAACCACGCTCTCTACGCACATTTGATTAATGTGCAGCGAGGTGCCAAGTTTGTCGTCAAGGT
TAGGATTGTCCAGATAAAGGGCGTGAGGATACTTGTTGATCACTTCATCGAGACGCTGCCGGATCATAAGGTACATGCAC
AAGCAATTGGTATTGCTCAACATGAACGCGCCGTGTCCTTTATACTGATAGATCTCAAACACACACTATTGATCAACCCC
ACACGC--ACGCTCGTGCTGGTCTCCTCTAATGGCAGCTTGTATTGGAAGCGACAGCGACCGTCGTCTGCCTCAGCAAGG
GCTACCGTCCGACCCGCGTCTTCCCAGAGATGTCATCTAAACTGCATCAGTTCTTCTCATCCAAGGATAGTTAGCATGAA
GATCAGTATACTCGCTATAAATTATTGCAGTTAATTTAATGTGCATTGTATTGTAATTAAAATATGTTCG--CCCCTCTG
GATGTTTGTTGATTAAAAATAAGTGAATTATACTTTATAGCTTGTAATTTACCAAAGTATTACCCCACAAT-TTTTTTAC
CAAAGTATTTATTTGAAATAGGGTGCCTCGGTGCCCTTGTTCACCATTTTTTGTAATAGGTTTTTTGTGCCGGCATCTAG
AGGTAATGTTCATATATTTGTTGGCTCCCTCCTACACTCCAAAGCAAACACAACGTATCCCTCTATCTCCCATATCTT--
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----TCAAACCAAACAGAAGATATTCTCCCTTATTTTT------GAGCA-------------------------------
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-------------------------------------------TTTTCATCCAAATGTCATATCGAGCCAATACAATCCC
AATGAGCGA-ACACCCGACCTCTACATAGTAAG-TGCACACAACCAACAAGTCTGATAATGCTTGAACAATGGAGCAACA
CGT---TTCAAGATCACTGAAACCATCACCTCATCCGTCCCTTGGTCGAACCAAAGATAGCCAGACCAAAACTTTCATTG
TAAACTTTGTTACTGAAAATGACATTATTGAAAAATGGCCATGTTTTTATGTCGATTTTGCCAAGATAAAAATTTACATC
AAAATTATGAACCTATACAAAGAGCTTGAAACAACTATTTTAGAAACCGATACATGTACAACTCTGACATGGACAACCAT
TGCAATCGTTTTAGTCGGTTGTTAGTGATCTGTACAAATCTAGCATTAAGTTTTCACAA-CTGGAAACAGTACAATAGAT
ACAAC------AGTTAAGTGATCCATGCATGAAAAATATGGCTTCATGGGCAGTTTCCCGGATAAATCAATGCTTGCCAT
GATGGGAAATATAGCACGCCAACAACTACCAGTACCGCCGATCAATAAAATCACGCATATATGCGTGGAACAATTTTTTT
CTCGAGAAAAAGGGCCAAA--CCCCAGCCCCATTTCTATTACCAAACAAGACCCAAA
>chr3B_51
--------------------------------------------------AAGAGTTAATCAAACCACTAGTTAATCAAA
TCAGTGGCTCAGATCATGTGAAAATGGGAGGTAAGAGGGAGCATGCTAAAATTTGCCTTACACCGAAGCTTGATAGTTAT
TTACTCTAGTCATCTACTATTTCTT-ATTAGATTTATGCACCCATAACACTCTACAAAGTTTTGCAGATATAGTAAGACT
ACTACATACATGGACACTTATAAAACCATTAATTATGACACAAATTCATCTCTAGCACAATATGATAGTTTATATTTGTT
TAAATTTGAAGTGAGAGCCATCATAAGAAAAAGCTTAAATAATGCAAACTAAATTACTAAAATGAAACAACTAACCATAA
AACAAAATTTACTTTAGCATAACAGAGTGTACTTGTAATAAAATTATTAGAATTGTATGATATATATTCATTTCAGAAGT
TTATTATTAGCGATAGGGGCAGAGCCATCATATACTCGAGGTGAACTCAATGAAATTAGTCAAATCCCATCAAATGACTA
TACTTATTTATTGTTTGCATTGAAAAATTTATATGCACTACATTATGAAACCGAATGGAGTTTAATTTAACCCTTAATTT
ACAACATAACATACCCAATTATGAAAAACTTCTAATTAGCCCTATTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNGCGGGCATCTGTTCCATGTGGCAAGAATGAAACGGCACACACGTACACTATATATAGGCGGGCACCATGAGACCAAA
CAATACAATTCCATGTTCATCATGCACCGCCCTCCTACTAATATCGCTCCCAATACCCACCACCCACCACCTTGCTTGGT
CCATGCTGGGGCTAGAGCTAACTGGTCTCGCTCCGGCCACCTCGCCATGCTCTCCAGCAAATCCCGGCATGTGAAAGTTC
TCGCCGTCCCTGCCTCCAGCTCCCAAGGCAACTCCAACAATAACATCAGCCAACATACAAAACTAAGGTTCTTGTAAATG
AAACTATTTCCCATCCATTGGTATTTGGTATTCCCTCCGTCCCATAGTATAAGAGCATTTTTTTAATATAGTGTAAAAAA
CGCTCTTATATTATGGGACGGAGGGAGTAGAACATTAATCTCGTCAAATAGCTTCATATATTTGTGGTTTCTTTCATAAA
ATTAAATTAGGACGGACAAGTTCTTCGAAGTGGAGATGGCCGTCCATGAGAACGAACTTGACGAGTATGGAGTTGTTAAC
AACGCCATTTATGTTGCTTACATCCACAACGGTTGGGACCAAAATGATGTTTGTTTGCAGTAGAGTTCGGGTTCTTTACC
CTTTATGTACACAATCTTGATTCTTACTTTAAATTGTCTGCAGCTCGAGAGGATCTGGCTGCGAGCATTGGCTTCAGCAT
GGCCTCCATAGCACGCACCGGCAACGCGATGGCACTTCTGGAGCTGAACCTCAAGTACCTCAAGCCTCTACGAGTATGTA
CACACATGCTCCCTCTATTCTAATTTAATTAAAGTTTAAGATTTATCCTAGGTCAAACTTAACTATATTTAACCAAATGT
ATAA-AAAATGTGCTAACATTTATTGAACATAAAATATGTATAGTATGCAAATATATATTATGATGAAACTAATATGTGT
CGTAGATATTGATGTATCTTTCTATAGACTTTGGTCAAAGTTTGTAACAAGTTTGACTGAGGACAAAGCTAGGACTCCAA
TTAATTTGCAATGGATAAAGTATGTCGCATCCGAAACCTCTGAGACCGGAAATCTCAAGTTTTTCAGTTCCCGAACTCTA
AAATAGAA-AGATTTAGTAACCACACTCTCTATGCGCATTTGATTAATGTGCAGCGAGGTGCCAAGTTTGTCGTCAAGGT
TAGGATTGTCCAAATAAAGGGCGCGAGGATACTCGTTGATCACTTCATCGAGACGCTGCCGGATCATAAGGTG-------
AAGCAATTGGTATTTCTCAACATGAACGCGCCATGTCCTTTATACTGATAAATCTCAAACACGCACTATTGATCAATCCC
--ACAC--ACACTCATGCTGGTCTCCTCTAATGGCAGCTTGTATTGGAAGCGACAGCGACCATCGTCTGCCTCAACAAGG
ACTACCGTCCGACCCGCGTCTTCCCAGAGATGTCATCTAAGCTGCATCAGTTCTTCTCATCCAAGGATGGTTAGCATGAA
GATCAGTTTACAAGCTATAAGTTATTCTAGTTAATTTCATGTGCGTTGTATTGTAGTTAAAATATGTTCG--CCCCTCTG
GATGTTGGTTGATTAAAAATTAGTGAACGATACTTTATAGCTTGTAATTTACCAAAGTATTACCCCGCAATATTTTTTAC
CAAAGTATTTATTTATAATAGGGTGTCTGGGTGCCCTTGTTCGCCATTTTTTGTAATAGGTTTGTTGTGCCGGCATCTAG
AGGTAATGCTCATATATTTGTTGGCTCCCTCCTACACTCCAAAGCAAACACGACATATCCTTCTATCTCCCATATCTT--
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----TCAAACCAAACACATGATATCCTCCTGTATTTTTGATAAAGAGCA-------------------------------
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-------------------------------------------TTTTCATGCAAACGCTATATCGAGCTAATACAACCCC
AATGAGCGA-ATATCCTACCTCTGCATAATAAGATGCACACTACCAACAAGTCTGATAATGCTTGAATAATGGAGCAACG
TGGAAGTTCAAGATCACTAAAAACATCAC---ATCCGTCCCTAGGTCCAACCAAATATAACCAGACCAAAACTTCCATTG
TAAACTTTGTTATTGAA---------------AAATGGCCATGTTTTTATGTCGATTTTGCCGAGATAAAAAATTACATC
AAAATTATCAACCTACACAAAGAGCTTGAAACGA-TATTTTAGAAACAGATACATGTACAACTTTGACATGGACAACCAT
CGCCATCGTTTTAGTGGGTTGTCAGTGATGTGTACAAATCTAGCATTAAGTTTTCACAAACTGGAATCAGTACAATAGAC
AGCAGCGAGCAAGTTAAGTGATCCATGCATGAAAAATATGGCTTCATGGGCAGTTTCCCGGATGAATCAATGCTTGCCAT
GATGGGAAATATAGCACGCCAACAACTACCAGTACCGCCGATCAATATAATCACGCATATATGCGTGGAACAATTTTTTT
CTCGAGAAAAAGGGCCAAAGGCCCCAGCCCCATTTCTATTACCAAACAAGGCCCAAA
>chr3B_1272
ATTGC---------------------------------------------------------------------------
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----------------TCAACATGAACGCGCCGAGTCCTTTATATTGATAAATCTCAAACAAGCACTATTGATCAATCCC
--ACACGCACGCTCGTGCTGGTCTCCTCTAATGGCAGCCTGTATTGGAAGCGACAGCGACCGTCGTCTGCCTCGGCAAGG
ACTACCATCCGACCCGCGTCTTCCCTGAGATGTCATCTAAGCTGCATCAATTCTTCTCATCTAAGGATGGTCAGCATGAA
GATCAGTTTACAAGCTATAAATTGTTGTAGTTAATCTCATGTGCATTGTATTGTAGTTAAAATATATGTTGACCCCTCTG
GATGTTGGTTGATTAAAAATTAGTGAATGATACTTTATAGCTTGTAATTTACCAAAGTATTACCCTGC-AT-TTTTTTAC
CAAAGTATTTATTTGAAATAGGGTGCCTAGGTGCCCTTGTTCACCATTTTTTGTAATAGGTTTGTTGTGCCGGCATCTAG
AGGTAGCATTACTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNTACGACTACGTACTTCATTTTCCACCCAAAGAAAAGGATAAATACTGTTACTACTTCATTAG
GCCGGCATCTGTTCCACGTGTCAAGAATGAAAAGCCACTCAGCGTGCACGCGCGTACACTATATAGACGGGCACCATGAT
GAGATCAAACAACACAAAATATTCTCTCGTTCACCATG------CAGCAACCTGGTAGTAATATCGCTCCCAACGCCCAC
CACTCACCACCTTCCTTGGCTCGTGCTGGGGCTAGAGCTAACTGGTCCCGCTCCGGCCACCACCTCGCCATGCTCTCCGG
CCAATCACGTCGCCCCCGCCGTGTGAAGGCCCTCGCCATCCCTGCACCTGGCTCCCAGGGCATCTTCAGCGACAACACCA
GCCACGAAACAAAACTAAGGTTCTTCCGAATTGAACTAGTTTTTATTGACACAAATGTCACATTAAGGCGATACAAGCAA
AAAAGACTTCACACCCGTCCTCTGCGTAGTCCAATAGCTTCATCTATTTGTGTTTTTGTTATGCAGTTCAATTAGGGTGG
ACAAGTTCTTCGAAGTGGAGATGACCGTCCGTGACAGTGATCTTGACCAGTATGGAGTCGTTAACAACGCCATTTATGTT
GCTTACATCCACAATGGTTGGCATCCAAGTGATATTTAAGCATAGTAGAGCTTGGGTTTTACTCTTGTACACAGTGTTGA
TTCTTGCTTAAAATTGCCTGCAGCTCGAGAGAAGCTGGCTGCGAGCATTGGCTTCAGCATGGCCTCCGTAGCACACACAG
GCAACGCGATGGCACTCTTGGAACTGAACCTCAAGTACTTCAAGCCTCTACTGGTATGTGCA------------------
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>SNPs
SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------S-----------------
---S---------------S------------------------------------------------------------
S---------------------S--S----------------------S--------SS---SS----------------
--------------------------------------S-S---------------------------------------
----------S-----S---------S----S----------------------------------------S-------
------S-----S------------------S----------SS------------------------------------
---------------------------S---------------------------------------------------S
---------S----------S------------------------------S--S-----------------S-------
-S------------------------S-S-----S-SSSSSS-S---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------------------
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-------------------------------------S------S---------------SS---------------S--
-------S---------------------------------------------S--------------------------
-----S--------------------------------------S----------S--S------SS---S----S----
-------S--S--S--------------------------S---------------------------------------
----------S-------------------SSS-SS--------------------------------------------
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---S--------------------------------------S------S-----------------------S------
------------------------------------S-------------------------------------------
----------------------------------S------------------S-----------------------S--
-------S-------------------------S--S---------------------S---------------------
-------S-----------S----------------S-----------S------------S--------S-----S---
----S-------------------------------------------------S-------------------------
-------------S----S------------------------------S------------------------------
----------------------------------------------------------------S--------------S
--------S-------S-------S-------S--S--------------------------------------------
------------S----------S---------S--------------------------------------SSSSSSSS
--------------S-----------------------------------S-----------S-------------S---
SS--S---------------------------------------------------------------------------
S---------------------------------------S---------------------------S-----------
-------S---SS--------------S---------S-----------------S------------------------
------S-------------S-------S-------------------------------------S-------------
----------------------------S----------------------------------S----------------
---------------------------------------------------S--S-----S-------------------
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----------------S------------S--------------------------------------------------
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--------------------------------------------------S-------------------------S---
-----------------------S-------------------------------------------S-----------S
S-S---------------S---S-------SS---------------S-------S------------------------
------------S----SSS-SSSSS-SSSS-------------------------------S---------S-------
--------S------S-------------------------------S--------------------------------
S--------------S------S-------------------------------------------S------------S
-SS-S----------------------------------------------------------S----------------
-----------------------------------------------S--------------------------------
--------------------------------------------------S------
>forward_913
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-------------TCCACCTCAACCGAACAAGG-----------------------------------------------
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>reverse_2784
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---------------------------------------------------------------TTTGTGCCGGCATCTAG
AGG-----------------------------------------------------------------------------
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