>input_sequence_61404
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--------------------ATGGCGGTGGCGTATCGCGCGGAGGAGGAGTACGACTACCTGTTCAAGGTGGTGCTGATC
GGGGACAGCGGCGTGGGCAAGTCCAACCTGCTGTCGCGCTTCGCCAGGGACGAGTTCAGCCTCGACACCAGGTCCACCAT
CGGCGTCGAGTTCGCCACCAAGACCGTCCGCGTCGACGGCAAGCTCGTCAAGGCGCAGATCTGGGACACCGCCGGCCAAG
AAAGGTACCAATACTCTCCACCTCTTGCTCTTTCTCTTTTGCCCGCCACCTGTATGAGATATTGCTGCTTTGCCTGTCCA
CCTCTTTCTTCTTTCCACCGCTCGCCGTCGATTCAGTTTAGTTTAGCTTGATCGATCATACA----------GTAGTAAT
TGACTAACTCAAGGACTTGCGATGATTCCTTTCCCGTTGCCATGCTTGTGATTTCAATAGCAATCTGTAAATAACTCATT
CTCAACTGCAGATGTCCTTCGCAAGTAGGGGTATCTTTTTTTTTTTGATCTACGCAAGTAGGGTTATCTTAGCAATACAA
TGTGCATCTTTCTGGTTGCTTGTAACCGCATTTCCACATTGACACCAGTACCAAGTTGGCTAATCACTT----TACGTAC
GTGCGCTGCACTTGCACCCGCGGCTCTTTCTCTC--TGTAGGTACCGGGCCATCACCAGCGCGTACTACCGGGGCGCCGT
GGGCGCGCTCGTGGTGTACGACGTGACGCGCCACATCACGTTCGAGAACGCGGAGCGGTGGCTGACGGAGCTCCGCGACC
ACACGGACGCCAACATCGTGGTGATGCTGGTCGGGAACAAGGCGGACCTGCGCCACCTGAGGGCCGTCTCGCCCGAGGAG
GCCAGGGCCTTCGCGGAGCGCCACCGCACCTTCTCTATGGAGACGTCCGCGCTGGAGGCCACCAACGTGGAGGATGCCTT
CACGGAGGTGCTCGGCGAGATCTACCGCGTCGTCAGCAAGAAGGCCCTCGACATTGGCGACGACCCCGCCGCGCCGCCCA
GGGGCAAGACCATCGACGTTGGTGGCAAGGACGACGTCACCCCAGTGAACACGGGTGGCTGCTGCTCGGCCTAG------
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>chr3D_1_TraesCS3D01G244500
TACCCTAAAACAAACAGAAACATGTGTTTTT-GTGTACATTATTAAATCTTAAGAGAACTGATAATTGTTTCTGTTATTG
GAGAGATTGGTCTGATAGTGCCCAGCCGAGCAC-GAGTTTTTCAGCATATGGTTTTGGACGACAATGTTCTGCACTGTAT
AATGGATGATTAAACTCCGTCGTGCAGTTTGGTCGAAACATGAGAAAAAAACCTCGTATCTCCTA-----------TTGT
GACGGGATTTGTCTTAATTTCATTGCA---CATGTGTATTTTCTGTCATTGTTTTCGTATCTTTTAAGGAGGC-------
-----------------------------------------------ATAGTGTTTTTGTTTTCTTAGTGGCTGTACCGT
ACAAGTAAAAAATAGTTTTGCCCTAGAACTCTTCCCCTGATATTATAGTACTAGCTTGTGCGCCGTGCTTGATCGAAATG
TTGCGTTGCTGCCTTGAGAGAATCTTCCCTGAAGGATCTCTGCACCCATCCCCAGCTAACAAAACGTGATGAG-------
----------------------------CGAAAATGAAAGGAGAAGCAAAGAGAATG----CTACTACTAC---ATGAAG
CCAGGTCAAGGCTGGCACATGCTTATATTCGCAAATTCAATTTTCTA-ATATCGTTTTGTGAGATAGAGAGTCGTTGACA
CATGTATGCACAGAGATGCATGC-CCGGTCGGTCACGGAGACGAAGCCAGGACCGGGACAACGAGCGGCTCGATGGTCGT
CATCATCTCTGGCTTGGCTTTCTCTACCTCCCCACCACACCACCCCCCAACGAAACCAACACCATCCGCGGCGACCCCTT
CTTCCCTTCCCTGAGACACTTCTCCCCAAAGCGAACCAACCCAGCTGAAAAGAAGCGAGACGCGCCGC-----ACCGCGT
TGCCTTTGTAT--CGTGCCTCTATTTAGCTCAAGAG---------GGAGAGGATAGGAGAGGCGCGCGGGAAGGGGAAGG
AGATAAAATCAGATCAAATC----------GTAGGAAACCATCGGTTGATCGAGCAGCGGCGGCGGCGCAGAAGCAGCAG
GAAGCAGGAGGGGAGGGGGGATGGCGGTGGCGTATCGCGCGGAGGAGGAGTACGACTACCTGTTCAAGGTGGTGCTGATC
GGGGACAGCGGCGTGGGCAAGTCCAACCTGCTGTCGCGCTTCGCCAGGGACGAGTTCAGCCTCGACACCAGGTCCACCAT
CGGCGTCGAGTTCGCCACCAAGACCGTCCGCGTCGACGGCAAGCTCGTCAAGGCGCAGATCTGGGACACCGCCGGCCAAG
AAAGGTACCAATACTCTCCACCTCTTGCTCTTTCTCTTTTGCCCGCCACCTGTATGAGATATTGCTGCTTTGCCTGTCCA
CCTCTTTCTTCTTTCCACCGCTCGCCGTCGATTCAGTTTAGTTTAGCTTGATCGATCATACA----------GTAGTAAT
TGACTAACTCAAGGACTTGCGATGATTCCTTTCCCGTTGCCATGCTTGTGATTTCAATAGCAATCTGTAAATAACTCATT
CTCAACTGCAGATGTCCTTCGCAAGTAGGGGTATCTTTTTTTTTTTGATCTACGCAAGTAGGGTTATCTTAGCAATACAA
TGTGCATCTTTCTGGTTGCTTGTAACCGCATTTCCACATTGACACCAGTACCAAGTTGGCTAATCACTT----TACGTAC
GTGCGCTGCACTTGCACCCGCGGCTCTTTCTCTC--TGTAGGTACCGGGCCATCACCAGCGCGTACTACCGGGGCGCCGT
GGGCGCGCTCGTGGTGTACGACGTGACGCGCCACATCACGTTCGAGAACGCGGAGCGGTGGCTGACGGAGCTCCGCGACC
ACACGGACGCCAACATCGTGGTGATGCTGGTCGGGAACAAGGCGGACCTGCGCCACCTGAGGGCCGTCTCGCCCGAGGAG
GCCAGGGCCTTCGCGGAGCGCCACCGCACCTTCTCTATGGAGACGTCCGCGCTGGAGGCCACCAACGTGGAGGATGCCTT
CACGGAGGTGCTCGGCGAGATCTACCGCGTCGTCAGCAAGAAGGCCCTCGACATTGGCGACGACCCCGCCGCGCCGCCCA
GGGGCAAGACCATCGACGTTGGTGGCAAGGACGACGTCACCCCAGTGAACACGGGTGGCTGCTGCTCGGCCTAGTCAAAC
TCTCTC--------------TCTGCCGGAGACGGTGGTAGGTGATGCCGTGTGTGTGCGTGCTAGGGTGTAACAGGCATG
TTGCGACCGTGATGATTACTGATTATTGGTCAAAACGCTCTGGGGGTGGTTGATACCTTGATATCATATGCTTGATTGAT
AC---------ATACAGCGTGTAGTACTACCGAGAGAAGACGTCGTGCGTGTGCTGTTGCAAGTTGCAACCATGGTCCGC
GTCTGTGTTCACTCCATTTCATTGGTCTGTTTGGTGCAGTTCAGGTCCAAAAAAACGCGTCAGGCTGTCACAATTTTCGG
TCAAGGCGCTTCATCATCAGGTAAAAATTAGAAGCGACTCCGATGAAGACGAAACGGCCGTCGTGCAGAAAGTGCATATG
CCGGCGATGTCCGCGTCGGAACACGGCCGCGGAAGGATACGCATAATTTAAGAACATGATTATGCGTTGGCGCAAGCCCT
ACCAGCGCGGGACGACGGGTGGG-----AGAAGGATATTGCAAAATGCCTAGCATCTTTTTTTAGCTTTTTTTAGGGATA
TAAAAGCCAACTTTATTCATCAAAGTCCACATGGTGTGGGATACAACTCCGATCATGTGAAGCTGGGCTTTAAGGTTAAC
CAAAGAGGTCATATTTGGCGAGTGGGGAATGAACAAAAAATTAACATTTGAGAAGATGCATGGATCCCAAAGTATGCCAC
TAGAAAAATTGTAACGTCTAAGGAGGGACATCTGTTAACTAAGGTAGATGATCTCATTGATCCTGCCTCCAACAATTGGG
ATGAACACCTAATCAGACAAACTATGTGGCCCATTGATGTACAACAGATTCTTTTAGTTCCACTCTCGCAACATGATATG
CCAGATTTCATTGCTTGGAGTTATACGAAAAATGGTATGTTCTCGGTTCGACCAGCTTATTCCGTGGAGTGGGACCACCA
GTATGACAGCAAATTAAAATACTCTAATGGGATGGGACGAACCACAGTTAACCCTATTTGGA
>chr3A_1
TACCCTAAAACAAACAGAAACATGTGTTTTTTACATTATTTATT-AATCTTAAGAGAACTGATAATTGTTTCTGTTATTG
GAGAGATTGATCTGAGAGTGCCCAGCCGAGCAC-GAGTTTTTCAGCATATGGCTTTGGACGACAATGTTCTGTATTGTAT
AATGGATTATTCAACTCCGTCGTGCAGTTTGGTTGAAACATGAGAAACAAAACCTCGAATCTGAACTCGCTCGTGTTTAT
GATGGGCTTTGCCTTAATTTTATTGCATTATATTTGTATTTTCTGCCATTGTTTTCATATCTTTTAATAAGGGGAC----
---------------------------------------------ATATGGTGTTTTTGTTTTCTTAGTGGCTGTACCGT
ACAAGTAAAAGATAGTTTTGCCCTAGAACTCTTCCCCTAATATTATAG------CTTGTGCGCCGTACT-----------
---------TGCCTTGAGAGAATCTTCCCTGAAGGATCTCTGCACCCATCCCCAGGTAACAAAACGTGATGAAGGAAGGC
CAGTCGCGCCAACTGCCAAATGAGCACACGAAAATGAAAGGAGAAGCAAAGAGAATG----CTACTACTACTACATGAAG
CCAAGTCAAGCCTGGCACATGCTTATATTCGCAAATTCAATTTTGTACATATCGTTTTGCGAGAT-GAGAGTCGTTGACA
CATGTATGTACAGAGATGCATGC-CCGGTCGGTCACGGAGACGAAGCCAGGACCGGGACAACGAGCGGCTCGATGGTCGT
CATCATCTCTCGCTTGGCTTTCTCTACCTCCCCACCAC------CCCCCACGAAACCAACGCCATCCGCGGCGACCCCTT
CTTCCCTTACCTGAGACACTTCTCCCCAAAGCGAACCAACCCAGCTGAAAAGAAGCGAGACGCGCCGC-----ACCGCGT
TGCCTTTGTAT--CGTGCCTCTATTTAGCTCAAGAGGAGAGGATAGGAGAGGAGAGGAGAGGCGCGCGGGAAGGGGAAGG
AGAT----------CAAATC----------TTAGGAAACCATCGGTTGATCGAGCAGCGGCGGCGACGCAGAAGCAGCAG
GAAGCAGGAGGGGAGGGGG-ATGGCGGTGGCGTATCGCGCGGAGGAGGAGTACGACTACCTGTTCAAGGTGGTGCTGATC
GGGGACAGCGGCGTGGGCAAGTCCAACCTGCTGTCGCGCTTCGCCAGGGACGAGTTCAGCCTCGACACCAGGTCCACCAT
CGGCGTCGAGTTCGCCACCAAGACCGTCCGCGTCGACGGCAAGCTCGTCAAGGCGCAGATCTGGGACACCGCCGGCCAAG
AAAGGTACCAATACTCTCCACCTCCTGCTCCTTCTCTTTTGCCCGCCACCTGTATGAGATATTGCTGCTTTGCCTGTCCA
CCTCTTTCTTTCTCCCACCGCTTGCCGTCGATTCAGTTTAGTTCAGCTTGATCGATCGATCGATCGATCGTAGTAATTGA
TGACTAACCCAAGGACTTGCGATGACTCCTTTCCCGTTGCCATGCTTGTGATTTCAATAGCAATCTGTAAACAACTCACT
CTGAACTGCAGATGTCCTTCGAAA-TAGGAGTATCTTTA-----------------------------TTAGCAATACAA
TGTGCATCTTTCTGGTTGCGTGTAACCGCATTTCCACATTGACACCAGTACCAAGTTGGCTAATCACTTTACGTACGTGC
GTGCGTTGCACTCGCACCCGCGGCTCTCTCTATGTGTGTAGGTACCGGGCCATCACCAGCGCCTACTACCGGGGCGCCGT
GGGCGCGCTCGTGGTGTACGATGTGACGCGCCACATCACGTTCGAGAACGCGGAGCGGTGGCTGACGGAGCTCCGCGACC
ACACGGACGCCAACATCGTGGTGATGCTGGTCGGGAACAAGGCGGACCTGCGCCACCTCAGGGCCGTCTCGCCCGAGGAG
GCCAGGGCCTTCGCGGAGCGCCACCGCACCTTCTCCATGGAGACGTCCGCGCTGGAGGCCACCAACGTGGAGGACGCCTT
CACGGAGGTGCTCGGCGAGATCTACCGCGTCGTCAGCAAGAAGGCCCTCGACATCGGCGACGACCCCGCCGCGCCGCCCA
GGGGCAAGACCATCGACGTCGGCGGCAAGGACGACGTCACCCCGGTGAACACGGGCGGCTGCTGCTCGGCCTAGTCAAAC
TCTCTCCCTCTT----TCTCTCTGCCGGAGACGGTGGTAGGTGATGCCGTGTGTGTGCGTGCTAGGGTGTAACAGGCATG
TCGCGACCGTGATGATTATTGATTATTGGTCAAAACGCTCTGGGGGTGGTTGATACCTTGATATCATATGCTTGATTGAT
ACGTACTATACATACAGCGTGTAGTACTACCGGGAGAAGACGTCGTGCGTGTGTTGTTGCAAGTTGCAAGCACGGTCCGC
GTCCGTGTTCACTCCATTTCATTGGTCTGTTTGGTGCAGTTCAGGTCCAAAAAAACGCGTTAGGGTGTGACAATTTTCGG
TCAAGGCGCTTCATCATCAGGTAAAAAATAGAAGCGACTCCGATGAAGACGAAACGGCCGTCGTGCAGAAAGTGCATATG
CCGGCGATGTCCGCGTCGGAACACGGCCGCGGAAGGATATGCATAATTTAAGAACACTATTATGCGTTGACGCAAGCCCT
ACCAGCTCAGGACGGCGGGTGGGATCGGAGAAGGATATTGCAAAATGCCTAGCATCTTTTTTTAGCTTCTTTAAGGGATA
TAAAAGCCAAGTTTATTTATCAAAGTCTACATGGTGTGGGATACAACTCCGATCATGTGAAACTGGGCTTTAAGGTTAAC
AGAAGAGGTCATATTTGATGAGTGGGAAATGGACAAAAAATTAACATTTGAGAAGATGCATGTATCTCAAATTGTGTCAC
TAGAAAAATTATAACGCCTAAGG-GGGGCATCTGTTAACTGAGG-AGATGATCTCACTGATCCTGCCTCCAACAATTGGG
ATGAACACCTAATCAGATAAACTATGTGGCCCATTGATGCACAACGGATTCTTTCAGTTTCACTCTCGCAACATGATATG
CCAGATTTCATTGTTTGGAGTTATACGAAAAATGGTATATTCTCGGTTCGACCAGCTTATTCCGTGGAGTGGGACCATCA
GTATGGCAGCAAATTAAAATACTCTAATGGGATGGGACGAACCACAGTTAACCCTATTTG--
>chr3B_1
TACCCTAAAACAAACAGAAACATGTGTTTTTTGTGTACATTATTAAATCTTAAGAGAACTGATAATTGTTTCTGTTATTG
GAGAGATTGGTCTGATAGTGGCCAGCCGAGCACTGAGTTTTTCAGCATATGGCTTTGGACGACAATGTTCTGTACTGTAT
AATGGATGATTCAACTCCGTCGTGCAGTTTGGTCGAAACATAAGAAACAAAACCTCGAATCTGAACTCGCTCCTATTTGT
GATGGAATTTATCTTAATTTTATTGCATTTCATGTGTATTTTCTGTCATTGTTTTTGTATCTTTTTTTTGAGGGAAAAAA
GGAAAAAGAAAAAAGATAGTGTTTTCGTATCTTTTAAGGAGACATATATAGTGTTTTTGTTTTCTTAGTGGCTGTACCGT
ACAAGCAAAAGATAGTTTTGCCCTAGAACTCTTCCCCTAATATTATAGCACTAGCTTGTGCGCCGTACTTGATCGAAATA
TTGCGTTGCTGCCTTGAGAGAATCTTCCCTGAAGGATCTCTGCACCCATCCCCAGCTAACAAAACGTGATGAG-------
----------------------------CGAAAATGAAAGGAGAAACAAAAGAGAATGCTACTACTACTACTACATGAAG
CCAAGTCAAGCCTGGCACATGCTTATATTCGCAAATTCAATTTTGTACATATCGTTTTGCGAGAT-GAGAGTCGTTGACA
CATGTATGTACATGCATGCCCGGTCCGGTCGGTCACGGAGACGAAGCCAGGACCGGGACAGCGAGCGGCTCGATGGTCGT
CATCATCTCTGGCTTGGCTTTCTCTACCTCCCCACCACACCAC-CCCCCACGAAACCAACACCATCCGCGGCGACCCCTT
CTTCCCTTCCCTGAGACACTTCTCCCCAAAGCG----AACCCAGCTGAAAAGAAGCGAGACGCGCCGCGCCGCACCGCGT
TGCCTTTGTATATCGTGGCTCTATTTAGCTCAAGAGGAGA----------GGAGAGGAGAGGCGCGCGGGGAGGGGAAGG
AGAT----------CAAATCAGATCAAACCGTAGGAAACCATCGATTGATCGAGCAGCGGCGGCGACGC----------G
GAAGCAGGAGGGGAGGGGGGATGGCGGTGGCGTATCGCGCGGAGGAGGAGTACGACTACCTGTTCAAGGTAGTGCTGATC
GGGGACAGCGGCGTGGGCAAGTCCAACCTGCTGTCGCGCTTCGCCAGGGACGAGTTCAGCCTCGACACCAGGTCCACCAT
CGGCGTCGAGTTCGCCACCAAGACCGTCCGCGTCGACGGCAAGCTCGTCAAGGCGCAGATCTGGGACACCGCCGGCCAAG
AAAGGTACCAATACTCCAAC-------CTCTTTCTTTTTTGCCCGCCACCTGTATGAGATATTGCTGCTTTGCCTGTCCA
CTTCTTTATTTCTTCCACCGCTCGTCGTCGATTCAGTTTAGTTTAGCTTGATCGATCGATCAATC-------GTAGTAAT
TGACCAACTCAAGGACTTGCGATGACTCCTTTCCCGTTGCCATGCTTGTGATTTCAATACCATCTGG--AACAACTCATT
CTCAACTGTGGCAAGTATCT------------------------------------------------TTAGCAATGCAA
TGTGCATCTTTCTGGTTGCTTGTAACCGCATTTCCACATTGACACCAGTACCAAGTTGGTTAATCACTT----TGCGTAC
GTGCGTTGCACCTGCACTCGCGGCGCTCTC--TGTGTGTAGGTACCGGGCCATCACCAGCGCGTACTACCGGGGCGCCGT
GGGCGCGCTCGTGGTGTACGACGTGACGCGCCACATCACGTTCGAGAACGCGGAGCGGTGGCTGACGGAGCTCCGCGACC
ACACGGACGCCAACATCGTGGTGATGCTGGTCGGGAACAAGGCGGACCTGCGCCACCTGAGGGCCGTCTCGCCCGAGGAG
GCCAGGGCCTTCGCGGAGCGCCACCGCACCTTCTCCATGGAGACCTCCGCGCTGGAGGCCACCAACGTGGAGGACGCCTT
CACCGAGGTGCTCGGCGAGATCTACCGCGTCGTCAGCAAGAAGGCCCTCGACATCGGCGACGACCCCGCCGCGCCGCCTA
GGGGCAAGACCATCGACGTTGGCGGCAAGGACGACGTCACCCCGGTGAACACGGGCGGCTGCTGCTCGGCCTAGTCAAAC
TCTCTCCCTCTCTATCTCTCTCTGCCGGAGACGGTGGTAGGTGATGCCGTGTGTGTGCGTGCTAGGGTGTAACAGGCATG
TTGCGACCGTGATGATTATTGGTTATTGGTCAAAACGCTCTGGGGGTGGTTGATACCTTGATATCATATGCTTGATTGAT
ACTAC---TACATACAGCGTGTGG---TACCGGGAGAAGACGTCGTGCGTGTGATGTTGCAAGTTGCAACCACGGTCCGC
ATCTGTGTT---------------------------CAGTTCAGGTCCAAAAAAACGCGTTAGGGTGTGACAATTTTCGG
TCAAGGCGCTTCATCATCAGGTAAAAAATAGAAGCGACTCCGATGAAGACGAAACGGCCGTCGTGCAGAAAATGGATATG
CCGGCGATGTCCGCGTCGGAACACGGCCGCGGAAGGATATGCATAATTTAAGAACATGATTATGCGTTGACGCAAGCCCT
ACCAGCGCAGGACG------------------------------------------------------------------
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>SNPs
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----------------------------------------------------S-------------------S-------
-----------S-----------------------------------S---S-SSSS-SSSSSS----------------
--S-----------------S----------------------------------------------SS---S-------
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----------S---------------------------S---------S-----------------S------------S
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---S------S---------------------------------S--------------S-----S--------------
--------S-----------------------------------------------------------------------
-------------------------------------------S----S-------------------------------
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-----------------------------------------------------S--------------------------
----SSSSSSSSSS---------------------------------------------------S--------------
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------------------------S-------------------------------------------------------
----------SS---------------------------------------------SSS--------------------
-------------------------S---------------------------------------------S--------
---------------------S--S----S--------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------
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-----S---------------------S---S-S----------------------------------------------
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-----------------------------------S--------------------------------------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------------------
SS---------------SS-------S----S------------------------------S---S----S-S--S---
----------S-----S------S---S------------S---S-----------S-----------------------
-----------------S---------------------S-----S--------S----S--------------------
-------------S------------------------S--------------------------------------S--
-----S------------------------------------------------------SS
>forward_480
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------------------------------------------------------------CGCCGTGCTTGATCGAAATG
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>reverse_1792
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-------------------------------CTCTGTAGGTACCGGGCCAT-----------------------------
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>forward_1622
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--CAACTGCAGATGTCCTTCGC----------------------------------------------------------
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>reverse_3159
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--------------------------------------GTTCTCGGTTCGACCAGCTT----------------------
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