>input_sequence_64566
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-----------------------------------------------ATGCCAAAGGACAGGAGCTCCCGTTCAGTCTCG
CATGAGGGCTGCCGATCTCGTGTCTCGCCATACAAGTTGCGGAGTGGTTCTCGCAGGTCAGAGGAGGCTGCTGCTGCCGC
CGCTGCTGCAGCAGCAAAGCAGGCTGCCGAATGGGAGGAAGTTCGCTGTCCTGTGTGCATGGATCACCCTCATAATGCTG
TTATGCTTGTCTGCTCGTCACATGAGAAAGGCTGCCGCCCTTTCATTTGCGACACAAGCTACAGACACTCCAATTGCCTC
GATCAGTACCGCAAAGCCTCCAAGGAGTCCTCTAAGGATTCAGGGGCAGCAGAATGCGCTGAGTGCCAGCAGCCAGTTAA
ACTGGCATGTCCATTATGCCGTGGGCCAGTCAGCCATTGGACCAAGGATTATGATGCACGGAAGTTCATGAATTCTAAGG
ATCGAGCATGCACCATGGAGTCATGTGAGTTCAAGGGTGCATACAACCAGTTGAGGAAGCACGCTAGGGAGGATCATCCT
GCGGTACGACCAACGGAGGTGGACCCCAATCGACAGCGAGACTGGCATAGGATGGAGCAGCAGCGTGATCTTGGGGATTT
GTTCAGCATGCTGCGTTCGGGGATCAGTGGCAGAGAAGATGGGGTTGGAGTCAGTGAAGGTGACGAGGGCGTCAGTGAGA
GATCCTTGCACGCCACGTCCATAACGATGGTCTTCATTGTGCGGTCAGGCAGGTCCATCCTACACTACACAGACGGGGAA
ATCCCAGGTCGTCGATCAAGAACAATTCTTCTAGTTGGGGAGCCTCGTGGTGAAGCCTCCCGAGGAGGAGGATCAAGCGG
CAATGGTGATGCTGAGGCCACTACTACCGACAATGAGGAAACTGACCTGGCAATGTCAACACAGGCATCTGCTGGTTCTC
AGGAAGATGCTGGAGAAGCTGATGGCGATCCTGCGCAGTGA---------------------------------------
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>chr3B_1_TraesCS3B01G249800
TGGCCGACGTGATGGAGCCCCCTGGGCATCCGTCGCGAGGGTGCGAGCGAGC----CTTAGCCAACCACGTCACTGTCCA
CGTCAGACGCCCCACCTATAAAGACGTAGCAAAGCCGACCCGCCCATCACACTCTCGTTTCCTTCTCCTTTCCTTTCCCT
TCCCCTCCTCCCCTACCTTAGCGTCTCCTCGCCGCTACCCTCTTAGGTCTCGGCGCCGCCGCCGACGCCGCCGAGGGTCT
CCGGCGGCCACGGACGCGGTTCGCTGTTACCCCTGACTGTCCGGCACGGTAAAACTTCCTCCCTCTCCCGCTTCCGCTCA
CCGTCGCAGCTCGATCTCGCCGGCGCCGATCTGGGCCGCTCCGCCGTTGACCCCGCTCGATTCGGCTGCCTCTCGTGCCG
GAACTTGCGGACTATGTCTCTACGCGCGTTCTGTGGGAGAATTTGTTCGACGCGTTCGCTTTTCGAGCGGATCGATGGAG
GGCAGTAGTCTGCCGCTGTATTTTGGTTTGTATGCGTTGTTTGGGCCGGATTGTTGATGGCCTTCCTAGATGTAGTCCTC
CAACTACGCTCTGAACCAACACTTCTGCCATGCCTGTGCACGATCGCTAAAAAATGTCCTGATTTTTAGGCGATTTCACT
TGTAAAGTTTGTCTGGTTTCGAAGGGAGGTGTTCATTTCCAGACGGG--TTAAGTTTATTTTGTTTCGTATATCAGGGAT
GGTTTTAGTGCCAGACTTGTGAATTGCTTGTGTGTGAAGATTAATTCGCCTTCCTG-TCATAACAGTGTAATCCCTTGTT
GTATATATATGTAGCCTGCTAGAATATGCTGCTTGCGACCTGATTAAACTCTTGCTTTTTTGCTGTTATTCTCTTTCAGA
ATTTGAAGTTGGATATAAGAAATCAACCTAGCGTCTGTCTTGTTCTCTGTGTAGCGCTTTCCTTTGGATTGCAGAGAATT
TTCAAACAAACCAACAACAACTTGCATCTGACTGACTTGAGGTAACTATGCCAAAGGACAGGAGCTCCCGTTCAGTCTCG
CATGAGGGCTGCCGATCTCGTGTCTCGCCATACAAGTTGCGGAGTGGTTCTCGCAGGTCAGAGGAGGCTGCTGCTGCCGC
CGCTGCTGCAGCAGCAAAGCAGGCTGCCGAATGGGAGGAAGTTCGCTGTCCTGTGTGCATGGATCACCCTCATAATGCTG
TTATGCTTGTCTGCTCGTCACATGAGAAAGGCTGCCGCCCTTTCATTTGCGACACAAGCTACAGACACTCCAATTGCCTC
GATCAGTACCGCAAAGCCTCCAAGGAGTCCTCTAAGGATTCAGGGGCAGCAGAATGCGCTGAGTGCCAGCAGCCAGTTAA
ACTGGCATGTCCATTATGCCGTGGGCCAGTCAGCCATTGGACCAAGGATTATGATGCACGGAAGTTCATGAATTCTAAGG
ATCGAGCATGCACCATGGAGTCATGTGAGTTCAAGGGTGCATACAACCAGTTGAGGAAGCACGCTAGGGAGGATCATCCT
GCGGTACGACCAACGGAGGTGGACCCCAATCGACAGCGAGACTGGCATAGGATGGAGCAGCAGCGTGATCTTGGGGATTT
GTTCAGCATGCTGCGTTCGGGGATCAGTGGCAGAGAAGATGGGGTTGGAGTCAGTGAAGGTGACGAGGGCGTCAGTGAGA
GATCCTTGCACGCCACGTCCATAACGATGGTCTTCATTGTGCGGTCAGGCAGGTCCATCCTACACTACACAGACGGGGAA
ATCCCAGGTCGTCGATCAAGAACAATTCTTCTAGTTGGGGAGCCTCGTGGTGAAGCCTCCCGAGGAGGAGGATCAAGCGG
CAATGGTGATGCTGAGGCCACTACTACCGACAATGAGGAAACTGACCTGGCAATGTCAACACAGGCATCTGCTGGTTCTC
AGGAAGATGCTGGAGAAGCTGATGGCGATCCTGCGCAGTGATGCTGCCTAAGGTTAGCTCCCTTGCTCTCTTGGACTGAA
AAGCCTAGCAGCAAGCCATTTATCGTGGTTTGCCGGGAGTCGGGTGCATATTGGGAAGAAACATCCGTGCCAGCTTGTCT
CAGGTGTAGTCAGGACATTCTGCCTACAAGCAAGCAAGAAGAAATCACGGGGGGAACGTGGTGGAGCTGAGTAGTGTCGT
TTACATCCTGCTGGAATCTGTCGGCAAACATAAACATTTAATGGTGGCGTTGTATTATTGGAACATGTCCCATGTTTGGT
ACTCCGGTGAATCGTTTCGCTGCGTTGTAATTCTCTCTAGCTCTTCTGCTGAATTCCATTTCGCTGCCTTGTA---ATTG
CATCTGAATAGATCTTTTCTGCATTTGAAGAATTTGTTGTATAGCGTTTAGGTTTCTAGTTCCACTTATGCCTGGAGGAA
CCTGAGAAATCGGAATATGGTCGATGACAGTGAATGAAATGCTCCTTCGTTCAGACACGTGAGATGTTTTGGATATCTTA
TAATATGAACTATATTCGGACTGACTGAAATCAATGAACATACTAAAACGTGTCTACATACATCTGATTCAAAAAAAGCT
AGAACATCTGATGATACATCTGATTCAGAAAAAGCTAGAACATCTAATA-------------------------------
----------TTGTGAACGGGGCTGCAGCGTGATGGAAACCCACTTAAGATAGTTGTAGCCATCGAGAGGGAGTGCCTCG
AATTCTTAGCCATCAGTTACTTACATGGGTAAATAAGATATAATTAATTTACAGTCGGAAAATTAAAGACCATCATTGTT
GATTATACTAATGGACTTTACAAAATTAATGAAAATTTCAAGAAGTTGACTTGAAATCATTAGTGTGAATTTCAAATTAC
TTAGTACGACATATTGTGGAGAGTATATCCCGTAACACTAGGGAGTATAACATCCACTCATTCTCCTAATGTCGTGTGTC
ATGACTTGATGCTTCATTTTGAATTTTGCAAAGGTTAATCGATTA
>chr3A_1
TGGCCGACGTGGTGGAG-CCCCTGGGCATCCGTCGCGAGGGTGCGAGCGAGCGAGCCTTAGCCAACCACGTCACTGTCCA
CGTCAGACGCCCCACCTATAAAGACGTAGCAAAGCCGACCCGCCCATCACACTCTCGTTTCCTTCTCCTTTCCTTTCCCT
TCCCCTCCTCCCCTACCTTAGCGTCTCCTCGCCGCTACCCTCCTAGGTCTCGGCGCCGCCGCCGACGCCGCCGAGGGTCT
CCGGCGGCCACGGACGCGGTTCGCTGTTACCCCTGACTGTTCGGCACGGTAAAACTTCCTCCCTCTCCCGCTTCCGCTCA
CCGTCGCAGCTCGATCTCGCCGGCGCCGATCTGGCCCGCTCCGCCGTTGACCCCGCCCGATTCGGCTGCCTCTCGTGCCG
GAACTTGCGGACCATGTCTCTT-GCGGGTTCTGTGGGAGAATTTGTTCGGCGCGTTCGCTTTTCGAGCGGATCGATGGAG
GGCAGTGGTCTGCCGCTGTATTTTGGTTTGTCTGCGTTGTTTGGGCCGGATTGTTGATGGCGTTCCTAGATGTAGTCCTC
CAACTACCCTGTGAACCAACACTTCTGCCGTGCCTGTGCACGATTGCTAAAAAATGTCCTGATTTTTAGGCGATTTGACT
TGTAAAGTTTGTCTGGTTTCGTAGGGAGGTGTTCATTTCCAGACGGGGGTTAAGTTTATTTTGTTTCGTATATCAGGGAT
GGTTTTAGTGCCAGACTTGTGAATTGCTTGTCCGTGAAGATTAAATCGCCTTCTTGTTCATAACAGTGTAATCCCTTGTT
GTATATATATGTAGCCTGCTAGAATATGCTGCTTGCGACCTGATTAAACTCTTGCTTTGTTGCTGTTATTCTCTTTCAGA
ATTTGAAGTTGGATATAAGAAATCAACCTAGCGTCTGTCTTGTTCTCTGTGTAGCGCTTTCCTTTGGATTGCAGAGAATT
TTCAAACAAACCAACAGCAACTTGCATCTGACTGACTTGAGGTAACTATGCCAAAGGACAGGAGCTCCCGTTCAGTCTCG
CACGAGGGCTGCCGATCTCGTGTCTCCCCATACAAGTTGCGGAGTGGTTCTCGCAGGTCAGAGGAAGCCGCTGCTGCCAC
CGCTGCTGCAGCAGCAAAGCAGGCTGCAGAATGGGAGGAGGTTCGCTGTCCTGTGTGCATGGATCACCCTCATAATGCTG
TTATGCTTGTCTGCTCGTCACATGAGAAAGGTTGCCGCCCTTTCATTTGCGACACAAGCTACAGACACTCCAATTGCCTT
GATCAGTACCGCAAAGCCTCCAAGGAGTCCTCTAAGGATTCAGGGGCAGCAGAATGCGCTGAGTGCCAGCAGCCAGTTAA
ACTGGCATGTCCATTATGCCGTGGGCCGGTCAGCCATTGGACTAAGGATTATGATGCACGGAAGTTCATGAATTCTAAGG
ATCGAGCATGCACCATGGAGTCATGTGAGTTCAAGGGTGCATACAACCAGTTGAGGAAGCACGCAAGGGAGGATCATCCT
GCTGTACGACCAACGGAGGTGGACCCCAATCGACAGCGAGACTGGCATAGGATGGAGCAGCAGCGTGATCTTGGGGATTT
GTTCAGCATGCTGCGTTCGGGGATCAGTGGCAGAGAAGATGGGGTTGGAGTCGGTGAAGGTGACGAGGGCGTCAGTGAGA
GATCTTTGCACGCCACGTCCATAACGATGGTCTTCATTGTGCGGTCAGGCAGGTCCATCCTACACTACACAGACGGGGAA
ATCCCAGGTCGTCGATCAAGAACAATTCTTCTAGTTGGGGAGCCTCGTGGTGAAGCCTCCCGAGCAGGAGGATCAAGCGG
CAATGGTGATGCTGAGGCCACTACAACCGACAATGAGGAAACGGACCTGGCAATGTCAACACAGGCATCTGCTGGTTCTC
AGGAAGATGCTGGAGAAGCCGGTGGCGATCCTGCGCAGTGATGCTGCCTAAGGTCAGCTCCCTTGCTCTCTTGGACTGAA
AAGCCTAGCAGCAAGCCATTTATCGTGGTTTGCCGGGAGTCGGGCGCATGTTGGGAAGAAACATCCGTGCCAGCTTGTCT
CAGGCGTAGTCAGGACATTCTGCCTACAAGCAAGCAAGAAGAAATCAGG-------------GGGGCTAAGTAGTGTCGT
TTACATCCTGCTGGAATCTGTCGGCAAACATAAACATTTAATGGTGGCGTTGTATTATTGGAACATGTCCCATGTTTGGT
ACTCCGGTGAATCGCTTCGCTGCGTTGTAATTCTCTCTAGCTCTTCTGCTGAATTCCATTTCGCTGCATT---GTAATTG
CATCTGAGTAGATCTTTTCTGCATTTGAAGAATTTGTTGTATAGCGTTCAGGTTTCTAGTTCCACTTATGCCTGGAGGAA
CCTGAGAAATCGGAATATGGTCGATGACAGTGAATGAAATGCTCCTTAGTTCAGACACGTGAGATGTTTTGGATATTTTA
TAATATGAACTATATTCGGACTGACTGAAATCAATGGACATGCTAAAACGTGTCTACGTACATCTGATTCAGAAAAAACT
AG---------------------------------TAGAACATCTAATACAGTATTTGTGAAAAAGCTAGTAGAATATCT
AATACAGTATTTGTGAACGGGGCTGCAGCGTGATGGAAACCCACATAAG----------------------------TCG
AATTCTTAGCCATCAGTTACTTACATGGGTAAATTAGATATAATTAATTTACAGTTGGTAAATTAAAGACCATCATGGTT
GATATTA-TAATGAACTTTGCAAAATTAATAAAAATTTCAAGAAGTTGATTCGGAATCATTAGTGTGAATTTCAAATTAC
TTAATATGACATATTGTGCAGAGTATATCCCGTAACACTAGGGAGTATAACATCCACTCGTCCTCCTAATGTCGTGTGTC
ATGACTTGATGCTTCATTTTGAATTTTGCAAAGGTTAATCGATT-
>chr3D_1
TGGCCGACGTGGTGGAGCCCCCTGGGCATCCGTCGCGAGGGTGCGAGCG----AGCCTTAGCCAACCACGTCACTGTCCA
CGTCAGACGCCCCACCTATAAAGACGTAGCAAAGCCGACCCGCCCATCACACTCTCGTTTCCTTCTCCTTTCCTTTCCCT
TCCCCTCCTCCCC-ACCTTAGCGTCTCCTCGCCGCTACCCTCCTAGGTCTCGGCGCCGCCGCCGACGCCGCCGAGGGTCT
CCGGCGACCACGGACGCGGTTCGCTGTTACCCCTGACTGTCCGGCACGGTAAAACTTCCTCCCTCTCCCGCTTCCGCTCA
CCGTCGCAGCT---------------CGATCTGGCCCGCTCCGCCGTTGACCCCGCCCGATTCGGCTGCCTCTCGTGCCG
GAACTTGCGGACCATGTCTCTTCGTGCGTTCTGTGGGAGAATTTGTTCGACGCGTTCGATTTTCGAGCGGATCGATGCAG
GGCAGTGGTCTGC-GCTGTATTTTGGTTTGTCTGCGTCGTTTGGGCCGGATTGTTGATGGCGTTCCTAGATGTAGTCCTC
CAACTACGCTCTGAACCAACACTTCTGCCATGCCTGTGCACGATCGCTAAAAAATGTCCTGATTTTTAGGCGATTTGACT
TGTAAAGTTTGTCTGGTTTCGTAGGGAGGTGTTCATTTCCAGACG--GGTTAAGGTTATTTTGTTTCGTATACCAGGGAC
GGTTTTAGTGCCAGACGTGTGAATTGCTTGTCTGTGAAGATTAAATCGCCTTCTTGTTCATAACAGTGTAATCCC---TT
GTATATATATGTAGCCTGCTAGAATATGCTGCTCGCGACCTGATTAAACTCTTGCTTTTTTGCTGTTATTCTCTTTCAGA
ATTTGAAGTTGGATATAAGAAATCAACCTAGCGTCTGTCTTGTTCTCTGTGTAGCGCTTTCCTTTGGATTGCAGAGAATT
TTCAAACAAACCAACAACAACTTGCATCTGACTGACTTGAGGTAACTATGCCAAAGGACAGGAGCTCCCGTTCAGTCTCG
CACGAGGGCTGCCGATCTCGTGTCTCCCCATACAAGTTGCGGAGTGGTTCTCGCAGGTCAGAGGAGGCTGCTGCCGCCGC
CGCCGCTGCAGCAGCAAAGCAGGCTGCAGAATGGGAGGAGGTTCGCTGTCCTGTGTGCATGGATCACCCTCATAATGCTG
TTATGCTTGTCTGCTCGTCACATGAGAAAGGCTGCCGCCCTTTCATTTGCGACACAAGCTACAGACACTCCAATTGCCTT
GATCAGTACCGTAAAGCCTCCAAGGAGTCCTCTAAGGATTCAGGGGCAGCAGAATGTGCTGAGTGCCAGCAGCCAGTTAA
ACTCGCATGTCCATTATGTCGTGGGCCGGTCAGCCATTGGACCAAGGATTATGATGCACGGAAGTTCATGAATTCTAAGG
ATCGAGCATGCACCATGGAGTCATGTGAGTTCAAGGGTGCATACAACCAGTTGAGGAAGCACGCTAGGGAGGATCATCCT
GCTGTCCGACCAATGGAGGTGGACCCCAATCGACAGCGAGACTGGCATAGGATGGAGCAGCAGCGTGATCTTGGGGATTT
GTTCAGCATGCTGCGTTCGGGGATCAGTGGCAGAGAAGATGGGGTTGGAGTCAGTGAAGGTGACGAGGGCGTCAGTGAGA
GATCCTTGCACGCCACGTCCATAACGATGGTCTTCATTGTGCGGTCAGGCAGGTCCATCCTACACTACACAGACGGGGAA
ATCCCAGGTCGTCGATCAAGGACAATTCTTCTAGTTGGGGAGCCTCGTGGTGAAGCCTCCCGAGCAGGAGGATCAAGCGG
CAATGGTGATGCTGAGGCCACTACTACCGACAATGAGGAAACTGACCTGGCAATGTCAACACAGGCATCTGCTGGTTCTC
AGGAAGATGCTGGAGAAGCCGATGGCGATCCTGTGCAGTGATGCTGCCTAAGGTTAGCTCCCTTGCTCTCATGGACTGAA
AAGCCTAGCAGCAAGCCATTTATCGTGGTTTGCCGGGAGTCGGGTGCATGTTGGGAAGAAACATCCGTGCCAGCTTGTCT
CAGGCGTAGTCAGGACATTCTGCCTACAAGCAAGCAAGAAGAAATCACGGAGGGAACGTGGTGGAGCTGAGTAGTGTCGT
TTACATCCTGCTGGAATCTGTCGGCAAACATAAACATTTAATGGTGGCGTTGTATTATTGGAACATGTCCCATGTTTGGT
ACTCCGGTGAGTCGTTTCCCTGCGTTGTAATTCTCTCTAGCTCTTCTGCTGAATTCCATTTCGCTGCCTTGTAGTAATTG
CATCTGAGTAGATCCTTTCTGCATTTGAAGAATTTGTTGTATAGCGTTCAGGTTTCTAGTTCCACTTATGCCTGGAGGAA
CCTGAGAAATCGGAATATGGTCGATGACAGTGAATGGAATGCTCCTTCGTTCAGACACGTGAGATGTTTTGGATATTTTG
TAATATGAACTATATTCGAACTGACTGAAATCAATGAACATACTAAAACGTGTCTACATACATCTGATTCAGCAAAAGC-
-----------------------------------TAGAACATCTAACACAGTACT------------------------
------GTATTTGTGAACGGGGCTGCAGCGTGA---------------------------------GAGGGAGTGCCTCG
AATTCTTAGCCATCAGTTACTTACATGGGTAAATAAGATATAATTAATTTAGGGTCGGTAAATTAAAGACCAT----GTT
GATATTA-TGATAAACTTTACAAAATTAATGAAAATTTCAAGAAGTTGACTTGAAATCATCCGTGTGAATTTCAAATTAC
TT----TGACATATTGTGGAGAG---ATCCCGTAACACTAGGGAGTATAACATCCACTCATCCTCCTAATGTCGTGTGTC
ATGATTTGATGCTTCATTTTGAATTTTGCAAAGGTTAATCAATTA
>SNPs
-----------S--------------------------------------------------------------------
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------------------------------------------S-------------------------------------
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----------------------------------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----------------------------------------------------
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--S-----------------------------------------------------------------------------
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----------------------------------------------------------------S---------------
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-------------------S------------------------------------------------------------
-------------------------------------------------S------------------------------
----S---------------------------------------------S-----------------------------
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-------S----------------------------------------S-------------------------------
----------------------------------------------------------------------------S---
-----------------------------------------------------------------------S--------
--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------------------------------------
--------------------------------------------S----SSSSSSSSSSSSSSSSS--------------
----------------------------------------------------------S-----------------S---
---SS--S-----S------------------------------------------------------------------
---S--S------------------------------------------------------S------------------
---------------------------------------------
>forward_487
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-------------------------------------------------------------------CGGATCGATGGAG
GGCAGTA-------------------------------------------------------------------------
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>reverse_1388
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---------------------------AGTCAGCCATTGGACCAAGG---------------------------------
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>forward_1067
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--------CTGCCGATCTCGTGTCTCG-----------------------------------------------------
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>reverse_2695
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------------------------------------------------------TGTAGCCATCGAGAGGGAGT------
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