>input_sequence_59573
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--------ATGGCTTCCTCTTTGCTCCACTGCTCCGACAAGCTCCCGTTCATGGACGTGGAGACCATCCTCCACATGAAA
GAAGGCCTGGACGAGACCAGCTACGCGCAGAACTCTTCGCTCCAGAAAAGGGGCATGGACACCCTCAAGAGCCTCATCAT
CAACTCGGCAACGGACGTGTACATCTCCCAGATGCCGGAGAGGTTCACGGTGGCCGACCTCGGGTGCTCCTCGGGCCCCA
ACGCGCTCTGCCTGGTGGAGGACATCATCGGAGGCGTCGGCAAGGTCTGCTGCCGGTCATCGCAGCCGCCGCCGGAGTTC
TCGGTGCTCCTCAACGACCTCCCGACCAACGACTTCAACACCATCTTCTTCAGCCTGCCGGAGTTCACCCACAGGCTTAA
GTCCGCCGCCAAGTCCGACGAGTGGGGCCGGCCGATGGTGTTCCTCTCCGGCGTGCCCGGGTCCTTCTACGGGAGGCTGT
TCCCGAGGACCAGCGTGCACTTCATCTGCTCCTGCTCCAGCCTGCACTGGCTCTCTCAGGTCCCGCCGGGCCTCTTCGAC
GAGGCCAAGACGCCGATCAACAAGGGGAAGATGTACATATCGAGCACGAGCCCTCCCGCCGTGTCCGTGGCCTACCGGAG
GCAGTTCCAGAGGGACTTCAGCCTGTTCCTCAAGTCGCGCGCCGCCGAGGTCTTCCCCGGCGGCCGGATGGTTCTGGCCA
TGCTCGGCAGGCAGACCAACGACTGCGTCGACCGGAGGACGACCTTCCTGTGGGAGCTCCTCTCCGAGTCCTTCGCAGCG
CTCGTGTCGCAGGGGCTGGTGGAGCAGGACAAGGTGGACGCCTACAACGTGCCGTTCTACGCGCCGTCGCTGCAGGAGAT
CGAGGTGGAGGTGCGGCTCGAGGGGTCCTTCAGCCTCGACTACGTGCAGACGTACGAGATCAACCTCAGCAGCAGCGGCG
ACGCCAAGGAGGACGGCAGGACGGTGTCCATGGCGATCAGGGCCATCCAGGAGTCCATGCTCAGCCACCACTTCGGCCCC
AACATCGTCGACGCGCTGTTCCACAAGTACACACAGCTCGTCACCGAGTCCATGGAGAGGGAAGAGGTCAAGAGTGTCCA
GATAGGGGTAGTCCTCACCAGGTTGTGA----------------------------------------------------
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>chr3B_1_TraesCS3B01G287100
CTGCCTGAGACCCAAAGGTAAGTTCTTGGCAATCTGCTTGGTCTGGCTCTGAAATGGGTGGCGTGCATATCAGTACTAGG
CTTGCAAACAGCATTGCCTGCCCCTGTCCCCATGGGTGGTGTTGCTAGGCAGCTAGA-----GGATGGCTTAATTTGTGC
TCTGCGTTCGTTCAATTAGTCCGTGTTTATCCACTTCTCCCGCTTGTGTTCAATCAAGAACCTTCCATTTCTGAAACGAA
GCGCTGAAAAGAGAGGCTTTTTGCACATGGAAATGCATGTTAGCAAAGTGGGCATGCTTTCAGGAATTGCACCCATT---
---TGTCCATTCAGGCATGGGAATGTTGTCCTTTCCTAATTGCAAGAACAAAATCTTGCTTAGAAAAGGCATGGATATGT
CTCTGAGTTGCGACCATGCCTGCATAGGAGTCATAGACTCATAGTAGAGACAGGGCACCAATTGAGCACCAAAGGTGTCG
GTTGACTCAGGTTTTCAGCCACTTGCTGGCGAGGGAACATGGCGCATAAATTTATTTCTCCCATTCTTTCTTTTTATATA
TTCCAAAAGGAAAAG-GTTTTCACCAG-----TTGTTTTGCTGCTTGCAGCACCTTTTCTCTCTCTCTC-----------
TCGCCACACTTTCACTTGGTTTCACCTGAG---GGTCAAATCTAGCACCATGCATGATATGATAACAGCGAATCACAGAC
-CATGTACTTAAAGCTTGACAGTATTGTACTTT-ATCTGAACCTGGCTTCTCAATCAGTCACACCAAACCCAGCCAAAAA
GGATATCTCAGTTGGACATATCACGCTCTCATTGGGCAAAGCGGCCTAGACAGATGCCTCGAGAATATTTGTTTACACCT
------ACCGTGGGCA-GGGCAGGGTA-TAATTTGTGCGAAATGATGATGTACTACACAATTAACCAGAGTTCTGACCGT
GTATATATGCACTGCATTACAGGTAGAAGGCATTAATTCTTGAAACTTGAGAGACG----GTCCACTACCAC---ACAGT
AGCCGGCAATGGCTTCCTCTTTGCTCCACTGCTCCGACAAGCTCCCGTTCATGGACGTGGAGACCATCCTCCACATGAAA
GAAGGCCTGGACGAGACCAGCTACGCGCAGAACTCTTCGCTCCAGAAAAGGGGCATGGACACCCTCAAGAGCCTCATCAT
CAACTCGGCAACGGACGTGTACATCTCCCAGATGCCGGAGAGGTTCACGGTGGCCGACCTCGGGTGCTCCTCGGGCCCCA
ACGCGCTCTGCCTGGTGGAGGACATCATCGGAGGCGTCGGCAAGGTCTGCTGCCGGTCATCGCAGCCGCCGCCGGAGTTC
TCGGTGCTCCTCAACGACCTCCCGACCAACGACTTCAACACCATCTTCTTCAGCCTGCCGGAGTTCACCCACAGGCTTAA
GTCCGCCGCCAAGTCCGACGAGTGGGGCCGGCCGATGGTGTTCCTCTCCGGCGTGCCCGGGTCCTTCTACGGGAGGCTGT
TCCCGAGGACCAGCGTGCACTTCATCTGCTCCTGCTCCAGCCTGCACTGGCTCTCTCAGGTCCCGCCGGGCCTCTTCGAC
GAGGCCAAGACGCCGATCAACAAGGGGAAGATGTACATATCGAGCACGAGCCCTCCCGCCGTGTCCGTGGCCTACCGGAG
GCAGTTCCAGAGGGACTTCAGCCTGTTCCTCAAGTCGCGCGCCGCCGAGGTCTTCCCCGGCGGCCGGATGGTTCTGGCCA
TGCTCGGCAGGCAGACCAACGACTGCGTCGACCGGAGGACGACCTTCCTGTGGGAGCTCCTCTCCGAGTCCTTCGCAGCG
CTCGTGTCGCAGGGGCTGGTGGAGCAGGACAAGGTGGACGCCTACAACGTGCCGTTCTACGCGCCGTCGCTGCAGGAGAT
CGAGGTGGAGGTGCGGCTCGAGGGGTCCTTCAGCCTCGACTACGTGCAGACGTACGAGATCAACCTCAGCAGCAGCGGCG
ACGCCAAGGAGGACGGCAGGACGGTGTCCATGGCGATCAGGGCCATCCAGGAGTCCATGCTCAGCCACCACTTCGGCCCC
AACATCGTCGACGCGCTGTTCCACAAGTACACACAGCTCGTCACCGAGTCCATGGAGAGGGAAGAGGTCAAGAGTGTCCA
GATAGGGGTAGTCCTCACCAGGTTGTGACTCGAGTCTGCCTACTGACTGTATTTTTCTTTAGCAAGTTTAGGTTTGACTC
TGTTCTATTGTCATATTC--------------------------------------------------------------
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---------------------TGTATTGTTTAGTACTCCCTCTGTAAACTAATATAAGAGCATTTAGATTACTAAAGTAG
TGATCTAAACGCTCTTATATTTGTTTACGGAGGGAGTAGCAGTTTGTCAAAAAAAAATAGCAGTAATTGGCAGCAAGTCA
CATTTATCATGGGAAAATGTTTAAAATCGGCCAACCGGGAGCG--------------CCTCCATGTGTGCATCTTTTGTC
TCTTCAGCTTTACGCCACGTGGCTGTGGAGCCCACTTGTGACAGGACGAAGAGAGTAACTTGGACTAGTAACATGCATAT
GTTACTATCTTCATAGTGGTTAATGTCATATGCGTGGTAACATAGATGTGTTCATTTATTACTGTGTAGACTCATTTTGC
ATTTGAAAATCGCTATGTGATGGTAACATAATAGGCCTTTCCCAGCGCTCCGCGATGGACAGGTGCTAAGCATGCCACAT
AAGCGAGAAAATGACATGGCACAACAATTAAGGATGGAAGAGAGCAGTTTGGTGACCCAGAAAGAACCAATGCCAAGCAC
GTGAACCTACGCAAACCACTTAAATCAAACAAGGTGACCAATGCATGGAAGAGTTTAGGTGCTAGATCATTAAATAAAGT
GAGCTTATGAGCAACAAGTTAAGCACCTATGCATGGGGAGTTGAGTTGCTAAGCTATTTAATGCACTTAGCACCTCATGT
AAGCACTTTTGCATTGAAAGAGGTTTTATGTTACTCTATTTGTCCCTCTCATTAACTGCTTGCCACCTCACCATTTTTAC
TTATGTGGCATCTATGTTACTACCACCATGACCAACCTAATGTTCTTCTCTACACTGCCTAATGTTCTTCTCTATCTTTC
GTGCCCGCTCATTCCCGTGTTCTCTTCTCTTTCTCACCATCGCGCAAATCCATGTCCGCGCCAACTTCTTCCCTGATTTG
CCTCC
>chr3D_1
CTGCCTGAAATCCAAAGGTAAGTTCTTGGCAATCTGCTTGGTCTGGCTCTGAAATGGGTGGTGTGCGTGT---TACTAGG
TCTGCAAATAGCATTGTCTGCCCCTGTCCCAATGGGCGGCGACGCTAGGCAGCTAGA-----GGATGGCTTTGTC----C
TCTGCATTCGTTCAGTTAGTCCGTGTTTATCCACTTCTCCCGTGTGTGTTCAATCAAGAACCTTCCATTTCTGAAACGAA
GCGCTGAAAAGAGAGGCTTTTTGCACATGGAAATGCCTGTTAGCAAAGTGGGCATGCTTTCAGGAATTGCACCCATTTCC
CTTTGTCCATTCAGGCATGGGAATGTCGTCCTTTCCTAATAGCAAGAACAAAATCTTGCTTAGAAAAAGCTTGGATATGT
CTCTGAGTTGCGACCATGCCTGCATGCATAG----GAGTCCTAGTAGAGACAGGGTACCAATTGAGCACCAAAGGTGTCG
GTTGACTCAGGTTTTCAGCCACTTGCTGGCGAGGGAACATGGCGCATAAATTTATTTCTACCATTCTTTCTTTTTATATG
TTCCAAAAGGAAAAAAGTTTTCACCAG-----TTGTTTTGCTGCTTGCAGCACCTTTTCTTTTTCTTCCATGTACTGTTT
TCGCCACACTTTCACTTGGTTTCACCTGGG---GGTCAAATCTAGCACCATGCATGATATGATAGCAGCGAATCACAGAC
-CATGTACTGAAAGCTTGACAGTATTGTACTTTTATCTGAACCTGGCTTCTCAATCAGTCACACCAAACCCAGCCAAAAA
GGAGATCTCAGTTAGACATATCACGCTCTGTTTGCGCAAAGCGGCCTAAACAGATGCCTCGAGAATATTTGTTTACACCT
------ACCGTGGGCAGGGGCAGGGTA-TAATTTGTGCAAAATGAGGATGTACTGCACAATTAACCAGAGTTCTGACCCT
GTATATTACATGACCGCAGGAAGAAGGCCA-ATCAACTCCCGAGACTTGAGATCGAGCTAGTCCACTACCAC---ACAGT
AGCCGGCAATGGCTTCCTCTTTGCTCCACTGCTCCGACAAGCTCCCGTTCATGGACGTGGAGACCATCCTCCACATGAAA
GAAGGCCTCGACGAGAGCAGCTACGCGCAGAACTCCTCGCTCCAGAAAAGGGGCATGGACACCCTCAAGAGCCTCATCAT
CAACTCGGCGACGGACGTGTACATCTCCCAGATGCCGGAGAGGTTCACGGTGGCCGACCTCGGCTGCTCCTCGGGCCCCA
ACGCGCTCTGCCTGGTGGAGGACATCATCGGGGGCATCGGCAAGGTCTGCTGCCGGTCGTCGCAGCCGCCGCCCGAGTTC
TCGGTGCTCCTCAACGACCTCCCCACCAACGACTTCAACACCATCTTCTTCAGCCTGCCGGAGTTCACCCACAGGCTCAA
GTCCGCCGCCAAGTCCGACGAGTGGGGCCGGCCGATGGTGTTCCTGTCCGGCGTGCCCGGGTCCTTCTACGGGAGGCTGT
TCCCGAGGACCAGCGTGCACTTCATCTGCTCCTGCTCCAGCCTGCACTGGCTCTCCCAGGTCCCGCCGGGCCTCTTCGAC
GAGGCCAAGGCGCCGATCAACAAGGGGAAGATGTACATATCGAGCACGAGCCCGCCCGCCGTGTCAGTGGCCTACCGGAG
GCAGTTCCAGAGGGACTTCAGCCTGTTCCTCAAGTCGCGCGCCGCCGAGGTCTTCCCCGGCGGGCGGATGGTTCTGGCCA
TGCTCGGCCGGCAGACCGACGAGTGCGTCGACAGGAGGACGACCTTCCTGTGGGAGCTCCTCTCCGAGTCCTTCGCCGCG
CTCGTGTCACAGGGGCTCGTGGAGCAGGACAAGGTGGACGCCTACAACGTGCCCTTCTACGCGCCGTCGCTGCAGGAGAT
CGAGGTGGAGGTGCGGCTGGAGGGGTCCTTCAGCCTCGACTACGTGCAGACGTACGAGATCAACCTCAGCAGCAGCGGCG
ACGCCAAGGAGGACGGCAGGACGGTGTCCATGGCGATCAGGGCCATCCAGGAGTCCATGCTCAGCCACCACTTCGGCCCG
GACATCGTCGACGCGCTGTTCCACGAGTACACGCAGCTCGTCACCGAGTCCATGGAGAGGGAAGAGGTCAAGAGCGTCCA
GATAGGGGTAGTCCTCACCAGGTTGTGACTCGAGTCTGTCTACTGACTCTATTTTTCTTTAGCAAGTTTAGGTTTGACTC
TGTTCTATTGTCATATTCAAGGCCTGTTTGGTTGGAGATTTAATTTGCCACGCCTAAGGTAAGGTATCAGCCACACCTGT
GGCGCGCCGTAGAAGTGTGGCGAGCAAAACAAACGCCACACCTTTTGGCGAAAATCCTACTGGAGAAACAACTACGCACT
GTGGCAAGCCAAACATTAGTATAGAACCAAACGCATGCCTAGAAAGTTGTGGCTCGCCGCACCTTTGGCTTGGCAAGCTA
AGGCTGGAACCAAACAGCCCCAGTATTGTTTAGTAGTACTCCGGTCCGGTCCATAAGG----------------------
-------------------------------------------------------------AGTAATTGGCAGCAAGTCA
CATTTATCATTGGAAAATGTTTAAAATCGGCCGACCGGCAGAGACTGACGCCGGTCACCTCCATGTGTGTATCCTTTGTC
TCTTCAGCTTTACGCCA---------------------------------------------------------------
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>chr3A_109
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----------------------------CCCATGGGTGGTGATGCCAGACAGCTAGACTAGAGGATGGCTTTCCG----C
TCCGCATTCGTTCAGTTACTCAGTGTTTATCCACTTCTCCCGCATGTGTTCAATCAAGAACCTTCCATTTCTGAAACGAA
GAGCTGAAAAGAGAGGCTTTTTGCACATGGAAATGCCTGTTAGCAAAGTGGGCATGCTTTCAGGAACT--ACCCATTTCC
ATTTGTCCATTCAGGCATGGGAATGTCGTCCTTTCCTAATAGCAAGAACAAAATCTTGCTTAGAAAAAGCATGGATATGT
CTCTGAGTTGCGACCATGCCTGCATAGGAGTCGGTCATGGT------AGACAGGGTACCAGTTGAGCACCAAAGGTGTCG
GTTGACTCAGGTTTTCGGCCACTTGTTGGCGAGGGAACATGGCGCACAAATTTATTTCTCCCATTTTTTCTTTTTATATA
TTCCAAAAGGAAAAG-GTTTTCACCAGTACTCTTGTTTTGCTGCTTGCAGCACCTTTTCTCTCTG---------------
TCGCCACACTTTCACTTGGTTTCACCTGATGATGGTCAAATCTAGGGCCATGCATGATATGATAACAGCGAATCGCAGAC
TCATGTACTGAAAGCTTGACAGTATTGTACTTTTATCTGAACCTGGCTTCTCAATCAGTCACACCAAACCAAGCCAAAAA
GGATATCTCAGTTAGACATATCACGCTCTCTTTGGGCAAAGCGGCCTAAACAGATGCCTCGAGAATATTTGTTTGTTTAC
ACCTACACCGTGGGCAGGGGCAGGGTAATAATTTGTGCAAAATGAGGATGTACTACACAATTAACCAGAGTTCTGACCGT
GTATATTACATGACCGCAGGAAAGAAGGCA-ACCAATTCTCGAGACTTGAGATCGAGCTTGTCCACTATACCACAACAGT
AGCCGGCAATGGCTTCCTCTTTGCTCCACTGCTCCGACAAGCTCCCGTTCATGGACGTGGAGACCATCCTCCACATGAAA
GAAGGCCTCGACGAGAGCAGCTACGCGCAGAACTCCTCGCTCCAGAAGAGGGGCATGGACACCCTTAAGAGCCTCATCGT
CAACTCGGCGACGGACGTGTACATCTCCCAGATGCCGGAGAGGTTCACAGTGGCCGACCTCGGGTGCTCCTCGGGCCCCA
ACGCGCTCTGCCTGGTGGAGGACATCATCGGGGGCGTCGGCAAGGTCTGCTGCCGGTCGTCGCAGCCGCCGCCCGAGTTC
TCGGTGCTCCTCAACGACCTCCCCACCAACGACTTCAACACCATCTTCTTCAGCCTGCCGGAGTTCACCCACAGGCTCAA
GTCCGCCGCCAAGTCCGACGAGTGGGGCCGGCCGATGGTGTTCCTGTCCGGCGTGCCCGGGTCCTTCTACGGGAGGCTGT
TCCCGAGGACCAGCGTGCACTTCATCTGCTCCTGCTCCAGCCTGCACTGGCTCTCCCAGGTCCCGCCGGGCCTCTTCGAC
GAGGCCAAGGCACCGATCAACAAGGGCAAAATGTACATATCGAGCACGAGCCCGCCCGCCGTGTCCGTGGCCTACCGGAG
GCAGTTCCAGAGGGACTTCAGCCTGTTCCTCAAGTCGCGCGCCGCCGAGGTCTTCCCCGGCGGGCGGATGGTGCTGGCCA
TGCTCGGCAGGCAGAGCGACGAGTGCGTGGACAGGAGGACGACCTTCCTGTGGGAGCTCCTCTCGGAGTCCTTCGCGGCG
CTCGTGTCGCAGGGGCTGGTGGAGCAGGACAAGGTGGACGCGTACAACGTGCCGTTCTACGCGCCGTCGCTGCAGGAGAT
GGAGGTGGAGGTGCGGCTGGAGGGGTCCTTCAGCCTCGACTACGTGCAGACGTACGAGATCAACCTGAGCAGCAGCGGCG
ACGCCAAGGAGGACGGCAGGACGGTGTCCATGGCGATCAGGGCCATCCAGGAGTCCATGCTCAGCCACCACTTCGGCCCG
GACATCGTCGACGCGCTCTTCCACAAGTACACGCAGCTGGTCACCGAGTCCATGGAGAGGGAAGAGGTCAAGAGTGTCCA
GATAGGGGTAGTCCTCACCAGGTTGTGACTCGAGTCTGTCTACTGACTGTATTTTTCTTTAGCAAGTTTAGGTTTGACTC
TGTTCTATTGTCATATTC--------------------------------------------------------------
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---------------------AGTATTGTTTAGTA---------------------------------------------
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>SNPs
--------S-S--------------------------------------------------S----S-S-SSS-------
SS------S-------S------------------------S-----------------------------SS-SSSSS-
-----S--------S----------------------------S------------------------------------
------------------------------------S-------------------------------------------
--------------------------S-------------S--------------------------S------------
--------------------------------SSS--S--S--------------S------------------------
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------------------------------------------------------------------SS------------
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---------S----------------------------------------------------------------------
-------------S----------------S-----------------S-------------------------------
--------------------------------------S------S----------------------------------
------SSSSSSSS-SSSSS-S-S--SSSSS--S------S--S--------SSSS------------------------
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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
S-------------------------------S-----------------------------------------------
--------------------------------------S-----------------------------------------
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---------------------S-------------S-S-SS-S--SSSS-SSSSS-S-SSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------
----------S---------------------S-----S--S---------------------------S---S------
-----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSS
>forward_72
----------------------------------------------------AATGGGTGGCGTGCATATCA--------
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>reverse_1210
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---------AACGGACGTGTACATCTCCC---------------------------------------------------
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>forward_1137
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-----------------------------------------------------------------------------AAA
GAAGGCCTGGACGAGAC---------------------------------------------------------------
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>reverse_2941
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------------------------------------------------------------AGGTGCTAAGCATGCCACAT
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