>input_sequence_58579
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---------------------------------------------------------------------------ATGCT
CCCCGTGCTCATCGCCGGTGCCTCTGCGCCGCCGCGTCCCTTCTCCCCCAGGCGCCGCCGCGAGCTACCCATCCGGCTGT
CCTCGTCCAAACCTCCCCGTGCCCTGCAGAACAGCGAGGGCGGCAGTAGGCCCCTGGGGCGCGCCTGGCCGGCCGTCTCC
GCTGCCCTCTTCGGCTCGGGGTTCCTCCTAGGGCCGCTCCTGGACGGCATCCACTCCCGCGTCGGCCTCCAGGTGTACGG
AAACGGCGCCCTCGACCTGGGCCCCCTCCACACCCACATCCTGGTAAACGGCGGCG----TGTCCAGTGCATGTGCATCG
ACCCTTTCCCTCAGCGCAGATCTGATCAGGTGTTGTTTGCTCGTGCCGCGCCGGCGCAGGTGCCGCCCCTGCTCGGAGCG
TTCTACTGCACCGTGGGGCTGCTCCGGCTGTTCCTGGACGAGAGGGCGGCCCCCAGGTCCAAGGCCACCGGGAGCCCGCG
CGACACGGCGACGTCGCTCATGTAAATGCCCCCGTCCCGCCGCTGCAGCGTGTGCGTCTCT------------------T
GAC-------TCGTGGCTCCTGTGATCCGCAGAGTCCTCGCCCTGTTCATCGAGCTGAGCGCGGAGATGTACAGAGCGGG
GGTGCCGAGCAACGTGGAGGCGTACGTGCTGTTGGCCGTGGCGGAGTTCGTGTGGCTCTTCCTCGACAGCTCCTGGCTCG
GCTTCGCCCTGGCCTGCCTCGTCGGCGTCGCCTGCCCTCTCGCCGAGGTCCCGCTCGTCAGGTAACAGCACCGCCACTCC
ACTCCACTCTGTGCAATTTTAAGCCTTCTAGCCGCACTCTAAGCCTTTGTTATCGTA---------CTACAAACATCGAT
CGCTAACTGCTGCTGCTGCTGGTT---GCAGATTGCTCGAGTGCTGGAGCTATCCCAATGCCGACGTCCAGCTGTTTGGC
ACCGTAAGTAGCAACATCCACTGTCATCTTTTACTAGTTACTCCCATTAGTGATCTAAACGCTCTTATATTTCTTTACGG
AGGAAGTACTAGATTCATCTTGCGTACTAGATCAT-------------CTGTTGGTTGATGGCAGGGGCTGATGAGCTGG
ACGACGACGTGCTACTTCGTGTACACGCCTTTCCTGGCGAATCTGGCGAGATTGCTCAAGTCGCGGCTGGCGGACGATAA
CACGGAGGGGAAGGAAGAATGA----------------------------------------------------------
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>chr3B_1_TraesCS3B01G202300
AACACATCTCTCCTTCTCTCCCAAATGAGCCAAAGTTCATGGAGGCGCACGGTCATGAAGGAGGCCGCAAACGGTGTCAG
GGGGAGGCTACGACCGGCCATGAAATGGTGAGCATGATGGCCGCA-GACGGCGAGGATGGGGCAACACTGCTCCAAGAAA
AAAACCGATGTCGCAGTTTTTGCTACACGCTTCAAAAGGCGTCGG---TTGCTACAAATGGCATCGCATGCTGCTACAAC
CGGCGTCACGTTTTACTGCAATGCACAATCGCCGTCGCATTTTTGCTACAACCGATGTCGCTTTTTGCTATAACCGTTTT
CATTTTTTGCTACATCTATTCACGGCTGAGCTATGACCCGCGATGACGGCAATGACTTTTTTGCTGCAACTATAGTAGAT
TGTTGCTACGTCCGACAACAAATTTTGCTACATCCATTCATTTAGACACAAAAATGCTGCGACCTACAATGGCGAGCTAC
AACCGGCGGTGGCGATGATGACTTCTTTTGTGCTGCAACCGTTGTCTATGTTTGCTACA--ACCGACAACGAAATTTGCT
ACCAGGCAAGGCGAACGTGTTTTGAGACCATCCAAGGTATGTTCCGCAGTGGCGTTGAAAAACGGCAAGCGCGGGCGAGC
GTAGGTGGACGAGTCGAGCACGGGCGGCGC-GGGGTGGCCAGCAAGCGCGCCGAGCACAGGTGGCCGAGGCGAGCATGGG
CGGCGCGGGGTAGCCGGCAAGCGCGGCCGAGCGCTGGGCGGCCAAGTTCGAGCATGAGGCGGCTGACGCGCGGAGATCTT
CGTTTTTTCTGTTTTCGCGCGCGTGCCG------------------GCCGCGGCCATCTCGGCCGTTGATGCGCGCAGAA
TCAGACGCTTGGCAGCCGACGGCGGAAAGTTGGGCCGGCCGGCCGGGGCCTATCATCGCCCTTTTTTTCGGGGGAA----
------AATGTGGGCTTGCAGTCGCCACTTGTGGTCCTGCACTCCTGCTCTGCCCCAGCCCGCAGGATAAGAAACATGCT
CCCCGTGCTCATCGCCGGTGCCTCTGCGCCGCCGCGTCCCTTCTCCCCCAGGCGCCGCCGCGAGCTACCCATCCGGCTGT
CCTCGTCCAAACCTCCCCGTGCCCTGCAGAACAGCGAGGGCGGCAGTAGGCCCCTGGGGCGCGCCTGGCCGGCCGTCTCC
GCTGCCCTCTTCGGCTCGGGGTTCCTCCTAGGGCCGCTCCTGGACGGCATCCACTCCCGCGTCGGCCTCCAGGTGTACGG
AAACGGCGCCCTCGACCTGGGCCCCCTCCACACCCACATCCTGGTAAACGGCGGCG----TGTCCAGTGCATGTGCATCG
ACCCTTTCCCTCAGCGCAGATCTGATCAGGTGTTGTTTGCTCGTGCCGCGCCGGCGCAGGTGCCGCCCCTGCTCGGAGCG
TTCTACTGCACCGTGGGGCTGCTCCGGCTGTTCCTGGACGAGAGGGCGGCCCCCAGGTCCAAGGCCACCGGGAGCCCGCG
CGACACGGCGACGTCGCTCATGTAAATGCCCCCGTCCCGCCGCTGCAGCGTGTGCGTCTCT------------------T
GAC-------TCGTGGCTCCTGTGATCCGCAGAGTCCTCGCCCTGTTCATCGAGCTGAGCGCGGAGATGTACAGAGCGGG
GGTGCCGAGCAACGTGGAGGCGTACGTGCTGTTGGCCGTGGCGGAGTTCGTGTGGCTCTTCCTCGACAGCTCCTGGCTCG
GCTTCGCCCTGGCCTGCCTCGTCGGCGTCGCCTGCCCTCTCGCCGAGGTCCCGCTCGTCAGGTAACAGCACCGCCACTCC
ACTCCACTCTGTGCAATTTTAAGCCTTCTAGCCGCACTCTAAGCCTTTGTTATCGTA---------CTACAAACATCGAT
CGCTAACTGCTGCTGCTGCTGGTT---GCAGATTGCTCGAGTGCTGGAGCTATCCCAATGCCGACGTCCAGCTGTTTGGC
ACCGTAAGTAGCAACATCCACTGTCATCTTTTACTAGTTACTCCCATTAGTGATCTAAACGCTCTTATATTTCTTTACGG
AGGAAGTACTAGATTCATCTTGCGTACTAGATCAT-------------CTGTTGGTTGATGGCAGGGGCTGATGAGCTGG
ACGACGACGTGCTACTTCGTGTACACGCCTTTCCTGGCGAATCTGGCGAGATTGCTCAAGTCGCGGCTGGCGGACGATAA
CACGGAGGGGAAGGAAGAATGAAGCGGCTCGCCCGTGAGTTTTGGGGGAGCCCTCCTATGAAGCCAGCGCATGGTCAAAC
GGGTAGCGCAAGGAAAGCTGGAGGCTCAAGAGCCATTTGGGATCGATTCAGATTTTAGGGTCGGATCAAGATCGTCTGAG
CTGAGTATTATTGTCTTATGTA------CCGAAAATGAGCTGATCTTGAGCCAATA------------------------
-------CGATACTATATTTTAGCTCCAATGCTCGCCAAAGCATAAATATGCACTATAATGATCCTGCTCGTTTAGCATT
TTTTAATTGAAGAAAATAGC-AAAAAATCA-AATAATTCTGAAACATTATTGTAGCGCACGTGGTCAAGCTTTCTATGCA
CGCATGAAGTTTCATAAAAAAAAATTGACTTTTTGTTTTTTGGACAATATGCACAAAATTGCAATTTAAAAAAACTTCAA
CAGTAACTTTTATATAGAGCCAATTTTATTTTTTCTATTCGCATAGAAGACCACAGGAGTTATTCCTTCATGAAACTTT-
-ACGCGAGTATAACACTAGACCATGCTTGTTACAAAAAACGGTTTCAAAATTGTTCAACTTTTTTGCTATATTTA-AAAA
AAATCAATATGGATGCCGGTAGACCCAGGTGGGTATTTATTAGTGTATTATCCTATA--TGCTGTGTAGGTATTTTTCTC
CCCCTTTTTATCCCCAAGCAAATACGAAAAGTTAGTCAACTACTGAGTAAATTTAGGCATTAATATGGTACGTGGCCAGG
CCCTATGCTAACTATCATGTTGTCGGCTCAAAGAAAAAAGA---ATGTTATTGTTGTCTATCTAGTTGAAAAAGTTTTGT
GCACAAACAAAACCCTGGCAACTTGAGTAAATTTTAGCCAACCTATACAGCAAACACGTCTGGCCAAACTATACAGCGAA
CACGTCTATATCATCATACAGACGTTGGTGTATAAATCTCATAACATGCCGAAATTTGTACAGCAAACGCTTTGCAGACA
AAGCCCTTGCTATTTGATGTAAAACTGGT
>chr3D_1
AACACATATCTC---CTCTCCCAAATGAGCCACAGTTCATGCAGGCGCACGGTCCGAAAGGAGGCCGCAACAGGTGTCAA
GGGGAGGTTGCGACGGACCATGAAATGGCGAGCATGGTGACCGCAGGACGGCGAGGATGGGGCAACACTGCT--------
----------------TTTTTGCTACATGCTTCAAAAGGCGTCGGAATTTGCTACAAATGGCATCGCATGCTGCTACAAC
CCGCGTCACGTTTTGCTGCAATGCACAATCGCTGTTGCGTTTTTTCTACAATCGATGTCGCTTTTTGCTATAACCGTTTT
CATTTTTTGCTACATCCATTCACAGCTGAGCTACAACCCGCGACGACAGTAATGATTTTTTTGCCGCAACTGTAGTAGAT
TATTGCTACGGCCGGCAACAATTTTTGCTACATCCATTCATTTAGACGCAAAAATGCTGCGACCTACAACGACGAGCTAC
GACCGGCGGCGACGATGACGACTTTTTTTGTGTTGCAACC-TTGTTTATGTTTGCTATACGACTGACAACGAAATTTGCT
ACCAGGGAAGGCGAACATGTTTTGCGACTATCCAAGGTATGTTCCGCATTGGCGCGGTG--------AGCGCGCCCGAGC
TTAGGTGGACGAGGTGAGCACGGGCGGCGCGGGGGTGGCCGGCAAGCGTGCCGAGCACAGGTGGCCGGGGCGAGCATGGG
CGGCGCGGGGTAGCCGGCAAGCGCGGCCGAGCGCTGGGCGGCCAAGCTCGAGCATGAGGCGGCTGACGCGCGGAGATCCT
TGTTTTTTCTGTTTTCGCGCGCGTGCCGAAGGAGGAAGACGACCTGGCCGCGGCCATCTCGGCCGTTGATGCGCGCAGAA
TCAGACGCTTGGCAGCCGACGGCCAAAAGTTGGACCGGCCGGCCGGTGCCTACCATCGCCCTTTTTTTTGGCTTCCTATG
GGGGAAAAGGTGGGCTTGCAGTCGCCATTTGTGGTCCTGCACTCCTGTTCTGCCACAGCCCGCAGGATAAGAAACATGCT
CCCCGTGCTCATCGCCGGTGCCTCTGCGCCGCCGCGTCCCTTCTCCCCCTGGCGCCGCCGCGAGCTACCCATCCGGCTGT
CCTCGTCCAAACCTCTCCGTGCCCTGCAGAACAGCGAGGGCGGTAGTAGGCCCCTAGGGCGCGCCTGGCCGGCCGTCTCC
GCTGCCCTCTTCGGCTCGGGGTTCCTCCTCGGGCCGCTCCTGGACGGCATCCACTCCCGCGTCGGCCTCCAGGTGTACGG
AAACGGCGCCCTCGACCTGGGCCCCCTCCACACCCACATCCTGGTAAACGGCGGCGTGCGTGTCCA------GTGCGTCG
ACCCTTTCCCTCAACGATGATCTGATCGGGTGTTGTTTGCTCGTGCCGCGCCGGCGCAGGTGCCGCCCCTGCTCGGAGCG
TTCTACTGCACCGTGGGGCTGCTCCAGCTCTTCCTGGACGAGAGGGCGCCCCCCAGGTCCAAGGCCACCGGCAGCCCCCG
CGACACGGCGACGTCGCTAATGTAACGTC------CCCGCCGCTGCCGCCGGCGCGTCCATGTTCAGCGTGGCGCCTTCT
GAC-------TCGTGGCTGCTGTGGTCCGCAGAGTCCTCACCATGTTCATCGAGCTGAGCGCGGAGATGTACAGAGCGGG
GGTGCCGAGCAACGCGGAGGCGTACGTGCTGTTCGCCGTGGCGGAGTTCGTGTGGCTCTTCCTCGACAGCTCCTGGCTCG
GCTTCGCCCTGGCCTGCCTCGTCGGCGTCGCCTGCCCTCTCGCCGAGGTCCCGCTCGTCAGGTAACAGCGCCGCCACTCC
ACTC-----TGTACAATTTTCACCCAGATCATTACTCGGCTCATCCTTCAATCCCACTCTCTAAGCCTGCAAACATCGAT
CGCTGCTGC--------------TGCTGCAGATTGCTCGAATGCTGGAGCTATCCCAATGCCGACGTCCAGCTGTTTGGC
ACCGTAAGTAGCAACATCCACTGTCATCTTTTACTAGTTAC---------------------------------------
---------TACATTCATCTCGCCTACTAGATCATCTGTC-GCGAGAGCTCTTGGTTGATGGCAGGGGCTGATGAGCTGG
ACGACGACATGCTACTTCGTGTACACGCCTTTCCTGGCGAATCTGGCGAGATTGCTCAAGTCGCGGCTGGCGGACGATAA
CACGGAGGGAAAGGAAGAATGAAGCGGCTCGCCTATGAGTTTTGGGGGAGCCCTCCTATGGAGCCAGCGCATGGAAACAG
CTC-----------------GAGGCTCAAGAGCCATTTGGGATCGATTCAGATTTTAGGGCCGGATCAAGATCGACTGAG
CTGAGTATTATTGTCTTATGTAGCTTGATCCG--ACGAGCTGATCTTGAGCCAATA------------------------
-------C-----TATATTTTAGCTCCACTGCTCGCCATAGCATACATATGCACTATAATGATCCTACTCGCTT-GCATT
TTTTAATTTAAAAAATAGCAAAAAGAATCA-AATAATTCAGAAACATTTTTGTAGTGCACGTGGTCAAGCGTTCTATGCA
CGTATGAAGTTTCATAAAGAAATGACTTTCTGTT-TTTTTTGGACAATATGCACAAAATTGCAATTTCAAAAAACGTCAA
TAGTAACTTCCATATAGAGCCAATTTTGTTCTTTT--TTCGCATAGAAGACCACAGGAGTCATTCCTTCGCGAAGCTTTA
CACGTGAGTATAACGCTAGACCATGCCTGTTACAAAAAA-GGTTTCAAAATTGTTTCACTTTTTTGCTATAATTTTAAAA
AAATCAATATTGATGCCCCTAGACCCAGGTGGGTATTTATTAATGTACTATCCTATA--TGCTGTGTAGGTATTTTTCTC
TCCCTTTTTATCCCCAAGCAAATACCAAAAGTTAGTCAACTATTGAGTAAATTTGGGCATTAATATGGTACGTGGCCAGG
CCCTATGCTAACCATCATGTTGTCGGCTCAAAGAAAAAAAAATCATGTTATTGTTGTCTATCTAGTTGAAAAAGTTTTGT
GCACAAACAAAACCCTGGCAACTTGAGTAGATTT-AGCCAACCTATACAGCGAACACGTCTGGCCAAACTATACAGCGAA
CACGTCTATATCGTCATAAAGACGTTGGTGTATAAATCTCATAACATGCCGAAATTTGTACAGCAAACGCTTTGTAGACA
AAGCCCTTGCTATTTGATGTAAA------
>chr3A_926
GGGG----------------------------------------------------------------------------
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-----AAAGGTGGGCTTGCAGTCGCCACTTGTGGTCCTGCACTCCTGCTCTGCCACAGCCCGCAGGATAAGAAACATGCT
CCCCGTGCTCATCGCTGGTGCCTCTGCGCCGCCGCGTCCCTTCTCCCCCTGGCGCCGGCGCGAGCTACCCATCCGGCTGT
CCTCGTCCAAACCTCCCCGTGCCCTGCAGAACCGCGAGGGCGGTAGTAGGCCCCTGGGGCGCGCCTGGCCGGCCGTCTCC
GCTGCCCTCTTCGGCGCGGGGTTCCTCCTCGGGCCGCTCCTGGACGGCATCCACTCCCGCGTCGGCCTCCAGGTGTACGG
AAACGGCGCCCTCGACCTGGGCCCCCTCCACACTCACATCCTGGTAAACGGCGGCG----TGTCCG------GTGCGTCG
ACCCTTCCCCTCAGCGCTGATCTGATCGGGTGTTGTTTGCTCGTGCCGCGCCGGCGCAGGTGCCGCCCCTGCTCGGAGCG
TTCTACTGCACCGTGGGGCTGCTCCAGCTCTTCCTGGACGAGAGGGCGCCCCCGAGATCCAAGGCCACCGGCAGCCCGCG
CGACACGGCGACGTCGCTCATGTAAATGTCCCCGTGCCGCCGCCGCCGCCG-CGCGTCCATCGTCAGGCGTCAGCGCGTG
CGTTCTGACTTCGTGGCTGCTGTGGTCCGCAGAGTCCTCGCCCTGTTCATCGAGCTGAGCGCGGAGATGTACAGAGCGGG
GGTGCCGAGCAACGTGGAGGCGTACGTGCTGTTCGCCGTGGCGGAGTTCGTGTGGCTCTTCCTCGACAGCTCCTGGCTCG
GCTTCGCCCTGGCCTGCCTCGTCGGCGTCGCCTGCCCTCTCGCCGAGGTCCCGCTCGTCAGGTAACAGCACCGCCACTCC
ACTC-----TGTAAAATTTTCACCCAAATCATTACTCGGCTCATCCTTCTAGTC-----------CCTACAAACATCGAT
CGCTGCTGC--------------T---GCAGATTGCTCGAGTGCTGGAGCTATCCCAATGCCGACGTCCAGCTGTTTGGC
ACCGTAAGTAGCAACATCCACTGTCATATT--------------------------------------------------
-------------TTCATCTGGCCTACTAGATCATCTGATGGCGAGAGCTGTTGGTTGATGGCAGGGGCTGATGAGCTGG
ACGACGACGTGCTACTTCGTGTACACGCCTTTCCTGGCGAATCTGGCGAGATTGCTCAAGTCGCGGCTAGCGGACGATAA
AACGGAGGGGAAGGAAGAATGAAGCGGCTCGCCTATGAGTTTCGGGGGAGCCCTCCTATGGAGCCAGCGCATGGTCAAAC
GGGTAGCGCAAGAAAAGCT-GAGGCTCAAGAGCCATTTGGGATCGATTCAGACTTTAGGGTCGGATCAAGATCGACTGAG
CTGAGTATTATTGTCTTATGTAGCTTATCCAAAAACGAGCTGATCTTGAGCCAATGCTATTTTATTTTATTTTGACGGGA
GCCAATGC-----TATACTTTAGCCCCACTGCTCGCCATAGCATAAATATGCACTATAATGATCCTACTCCTTTAGCATT
TTTAAATTTAAGAAAATAAC-AAAAATAATCAATAATTCTAAAACATTTTTGGAGCGCACGTTGTCAAGCGTTCTATGCA
TGTATCAAGTTT-ATAAAGAAATGACTTTCTGTT-TTTTTGGACGATATATATAT-------------------------
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------ATATGGATGCCCGTAGACCCAGGTGGGTATTTATTAATGTATTATCCTATATGTGCTGTGTAGGTATTTTTCTC
TCCTTTTTTATCCCCAAGCAAATACAAAAAGTTAGTCAACTATTCAGTAAATTTAGGCATTAATATGGTACGTGGTCAGG
CCCTATGCTAACTATCATGTTGTCAGCTCAAAG---AAAAAATCATGTTATTGTTGTCTATCTAGTTGAAAAGGTTTTGT
GCAAAAACAAAACCCTGGCAACTTGAGTAAATTT-AGCCAACCTATACAGCGAACACGTCTGGCCAAACTATAAAGCGAA
CACGTCTATATCATCATACAGAGGTTGGTGTATAAATCTCATAACATGCCAAAATTTGTACAGCAAACGCTTTGCAGACA
AAGCCCTTGCTATTTGATGTAAA------
>SNPs
-------S----SSS-----------------S--------S------------SSS-------------SS-------S
-------S-S----S-S-----------S-------S--S--------------------------------SSSSSSSS
SSSSSSSSSSSSSSSS-----------S----------------------------------------------------
-S------------S-----------------S--S--S-----S------S----------------------------
----------------S------S---------SS--------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-----SS-SSSSSSSSSS------SS-----
S------------SS-------------------------S-------S------------------S------------
----------------------------------------------S-------------------------------S-
S-------------------------------------------------------------------------------
-----------------------SS--------S------------S-----S---------------S--SSSSS----
--------S---------------------------------------------S-------------------------
-------------------------------------------------S------------------------------
-------------------------------------------S------------------------------------
-----------------------------S--------------------------------------------------
------------------------------------------------------------------SSSSSS----S---
-----------------S---------S----------------------------------------------------
-------------------------S---S------------------S----------------------S--------
----------------------------------------------S--SS-S-----SS--------------------
------------------S-----S-------------------------------------------------------
---------------------------------S----------------------------------------------
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----SSSSS---S-------S-S--SSS-SSSSS-S-SSSSSSS-S--S-SS--SSS-----------------------
----SSSSSSSSSSSSSSSSSSS---------------------------------------------------------
-----------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSS--S--------S--S--------------------------------------------------------
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---------------------------------SS-------------------------S-------------------
------------S------S------------------------------------------------------S-----
------------------------------S----S--------------------------------------------
--------SSSSS---------------S---------S---------------------------S-------------
--------S---------S-----------------------------S---------------------S---------
--S---------------S---SSSSSSSS-S--S--------------------------------S-------S----
S--------SS----------------S--S---SSS-----------------------S--------SS---S-----
----S---------S-----------S------------S---------------SS--------------S--S-----
-----------------S------------------------S-------------------------------------
S------------------------S----------------S-------------------------------------
---------------------------------------S----------------------------------------
----------------------------------S----------------S----------------------------
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-----------------------SSSSSS
>forward_589
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---------GGCGAACGTGTTTTGAGACC---------------------------------------------------
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>reverse_1867
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--------------------------TCTAGCCGCACTCTAAGCCT----------------------------------
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>forward_1853
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-------------------------------------------------------------------------CCACTCC
ACTCCACTCTGTG-------------------------------------------------------------------
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>reverse_2961
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CCCCTTTTTATCCCCAAGCA------------------------------------------------------------
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