>input_sequence_66342
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----ATGCATACGCCGTTTCGTGTC---------GCCGCCGCCGCCGTGCTCTGTTCAGCCACGCTGCTGCTAACAGCCG
TCCTTGCCACCGACGCCATAAACACCACCGCGCCGA---------------------CGTCCTGCGACCCGGCGGCGTGC
GGGGCCCTGCGGATCGCCTACCCGTTCTGGCTCGCCGGCACGCACCTGCCGCAGTGCGGCTACCGGGCCTTCCAGGTCAG
CTGCGACGGCAACGGCACGGCCTCCCTCAAGAACTCCCTCTGGACGTACCAGATCCGGGAG-ATCAATTACGGGGACGAC
AACGGCACCTTCCGGATCACCAACGCCCAGCTCGCCGACGGCACCTGCGACATCGAGCTCCGCGTGAACGCCTCCTCCGA
CCTCGGCCTCGCGCCATTCACCATCAGCGCGGCTAACCGGCAGCTCTTCTACCTCTACAACTGCACCGACCAGCAGGCGC
GGCCGCCACCGCCTACGTGGGCGCACGTGAACTGCGCCAACGGCCCGCTCAATG------------ACTCGTTCGCGTTC
CTCGCCGACCGGTACATGCCCGAAGACAAATGGGGGGCGGTGCCGGGAAACTGCACGGTGTCGACGATGCCGGTGCT---
-GGGCTACCCAGGGGCGGCCGGAAAGGACTACCGGCGGCTGATGAAGGAGGGGTTCCTTCTGGAATACACGGTCGACGAC
TGTGCGGGGTGCGTGGACAGCGGAGGGCTTTGCCGGGTTAACACCGTCTACGACATGTTAGAGTGTCACTGCCCCGACGG
CGTGTCCGACTTCATCATCTGCGGCGGTCAGTGTCAATTCATCTCGGTTTTACCTCTTTTTAATTTCCCTAGACCTGCTA
ATTACCATAGCTCTCAAGCTTCGGAAATTAATTATCTCGCATGCCATTATTAG---------------------------
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>chr3B_1_TraesCS3B01G049200
CAAAGGCTGGCGTTCTGCTGTCTTTTCAGATTTGTCAGGTCGGTATGTACGTGGCTTGTACTATGATCCTTGTGATATAA
ATGAGACACGTATTACTATGAAAAAAAAATGTTCCGCTCGTTTACAAACTACTGCAACGCGTTTGAGAAAATAAAGACAG
TCCACGCGTATGAATGATACTACCTTCTCCCGTGAGGGCGGAAAGCCGAAAATATATGCATGATACGTTCTCCCCGGTCA
CTGTGCGTATTAGGGCATGGCCAATGCATAGCCCCAGGGTGATGCCTCACATGCCATGTAGGATCGGATGACAGAAAAAG
TAGGTTCGGATGGGGAAGCAGGATCCTCTCCAGGAGGCGGGTGCTTGGAGAGAAAAGTGTGACCCGGAGCATAAAGTTGG
AAAAAGTTGAAGTGAAGATGAGGGATGCATGTGTAGTGAGATTCACTTTTTATTTTTTGATGAGGCCCAGTAGTAGTAGC
CTGCATTGGAGAGAAAAAATCAACACATATGCCTCAAATTACTTTTTGTCATGAAGCATCTGTATCCATATGACATCATT
GTACATGCCCTTATTCGCCCACAGCCACAGGACAAGGATACGGTAACGACCAGAGCACGCGGCTGTTTTACTTTACCTGC
TCGCAGAAAAGGGTAGAGGCGGAAAGGTTGTTTCTCCGTGCAGTAGGTAAGGATGCGTTCAAACCCCAGACCCGGACCGA
CGACCTCCCTTCCTCCGGCCACTGGCAACCGGGCCAGCGCCGCCGTGAGGACCCACATGGCGGGTGAGCTCCCACTCGGC
CACTCGCCGG--------TGGTGTCCACTTCAGTCAGTCAAACTCCCTGACGACGAATGGTCAACACATCCGGCAACCA-
---CGCATCCATGAATGTCCCGGTGCTTT-------------C-TTCTCATCATCCTCATATCATCCTTTCCTCTCAACG
T------------------CTACCACAGCATCCCGTAGCCGGCGGCCTCTCCCTCCCTTCCGTTGCAACAACAAGATCGA
CGCGATGCATACGCCGTTTCGTGTC---------GCCGCCGCCGCCGTGCTCTGTTCAGCCACGCTGCTGCTAACAGCCG
TCCTTGCCACCGACGCCATAAACACCACCGCGCCGA---------------------CGTCCTGCGACCCGGCGGCGTGC
GGGGCCCTGCGGATCGCCTACCCGTTCTGGCTCGCCGGCACGCACCTGCCGCAGTGCGGCTACCGGGCCTTCCAGGTCAG
CTGCGACGGCAACGGCACGGCCTCCCTCAAGAACTCCCTCTGGACGTACCAGATCCGGGAG-ATCAATTACGGGGACGAC
AACGGCACCTTCCGGATCACCAACGCCCAGCTCGCCGACGGCACCTGCGACATCGAGCTCCGCGTGAACGCCTCCTCCGA
CCTCGGCCTCGCGCCATTCACCATCAGCGCGGCTAACCGGCAGCTCTTCTACCTCTACAACTGCACCGACCAGCAGGCGC
GGCCGCCACCGCCTACGTGGGCGCACGTGAACTGCGCCAACGGCCCGCTCAATG------------ACTCGTTCGCGTTC
CTCGCCGACCGGTACATGCCCGAAGACAAATGGGGGGCGGTGCCGGGAAACTGCACGGTGTCGACGATGCCGGTGCT---
-GGGCTACCCAGGGGCGGCCGGAAAGGACTACCGGCGGCTGATGAAGGAGGGGTTCCTTCTGGAATACACGGTCGACGAC
TGTGCGGGGTGCGTGGACAGCGGAGGGCTTTGCCGGGTTAACACCGTCTACGACATGTTAGAGTGTCACTGCCCCGACGG
CGTGTCCGACTTCATCATCTGCGGCGGTCAGTGTCAATTCATCTCGGTTTTACCTCTTTTTAATTTCCCTAGACCTGCTA
ATTACCATAGCTCTCAAGCTTCGGAAATTAATTATCTCGCATGCCATTATTAGTA------TTACCTCAAACGTGTTTGC
AAATGCCAAAAGTGACGGTGAGAGCCAACGGACAGGCTAGCTATATGTATGTAGCCCCCCAACCATGCCATGTGGTTAAA
ACCCACGTTAAGGAAACACATTTGTTTTGTTATGTAGCTCCCCGGCTCCATTACTAGAAAGAAGCCTGACATCAGGTCTC
AGGTGCAGATGTTTTACAGAAAGGAAAACACATTTGTTACTCCTCATGCAACTGAAAATAAATTTCGGATCAGTTGATTC
TCGATTTTCATGGACAATGTGTTGTGGAGATGCCGACATAGGGCGGCGCCCTTGGCAGGGTCGAGTCATGATGTCGCTGG
TGAAGGCAAGGCCAAGACTAAAGGAGAGCTCGGAGAAGAAATCACATCCAAGGAAGAAGATGAACATTCATGTTGGGAGA
TGGAGACAGAAGAAAAGGAAGATATGTCCGCACATTTTTTTTTATCCAACGGCTCAGAGCCATTCGTTCTAAAAACGACA
GGAACTTAAAACTTTTCAAACAAAAACTCCTAGGCGGTGCCTTGAAAAAAGAAACTAATGTAATACTTATCCAGAGGTAG
GAATGGTGCGGCGAGCCATCATGTTGCGGGTGAAGGCAAGGAATGAGCTCGCCGGAGGTAAGAATGGCACGGCGAGCCAT
GATGCCAGAGGTAGGAATGGCACGGCGAGCCATGGTGTCATGGGTGAAGGCAAGGAAATGACTTCACCATATGTAGGAAT
AGCGAGACGAGCCATGATGCTAGAGGTAGGAATGGCACAGCGAGCCATGATGGCATGGGTGAAGGCAAGGAACGACCTTC
ACCATATGTAGGAATAGCGGGACGAGCCATGATGCCAGAGGTAAGAATGGCAAGGCGAACCATGATGTCATGGGTGAAGG
CAAGGAACGACTTCGTCATATGTAGGAATAGCGAGACGCGCCATGATGTGAGAGGTGGGAATGGCGTAGCGAGCCAGAGC
TCGAGAAGAAATCACATCC
>chr3D_571
TTATTACA------------------------------------------------------------------------
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----------------GCCCACAGCCACAGGACAAGGATACGGTAACGACCAGAGCACGCGGCCGTTTTACTTTACTCGC
TCGCGGAAAATGGTAGAGGCGGAAAGGTTGTTTTTCCGTGCAGTAGGTAAGGATGCGTTCAAA-CCCAGACCCGGACCGA
CGACCTCCCTTC-TCCGGTCAATGACATGCGGGCCCGCGCCGCCGTGAGGACCCACATGGCGGGTGAGCTCCCACTC--C
CACTCGCCGG--------TGGTGTCCACTTCAGTCAGTCAAACTCCCTGACGACGAACGGTCAACACATCCGGCAACCAT
----GCATCCATGAATGTCCCGGTGCTTT-------------CCTTCTTCTCATCCTCAG--CATCCTTTCCTCTCAACG
TTACCCAAATCTCCTACGCCTTCCAGAGCATCCCGTAGCCGGCGGCCTCTCCCTTT----CGTTGCAACAACAAGATCGA
CGCGATGCAT---CCGTTTCGCGTCCCGGCGTCCGCCGCCGCCGCCGTGCTCTGCTCAGCCACGCTGCTGCTAACAACCG
TCCTTGCCACCGACGCCATAAACACCACCGCGCCG---------------------TCGTCCTGCGACCCGGCGGCGTGC
GGGGGCCTGCGCATCGCCTACCCGTTCTGGCTCGACGGCACGCACCTGCCGGAGTGCGGCTACCGGGCCTACCAGGTCAG
CTGCGACGGCAACGGCACGGCCTCCCTCAAGAACTCCCTCTGGACGTACCAGATCCGGGAG-ATCAATTACGGGGACGAC
AACGGCACCTTCCGGATCACCAACGCCCAGCTCACCGACGGCACCTGCGACATCGAGCTGCGCGTGAACGCCTCCGCCGA
CCTCGGCCTCGCGCCGTTCAGCATCAGCGCGGCTAACCGGCAGCTCTTCTTCCTCTACAACTGCACCGACCAGCAGGCGC
GGCAGCCGCCGCCAACGTGGGCGCACGTGAACTGCGCCAACGGCTCGCGCAATG------------ACTCGTTCGCGTTG
CTCGCCGGCGGGTACAAGCCCGAAGACAAATGGGGGCCGCTGCCGGGAAACTGCACGGTGTCGATGATGCCAGTGCT---
-GGGCTACCCACGGGCGGCCGGAAAGGACTACCGGCGGCTGATGAAGGACGGCTTTCTTCTGGAATACACGGTCGACGAC
TGTGCGGGGTGCGTGGACAGCGGAGGGCTTTGCCGGGTTAACACCGTCTACGACTCCTTGGAGTGTCACTGCCCCGACGG
CGTGTCCGACTTCATCATCTGCGGCGGTCAGTGTCAATTCATCTCGGTTTTACCTCTTTTTAATCTCCGTAGACCTGCTA
ATTAGA-----TCTCAAGCTTCGGAA----ATTATCTCGCATGCCATTATTAGTATCAGTATTACCTCAAACGTGTTTGC
AAATGTCT-AAGTGACTGCGAGAGCCAACGGACAGGCTATATGTATGTAG------CCCCAGCCATGCCATGTGGTTAAA
CCAACGTTTAAAGG------------------------------------------------------------------
--------------------------AACACATTTGTTATTTCTCATGCAACTGAAAATAAATTTCGGATCAGTTGATTC
TCGATTTCCATTGACAATACGCTGTGGAGATCCAAGGTCCCGCATTAGATAGCAACCTGGCA------------------
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------------------------------------------------------------------------AGAGGTAG
GAATGGCGCGGTGAGCCATGATGTCACGGGGGAAGGCAAGGAATGACTTCGCCAAAGGTAGGAATGGTG-----------
----------------------CGGCGAGGCATGATGTCGCGGGTGAAGGCAAGGAATGATCTCGCA-------------
------------------GCTGGAGGTAGGAATGGCGCGGCGAGCCATGATGTCATGGGTCAAGGCAGGGAATGACTTCG
-CCATATGTAGGAATAGCGAGACGAGCCATGATGCCAGAGATAG------------------------------------
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>chr3A_571
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----------TTATTCGCACACAGCCACAGGAGAAGGATACGGTAACGACCAGAGCACGCGGCTGTTTTACTTTACTTGC
TCGCGGAAAAGGGTAGAAGAAGAAAGGTGGTTTTCCCGTGCAGTAGGTAGGGATGCGTTCAAA-CCCAGACCCGGACCGA
CGACCT----TCCTCCGGCCACTGGCAACCGGGCCAGCGCCGCCGTGAGGACCCACGTGGCGGGTGAGCTCCCACTCGGC
CACTCGCCGGCGAGGTGGTGGCGTCCACTTCAGTC----AAACTCCGTGACCACGAATCGTCAACACAGCCGGCAACCAT
GGCCGCATGCATGAATGTCCCGCTGCTTCTTCTCCTTCTCAAC-TTCTCATCATCACATCAACTGCTCGCCTCCCTCT--
-------------CTGCGCCTTCGGGAGCCTCCCT------------TCTCCCTTC----GGCCGCAACAAGACCA----
----ATGAAT---CCATTTCGTGTCCCGGCG------CCCGCCGGCGTGCTCTGCTCAGCCATACTACTGCTGACTACCG
TCCTTGCCACACACGCCACAAACACCACCACCTCGACGTTGTTGCCGTCGTCCTCCTCCTCCTGCGGCCCGGTGATGTGC
GGCGGCCTGCGCATCGAGTACCCGTTCTGGCTCGGCGGCACGC--------------GGCTACCGGGCCTTCCAGGTCAC
GTGCGACGGCAACGGCACGGCCTCCCTCAAGAACTCCATCTGGACGTACAAGATCCTGGAC-ATCTCCT------ACGAG
GACAGCTCGTTCCGGGTCACCAACGTCGAGCTCTCACACAGCACCTGCGACTCCGAGCTCCAAGTCAACGTCTCCTCCGA
CCTCGGCCTCGCGCCCTTTAGCATCAGCGCCGCCAACCGGGAGCTCTTCTTCCTCTACGACTGCATCGGCCTGCAGGCGG
CGCAGCAGCCACCTACGTGGGCGCCCTTGAGCTGCGACAG------------------------CAACTCGTTCGCGTGG
CTTGCCGGGGGTTACAAGCTCGACGACAAATGGCCGCTGGTGCCGGGAAACTGCTCGGTGTCGATGATGGCGCCGGTGAT
GGGGGTACCCCGGGGCGACCGCGGCTAACTACCACAAGCTGATGGAGCGCGGGTTTCGTCTCGAGTACACGGCCGGCGAG
TGCACAGCGTGCAGGGACACCGGTGGGCTTTGCCGGATCAACCCCACCTACGACATCTTCGATTGACAATGTCCCAGCGG
CATGTCTGAC----------------------------------------------------------------------
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>chr3A_992
ATCGAC--------------------------------------------------------------------------
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--CGATGCAT---CCGTTTCGTGTCCCGGTG------GCCGCTGCCGTGCTCTGCGCAGCCACAGTGCTGCTAAGTGCCG
TCCTCACTACCCACGCCCGAAACACC---------A---------------------CCTCCTGCGAGCCGGCGACGTGC
GGGGGGCTGCGCATCGAGTACCCGTTCTGGCTCGGCGGCACGCACCCGCCGGAGTGCGGCTACCGGGCCTTCCAGGTCAG
GTGCGACGTCAACGGCACGGCCTCCCTCAACGACAACATACGGACGTACAAGATCCTCGACAATCTCCT------ACCAG
GATAGCTCGTTCCGGGTCACCAACGTCGAGCTCTCAGACAGCACGTGCGACTTCAAGCTCCAAGTCAACGTCTCCTCCGA
CCTCGGCCTCGCGCCCTTCAGCATCAGCGCCGCCAACCGGGAGCTCTTCTTCCTCTACGACTGCCGCGACCTGCAGCCGG
CGCAGCAGCCACCTACGTGGGCGCCCTTGAACTGCGACAG------------------------CAACTCGTTCGCGTGG
CTTGCCGGGGGTTACAAGCCCGACGACAAATGGCCGCCGGTGCCGGGAAACTGCTCGGTGTTGATGGTGCCGGTGCT---
-GGGGTACCCGGGGGCGACCGGGGCGAACTACCACAGGCTGATGGAGGGCGGGTTTCGTCTCGAGTACACGACCGGCGAG
TGCACAGCGTGCAGGGACACCGGTGGGCTTTGCCGGATCAACCCCACCTACGACATCTTCGATTGCCAATGTCCC-----
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>chr3B_1103
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-----------------------------------A---------------------CCTCCTGCGACCCGGCGATGTGT
GGGGGCCTGCGCATCGAGTACCCGTTCTGGCTCGGCGGCACGCACCCGCCAGAGTGCGGCTACCGCGCCTTCCAGGTCAC
GTGCGACCGCAACGGCACAGCCTCCCTCAGGAACTCCTTCTGGACGAACCAGATCCTGGAG-ATCAATTACGGAGACAAC
AACGGCACCTTCCGGATCACCAACGCCCAGCTCGCCGACGGCACCTGCGACATCGAGCTCCGCGTGAACGCCTCCTCCGA
CCTCAGCCTCGCGCCCTTCACCATCAGCGCTGCCAACCAGGCGATCTTCTTCCTCTACAACTGCACAGACCTGCAGGCAC
AGCCGCCGCCGCTTGCTTGGGCGCCCATTAACTGCACGAATGCCAACACGT------CCACATTCAACTCGTTCGCGTTG
CTCGCCGGCGGGTACAAGCCCGACGACAAATGGGAGCCGGTGCCGGGGAGCTGTACTGTGTCGATGATGCCCGTGCT---
-GGGGTACCCTGGGGCGACCGGGGCGGACTACCGGCGGCTGATGAAGAGCGGGTTTCTTCTCGAGTACACGGCTGACGAT
TGCAGGGCGTGCGAGGAGAGTGGAGGGCTTTGCCGGATTAACACCACCTACGATATCTTCGGGTGCCTCTGCTCTGACGG
CCTGTCTGACCTCATCATCTG-----------------------------------------------------------
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>chr3B_1103
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-----------------------------------A---------------------CGTCCTGCGAGCCCGCGGCGTGC
-GGGGCCTGCGCATCGCGTACCTGTTCTGGCTCGGTGGCACGCACCCACCGGTGTGCGGCTATCGGGCCTTCCAT-TCAC
GTGCGACGGCAACGACACGGCCTTCCTCGAGAACTCATTCTGGAACTTCCAGATCCTGGAG-ATCTCGT------ACGAG
GATAGCATCTTCAGGCTCGCCAACTACAATCTCCCT---------TGTGACATCGAGCTCCACGTGAACGCCTCCTCCGA
CCTCGGCCTCGCACCCTTCAGCATCAGCACCGCCAACCAAGAACTCTTCTTCCTCTACAACTACACCGACCTACACGCGC
GGCCGGCACCGCGTACGTGGGCACCCGTCAATTGCACGAACGAGTTGAATGTGTCCACCACGTTCAACTCGTTCGCGTGG
CTCGCCAGTGGGTATAAACCAGACGACCAATGGGGGCCGGTGCCTGGGGGCTGCAATGTCTCGATGATGCCGGTGTA---
-CGAGTACGCGGGGGCAGCCGGGAAGGACTACGGGCAGCTGATGAAGGGTCGGTTTGTTCTGGGCTACATAGTCGGCGAC
TGCGCGGCGTGCAAGGAGAGAGGTGGACATTGCCGGATTGACACCGACTACGA---------------------------
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>SNPs
SS-SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSS------------------------------------------------------------------S---
----S----------------------------S-----------------------------S----------------
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-----------------------------------------------------------S-S------------------
---------------------S---S----------------------------S-SSSS--------------------
----------SSS-----------------------------------------S-------------------------
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----S------S----------------------S----------------S----------------------------
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---------------S----------------------------------S-----------------------------
--------------------------------------------S---S------------------------------S
-------S-S------S-------------------S---------------------------S---------------
-------------------------------------------------S-----S------------------------
--------------------------------------------------------S--S--------------------
----------------------------------------------------------------S---S-----------
----SSSSSSS---------------SSSS--------------------------------------------------
-----S-SS-------S-S--------------------SS-S------SSSSSSS-----S------------------
S-SSSSS----S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSS-------------S-S--------------------------------------
-------S---S------SS-S---------S-SSSSSSSS-SSSSS-SSSSSSS-SS--SSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------
------S----S-------S----SS----S---------------SS-----SS-----S------SSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSS-------S----S----SS----------------SSSS--SSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSS---S--------------S-S-------------S-------S------S----S---S-SS
S------------------S--------------------S--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSS
>forward_349
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---------ATGGGGAAGCAGGATCCTCT---------------------------------------------------
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>reverse_2109
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----------------------------GTTATGTAGCTCCCCGGCTC--------------------------------
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