>input_sequence_62480
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--------------------------ATGGAGTCAGGAGAGGGAGGCATGCAG----CCCCGCCCGGTCCT-GTCCGACC
CT--GCGAGAGACCATGCGACCCTAATTATTGATGATCATGGCGGAGTCAGCTGTCGTTCATGGGTTCCTATCCCACGCC
ACGTTGCCTCCACTCTCCTCT-----ACATATACAGCACCACC-TCCCTCTTCCTCCTCGCTCTACCCCTCTCCTTGCTC
GCAGTAACTCGAGTC----CTACTCCCTGCACGGTCCTCCCATTACCACGAGCGAGCGCGTGTCATCTCATACGGGCACG
CGGGGCTACGTGGTGC---TCTCTGCGCGCACATGGCGGCGAGCGAGCAGAGCTCCGAGTCCTCGTCGACGTCCTGCACT
TCCTCCTACTCCACGTCCTCGTGCTCCCCCAGGGCCGACGACAAGAAGC---GGAACGGCGGCGGCAAGCGGAAGCGCGC
AGCGGCGGCC---------GACGAGGAGCCGGCCCCGGCGGCGGCGG---CGGCGTCGT------ATCGCGGCGTGCGGA
TGCGGGCGTGGGGCAAGTGGGTGTCGGAGATCAGGGAGCCGCGCAAGAAGTCCCGCATCTGGCTCGGCACCTTCCCGTGC
CCGGAGATGGCCGCGCGCGCCCACGACGCCGCCGCGCTCAGCATCAAGGGCGCCCGCGCCGTGCTTAACTTCCCGGACCT
CGCGCCCGCGCTCCCTCGCCCGGCCTCCCTCGCCCCGTGCGACGTCCAGGCCGCCGCCGCGCGCGCCGCCCTCATGCACG
ACCACGACCACCAGTGCTGCTCCGCC------TCAACCTCCCCCGCCGCCGCGCCGGACTCCGCGCGCGGCAATGCCCCG
GCGCCATGCGACCAGCCGGCCGCGCGAGACGAGCCGGAGCATGAGCCG---CCGTTCCAGCCGAGCCAGGGAAATGAGCA
GCAGCTCACGGCTGCACAGGTGGAGATGGTGTTCGACGAGCTGGCGCCGCTGTGGGTGGAGAACGTGGTGGATTTCGCGC
CGTCCGATCACTGCTGGACGGCGTACGATTGTCTCGACCCAATCGGCTTCCAGCCTCTCCTGTGGGAGTATTAG------
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>chr3B_1_TraesCS3B01G158800
GAGGAGACATGAAGTTGTTTTTGTCTTCAGGTCCGACTCCTTTTGTAAACTTTAATCTGTAATCTTTCTTTCCTTCCTTT
TTTTTTCTTCCTTATTAGGCTTATCTGTAGTCATTTGTTGATATTGTTTAAATTC-TTTCATTAAGAGTGAATTCTATTA
TTTTTACCTCTTAGTGT--CACGTTTGAGACATCAACTGCTATATTTAACTTCCCGCAAAAAAAAGAACTGCTATATTTA
ACAGGTTTTCACATATTTACCCAATTTAAGCAAACTGGTGCGACAAATTATCCTATTTTTTTCTCTTTAAATGTTGATTG
TACATGCCATTTTGGCTGTTTTTTTTAC----TTTTTATTTGCTCTTGATTTGTCAAGGGATGGGTCCTACCTGCCAGTT
GGGGAGCAAGAAATATGAGTGAAAAATTGGAGTACGGCTGTAGTTTGAACCCGAAATCTCCCCCCGCAGACAGGTAAGAC
TCATCCCCCGCCGGACCGAGAGCAAACCAGACAAAACCAAACAGTAAAACAAACCAGCCAATATGGCATGCACAGTCAAC
ACTGATTCAGAAAATAAATAAATAAATGGGGATAATTTGTGGCACAATTTTGCTTACATTGGGTAAAAGTACATGGAAAA
ACTACCAAATGGGACAATTCTTGTCACAAACGTGAAACGTGGGGTACAAATAGAATTAACCCTGATGTAATTCCATTTGT
ACATTTTCCTCTGACAATTATTGAAAAAGTAGAGTTACAGTAGGGTTTTACCCTACTATTTTTCTCAAAAAAAAAGAATT
CACTCTT---TAATTAATTTATAAAAATTGTAGTGGGGTATTATCCTACCGTTGCCCTTCAAAAGAAAAATGTCGAGTGA
GAAATAATTATTTCTAATTCGACCGTGCTATAGACGTTTT---TATTTCTAAGACAACATATA-----------------
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-----------------------------------------------CTGCGTTCTGAAATGTCAGGGAGTCCAAGTGAA
TCGTTGGGAGGAATTGAATGTCTAGG------------------------------------------------------
---------------TGTAGCAGGGCATGGAGTCAGGAGAGGGAGGCATGCAG----CCCCGCCCGGTCCT-GTCCGACC
CT--GCGAGAGACCATGCGACCCTAATTATTGATGATCATGGCGGAGTCAGCTGTCGTTCATGGGTTCCTATCCCACGCC
ACGTTGCCTCCACTCTCCTCT-----ACATATACAGCACCACC-TCCCTCTTCCTCCTCGCTCTACCCCTCTCCTTGCTC
GCAGTAACTCGAGTC----CTACTCCCTGCACGGTCCTCCCATTACCACGAGCGAGCGCGTGTCATCTCATACGGGCACG
CGGGGCTACGTGGTGC---TCTCTGCGCGCACATGGCGGCGAGCGAGCAGAGCTCCGAGTCCTCGTCGACGTCCTGCACT
TCCTCCTACTCCACGTCCTCGTGCTCCCCCAGGGCCGACGACAAGAAGC---GGAACGGCGGCGGCAAGCGGAAGCGCGC
AGCGGCGGCC---------GACGAGGAGCCGGCCCCGGCGGCGGCGG---CGGCGTCGT------ATCGCGGCGTGCGGA
TGCGGGCGTGGGGCAAGTGGGTGTCGGAGATCAGGGAGCCGCGCAAGAAGTCCCGCATCTGGCTCGGCACCTTCCCGTGC
CCGGAGATGGCCGCGCGCGCCCACGACGCCGCCGCGCTCAGCATCAAGGGCGCCCGCGCCGTGCTTAACTTCCCGGACCT
CGCGCCCGCGCTCCCTCGCCCGGCCTCCCTCGCCCCGTGCGACGTCCAGGCCGCCGCCGCGCGCGCCGCCCTCATGCACG
ACCACGACCACCAGTGCTGCTCCGCC------TCAACCTCCCCCGCCGCCGCGCCGGACTCCGCGCGCGGCAATGCCCCG
GCGCCATGCGACCAGCCGGCCGCGCGAGACGAGCCGGAGCATGAGCCG---CCGTTCCAGCCGAGCCAGGGAAATGAGCA
GCAGCTCACGGCTGCACAGGTGGAGATGGTGTTCGACGAGCTGGCGCCGCTGTGGGTGGAGAACGTGGTGGATTTCGCGC
CGTCCGATCACTGCTGGACGGCGTACGATTGTCTCGACCCAATCGGCTTCCAGCCTCTCCTGTGGGAGTATTAGGCTTGG
--CGTACAACA--------CCTTGATTTCCT---TTCTTCTTCTTTTCTTGGTTTTTGTGTGGTTTTCTAGTGCTGCTTA
AAATGAAGCACATTTTTCGCTTTGTCATTTGGTTTGCGTTTGCGCATGCTTGGGTTTGGACTACTTGTAAG-TTGAGATG
TTTGTGACCAATTTAGCTTAGATGTGAGTTGAGTTTGAACA--TAAGAATCTAATGTACATGTG------------AATT
ATGCGGTCTTTAGGTTACCGCAATATTACAGGTTTTCTTACCGGTGAAATGAACCAACCTCAACATGATAGCTCTGGTGA
TACTTTGGCCATGCGATGTAGTTTTCGGGAATTAACTTGACATACCACCTCAGATATGCGACGCGATTGCTTGATAACGA
TGTTGGCTTGCTTGTTTT-CAACACGGGGATCATCATCTTCCTCAAACCTAACTATGTTATTTCAACAACAGAGATTAAA
TTCGCAAAAAAAAAACAGAGATTAAAACTCTATGTGGTATAAGCTATTGACTTTTACTGAACAGTAACTTATATTGCTCA
ACAGGTCGATCGCTTTCGTTATACCACGTGATGAGTTGATGACATGACTTTGGTGCGGTCGCGATTAGTCTGTGTTGATC
GATAGAGCACGCCTCCTCTGTCGTTTGCATGGATCTTGGTTTTTTTTTTTCCGAGTATATTGGTTTCAAATATATCTCAT
GTATTCAACCACAACATGTTTCTAAACATGATTATCTTCTTAATGATCCCCTCAATTACTCTATCCCTGTGTAGAAACGA
TATAAACTAT---GTAGCCTAATTATTCAGGGCATGAAATAATTGATATTTCAGGCTGGAGGTGAAGAGTCTTTCTTCTT
CTTTTATGCGTTATGAAACGATGGTGAGAACTTCCGGCCTCTA-ATCGATTGATGCATGCAAAGCTGAAGAACCTTGGCA
ATCATTTTTCCTTGCATTAAAAGACCAATTATTTTTGACACCTCAGAGGCCCTACCAAGATTTTTCA
>chr3D_1
GAGGAGACATGAAGTTGTTTTTGTCTTCAGGTCTGACTCCTTTTGTAAACTTTAATCTGTAATCTTTCTTTC-TTTCCTT
TTTTTCCTTCCTTATCAGGCTTATCTGTAGTCATTAGTTGATATTGTTTAAATTATTTTCATTAAGAGTGAATTCTATTT
TTTTTACCTCTTAGTTACACACGTTTGTGACATCAACTG--------------------------------CTATATTTA
ACAGGTTTTCACATATTTACCCAATTTAAGC-AACTGGTGCGACAAATTATCCTTTTTTTTTCTCTTTCAATGTTGATTG
TACAAGCCATTTTGGCTGATTTTTTTTTTACTTTTTTATTTGCTCTTGCTTTGTCAAGGGATGGTTCCTACCTGTCAATT
GGGGAGCAAGAAATATGAGTGAAAAATTGGAGTGCGGTTTTAGTTCGATCTCAAAATCTCC-CCCGCGGACAGGTAAGAC
TCATCCCCGCGGAG-CTGAGAGCAAACCACACAAAACCAAACAGTAAAATAAACCAGCCA-------ATGCACAGTCAAC
ACTGAAACAGAAAAAG--TAAATAAAT-GGGATAATTTGTGGCACAATTTTGCTTACATTGAGTAAAAATATATTGAAAA
ACTACTAAATGGGATAATTCTTTTCACAAATGTGAAACATGGGGTACAAATAGAATT-----------------------
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CAATCTTTAATAATTAATTTATAAAAATTATAGTGGAGTTTTATCCTACCGTTGCCCTTCAA-AGAAAAATGTCGAGTGA
GAAATGACTATTTCTAATTCGACTGTGCTATAGACGTTTT---TATTTCGAAGACAACATATA-----------------
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-----------------------------------------------CTGCGTTCTGAAATGTCAGTGAGT-CAAGTGAA
TCGTTGGGAGGCTCCGTTTCAAAATAGATGACCCAACTTTGTACTATTTAGTAGTATAAAGTTGGGTCATCTATTTTAAA
ACGGAGGGAGTAAGTTGTAGCAGGGCATGGAGTCAGGAGAGGGAGGCATGCAG----CTCCGGGCCGGGCCGGTCCATCC
CT--GAGAGAGACCATGCGACCCTAATTATTGATCA--ATGGCGGAGTCAGCTGTCGTTCATGGGTTCCTATCCCACGCC
ACGTTGCCTCCACTCTCCTCT-----ACATATACAGCACCACC-TCCCTCTTCCTCCTCGCTCTACCCCTCTACTTGCTC
GCAGTAACTCTAGTTCTAGCTACTCCCTGCACGGTCCTCCCATTACCACGAGCGAGCGCGTGTCATCTCATCTGGGCGCC
CGGGCTACGCGGTGCTCGATCTCTGCGCGCGCATGGCGGCGAGCGAGCAGAGCTCGGAGTCCTCGTCGACGTCCTGCACT
TCCTCCTACTCCACGTCCTCGTGCTCCCCCAGGGCCGACGACAAGAAGC---AGAACGGCGGCAACAAGCGGAAGCGCGC
AGCGGCGGCC---------GACGAGGAGCCGGCCCCGGCGGCGGCGTCGTCGGCGTCGT------ACCGCGGCGTGCGGA
TGCGGGCGTGGGGCAAGTGGGTGTCGGAGATCAGGGAGCCGCGCAAGAAGTCCCGCATCTGGCTCGGCACCTTCCCGTGC
CCGGAGATGGCCGCGCGCGCCCACGACGCCGCCGCGCTCAGCATCAAGGGCGCCCGCGCCGTGCTCAACTTCCCGGACCT
AGCGCCCGCGCTCCCGCGCCCGGCCTCCCTCGCCCCGTGCGACGTCCAGGCCGCCGCCGCGCGCGCCGCCCTCATGCACG
ACCACGACCACCAGTGCTGCTCCGCC------TCAACCTCCCCCGCCGCCGCTCCCGCCTCTCCGCGCGGCAATACCCCG
GCGCCATGCGGCCAGCCGGCCGCGCGAGACGAGCCGGAGCATCAGCCG---CCGTTCCAGCCGAGCCAGGGAAACGAGCA
GCAGCTCACGGCTGCACAGGTGGAGATGGTGTTCGACGAGCTGGCGCCGCTGTGGGTGGAGGACGTGGTGGACTTCGCGC
CGTCCGATCACTGCTGGACGGCGTACGATTGTCTCGACCCCATCGGCTTCCAGCCTCTCCTGTGGGAGTATTAGGCCTGT
GCCGTACAACA--------CCTTGATTTCCT---TTCTTCTTCTTTTCTTGGT-TTTGTGTGGTTTTCTAGTGCTGCTTA
AAATGAAGCACATTTTTCGCTTTGTCATTTGGTTTGCG------CATGCTTGGGTTTGGACTACTTGTAAG-TTGATATG
CTTGTGACCAATTTAGCTTAGATGTGAGCTGAGTTTGAACATATAAGAATCTAATGTACATGTG------------AATT
ATGTGGGGTTTAGATGACCGCAAAATTACGGGTTTTCTTACAGGTGAAATGAACCAACCTCAACATGATAGCTCTGGTGA
TACTTTGGCCATGCGATGTAGTTTTCGGGAATTAACTTGACATACCACCTCAGATATGTGACGCAATTGCTTGACAACGA
TGCTAGCTCGCTTGTTTTACAACACGGGAAGCGTCATCTTTCTCGAACCTATC----TTATTTCAACAACGGAGAA----
--------------------ATTAAAACTCGTTGTGGTATAAGCTATTGACTTTCACTGAGCAGTAACTTATATTGCTCA
ACAGGTCGATCGCTTTCGTTATACCACGTGATGAGTTGATGACATGACTT-GGTGTGGTCGCGATTAGTCTGCGTTGATC
GATAGAGCACACCTCCTCTGTCGTTTGCATGGATCTTGGATTTTCTT--TCCGAGTATATTGGTTTCAAATACATCTCAT
GTATTCAACCACAACATGTTTCTAAACATGATTATCTTCTTAATGATCCCCTTAATCACTCTATCCCTGTGTAGAAACGA
TATAAACTACTAAGTAGCTTAATTATTCAGGGCATGAAATAATTGATATTTCAGGCTGGAGCGGAAGAGTCTTTCTTCTT
CTTTTATGCGTTCTGAAACGATGGTGAGGACTTCCGGCCTCTACATCGATTGATGCATGCAAAGCTGAAGAACCTTGGTA
ATCATTTTTCTTTGCATTAATAGACCAATTATTTTTGACACCTCAGAGGCCCTACCGAGATTTTTCA
>chr3A_1
GAGGAGACATGAAGTTGTTTTTGTCTTCAGGTTCGACTCCTTTTGTAAGCTTTAATTTGTAATCTTCCTTTC-TT-----
---TTTCTTCCTTA------------------------TGATATTGTTTAAATTCTTTTAATTAAGAGTGAATTCTATTT
TTTTTACCTCTTAGTTT--CACGTTTGTGACATCAACTC--------------------------------CTCTATTTA
ACACGTTTTCACATATTTGCCCAATTTAAGCAAACTGGTGCGACAAATTATCCTATTTTTTTCTCTTTCAATGTTGATTG
TACATGCCATTTTGGCTGATTTTTTTACTGTTTTTTGATTTGCTCTTGATTTGTCAAGGGATGGGTCCCACCTGTCAATT
GGGGAGCAAGAAATATGAGTGAAAAATTGGAGTTC-----------GAACCCGAAATCTCC-CCCGCAGACAGCTAAGAC
TCATCCCCAGCCGAACTGAGAGCAAACCAGACAGAACCAAACAGTAAAATAAACCAGCCAACATGGCATGCACAGTCAAC
ACTGAAATGGAAAATAACTAAATAAAT-GGGATAATTTGTGGCACAATTTTGCTTACATTGGGTAAAAATATATGAAAAA
ACTACTAAATGGGATAGTTCTCGTCACAAACGTGAAACATGTGGTACAAATATAATC-----------------------
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CACTCTT---TAACTAATGTATAAAAATTACAGTGGGGTTTTATCCTACTATTGCCCTTAGAAAAAACA---TCGAGTGA
GAAATGATCATTTCTAGTTCTACTGTGCTATAGACGTTTTATTTATTTCTAAAACATCATATGGAGTATACTATAGTACT
ACTCCCTCCGTTTCAAATTACTCGTCGTGGTTTTAGTTTAAATTTAAACTAAAACCACGACGAGTAATTTTGAACTAAAA
CCACGATGAGTAATTTAGAATGGAGGGAGTAGTTTTGAAGAGGCGTGCTGCATTGTGAAAGTTGAGGGAGC-TAAGTAAA
TCGCTGGGAGGAATTGAATATCTAGG------------------------------------------------------
---------------------------TGTAGCCAGGAGAGGGAGGCATGCAGGCAGCTCCGGGCAATGCCGGTCCGTCT
CTGAGAGAGAGACCATACGACCCTAATTAT---TGATCATGGCGGAGTCAGCTGTCGTTCATGGGTTCCTATCCCACGCC
ACGTTGCCTCCACTCTCCTCTCCTCTACATATACAGCGCCACCCTCCCTCTTC--CCTCTCTACATCTCCCTCCTCGCTC
GTAGTAACTCGAGTC----CTGCTCCCTGCACGGTCCTCCCATTACCACGAGCGAGCGCGTGTCATCTCATACGGGCGCG
CGGGGGTACGTGGTGC---TCTCTGCGCGCGCATGGCGGCGAGCGAGCAGAGCTCCGAGTCCTCGTCCACGTCCTACGCT
TCCTCCTACTCCACGTCCTCGTGCTCGCCCAGGGCCGACGCCAAGAAGCGGCAGGACGGCGGCAACAAGCGGAAGCGCGC
GGCGGCGGCGGGCGAGGAGGAGGAGGAGGCGGCCCCGGCGGCGGCGG---CGGCGTCGTCGTCGTACCGCGGCGTGCGGA
TGCGGGCGTGGGGCAAGTGGGTGTCGGAGATCAGGGAGCCGCGCAAGAAGTCCCGCATCTGGCTCGGCACCTTCCCGTGC
CCGGAGATGGCCGCGCGCGCCCACGACGCCGCCGCGCTCAGCATCAAGGGCGCCCGCGCCGTGCTCAACTTCCCGGACCT
CGCGCCCGCGCTGCCCCGCCCGGCCTCCCTCGCCCCGTGCGACGTCCAGGCCGCCGCCGCGCGCGCCGCCCTCATGCACG
ACCACGACCACCAGTGCTGCTCCGCCTCAACCTCAACCTCCCCCACCGCGGCGCCGGCCTCCGCGTGCGGCAATGCGCCG
GCGCCAAGCGACCAGCCGGCCGCGCGGGACGAGCCGGAGCATGAGCCGGAGCCGTTCCAGCCGAGCCAGGGAAGCGAGCA
GCAGCTCACGGCCGCGCAGGTGGAGATGGTGTTCGACGAGCTGGCGCCGCTGTGGGTGGAGGACGTGGTGGACTTCGCGC
CGTCCGATCACTGCTGGACGGCGTACGATTGTCTCGACCCCCTCGGCTACCAACCTCTCCTGTGGGAGTATTAATTAGGC
TTGCTGTAAAACACCCGCCCCTTGATTTCCTCTCTTCTTCTTCTTTTCTTGGT-TTTGTGTGGCTTTCTAGTGCTACTTA
AAATGAAGCACATTTTTCGCTTTTTCATTTGGTTTGCGCACGTTCGGGTC--GGTTGGGACTACTTGTAAGTTTGAGATG
TTTGTGACCAATTTAGCTTAGATGTGAGTTGAGTTTGAAC--ATAAGAATCTAATGTACATGTCAAAATAAAATAAAATT
ACGCGGGCTTTAGGTTACCGCAAAATTACGTGTTTTCTTATGGGTGAAATGAGCCAGCCTCAACATGATAGCTCTGGTGG
TACTTTGGGCATGCGATGTAGTTTTCATGAATTAACTTGCCAAACCACCTGAGATATGTGAAGCAATTGCTTGACATTGA
TGTTGGCTTGCTTGTTTT--------------------------------------------------------------
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>SNPs
------------------------------------------------------------------------S--S-S--
---------------S-------------------S-------------------------------------------S
---------------S-----------S-----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------
--------------------------------------------------------------------S-----------
------------------S-------------------------------------------------------S--S--
---------------------------------S---S-S-----S---------------S------------------
--------S-------S--------------------------------S-----------S------------------
-----SS----------S---------S----------------------------------------S--S--------
-----S--------S-----------------------S------------------SSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
-----------------------------S---------S----------------------------------------
-----S-----------------S--------------------------------------------------------
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-----------------------------------------------------------------------S--------
-------------------S------------------------------------------------------------
----------------------------------------------------------S---SS-S--S-S------S--
-----S--------------------------------------------------------------------------
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-----------------------------------------------------------------------------S--
-----S------------------------S-------------------------------------------------
----------------------------------------------------S----------SS---------------
------------------------------------------------------------------S-------------
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-----------------------------------------------------------------S--------------
---------------S----------------------------------------------------------------
---------------------------------------------------------S----------------------
--------------------------------------------------------------------------S-----
-------------------------------------------------------------S----------S-------
----------------------------------------S-----------------------------------S--S
-----------------------------------------------------S--------------------------
--------------------------------------SSS-SS------------------------------------
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------S----------------S-----S-----------S--------------------------------------
----------------------------------------------------------S-----S---------S-----
----------------------------S-S-S-------S---S------S-SSSS-------------S----SSSSS
SSSSSSSSSSSSSSSSSSSS----------SS----------------------S-----S-------------------
--------------------------------------------------S----S----------------S-------
----------S----------------------------S----S--SS-----------------------S-------
----------------------------------------------------S---S-----------------------
---------S--------S------------------------------------------SS-----------------
------------S---------------S-------------------------------------------------S-
----------S---------S-----------------------------------S----------
>forward_395
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-------------------------------------------------------AAGGGATGGGTCCTACCTGC-----
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>reverse_2439
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--------------------------------------TTTGCGCATGCTTGGGTTTG----------------------
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