>input_sequence_65571
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-------------------------------------------------------ACCACCACGATCACTGTG----TCC
GCCACCTTGGCCCATTTTGAATGTGACAAAGAGAGGGAAACCAAGCCCAAGCCAAGAACCCGGCCGGCCATGCCGAGGTC
TTCTTCCTCCCCGTCCTCCTGCTCCGCGCCCCGCATCCTCGGCAGGGCCATGGCCATCCTCTCCCTGCCGCTCACGCCGC
TCTCCAAGGCCAGGGCGGCGCGGACCCTGCTCCTCTTCAAGAAGCGCCGCGCGCGCCGCCTGCGCCACTACAACTACGCC
TACGTGGGCGAGTACCAGTTCTCCCCGTCCGGCTCCCCGCTGCTCCTGCCCCGCCCGCCCGGCGTCTCCGCGTGGCGCGC
CAAGCGCAGGAGCCGGGCCAGGACGGTCCTCGCCGCGCTGCTCTGCGGCGGCGGGTGCGGCCTCGGCGTCT---------
TCGACGGGGACGGCGGGATCGACGTCGCTGTGCTCGACGGCCTGCTTCCCCTGCCTCGGGCTCTGCAGGA---CGACGAA
CGGGCCGGTGAGGACGCCGCGTCGTACGGGTACGGCGAGC---AAGCGTACCACGGCGAGGAGGAGGAGGAGGAGGATGA
GGAAGTGGAGGTGGAGTGCGAGGGCGGGGGGGACGAGGAGGTGGACGGCCGGGCGGAGCGGTTCATCGAGAGGTTCTACG
AGGAGATGAGGATGCAGCAGAGGCGCCTCCTCTAGCTCTATGCCG----GCCGGATCCATGGACGACTCTGTCTG-TCTG
CATTTCGCCTTCGTTTCTTGGTCT----TGGCAGAATTGTCGCTAGCTATCTTGGCTGCAGTTCCTTCGGTTACAGTGTG
TTTGCTCTTGGTTCCTCTCGCACAGTGTTGCTGTTCAAGTAGTACGTATCATGTTCACTCATGTGTCTGAATTTACCCAA
AATTCCTTGTTGTTGACTTTGTTGTGGTGCTGATAAA-------------------------------------------
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>chr3D_1_TraesCS3D01G043700
AACCACAACCACCCGAGGGACTGGAGTGAATGCGGATCCAGCGACTGAATTCAGCCGGCGAGGAACGAACGTACGGCCAG
GCTGCCGAAGCAGCAGTACACGTACGTGCGTGCTCGGATCTGAAGATAAATTTCGTATGCCAGGTCCGGTCAGGTGGCCA
AGGCGTCAGTCAGTCACTCTGTGTGTGCGCGCGCGAGCGTGGCCAGAAAGTCGGGGACGGTGGCCGTGACGCGAGCGGCA
TGGGGATGGGGTTCACTTTGAGGCTCCAGAGGCGCCAACGGCAACGGCTAGCTCGGTTCGAAAAGGGG------------
------------CCAGCTCAGAGCCACCGGCCTGGGTAGGCACGGCGCGGAGACGCTTTCCAGGCTGCGACCCCACGAGT
CCACC----------ACCAGCACGAGAGCCCGACCGACTCCGCTCCATCTCCT-----TCCTGGAGCGCGCCGTTGCCCA
----ACCATGCGCGCGTAATCTGCTCTCGAGTCTTGAGCCCCACGATCCGAATCAAGCTGGTGCAATCAC------GCAC
GCATTAG--------TTCATCACCGTAACCCTAAACC------GTATGCAAAACACGGAACGGGTCGCCGTTTCTCCCTT
GCTAACACGGACGCCAAAGAAAAAAGCTACTGTAC-----GCGGTATACGACCCCGGCCATGATGGTCGCCGGAGAAAAT
----------TACACATTTACACTGCCGACTGGCTGTACTCCACAAGCCCATACTATCCTACTGTCTTCGCATTAAGATA
TCCCACTGATCCGAGTGAGTGA-TGATCCATCACGAGGCCTGCGTGCGTACTCCTACGTGCGTACGCCAGGAAGCCAGAG
AGATCTCGTCAGGCAG---TAATGAGTGCGCAGATTTCGATTTCGTCGCAGCAGCCCCGAGATGC--------AAACCGT
AAAGGCGCTTTAAGACGCAACGCAAAGCTTTCCTCTACGTACGCACGCACGATCGTC---TCGGGCGAACGGCTAGCCCG
ACGAGCTCGACCACGAGCCCATAAAACCACCCCACCTGCGGC--CAGCAACCACCACCACCACGATCACTGTG----TCC
GCCACCTTGGCCCATTTTGAATGTGACAAAGAGAGGGAAACCAAGCCCAAGCCAAGAACCCGGCCGGCCATGCCGAGGTC
TTCTTCCTCCCCGTCCTCCTGCTCCGCGCCCCGCATCCTCGGCAGGGCCATGGCCATCCTCTCCCTGCCGCTCACGCCGC
TCTCCAAGGCCAGGGCGGCGCGGACCCTGCTCCTCTTCAAGAAGCGCCGCGCGCGCCGCCTGCGCCACTACAACTACGCC
TACGTGGGCGAGTACCAGTTCTCCCCGTCCGGCTCCCCGCTGCTCCTGCCCCGCCCGCCCGGCGTCTCCGCGTGGCGCGC
CAAGCGCAGGAGCCGGGCCAGGACGGTCCTCGCCGCGCTGCTCTGCGGCGGCGGGTGCGGCCTCGGCGTCT---------
TCGACGGGGACGGCGGGATCGACGTCGCTGTGCTCGACGGCCTGCTTCCCCTGCCTCGGGCTCTGCAGGA---CGACGAA
CGGGCCGGTGAGGACGCCGCGTCGTACGGGTACGGCGAGC---AAGCGTACCACGGCGAGGAGGAGGAGGAGGAGGATGA
GGAAGTGGAGGTGGAGTGCGAGGGCGGGGGGGACGAGGAGGTGGACGGCCGGGCGGAGCGGTTCATCGAGAGGTTCTACG
AGGAGATGAGGATGCAGCAGAGGCGCCTCCTCTAGCTCTATGCCG----GCCGGATCCATGGACGACTCTGTCTG-TCTG
CATTTCGCCTTCGTTTCTTGGTCT----TGGCAGAATTGTCGCTAGCTATCTTGGCTGCAGTTCCTTCGGTTACAGTGTG
TTTGCTCTTGGTTCCTCTCGCACAGTGTTGCTGTTCAAGTAGTACGTATCATGTTCACTCATGTGTCTGAATTTACCCAA
AATTCCTTGTTGTTGACTTTGTTGTGGTGCTGATAAACGTTCTCCGAGTTCAAATCTGTATTTTGTGCTACT-------A
TTCTTCAGTCATGCCAGTGCGGCACGCGTT-----ACAGATTCATGATCTCCGTTCGAGTTCAGTTGTCTATATCCATTT
AAATTTAAATTTAAAAATCAGAAGAACCGAAGGA------------------------GAGCAAATCATGGGAAAGTTGG
CCGTATACAA--TGTGATAAGAGCGTTTCTCTCAAGGCGCGGTTGCCGTATCTCCCTTTGTTAAAAC---AA-----AGT
GCATCGAGGAGCGCTTTTCCGGATGCAGAGAATGCTCG-----GCTCTGCTCTGCTCTGCTTCGAGAACCGGCGCCGTTT
TGT--TCTCTGATCCTTGCCTGTTTCCTGCCGAGTTATTATACTTCAA-CAACTCGAGCAAGTCCAGGAAAATGCAGCAT
TGAAAATTCCACCATGCTCGCAAGGTGGGAGCTCGTTCACGGATCACAACGGCATGATGCCGGAAAGGTT-AAAGCGCTT
GAGACAAAGGTGTTCTCGTTTTTCAGAGGGATTTGCAAGGTCCGCAAGATAGATCTAGCACAAAAGGGAAGCA-------
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----------GAAAGATGTTTGAGCGCATGATGTACGTGCCAGATTTGGTGATATTTGAACATTCGAGGAGCTCGTGACA
GAAAAAACAAATTCGTGTCA---AGAAATATTTGAAAAACAATACTTCACAGTTCATGCCTGGATTTGTCTTTTTTACCG
TGCGCTCTTGGAATGGCCAAACATCACCAAATTTTGCACAAACATCACGCACATGCACATC--GCTTGCAAAATAAATTC
AGAATTTTTCTATTTTTAATCGCGTTACTGTTCACCAGGCTCATCTGAACACGGATATCAAATTGGATATTCATAGCAAA
AGGTACATATC-----AATATCAATATGATGCAGAGGCCGGGGGT-TTAACCTTCTTCCCCAAAAGAAAAG---------
----ATCCACCTTGATTTCTTCCATCATCGCTACACAAA-GGCAAAATGGCCTTGGACAACATACACAGGAGCTCCGGCA
AAAATTGCTGAAGA
>chr3B_201
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----------------------------------------GGCCAGAAAGTTGGGGATGGTGGCCGTGACGCGAGCGGCA
TGGGGCTA-GGTTCGCTTTGGGACCCGAGAGGCGCCAACGGCAACGGCTAGCTCGGTTCGAAAAGGGG--------TCGG
TCGGACGGCCGGCCAGCTCAGAGCCACCGGCCTGGGCACGGCGGAGTAG--GACGCTTTCCAGGCTGCGACCCCACGAGC
ACCACCACGCCCACGACCACCACGAGAGCCCGACCGCCTCCGCTCCATCTCCTGACTCTCCCGGAGCGCGCCGTTGCCCA
CCCAACCAAGCGCGCGTAATCCGCC-------CTTGAACCCCACGACCGGAATTAAGCTGGTGCAATCACACGCACGCAC
GCATTACTAGTTCATTTCATCACCGTAACCCTAACCC------GTATGCAA-GCACGGAACGGGGAC-------------
------------------GAAAAAGGCTAC----------GCGGTATACGACCCCGGCCGTGATGGTCGCCCGGGAAAAT
CACACGCACGTACACATTTACACTGCCG-----CTGTACTCCACAAGACCA---TATCCTACTGTCTTCGCATTAAGAT-
-CCCACTGATCCAT------------------------------------------CGTGCGTACGCCAAGAAATCAGAG
AGATGTCGTCAGGCAATACTAATGAGCGTGCAGATTTCGATTTCGTCGCA---ACCCCGAGATGC--------AAACTGT
AAAGGCGCTTTAAGACGCGACGCAAAGCTTTCCTGTACGCACGCACGCACGCACGCACGATCGGACGAACGGCTAGCCCG
AGCC---CGACCACGAGCCCATAAAACCACCCCACCTGCACAGGCAGCAACCATCGCCACCACCATCACTGTGCGTATCC
GCCACCTTGGCCCGTTTTGAATGTGACAAAGAGAGGGAAA------CCAAGCCAAGAACCCGGCCGGCCATGCCGAGGTC
C---TC---------------CTCCGCGCCCCGCATCCTCGGCAGGGCCATGGCCATCCTCTCCCTGCCGCTCACCCCGC
TCTCCAAGGCCAGGGCGGCGCGGACCCTGCTCCTCTTCAAGAAGCGCCGCGCGCGCCGCCTGCGCCACTACAACTACGCC
TACGTCGGCGAGTACCAGTTCTCGCCCTCCGGCTCCCCGCTGCTCCTGCCCCGCCCGCCCGGCGTCTCCGCGTGGCGCGC
CAAGCGGAGGAGCCGGGCCAGGACGGTCCTCGCCGCGCTCCTCTGCGGCGGCGGGTGCGGC---------T---------
TCGACGGCGACGGCGGGATCGACGTCGCCGTGCTCGACGGGCTGCTGCCCCTGCCTCGGGCTCTGCAGGA---CGAG---
CGGTCGGTTGACGACG---------------ACGGCGAGGAGGAAGCGTGCGACGGC------------GAGGAGGAGGA
GGAAGTGGAGGTGGAGTTCGAGGG------GGACGAGGAGGTGGACGGCCGCGCGGAGCGGTTCATCGAGAGGTTCTACG
AGGAGATGAGGATGCAGCAGCGGCGCCTCCTCTAGGCCG--GCCG----GCCGGATCCATGGACGACTCTGTCTGCTCTG
CATTTCGCCTTCGTTTCTTGCTCTTCATTGGTAGAATTGTCGCTAGCTATCTTGGCTGCAGTTCCTTCGGTTACAGTGTG
TTTATTCTTGCTTCCTC--GCAGTGTTGTTGTAGTGTTCT----AGTATCATGTTCACTCGTGTGTCTGAATTTACCCAA
AATTCCGTGCTGTTCAC-TTGCTGTGGTGTTGATAAATGTTGCCCAAGTTCAAATCTGTATTTGGTGCTAGTAGTATTC-
---TTCAGTCATGGCAGCACGCCACACCACGCATCACAGATTCATAATCTCCGTTCGAGTTCAGTTGTTTATATGAGTTC
--------ATTTAAAAATCAAGAAGAAGAA--GA------------------------GAGCAAATCGTGGGAAAGTTGG
CCGTAAACAATGTGTGATAAGAGCGTTTCTCTCAAGGCGCGGCTGCCTCATCTCCCATTGTTAAAACCAAAA-----AGT
GCATCGAGGAGCGCTTTTCCGGATGCAGAGAATGCTCTCATCTGCTCTGCTCTGCTCTGCTTCGAGAACCGGCGCCGTTT
TGTTCTCTCTGATCATCGCCTGTTTCCTGCGCAGTTGTTCTACTTGAACCAACTCGAGCAAGTCCAGGAAA-TGTACTAT
TGAAAATTCCAACTCGCTCACTCAGTGGGAGCTCGTTCACGGATCACAACGGCATGATGCCGGAAAGGTTCAAAGCGTTT
GACACAAAGGTGTTCTCGTTTCTCAGAGG---------------------------------------------------
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>chr3A_269
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----------------------------GAGGCGCCAACGGCAACGGCTAGCTCGGTTCGAAAAGGGGTCGGTCGGTCGG
TCGGTCGGCCGGCCAGCTCAGAGCCACCGGCCTCGGCCCGGAGAC---G--GACGCTTTCCAGGCTGCGACCCCACGAGC
ACCACCAC---------CAGCACCAGAGCCCGACCGACCCCGCTCCATCTCCA---TCTCCTGGAGCGCGCCGTTGGGCA
----ACCATGCGCGCGTAATCTGCTCTCGAGTCTTGAGCCCCACGACCGGAATTAAGCCGGTGCAATCAC------GCAC
GCATTAC--------TTCATCACCGTAACAACCCTAACCCGTAGTATGCAAAGCACGGAGCGGGTCGCCGTTTCCCCCTT
GCTAACACGGACGGCAAAGAAAAAAAAGCTACGGTACGCGGCGGTATACGACCCCGGCCATGATGGTCGCCGGAGAAAAT
--CACGCATTTACACCGCCGCAGTGCCG-----CTGTAGCACACAAGGCCA----------------------TACGAC-
-CCCACTGATCCGAGTGAGTGAGTGATCCATCACGAGGCCTGCGTG----------CGTACGCACGCCAACAAGTCAGAG
AGATATCATCAGGCAG---TAATGGTCGTGCA------GATTTCGTCGCG---GCCCCGAGATGGCGAGATGTAAACTGT
AAAGGCGCTTTAAGACGCAACGCAAAGCTTTCGTGTACTGT---ACGCACGCACGCACGATCGGGCGAACGGCTAGCCCG
AGCC---------CGAGTCCATAAAACCACCCCACCTGCAGC--CAGCCACCACCACCACCACGATCACTGTG----TCC
GCCACCTTGGCCCAGTTCGAATGTGACAAAGAGAGGGAAACCAGA--CAAGCCAAGAACCCGGCCGGCCATGCCGAGGTC
TTCTTC---------------CTCCGCGCCCCGCATCCTCGGCAGGGCCATGGCCATCCTCACCCTGCCGCTCACCCCGC
TCTCCAAGGCCAGGGCGGCGACGACCCTGCTCCTCTTCAAGAGGCGCCGCGCGCGCCGCCTGCGCCACTACAACTACGCC
TACGTGGGCGAGTACCAGTTCTCCCCGTCCGGCTCCCCGCTGCTCCTGCCCCGCCCGCCCGGCGTCTCCGCGTGGCGCGC
CAGGCGGCGGAGCCGGGCCAGGACGGTCCTCGCCGCGCTGCTCTGCGGCGGCGGGTGCGGC---------TTCGGCGGCT
TCGACGGGGACGGCGGGATCGACGTCGCCGTGCTCGACGGCCTGCTGCCCCTGCCCCAGGCTCTGCAGGAGGACGAG---
CGGGCGGCTGACGACGGCGCGTCGTACGGGTACGGCGAGGAGGAGGTGTCCGACGGC------------GAGGAGGGGGT
GGAGGTGGCGGAGGAGTTCGAGGG------GGACGAGGAGGTGGACGGCCGCGCCGAGCGGTTCATCGAGAGGTTCTACG
AGGAGATGAGGCTGCAGCAGAGGCGCCTCCTCTAGCTCTAGGCCGTGGTGCCGGATCCATGGACGACTCTGTCTGCTCTG
CATTTCGCCTTCGTCTTGG--TCTTCACTGGTAGAATTGTCGCTAGCTATCTTAGCTGCAGTTCCCTCGGTTACAGTGTG
TTTGCTCTTGCTTCCTC--GCACAGCGTTGTTGTCCAAGTAGTAAGTATCATGTTCGCTCATGTGTTTGAATTTACCCAA
AATTCCGTCTTGTTG---------TGGTGTTGATAAATGCTGTCCGATTTCAAATCTGTATTTGGTGCTAGTAGTATTCA
TTCTTCAGTCATGGCAGTACGCCACACCACACACAAAA-ATTCATAATCTCCGTTCGAGTATCTATTAC-----------
------AAATTTAAAAATCAGAAGAACCGAAGGGGCGGAACAGCAGGTGGTAAGCACGGAGCAAATCATGGGAAAGTTGG
CCGTAAACAA--TGTGATAAGAGCGTTTCTCTCAAGGCGCGGTTGCCTTATCTCCCATTGTTAAAAC---AGAGTGGAGT
GCATCGAGGAGCGCTTTCCCGGGTGCAGAGAA--------------------TGCTCTGCTTCGAGAACCGGCGCCGTTT
TGTTCTCT--GATCCTTGCCTGTTTCCTGCCGAGTTGTTCTACTTGAACAGG-TCGAGCGAGTCCAGGAAAC-GCAGCAC
TGAAAATTCCAACTCGCTCACTCAGTGGGAGCTCGTGCACGGATCACAACGGCTTGATGCCGGCAAGGTTAAA-GCGCTT
GAGAGG-------------------------TTTGCAAGTTCCGCAAAACAGATCCAGCAAAAAGGGAAGCGGCGTTTTG
GGTCCCGGGCTCATATGAGCCCCGGAGTGAATAGTAACGCCGTTTAAAATACTATAAATAATTTCAAAAAATTCAAAAAA
ATATTATGGTGAAAGATGTTTGAGTGTGTGATGTCCGTGTCAGATTTGGTTATATTTGAACATTCAGGCAGCTCGTGACA
AAAAAAACGAATTCGGATTTGAGAGAAACATTTGAAATGCGGGATTTCACTGTTCATGCCTGAATTCGTCTTTTTTTGGC
CAGGCTCCTGGAATGTCCAAACGTCACCAAATTTTGCACGAACATCATGCACATGCACATCCTGCTTGCAAAACAAATAC
GATTTTTTTCTTTTTTTAATTGCGTTACTGTTCATCGGGCTCATCTGAGCATGGACACCAAATTGGATA-TCATGGCAAA
AGGTACATATCAATATAATATCAATATGATGCAGAGGCCGGGGGGGTTAACCTCCTTTCCGAAAAGAAAAGAAAATCTTA
ATGCATCCACCTTGATTTCTTCCATCATCGCTACACAAAAGGCAAAATGGCCTTGGACAACGTACACAGGAGCTCCAGCA
AAAATTGCTGAAGA
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------S-----S----------------------
-----S-SS-----S-----S-S-S-S-----------------------------------------------------
------------------------------------S-S-S-S-SSSS-SS----------------------------S
S-SS----------------------------------------------------------------------------
----------------------------------------------S-S----S--------------------------
------S---------------------------S-----------------S---------------------S-----
-------------S----------------SSSSS---------------------------------------------
----------------------------SSSSS--------------S---SSS-------------------------S
S---------------------------------------------SSSSSSSSSS-------------S----S-----
----S---------------------S-S---------------------SSS------------------------S--
----------------------------------S----S-----------SS--SS-----------------------
-SSSSSS--------------------------------S----------------------------------------
-------------------------------------------SSS----------------------------------
------SSSSSSSSSSSSSSS------------------------------------------------------S----
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------S------------------------------------------------------SSSSSSSSS----------
----------------------------S-----------------S-----------------------------SSSS
-----S-S---S----S----------------------S---------S-S-----SSSSSSSSSSSS--------S--
-----------------S------SSSSSS---------------------S----------------------------
----------------------------------------S---------------------------------------
--------------------S----------S------------------------------------------------
----------S------SS-----------S-------------S-----------------------------------
------S----------S---S-------S-------S---S---------------------S------S---------
-------------S----S--S---S-SSS---------------S----------------------------SSS--S
SSSSSS--------------------------------------------------------------------------
-----S-----------------------------------------S--------S-----------------------
-------------------------------------S------------------------------------------
------------------------------------S--S-----S-------------------------S--------
-----------S-SS----S-SSS--------------------------------------------------------
---------------------S-------SS--------S-------S-S-----S----S---S--S-SSSS-------
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------------------------S-SS------S----S----------S--------------SS-S-----------
S-------S------SS-SS--------S--------SS-SSS-S-----S-----------S---S---------SSSS
SSS----S-------S------S----------------S-------S-------------------------S----S-
SSSS-------S--------S-------------S-S-----------S--S---S-S-----------S----S-----
--------------------------------------------S--------S---S--S-------------------
-------------------------------------------------------------S--------------S---
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>forward_178
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------------------------------------------------------------------------------CA
AGGCGTCAGTCAGTCACT--------------------------------------------------------------
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>reverse_1660
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-----------------------------------------------------------GGAGGAGGAGGAGGAGGATG-
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>forward_772
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--------------------------------GCTGTACTCCACAAGCCCAT----------------------------
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>reverse_1663
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--------------------------------------------------------------GGAGGAGGAGGAGGATGA
GG------------------------------------------------------------------------------
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>forward_885
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-----------------------------------------------------------------GCCAGGAAGCCAGAG
AGATC---------------------------------------------------------------------------
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>reverse_2920
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---------------------------------------AAACATCACGCACATGCACA---------------------
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