>input_sequence_66164
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----------------------------------------------------ATGGCACGACGGAAGCCGCCGGCGCAGC
ATGGAGCCCGGAGCGAGGACGGCCAGGCCCAGGCGACGGCGCCGC---CGCTGAAGCGGGGGCCGTGGACGGCGGAGGAG
GACGAGGTGCTGGCGCGGTTCGTGGCGCGGGAGGGGGAGGGGCGGTGGCGCACGCTGCCACGGCGGGCGGGCCTGCTGCG
CTGCGGCAAGAGCTGCCGCCTGCGGTGGATGAACTACCTCCGGCCGGACATCAAGCGCGGCCCCATCGCCGAGGACGAGG
AGGACCTCATCCTCCGCCTCCACCGCGTCCTCGGCAACCGGTGCGTGCACGTGACCTACTTCCTGAAATGCGTCTATGCA
GATGATAGACTTATGGATGTGGCGGTGCACGCAGGTGGTCGCTGATCGCCGGGAGGCTGCCGGGGCGCACGGACAACGAG
ATCAAGAACTACTGGAACTCGCACCTCAGCAAGAAGCTCATCGCCCAGGGCCTCGACCCGCGGACGCACATGCCGCTCGC
CGCTGCTCCCGGCAGGGCGGCAGCTCCTACCGACAAGACGACGTGGGCGCCGACGGTCAGACCGCCGCAACCTCCGCCTC
CGCCCCCGCCAGTGCCGCCGACCTCGTCTGCCGCTGGAACTGGATGCGACGGCCGTGACAGCCCAGCCGGCGGAGGCAAT
GACGACCTCGCCGCGGCGATGAGCGTCGACGCCCATGACTTCGAAGGTTTCGGTGATCAGCTTCTCGCCGACTACGCTGC
TTCCCGCGGAGTCTTCAACGACGTCATGGGGAGTCCAATGGTGGACGACGATACCTTCAGCTCGTTCCTCGATTCCTTGA
TGAATGAGCGCCAGTTGGCTGCTGATCACAAGGGTGTGATGAACGATCAGGGCGGCGCTATCTAG---------------
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>chr3D_1_TraesCS3D01G257800
TTACAAAACATTCAATGTGTATTAAAAAGGCATTCATGTATAAAAAGGATGTTCTTGTATAAAAAGAAACTGGAAAAGGC
AAATGAACTAGAAAATAAATAATAAAATAAAAATGAATAACAATACGAAATAAGTACAAGAACAGATGAAAATAATTAAT
TCAAACATAGAAAACATAATAGAGAAGAAATGATAAAAAAAAGGAAACCCGGTTTTTTTAACACAATACAATCGCAATTG
CTTACATACACGTACATACAGACACTCTATGAACTCACACACGCACATCTACTCTTGTGAGCACCTCTGACATACTGAGC
TGACACAGTATTTTAAGATTGACAAATTTACCACAGTCGTCTCGTAGTCAGCGAGAAGGTATCCTCCTACTGAACAAACA
TCGCCGGAAAGCTTGAAATAAATCTAGTAAATACGAGCAGTAGTGCCAAGTCTAGAACTTCAATCCTGGTGGATTGATTC
CATCACAAAGAACCTAATCATATGAGTTATTCCCATTTCACCAAAAAAATAATTAAGAAAAAACCTGATTTTTTTTAGAA
ATGAAAAACTGAAGCGAACTATCCGGTGCAGCTCCCGTAAAAAAAAGAGAACTTTCCCTAAAAAAAAGAAGAAGAAGAGA
ACTATCTAGTGCAGCGATGTATGGTGGCGGCACGTTCTAAT---------------------------------------
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------------------------------------TTGGAGGTAGCCGGCGCCCGTCTCCGCATCCTTTGGTTCGCCCC
C-GATCGGGTAGAGCGTGCGCGTGACACGGCGCGGCGGTGACACGAAATTCCTCCGTTTTCCGGAAGCGGAACAGACCGC
CGCGCAGAAGAAACAAACCACCCCACCGACCGTAGCCTCTCCGGGAGGTGGCGCTGCGGCGCACGGCGAGAAAAGCGACC
AAACCCCTCGCAGTCTCAGAAAAAGCGTCCGAGAAAAGCAGAAGCCAGGCGATCGAGTGAGGACCGAGGAGCCAAAATCC
AG-AG-------CCTCCGCATCGCACG--------GGAGCCGAGGCCGATCGATGGCACGACGGAAGCCGCCGGCGCAGC
ATGGAGCCCGGAGCGAGGACGGCCAGGCCCAGGCGACGGCGCCGC---CGCTGAAGCGGGGGCCGTGGACGGCGGAGGAG
GACGAGGTGCTGGCGCGGTTCGTGGCGCGGGAGGGGGAGGGGCGGTGGCGCACGCTGCCACGGCGGGCGGGCCTGCTGCG
CTGCGGCAAGAGCTGCCGCCTGCGGTGGATGAACTACCTCCGGCCGGACATCAAGCGCGGCCCCATCGCCGAGGACGAGG
AGGACCTCATCCTCCGCCTCCACCGCGTCCTCGGCAACCGGTGCGTGCACGTGACCTACTTCCTGAAATGCGTCTATGCA
GATGATAGACTTATGGATGTGGCGGTGCACGCAGGTGGTCGCTGATCGCCGGGAGGCTGCCGGGGCGCACGGACAACGAG
ATCAAGAACTACTGGAACTCGCACCTCAGCAAGAAGCTCATCGCCCAGGGCCTCGACCCGCGGACGCACATGCCGCTCGC
CGCTGCTCCCGGCAGGGCGGCAGCTCCTACCGACAAGACGACGTGGGCGCCGACGGTCAGACCGCCGCAACCTCCGCCTC
CGCCCCCGCCAGTGCCGCCGACCTCGTCTGCCGCTGGAACTGGATGCGACGGCCGTGACAGCCCAGCCGGCGGAGGCAAT
GACGACCTCGCCGCGGCGATGAGCGTCGACGCCCATGACTTCGAAGGTTTCGGTGATCAGCTTCTCGCCGACTACGCTGC
TTCCCGCGGAGTCTTCAACGACGTCATGGGGAGTCCAATGGTGGACGACGATACCTTCAGCTCGTTCCTCGATTCCTTGA
TGAATGAGCGCCAGTTGGCTGCTGATCACAAGGGTGTGATGAACGATCAGGGCGGCGCTATCTAGCTGATGCAGATTTAC
AAATGCACTGTCATCCTGAGCAGCG-------------AATAAGTTGATTGATGATGAGCAGAT---ACAAACTGCGTAC
ACATGAATTGCTTAATGTGATGAAGGGATCTGGTGACGTTTGT--------TTGTGTGATGAAAATCAGTACTACGAGGA
TGTA-----ATGTATGGATTGCACAGACATAAGATTTGTAGATGGTGCGAATT----AATCAATGTGTTCACCTGCTACT
CATGTGGCCTGCT-----------ACCGAGTGGCCAAAATAGAGTAGGTGCAGCTCATAAACCTGCAGGTCTATCCGTCT
ATATATGGTCGAGAGAGACTCGAGACGCGTACA---GCTCATATTTGTGACAACGCGTGCCTCCGTTGCATTTTGCCATA
CCCGTGGGGTGGCCTGTCCGAATTGATTCTGATGTCGACTGAATTCAGGAAAGGAATTCCCCGGATCTTTCTTCTTCGGC
TACTCTTCTTCTCAGGGTTCACC----AGAGATTCAGATTGCCCGTGCAACTGACTGATGGTACGCAGGATA-ATATATC
AGCACGTATACGTACGTACGT----GTGCAAGCAAAGAAA----------------------------------------
AAAGGATTCGCACATACACAAAGGGAACACCGACTGTTTTCTACCTAGCTATACAATACGTACGTTCATGCCGGGCGCAT
GCATAGACCGTATGTGAAATGTGAGTATCACAACAGGACAATGTAAACATGAACAAAGAATCTACTACGAAACAAATCGG
AACGCGCATCGTAACAAATAAATTACTAACAGAGAAGAAGATTTTACCTTTTAATTGAGCAGCATGCAGGC----CATCC
ATCCATGCTCCTGGGAAGAGACTTCAAGTTGCATGGCTGTTTAGGC-----------------------TAGCAAGAGGA
GCGTAGAGGCATGGGCACTGTACGTGGGGAGCTCCGGCGCTATATAGCAAGGGGGGCGC---------------------
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-------------------------------------------------------------------------------C
TGCGAATTTACCTGCCGTTGCGACCGGCCGTCGTCGTCCAAATGGACTGTCAGGTTGGAACCAACAAACAAACAAAATTG
GGCCTACT
>chr3B_296
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-------------------------------------------------------TGTGAGCACCTCCAACATACTGAGC
TGACATAACATCTTAAGATTGACGAGGTTACCACAGCCGTCTCGTGGTCGACGAGAACGCATCCTCCTACTGAACGAACA
TCACCGGAAAGTTTGAAATAAATCTAGTAAATGCGAGCACTAGTGTCAAGTCTAGGACTTTAATCTTAGTGGATTGGTTC
CATCACAAAGAAC-----------AGTTATTCCCATTTCACCATTTTTTTTAAATACTGA-------ATTTTTTTTAGAA
ATGAAAAACTGAAGC---------------------------------------------------------------GA
ACTATCCAGTACAGCGATGTATGGTCGCGGCACATTCTAATATGGAGGTAGCCTATTGATGTGGAGGCTGATTCTTTGGA
ACTAGTGAAGCTGGTGCAGTCCAATAACATGGACAAATCAATTTATGCTTATCTTATTAGAGAGATCAAGCTGATGATGA
GTCTTAGGGAGACTAGTATTACTCACAATCATAGATCCCAAAATAAAGTTAGTGATTGGTTGGCTTCCTTCGCTAGAGAG
GAAGGTAGAACTATGACCTGGGTAGGGTTTGGTCCTCCCGGAGCTGTGGAGCTTGTTGTATCATAGTGTAACGTTGTTGG
GGTTTGAGTAATACAAGTTTTAGTTCGCAAAAAAAATTGGAGGTAGCCGGCGCCCGTGTCCACATCCTTTGGTTTGTCCC
C-GATCAGGTAGAGCATGCGCGTGATACGGCGCGGACGTGACACGAAATTCCTTTGTTTCCCG-AAGTGGAACAGACCGC
CGCGCAAAAGAAACAAACCACACCACCAACCTTTGCCTCTCCGGGAGGTGGCGCTGCGGCGCACGATGAGAAAAGCGACC
AAACCCCTC-----------------------------------------------------------------------
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>chr3B_632
AAGAG---------------------------------------------------------------------------
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-----------------------------------------------------------------------------AGA
ACTATCCAGTGCAGCGATGTATGGTGGCGGCACGTTCTAAT---------------------------------------
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------------------------------------TTGGAGGTAGCCGGCGCCCGTCTCGGCATCCTTTGGTTTGCCCC
C-GATCAGGTAGAGCCTGCGCGTGACACGGCGCGGCCGTGACACGAAATTCCTCCGTTTTCCGGAAGCGGAACAGACCGC
CGCGCAGAAGAAACAAACCACCCCACCGACCGTTGCCTCTCCGGGAGGTGGCGCTGCGGCGCACGGCGAGAAAAGCGACC
AAACCCCTCTCAGTCTCAGAAAAAGCGTCCGAGAAAAGCAGAAGCCAGGCGATCGAGTGAGGACCGAGGAGCCAAAATCC
AAAGCCAGCCGTCCTCCGCATCTCTCCAGGCGCACGGAGCCGAGACTGGTCGATGGCACGACGGAAGCCGCCGGCGCAGC
ATGGAGCCCGGAGCGAGGACGGCCAGGCCCAGTCGACGGCGCCGCCGCCGCTGAAGCGGGGGCCGTGGACGGCGGAGGAG
GACGAGGTTCTGGTGCGGTTCGTGGCGCGGGAGGGGGAGGGGCGGTGGCGCACGCTGCCGCGGCGGGCGGGCCTGCTGCG
CTGCGGCAAGAGCTGCCGCCTGCGGTGGATGAACTACCTCAGGCCGGACATCAAGCGCGGTCCCATCGCCGAGGACGAGG
AGGACCTCATCCTCCGCCTCCACCGCGTCCTCGGCAACCGGTGCGTGCACGTGACCTACTTCCTGAAGTGCGTCTATGCA
GATGCTAGACTTATGGATGTGGCGGTGCACGCAGGTGGTCGCTGATCGCCGGGAGGCTGCCGGGGCGCACGGACAACGAG
ATCAAGAACTACTGGAACTCGCACCTCAGCAAGAAGCTCATCGCCCAGGGCCTCGACCCGCGGACGCACATGCCGCTCGC
CGCTGCTCCCGGCAAGACGGCAGCTGCTACCCACAAGACGACGGCAGCGCCGGTGGTCGTACCGCCGCAACCTCCGCCCC
CGCCAGGGCCAGTGCTGCCCACCTCGTCTGCCGCTGGAACTGGATCCGACGGCCATGACAACCCAGGCGACGGAGGCAAT
GACGACCTCGCCGCGACGATGAGCGTCGACGCCGATGGCTTCGAAGGTTTCGGTGACCAGCTTCTGGCCGACTACGCTGC
TTCCCGCGGAGGCTTCGAAGACGTGATGGGGTGTCCAATGGTGGACGACGACACCTTCACCTCGTTTCTCGATTCCTTGA
TGAATGAGCGCCAGTTGGCCGCTGATCACAAGGGTGTGATGAACGATCAGGGTGGCGCTATCTAGCTGATGCAGATTTAC
AAATGCACTGTAGTAATCGCGAATTAGTTGATGAGCAGATACTGTGTAAGTAC------------------------TAC
ACATGAATTGCTTGAC---------GGATCTGGCGACGTTTGT--------TTGTGTGATGAAAACCAGTAGTACGAGGA
TGTAATGT-----ATGGATTGCACATACATAAGATTTGTAGAAGGTGCGAATTAATCAATCAATGTGTTCACCTGCTACT
CATGCGGCCTGCT-----------ACCGAGTGGCCAAAATAGAGTGGGTGCAGCTCATAAACCTGCAGGTCTATCCGTCT
ACATATGGTCGAGAGAGAGTCGAGACGCGTACA---GCTCATCTTTGTGACAACGCGTGCCGCCGTTGCATTTTGCCATA
CCCGTGGGGTGGCCTGTCCGAATTGATTCTGATGTCGACTGAATTCAGGAAAGGAATACCCCAGATCTTTCTTCTTCGGC
TACTCTTCTTCTCAGGGTTCACCCACCAGAGATTCAGATTGCCCGTGCAACTGACTGATGGTACGCAGGATA-ATATATC
AGCACGTATACGTACGTACGTACGTGTGCAAGCAAAGAAA----------------------------------------
AAGGGATTCGCACACACACAAAGGGAACACCGACTGTTTTCCACCTATACAG----TACGTACGTTCATGCCGGGCGCAT
GCATAGACTGTATGTGAAATGTGAGTATCAGAGCAGGACAATGTAAACATGAACAATGAATTTACG-AAT-ACAAATCGG
AACGCACATCGTAATAAATAAATTACCGACGGAGAAGAAGATTTTACCTTTTAATTGAGCAGCATACAGGC----CATCC
ATCCATGTTCATGGGAAAAGGCTTCAAGTTGCATGGCTGCTACTTGCCCAGGAAATTGGTTAGGCTAGCTAGCAAGAGGA
GCGTAGAGGCATCGGCACTGTACGCGGGGAGCTCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNC
TGCGAATTTACCCACCGTTGCGACCGGCCGTCGTCGTCCAAATGGACTGTCAGGTTGGAACCAACAAACAAA--------
--------
>chr3A_654
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-------------GCGATGTATGGTTGCGGCACGTTCTAAT---------------------------------------
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------------------------------------TTGGACGTAGCCGGCGCCCGTCTCCGCATCCTTTGGCTCGTCCC
CCGATTGGGTAGAGCGTGCGCGTGACACGGCGCGGCGGTGACACGAAATTCCTCCGTTTTCCGGAAGCGGAACAGACCGC
CGCGCGTAAGAAACAAACCACCCCACCGACCGTTGCCTCTCCGGGAGGTGGCGCTGCGGCGCACGGCGAGAAAAGCGACC
AAATCCCCCTCAGTCTCAGAAAAAGCATCCGAGAAAAGCAGAAGCCAGGCGATCGAGTGAGGACCGAGGAGCCAAAATCC
AAAAG-------CCTCCGCATCGCACG--------GGAGCCGAGGCCGATCGATGGCACGACGGAAGCCGCCGGCGCAGC
ATGGAGCCCGGAGCGAGGACGGCCAAGCCCAGTCGACGGCGCCGC---CGCTGAAGCGGGGGCCGTGGACGGCGGAGGAG
GACGAGGTGCTGGCGCGGTTCGTGGCGCGGGAGGGGGAGGGGCGGTGGCGCACGCTGCCGCGGCGGGCGGGCCTGCTGCG
CTGCGGCAAGAGCTGCCGCCTGCGGTGGATGAACTACCTCCGGCCGGACATCAAGCGCGGCCCCATCGCCGAGGACGAGG
AGGACCTCATCCTCCGCCTCCACCGCGTCCTCGGCAACCGGTGCGTGCACGTGACCTACTTCCTGAAATGCGTCTACGCA
GATGATAGACTTATGGATGTCGCGGTGCACGCAGGTGGTCGCTGATCGCCGGGAGGCTGCCGGGGCGCACGGACAACGAG
ATCAAGAACTACTGGAACTCGCACCTCAGCAAGAAGCTCGTCGCCCAGGGCCTCGACCCGCGGACGCACATGCCGCTCGC
CGCTGCTCCCGGCAAGACGGCAGCTCCTACCGACAAGACGACGGCGGCGCCGACGGTCAGACCGCCGCAACCTCTGCCCC
CGCCAGCGCTTGTGCTGCCGACCTCGTCTGCCGCTGGAACTGGACGCGACGGCCGTGACAACCCAGGCGACGGAGGCAAT
GACGACCTCGCCGCGGCGATGAGCGTCGACGCCCATGACTTCGAAGGTTTCGGTGATCAGCTTCTCGCCGACTACGCTGC
TTCCCGCGGAGTCTTCAACGACGTGATGGGGTGTCCAATGGTGGACGACGACACCTTCACCTCGTTCCTCGATTCCTTGA
TGAATGAGCGCCAGTTGGCTGCTGATCACAAGGT------------------TGGCGCTATCTAGCTGATGCAGATTTAC
AA-TGCACTGTAGTAATCGCGAATCAGCTGACTAGCGAAATAAGTTGATTGATGATGGGCAGATAGTACAAACTGCGTAC
ACATGAATTGCTTAATGTGATGAAGGGGTCTGGTGACGTTTGTTTGTGACTTTGTGTGATGAATATCAGTACTACGAGGA
TGTAATGTAATGTATGGATTGCACAGACATAAGATTTGTAGAAGGTGCGAATT----AATCAATGTGTTCACCTGCTACT
CATGTGGCCTGCTGGCGAGTGCCGACCGAGTGGCCAAAATAGAGCAGGTGCAGCTCATAAGCCTGCAGGTCCATCCGTCT
ACATATGGTCGAGAGAGACTCGAGACGCGTACTACTGCTCATCTTTGTGACAACGCGTGCCTCCGTTGCATTTTGCCATA
CCCGTGGGGTGGCCTGTCCGAATTGATTCTGATGTCGACTGAATTCAGGAAAGGAATACCCCGGATCTTTCTTCTCAGGG
TTCG---------------------CCAGAGATTCAGATTGACCGTGCAACTCAATGCGGGTACGCAGGATAGATATATC
AGCGT------GTACATACAT----GTGCAAGCAAAAAAAAACCCAAATAATAAGTGTCATACGTATGGCACGAAGTAAC
AAAGGATTCACACATACACAAAGGAAACACCGACT----------------------------GTTCATGCCGGGCGCAT
GCATAGACCGTATGTGAAATGTGAGTATCACAACAGGACAATGTGAACATGAACAAAGAATCCAGGAAAT-ACAAACCGG
AACGCACATCGTAATAAATAAATTACCAACAGAGAAGAAGATTTTACCTTTTAATTGAGCAGCGTGCAGGCCATCCATCC
ATCCATGCTCCTGGGAAAAGGCTTCAAGTTGCGTGGCTGTTACTTCCCCAGCAAACTGGTT--------TAGCAAGAGGA
GCGTAGAGGCATCGGCACTGTACGTGAGGAGCTCCGGCGCTATATAGCAAGGGGGGCGT---------------------
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-------------------------------------------------------------------------------C
TGCGAATTTACACACCGTTGCGACCGGCC---GTCGTCCAAATGGACTGTCAGGTTGGAACCAACAAACAAA--------
--------
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------SS-----------
-----S-SS--S-----------S-SS---------S--------S---SS------S-S---------------S----
--S--------S--------------------S------S-----S---------S----S----S-S--------S---
-------------SSSSSSSSSSS-------------------SSSSSS-S-SSS-SSS-SSSSSSS-------------
---------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---
------S-------------------------------------------------------------------------
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---------------------------------S----------------------------------------------
---------S----------------------------------------------------------------------
-S------------------------------------------------------------------------------
--------------------------------S-----------------------------------------------
-----------------------------------------------------------S--------------------
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--------------S-S--------------------------SS---------------------------------S-
----SS---------S--------------------------------------------S-----S--S----------
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------------------------S------S-------------------S-------S--------------------
----------------------------------------------------S---------------------------
-----------SS-SS-SSSS-SSS--------------------------------S----------------------
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------------------------------------------S-------------------------------------
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-S----------------------------------------S-------------------------------------
---------------------------------------------------------S----------------------
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-----------------------------------------S-----SSS-SSSSS------------------------
-----------------------------------------------------------------S-SSSS---------
-----S--------S-----------S-----------------------------------------------------
-----------------S--S--------------------SSSS-----------------------------------
------------S---------------------------------------------S---------------------
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------------SS----------------------------------------------------------SSSSSSSS
SSSSSSSS
>forward_1282
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--------------------------------------------------------------ACCGAGGAGCCAAAATCC
AG------------------------------------------------------------------------------
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>reverse_3164
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-------------------------------------------GGCTAGCAAGAGGAGCGTAG-----------------
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