>input_sequence_57845
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----------------------------------------ATGGAGAGCACCGCCTCGGTGCTAGACCGCGCCTCCTCCG
CCGCGGCCCGGGCTGCGGCGGATGCGGGCCACCTCTCCTCCATCCGTCTCGTCTGGGTGGCGGGGCTGGTGGTGCGCGCC
CTGGAGCGGTGCAAGGTTCTGGATCGCGCCAGGGAGCTTCAAGAAGCTGTCGATGTTCTTGCTGGCGCGGACCTGCAGAC
CATGGCGAACGCCGCGGGCTTGGTGAGCAGCGCCGCCGCCAGGGCGGCTTTGGAGGCATATTTGCAAGGGGTGGATCTTG
TAGTGACCTGTCGGAATCTGGAGGTGGCAACACGCGAGCTAAGCTTGGCGGTGGCGGTGGCGGCGGCGGCCGACTCAAAG
GCCAGAGAGGAGGGTACCTGCAAATGGATCCCGTGGCTGAAGAAGGACAGGAGGAATGCAGATGAGCTCGACGACGGCGG
CCTACGCCAAGCGCTTCTTCAGCACAAGGCCTGGCCGGCATTCAAGAAGGCCTCCAGTGTACTTGCTGGAGCGCCCGGAC
CAGAGGTACGGTGTG-----TGCTTGATTGTTCTTCCTGCAAGAAAGTAAAGCGATTCTATGTTG---------------
----------------------------TTGCCACGATCTTTGCTTGACCTCAGTTATCCTAGGTTTCATATGTTCTTCC
CGCAAGAACTCGAAAAACGAATCTTTGTTCAGTTTAATTCAGCAAAAAATCCGTATCTGAGTATCCCAAGCTTTTCCCTT
GACATTGGTGTGCAGGAGAACCTGGGGGAGTTTCTTGGCTATCCTCTGTTCGGGTCATTGACCTTACTGCCTTACCTAGA
CCCTACAGGAGTGGTGATGAAGCATGTGTCGGGCAATGGCAGGAAAGCTTTCCATGTTATCTTCTCCTTGGTTTGGATTG
CAGTCGGTCTAGGTGTTCCATGCAGGCACTGCCGGCATTCTGCGTTCATGCAAAACTGTGCTGATATCACAAGCCGCATC
GGCATGGCTGGCATCACTGCCCTGGTGATTTGGTATAGCTGCCTCCTGATAGCACCAGGGACGTCAGTTATTTCCTACAT
CATGATGGTCTTGGCTTGCATTTTACACATTGTTGCTTGGGCCAGGGTAAACTTTTAAAACTTCCCACATTTCTTCTATA
TATTCCATCAACATCTCATCTGTATTTTCTGACAACCTTTTGTTTCATATGAATGCTGCAGGATCGCAGATGGATTGGGG
GATAG---------------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G438000
CAATGCATAGAAGTATGTTTTTTTAGGGGAGCTCAGAAGCATGTAGTGTGACTTTTTTCATACAGCGACGTGTGGCGTGC
CAAGGAAAAAAAGACGTAGGCCCACTTCGCACGAGACAAATGGGCCGGGCCAGCAGGTCATCGCGCGTGAGCGAGCCCTC
CACCCGCTTGCTAAGAGCGAGCTATAACGGATCCCCGTTCTTCTCCTTCTTCCTCCCCTCCCCTCCCCTCCCCTCCCGCC
CCCCAATTCGCCGGCTCCCGCGAGACCAAAGAATCCAAGAACTCGAAAAGCCCTCCGCCCGCTGGTGCTCCCTCCCTCCT
CCCCGCCCCCGCCGTCCGCCGTCCGCCGGCCGCCGCCGCAGCATGGAGAGCACCGCCTCGGTGCTAGACCGCGCCTCCTC
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGCATGTAGTGTGACTTTTTTCATACAGCGACGTGTGGCGTGCCA
AGGAAAAAAAGACGTAGGCCCACTTCGCACGAGACAAATGGGCCGGGCCAGCAGGTCATCGCGCGTGAGCGAGCCCTCCA
CCCGCTTGCTAAGAGCGAGCTATAACGGATCCCCGTTCTTCTCCTTCTTCCTCCCCTCCCCTCCCCCCCCCTCCCGCCCC
CCAATTCGCCGGCTCCCGCGAGACCAAAGAATCCAAGAACTCGAAAAGCCCTCCGCCCGCTGGTGCTCCCTCCCTCCTCC
CCGCCCCCGCCGTCCGCCGTCCGCCGGCCGCCGCCGCAGCATGGAGAGCACCGCCTCGGTGCTAGACCGCGCCTCCTCCG
CCGCGGCCCGGGCTGCGGCGGATGCGGGCCACCTCTCCTCCATCCGTCTCGTCTGGGTGGCGGGGCTGGTGGTGCGCGCC
CTGGAGCGGTGCAAGGTTCTGGATCGCGCCAGGGAGCTTCAAGAAGCTGTCGATGTTCTTGCTGGCGCGGACCTGCAGAC
CATGGCGAACGCCGCGGGCTTGGTGAGCAGCGCCGCCGCCAGGGCGGCTTTGGAGGCATATTTGCAAGGGGTGGATCTTG
TAGTGACCTGTCGGAATCTGGAGGTGGCAACACGCGAGCTAAGCTTGGCGGTGGCGGTGGCGGCGGCGGCCGACTCAAAG
GCCAGAGAGGAGGGTACCTGCAAATGGATCCCGTGGCTGAAGAAGGACAGGAGGAATGCAGATGAGCTCGACGACGGCGG
CCTACGCCAAGCGCTTCTTCAGCACAAGGCCTGGCCGGCATTCAAGAAGGCCTCCAGTGTACTTGCTGGAGCGCCCGGAC
CAGAGGTACGGTGTG-----TGCTTGATTGTTCTTCCTGCAAGAAAGTAAAGCGATTCTATGTTG---------------
----------------------------TTGCCACGATCTTTGCTTGACCTCAGTTATCCTAGGTTTCATATGTTCTTCC
CGCAAGAACTCGAAAAACGAATCTTTGTTCAGTTTAATTCAGCAAAAAATCCGTATCTGAGTATCCCAAGCTTTTCCCTT
GACATTGGTGTGCAGGAGAACCTGGGGGAGTTTCTTGGCTATCCTCTGTTCGGGTCATTGACCTTACTGCCTTACCTAGA
CCCTACAGGAGTGGTGATGAAGCATGTGTCGGGCAATGGCAGGAAAGCTTTCCATGTTATCTTCTCCTTGGTTTGGATTG
CAGTCGGTCTAGGTGTTCCATGCAGGCACTGCCGGCATTCTGCGTTCATGCAAAACTGTGCTGATATCACAAGCCGCATC
GGCATGGCTGGCATCACTGCCCTGGTGATTTGGTATAGCTGCCTCCTGATAGCACCAGGGACGTCAGTTATTTCCTACAT
CATGATGGTCTTGGCTTGCATTTTACACATTGTTGCTTGGGCCAGGGTAAACTTTTAAAACTTCCCACATTTCTTCTATA
TATTCCATCAACATCTCATCTGTATTTTCTGACAACCTTTTGTTTCATATGAATGCTGCAGGATCGCAGATGGATTGGGG
GATAGTATATAGGTAACTTTGCTTGACACAGGGACCCAAACATGTAATGTTTGGAGAGTCTCCTGAGTGCATACATGTAA
AAATGAAAGAAATCAGTCCTTAAACTACTTTACCCTTTTGTTGTGAACATGAGCCTTCACAATGTCAATTAAGGCTCATT
TTTGTGCAATAGTGCATAGGGGATAAGAAGGTGGACTTATAACCCACTAGCAAATCTTGAGTATGTATAGTGGTGAAGAA
AAAGAGTAGAGTTTATGATTTTTACAGGTAAAAGTGCTTTGGAAAGCTAAAATGCATATTTGACCTGTTGCCTGCTTCCT
CTGCACCGCTAATGCAGCCCAATCGATTCACCTTGCCAGCGGCATTACCAAGCAAGCATCGTGAATACTTGGTGAAGCAC
CAGCATTTTGTGTGATTATTGAATTGGGAATAGTTGATTAGTT-------------------------------------
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--------ACTGATTTGAATGGTTCATGTA--------------------------------------------------
-----------------------------------------------------------TTGTATCGGAGAATTTCGGAT
TGATTATTGATGTCAGCTCTTCAAATGTTGGGTCATCCAAACAAGCAATGTGATATGGACTGCACACTACCATCATTTTG
CAATTTGACTGACTCTATACGTTTCATAGAGCTTGTGGAATGTCCTAAAGTAACATGATCACGAAACATATGTTGTTAAT
GTTGTCAGTCTTATTTTCTGAATCGTTTATGACTTGCAGATTTAGATGTATTTCTGACCACGAAAAA--TCTTTGTGTTA
TGATTCTGTATG--AACTAACTGCAGATAATGGCGCCGTGACATTTCCTGAATGTTACTTCTGGTTACATGGCA-TGTTC
TTGGTTCCTGATACCTTTATTTAATCAATATGTATGATGTTATTTCAGTGAAAATCATCTTGGTTTCATTTGTGACTTGC
AGTTATATATTGGTTTCGGTCCGACAACAACATTTTTTGGTCTATGATTACGTACAAATGAAATAACTTCTAAATAATGT
TGCCATGGTATGGGTGTGCTTCAGCTTTTTAAACATTCTTGCTC
>chr3B_141
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------------------------------------------------------------TCGCGCGTGAGCGAGCCCTC
C-------------------------------------------------------------------------------
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------------------------------------------------------------------------------CA
CCTGCTCGCTAGGAGCGAGTTATAACGGACCCCCGTTCTTCTCCTTCCTCCTCCCCTC----------TCCTCCCGCCCC
CCAATTCGCCGGCTCCCCCGAGACCAACGAATCCAAGAACTCGAAAAGCCCTCCGCCCGCTGGTGGTCCCTCCCTCCTCC
CCACCCCCGCCGGCCGCCGGCCGACGGCCTCCGCCGCAGCATGGAGAGCACCGCCTCGGTGCTAGACCGCGCCTCCTCCG
CCGCGGCCCGGGCTGCGGCGGAGGCGGGCCACCTCTCCTCCATCCATCTCGTCTGGGTGGCGGGGCTGGTGGTCCGCGCC
CTCGAGCGGTGCGCATTTCTTGATCGCGCCAGGGAGCTTCAAGAAGCTATCGATGTTCTTGCTGGCGCGGACCTGCAGAC
CATGGCGAACGCCGCGGGCATGGTGAGCAGCGCCGCCGCCAGGGCGGCTTTAGAGGCGGAGATTCAGGAAGAGGGCCTTG
CAGATACCTGTCGGAATTTGGAGGTGGCGGCGCGTGAGCTAAGCTTGGCGGTGGCGGTGGCGGCGGCGGCCGATTCAAAG
GCCAGAGAAGAGAGTACTTGCCAATGGGCATACTGGATCAAGAAGGACAGGAGGAACGCAGATGAGCTCGACGACGGCGT
CCTAAGGCAAGCGCTTCTTCAGCATAAGGCCTGGCCGTCGTCCAAGAAGGCCTCCACTGTACTTGCTGGAGCGCCCGAAC
CAGAGGTACGGTGTG-----TGCTTGATTGTTCTTCCTGCAAGAAAGTAAAGCGATTTTTTGTT----------------
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>chr3A_141
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------------------------------------------------------------TCGCGCGTGAGCGAGCCCTC
C-------------------------------------------------------------------------------
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------------------------------------------------------------------------------CA
CCCGCTCGCCAAGAGCGAGTTATAACGGACCCCCGTGCTTCTCCTCCTTCCTCCCCTC----------CCCTCCCGCCCC
CCAATTCACCGGCTCCCGCGAGACCAAAGAATCCAAGAACTCCAAAAGCCCTCCGCCCGCTGGTGCTCCCTCCCTCCTCC
CCGCCCCCGCCGTCCGCCGGCCGACGGCCTCCGTCGCAGCATGGAGAGCACCGCCTCGGTGCTAGACCGCGCCTCCTCCG
CCGCGGCCCGGGCTGCGGCGGAGGCGGACCACCTCTCTTCCATCCGTCTCGTCTGGGTGGCGGGGCTGGTGGTGCGCGCC
CTGGAGCGGTGCAAGTTTCTGGATCGCGCCAGGGAGCTTCAAGAAGCTGTCGACGTTCTTGCTGGCGCGGACCTGCAGAC
CATGGCGAACGCCGCGGGCTTGGTGAGCAGCGCCGCCGCCAGGGCGGCTTTGGAGGCATATTTGCAAGGGGTGGATCTTG
TAGTGACTTGTAGGAATCTGGAGGTGGCAGCACGCGAGCTGAGCTTGGCGGTGGCGGCGGCGGCGGC---CGACTCACAG
GGCAGAGATGAGAGCAGATGCAAATGGATCCTGTGGCTGAAGAAGGACAGGAGGAATGCAGATGTGGTCGACGACGGCCG
CCTAGGGCAAGCGCTTCTTCACCATAAGGCCTGGCCGGTGTCGAACTCGCTCTCCACT------------GCGTCAAGAC
CGGAGGTATGGCCCTTTGCTTGCTTGATTGTTCTTCCCGCAAGAACTGAAAAAACGAGTCTTTCTGCAGTTTAACACCGA
TATTGGTTGCCTTTGTTCAATTTAACAATCGCCACCATCTTTCCTTGACCATAGTTATCCCAATTTCTTGCGTTTCTCTC
TGA--------------------------------------------------TATCTGAATATCCCGAGCTTTTCCCCT
CACGTTTGTGTGCAGGAGAACCTGGCAGAGTTCCTGAGCTACGCGCTGTTTGGATCCTTGACCTTACTGCCCTACTTGGA
CCCCGCGGGACCGGTGATGAAGACGCTGTCCAAGACCGGCAAGCTGATCTTCCATGTCGCCTTCTCTGTGGTTTGGGCCG
CGGTTGGTGTAGCTGTCGCTTGCAGGCAGTGCCGCGGTTCTGCGCTCATGCTCCGTTTTGCTGATGTTGCCAGCCACATT
GGCATGGCTGGCATTACTGCCCTTGTGATTTGGTACAGCCACGTCCTGATAGCACCGGATGCTCCTGTGACTTCCTACGT
CATCTTGGGCTTCGCTTGCATTCTGCAGATCATTGCTTGGGCCTGGGTAAAGTTTTAAACT---TCTCATTTCTTCTACA
CTTTT-ATTATCATCTCATCTGTATGTTCTGACAGTTTTATG-TTCCTATGAATGCTGCAGGATCGCAAATGGATCGGAG
GCGCAGCGTAGTGTGTAGTCTTGGTTC-----------------------------------------------------
-------------------------------------------------------------ATGTCGATCGACTCGT-TA
ACTGTGGAATAGGCAACTTATGGCAGATAACTGAACATATGACC------------------------------------
--------------ATTGTTAAAACAGTTTTCAGCATTTTTGTTAGCAAAAACAGGGAGTCCCACTGTACAGTACATACA
ACAGTTTGTGCTACATTTGAGAAATTACAGTCCTGATTCAGCCGTGTAC-------------------------------
------------TGAGTTTTGAAATGAACATAGTATCATGTTTCTTTACCAATAGTAAACCCTGTTTGGATTACCAATAG
TGTACTCTGTTTAGATTATCATCTTATCTGAATAGTTTTGATTTGAGTAGTTTCCAGTAGTGTACTCTGTTCGGATTACC
AATAGTGTAATCTGTTTGGATTATCATGTTATCTGAATTGTTTACCAATAGTGTACTCTGTTTGGGTTACCAACAAAAAA
TTGCAATAAATGATTTGAATGGTTCAGGCACTGTATCAGAGAAATGCGGGTTGGGATTGATTATTGATTACAGCTCTTCA
AATGTTGGGTCATCCAAACAAGTGATGATATGGACTGCCCACTGGCCACTACCACCATTTTG------------------
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CAATTTGACTGACTGAATATGTTTCACAGAGCTTGTGGAATATCCTAAAGTAAAATGTTCATGAAACATGTTATGTTAAT
CCTGTCAATCTCATTTTATCATTCATTTATGACTTGCAAATTTATATGTATTTCAGGCCAAGAGAAGCTTTCTTTAT---
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>chr3B_1579
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---------------------------------------------------------------TG---------------
----------------------------TTGCCAGGATCTTTGATTGTCCTCAGTTATCCTGAGTTTCATCTGTTCTTCC
CGCAAGAACTTGAAAAACGAATCTTTGTTCAGTTTAATTCAGCAAAAATTCCGTATCTGAATATCCCAAGTTTTTCCCTT
GACATTGGTGTGCAGGAGAACCTGGGGGAGTTTCTTGGCTATCCTCTATTCGGGTCATTGACCTTACTGCCTTACCTAGA
CCCTACGGGAGTGGTGATGAAGCATGTGTTGGGCAATGGCAGGAAAGCTTTCCATGTTATCTTCTCTTTGGTGTGGATTG
CAGTCGGTCTATGTGTTCTATGCAGGCACTGCCGGCATTCTGCATTCATGCAAAACTGTGATGATATCACAAGCCGCATC
GGCATGGCTGGCATTACTGCCCTGGTGATTTGGTATAGCTGCCTCCTGATAGCACCAGGGACCTCAGTTGTTTCCTACAT
CATGATGGTCTTGGCTTGCATTTTACACATTGTTGCTTGGGCCAGGGTAAACTTTTAAAACTTCTCACATTTCTTCTATA
TATTCCATCAACATCTCATTTGTATTTTTTGACAACCTTTTG-TTCATATGAATGTTAAAGGATCGCAGATGGATTGGGG
GATAGTATATAGGTAACTTTGCTTGACACAGGGACCCAAACATGTAATGTTTGGAGAGTCTCCTGAGTGCATACATGTAA
AAACAAAAGAAATCAGTCCTTAAACTTCTTTACCCTTTTGTTGTGAACATGAGCCTTCACAATGTCAATTAAGGCTC-TT
TTTGTGCAATAGTGCATAGGGGATAAGAAGGTGGACTTATAACCCACTAGCACATCTTGAGTATGTGTAGTAGTGAAGAA
AAAGAGTAGAGTTTATGATTTTTACAGGTAAAAGTGCTTTGGAAAGCTAAAATGCATATTTGACCTGTTGCCTGCTTCCT
TTGCACCTCTAATGCAACCCAATCGATTCACTTTGCCAGCGGCATCACCAAGCAAGCATTGTGAATACTTGGTGAAGCAC
TAGCATTTTGTGTGATTATTGAATTGGGAATAGTTGATTAGTT-------------------------------------
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--------ACTGATTTTAATGGTTCATGTA--------------------------------------------------
-----------------------------------------------------------TTG------------------
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CAATTTGACTGACTGTATATGTGTCATAGAGCTTCTGGAATGTCCTAAAGTAACATGAGCACGGAACATACGTTGTTACT
CCTATCAGTCTTATTTTGTGATTCGTGTATGACTTGCAGATTTAGATGTATTTCTGACCAAGAAAAACCTCTTTGTTTTA
TGATTCTGTACGTAAACTAACTGGAGATAATGGTGTCGTGACATTTTCTGAATGTTACTTCTGGTTACATGGTTGTGTTC
TTGGTTCCTG----------------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------------
-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--
------S------------S---------S----------------------------SSSSSSSSSS------------
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-------------------S---S-----S--------------------------------------------------
----------------------S---------------------------------------------------------
---------------S----------------------------------------------------------------
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-----------------------------S--------------------------------------------------
--------S---S----S-------------S------------------------------------------------
----S-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-------------------------------------
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---SS---------------------S--------------------------------------------------S--
----------------------------------------------------S-------------S----S--------
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S---------------S----------------------------S-------------S--------------------
S-------------------------------------------------------------------------------
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--------------------------------------------------------------SSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
--------------S----S------------------------------------------------------------
SS---------------S---S--------------------------------------S---------------S---
----------S------------S---------S-S----------S-------------------------SS------
----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_297
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-------------------------------------AGAACTCGAAAAGCCCTCCG-----------------------
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>reverse_2015
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--------------CACTGCCCTGGTGATTTGGT----------------------------------------------
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>forward_747
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-------AAAGACGTAGGCCCACTTCG-----------------------------------------------------
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>reverse_2577
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----------------GCCCAATCGATTCACCTTGC--------------------------------------------
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