>input_sequence_58093
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--------------------------------------------------------ATGAAGCGGCCGCTGCGGGGGCCC
TTCGCGGCGCTCCTCCTCGTCGTGCTCTGCGGCGCGGCCTCCTTCCCCTCCGCGCTCCGCCGGGCGCTGGCCCCGCCGGC
CCCCGCGCTCGCCCCGCCGCCGCCGCCGCTCGATCCCGCGCGCCTCAACGCCACGCTCCTCCGCCTCGCCGCCCTCGACG
GCTCCGAGCCGTCCCTGCGCCGCGACGTCGACGACCTCCTCGAGGGCCGCCTCCCGGCCTCGGGGCGCGCCCGCGCCCGC
GCCTGGCGCCGCGACAGGCTCCACCCGCTCCACCTCCGCCACCACCAGTTCCCCGTCCACCGCCGCGGCCACGCAGACCG
CGACCACGCCGACTCCCTGCTCCACCCGCTCCCGCGCGAGGAGCTCCTCCTCGACCCCGCCCTCCGCCGCGCGCTCCGCT
CCTGGCACCGCCTCCGCCGCTACGACCCCGCCGTGCTCCGCGACCTCCCCGCCGTGCTCGCCCTCCCCGCCCGCATCCCC
TCCTGCGCCGTCGTCGGCAACAGCGGCATCCTCCTCCGCCACGCCCACGGCGCCCTCATCGACTCCCACCACGCCGTCTT
CCGCCTCAACAACGCCCGCATCGTCGGCTACACCGCGCACGTCGGCGCCAAGACCAACCTCTCCTTCATCAACAGCAACA
TACTACACCTCTGCGCGCGCCGCCCCGGCTGCTTCTGCCACCCCTACGGCAGCGGCGTCCCCGTCCTCCTCTACATCTGC
CAGGCCGCGCACTTCCTCGACGTCGCCGCCTGCAACGCATCCTCCCTCGCCACCCACGACGCACCCATCTCCGTCACCGA
CCCTCGCCTCGACGTCCTCTGCGCGCGCATCGTCAAGTACTACTCGCTCCGCCGCTTCGTCGCCGAGACGGGCCGCGCCG
TCGAGGACTGGAACGGCGCGCACGACGCGGCGCTGTTCCACTACTCGTCCGGGATGCAGGCCATCATGGTCGCGGTGGGG
GTGTGCGACAGGGTGAGCGTGTTCGGCTTCGGGAAGGTGGCAGACGCCAAGCACCACTACCACAGCAACCAGAAGAACGA
GCTCGACCTCCACGACTACGAGGCGGAGTACGCCTTCTACCGCGACCTCGCCGAGCGCCCGCAGGTAGTCCCCTTCCTCA
AGGACACTGGCTTGGCTGTCCCGCCCGTCGTATTCTACCATTAG------------------------------------
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>chr3D_1_TraesCS3D01G364600
ACGATTTCTCTTGGACGATTCAAGCACGATAGTTAATCTACTGGCTGCCGTGTGAAAGTCGTCCGCAAAACATCCTTTGT
ATAGCAGCGTTGTGCCAATTTCAGTATTTTTTAACAAATCTAGCCCTTTTGAGCGACTTGAGGCACATCTGGCCCTTGGG
CAAAACTAATTTGGAATCTGGTCCCTGGGTCGGCGCCACATAGCATGGCGTCGAAGTTGTACATGTCGGCGCCACACTAC
ATGACGCCGAGATGTACAAGTTCGGCGCCATACTATGTGGAGTCGAGCAAATCAGGCCCTTAGGGTTTCCGTGGGCCCAT
CTGAGGTCGGCTCCATGTAGCACGGCGTCGAACTTGTACACGTCGGTTCCGTGTAGTGTGGCGCCGACATGTACAACTTT
GGCTTCATGCTATATGGCGCCGACCCCAGGGGCGAGATTTAGAATTAGTTTTGCCCAAGGGCCAGGCGTACCTCAAGTCG
TGCAAAGGGGGCAGATTTGTGAAAAAAAATACGCCAATTTCACCGGGACAGAGGGTCAATCCATCGGGGCCAGATTTGTC
AAAAAAATACGCCAATTTCACCGGGACAGAGGGTCAATCCATCGGGGACAAAAGTGCCAATTTCACCGGGACACAGGGTC
AATCCACAAACAATTCCGCCCATCATCTCCCGCAGAGCCATGCCGTGCCGGGGCCTCGTGCAGTCACGTTGCGTCCCTCA
CACA--CAGCACAGAATCATTGCTCCTCCCGACGCTGCTCGAACCCAGCAAGAACAACGACACATAGGATCCCCCG-TTC
CCCGAACCCAAAGTCCAACCACCTACTACAAATAAATCAACCTCGCTCCTGCC------CACCTCGCCGTACTCGAACCC
ATCCATCGCGCCGCGCCCCACTCCCCCGGCCGCCCGGACCTCCTC-------GGCTCGGGCTCGCACCCCCCAGATGCGC
ATCATCCCCCGATGCGGCCCCGGCCCACTTAGCCCCCGGCTGCTGCGGCGGCGGCCATGAAGCGGCCGCTGCGGGGGCCC
TTCGCGGCGCTCCTCCTCGTCGTGCTCTGCGGCGCGGCCTCCTTCCCCTCCGCGCTCCGCCGGGCGCTGGCCCCGCCGGC
CCCCGCGCTCGCCCCGCCGCCGCCGCCGCTCGATCCCGCGCGCCTCAACGCCACGCTCCTCCGCCTCGCCGCCCTCGACG
GCTCCGAGCCGTCCCTGCGCCGCGACGTCGACGACCTCCTCGAGGGCCGCCTCCCGGCCTCGGGGCGCGCCCGCGCCCGC
GCCTGGCGCCGCGACAGGCTCCACCCGCTCCACCTCCGCCACCACCAGTTCCCCGTCCACCGCCGCGGCCACGCAGACCG
CGACCACGCCGACTCCCTGCTCCACCCGCTCCCGCGCGAGGAGCTCCTCCTCGACCCCGCCCTCCGCCGCGCGCTCCGCT
CCTGGCACCGCCTCCGCCGCTACGACCCCGCCGTGCTCCGCGACCTCCCCGCCGTGCTCGCCCTCCCCGCCCGCATCCCC
TCCTGCGCCGTCGTCGGCAACAGCGGCATCCTCCTCCGCCACGCCCACGGCGCCCTCATCGACTCCCACCACGCCGTCTT
CCGCCTCAACAACGCCCGCATCGTCGGCTACACCGCGCACGTCGGCGCCAAGACCAACCTCTCCTTCATCAACAGCAACA
TACTACACCTCTGCGCGCGCCGCCCCGGCTGCTTCTGCCACCCCTACGGCAGCGGCGTCCCCGTCCTCCTCTACATCTGC
CAGGCCGCGCACTTCCTCGACGTCGCCGCCTGCAACGCATCCTCCCTCGCCACCCACGACGCACCCATCTCCGTCACCGA
CCCTCGCCTCGACGTCCTCTGCGCGCGCATCGTCAAGTACTACTCGCTCCGCCGCTTCGTCGCCGAGACGGGCCGCGCCG
TCGAGGACTGGAACGGCGCGCACGACGCGGCGCTGTTCCACTACTCGTCCGGGATGCAGGCCATCATGGTCGCGGTGGGG
GTGTGCGACAGGGTGAGCGTGTTCGGCTTCGGGAAGGTGGCAGACGCCAAGCACCACTACCACAGCAACCAGAAGAACGA
GCTCGACCTCCACGACTACGAGGCGGAGTACGCCTTCTACCGCGACCTCGCCGAGCGCCCGCAGGTAGTCCCCTTCCTCA
AGGACACTGGCTTGGCTGTCCCGCCCGTCGTATTCTACCATTAGGCGCCAGCTTCCTAGGGTGCGGGCAACGTGCTCGAC
GTTATG--------------CTTTTCTTTTTGGACCTGCTTGTTTGCTCAGTGTAAAATGTGCTCTGCGAGGTGGGTTAG
TTATTTATTGTGATTAGATGATAGGTGAGTTGAGATAGAGAATTGGAGCTGCAAGTGTACATTAAGATTTAGGATCCTCC
ACTGGTATAACCGTATAGGAGAGGTTGCTTGTGTTTTTGGCTGCTTCACGACGACAGCTAGTGAAGTGTAATTTCAGACT
GATTTGTCTTGATTATTTCTTCCGAATCAAATTTATACCT---TATGTGAAGCCTTGCTGCCACTATGATTCAGCTGATA
TGTACTCCCTCTGTGAAGAAATATAAGACCGTTTAGATCACTT---------AGTGATCTAAACGGTCTTATATTTCTTT
ACGGAG----TAGGTTGTTTCTCTTAGGTGACAGGCATGCCTCAGCCTTGCTGCTACTATGCTTCAGCTGATAAAATCTA
TACCTTATTTTACTGCTTGCTTATGTCTTCTTGGTATGTGATCC-TTTTTACCTTATTTATCATCGAACTAGTAAGCTTA
ACAGGATAACAGTGTACATAATTACT------------------------------------------------------
---------------------------------------------------TCTGTGAATGCG-TTTTCTTTTCAAGAGT
GGCACCACT---TTGGTCCAACAAGATGAAAAATGGTTCGAATTTAGCTCGTGTGCTTAGTTTGTTGATGAGTTTGAACC
ATTGTCAGTCTGTTGACGAGTTTGAACCATTTCCATCTT-----------------------------------------
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---------------------GTTAGACCAAAGTATTCCCATGCGG-TGCTATTTCCTCTTTTCTTTTTGGTACCAGGGT
TTGCAGCTTGATTCCAATGGGAGATTGGGAGTCTTGCATTATAATTTCATAATTACTGGATGTTTTGCATTACACAAGTT
CACAGTTTCTGTCAACGACTGCAGTTCACCTTTTGTATTGCTTTACATTTTATGTCTATGCTACGACTAGGATGTAGGAA
AGGACGCTTGAATCTTGCTACATGTCGCTGAGAAATATTACCATGGG
>chr3B_597
ATCCAAG-------------------------------------------------------------------------
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-------------------------------------------GGGGACAAAAGTGCCAATTTCACCGGGACAAAGGGCC
AACACGCAAACAATTCCGCCCATCATCTCTCGC-----------GTGCCGGGGCCTCGTGCAGTCACGTTGCGTCCCTCA
CACACACAGCACAGAATCATTGCTCCTCCCGACGCTGCTCGAACCCAACAAGAACAACGACACATAGGATCCCCCG-TTC
CCCGAACCCAAAGTCCAACCACCTACTACAAATAAATCAACCTCGCTCCTGCC------CACCTCGCCGTACCCGAACCC
TCCCATCGCGTCGCGCCCCACTCCCC-GGCCGCCCGGACCTCCTC-------GGCTCGGGCTCGCACCCCCCAGATGCG-
--CATCCCCCGATGCGGCCCCGGCCCACTTAGCCCCCGGCTGCTGCGGCGGCGGCCATGAAGCGGCCGCTGCGGGGGCCC
TTCGCGGCGCTCCTCTTCGTCGTGCTCTGCGGCGCGGCCTCCTTCCCCTCCGCGCTCCGCCGGGCGCTGGCCCCGGCGGC
CCCCGCGCTCGCCCCGCCGCCGCCGCCGCTCGATCCCGCGCGCCTCAACGCCACGCTCCTCCGCGTCGCCGCCCTCGACG
GCTCCGAGCCGTCCCTGCGCCGCGACGTCGACGACCTCCTCGAGGGCCGCCTCCCGGCTTCCGGGCGCGCCCGCGCCCGC
GCCTGGCGCCGCGACAGGCTCCACCCGCTCCACCTCCGCCACCACCAGTTCCCCGTCCACCGCCGCGGCCACGCAGACCG
CGACCACGCCGACTCCCTCCTCCACCCGCTCCCGCGCGAGGAGCTCCTCCTCGACCCCGCCCTCCGCCGCGCGCTCCGCT
CCTGGCACCGCCTTCGCCGCTACGACCCCGCCGTGCTCCGCGACCTCCCCGCCGTGCTCTCTCTCCCCGCCCGCATCCCC
TCCTGCGCCGTCGTCGGCAACAGCGGCATCCTCCTCCGCCACGCCCACGGCGCCCTCATCGACTCCCACCACGCCGTCTT
CCGCCTCAACAACGCCCGCATCGTCGGCTACACCGCGCACGTCGGCGCCAAGACCAACCTCTCCTTCATCAACAGCAACA
TACTCCACCTCTGCGCGCGCCGCCCGGGCTGCTTCTGCCACCCCTACGGCAGCGGCGTCCCCGTCCTCCTCTACATCTGC
CAGGCCGCCCACTTCCTCGACGTCGCCGCCTGCAACGCCTCCTCGCTCGCCACCCACGACGCCCCCATCTCCGTCACCGA
CCCTCGCCTCGACGTCCTCTGCGCGCGCATCGTCAAGTACTACTCGCTCCGCCGCTTCGTCGCCGAGACGGGCCGCGCGG
TCGAGGACTGGAACGGGGCGCACGACGCGGCGCTGTTCCACTACTCGTCCGGGATGCAGGCCATCATGGTGGCGGTGGGA
GTGTGCGACAGGGTGAGCGTGTTCGGCTTCGGGAAGGTGGCAGACGCCAAGCACCATTACCACAGCAACCAGAAGAACGA
GCTCGACCTCCACGACTACGAGGCGGAGTACGCCTTCTACCGCGACCTCGCCGAGCGCCCGCAGGTAGTCCCCTTCCTCA
AGGACACTGGCTTGGCCGTCCCGCCGGTCGTGTTCTACCATTAGGCGCCAGCTTCCTAGGGTGCGGGCAACGTGCTCGAC
GTTATGCTACGCGTGGTTCTCTTTTCTTTTTGGACCTGCTTGTCTGCTCAGTGTAAAATGTGCTCTGCGAGGTGGGTTAT
TTATTTATTGTGATTAGATGATAGGTGAGTTGAGATAGAGAATTGGAGCTGCAAGTGTACATTAAGATTTAGGATCCTCC
ACTGGTATAACCGTATAGGAGAGGTTGCTTGTGTTTTTGGCTGCTTCACGACGACAGCTAGTGAAGTGTAATTTCAGACT
GATTTGTCTTGATAATTTCTTCCGAATCAAATGTATACCTCCTTATGTGAAACCTTGCTGCCACTATGATTCAGCTGATA
TGTACTCCCTCTGTAACTAAACGTAAACGCTCTTATATTTCTTTACGGAGGGAGTAATCTAAACGCTCTTATATTTCTTT
ACAGAGGGAGTATGTAGTTTCTCTTAGGTGACA-GTATGCTTCAGCCTTGCTGCCACTATGCTTCAGCTGATAAAATCTA
TACCTTATTTTACTGCTTGCTGATGTCTTCTTGATATGTTATCC-TTTTTACCCTACTTATCATCGAACTTGTGAGCT-A
ACAGGATAACAGTGTACATAATTACT------------------------------------------------------
---------------------------------------------------TCTGTGAATGCG-TTTCG---TCAGGAGT
AGCTAGCATCACTTGGTCCAACAAGATGAAAA-TGGTTGGAATTTAGCTCGTGTGCTAAGTTTGTTAATGAGTTTGAACC
ATTGTCAGTGTGTTGATGAGTTTGAACCATTTTCATCTTGTT--------------------------------------
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>chr3A_606
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---------------------------------------------GGACAAAAGTGCCAATTTCACCGGGACAGAGGGCC
AACACGCAAACAATTCCGCCCATCATCTCTCCC-----------GTGCCACGGCCTCGTGCAGTCAGGTTGCGTCCCTCA
CACACACAGAACAGAATCATTGCTCCTCCCGACGCTGCTCGAACCCAACAAGAACAACGACACATAGGATCCCCCGTTTC
CCCGAACCCAAAGTCCAACCACCTAC---AAATAAATCACTCTCGCTCGCTCCTACCCACACCTCGCCGTACCCGAACCC
GTCCATCGCGC-----------CCCC-GGCCGCCCGGACCTCGATCGGCTCGGGCTCGCGCTCGCACCCCCCAGATGCGC
ATCATCCCCCGATGCGGCCCCGGCCCACTTAGCCCCCGGCTGCTGCGGCGGCGGCCATGAAGCGGCCGCTGCGGGGGCCC
TTCGCGGCGCTCCTCCTCGTCGTGCTCTGCGGCGCGGCCTCCTTCCCCTCCGCGCTCCGCCGGGCGCTGGCCCCGCCGGC
CCCCGCGCTCGCCCCGCCGCCGCCGCCGCTCGATCCCGCGCGCCTCAACGCCACGCTCCTCCGCCTCGCCGCCCTCGACG
GCTCCGAGCCGTCCCTGCGCCGCGACGTCGACGACCTCCTCGAGGGCCGCCTCCCGGCCTCGGGCCGCGCCCGCGCCCGC
GCCTGGCGCCGCGACCGGCTCCACCCGCTCCACCTCCGCCACCACCAGTTCCCCGTCCACCGCCGCGGCCACGCGGACCG
CGACCACGCCGACTCCCTCCTCCACCCGCTCCCGCGCGAGGAGCTCCTCCTCGACCCCGCCCTCCGCCGCGCGCTCCGCT
CCTGGCACCGCCTCCGCCGCTACGACCCCGCCGTGCTCCGCGACCTCCCCGCCGTGCTCGCCCTCCCCGCCCGCATCCCC
TCCTGCGCCGTCGTCGGCAACAGCGGCATCCTCCTCCGCCACGCCCACGGCGCCCTCATCGACTCCCACCACGCCGTCTT
CCGCCTCAACAACGCCCGCGTCGTCGGCTACACCGCGCACGTCGGCGCCAAGACCAACCTCTCCTTCATCAACAGCAACA
TACTCCACCTCTGCGCGCGCCGCCCCGGCTGCTTCTGCCACCCCTACGGCAGCGGCGTCCCCGTGCTCCTCTACATCTGC
CAGGCCGCGCACTTCCTCGACGTCGCCGCCTGCAACGCCTCCTCCCTCGCCACCCACGACGCCCCCATCTCCATCACCGA
CCCTCGCCTCGACGTCCTCTGCGCGCGCATCGTCAAGTACTACTCGCTCCGCCGCTTCGTCGCCGAGACGGGCCGCGCCG
TCGAGGACTGGAACGGCGCGCACGACGCGGCGCTGTTCCACTACTCGTCCGGGATGCAGGCCATCATGGTCGCGGTGGGG
GTGTGCGACAGGGTGAGCGTGTTCGGCTTCGGGAAGGTGGCAGACGCCAAGCACCATTACCACAGCAACCAGAAGAACGA
GCTGGACCTCCACGACTACGAGGCGGAGTACGCCTTCTACCGCGACCTCGCCGAGCGCCCGCAGGTAGTCCCCTTCCTCA
AGGACACTGGCCTGGCTGTCCCGCCCGTCGTGTTCTACCATTAGGGGCCAGCTTCCTAGGATGCGGGCAACGTGCTCGAC
GTTATG--------------CTTTTCTTTTTGGACCTGCTTGTTTGCTCAGTGTAAAATGTGCTCTGCGAGGTAGATTAG
TTATTTATTGTGATTAGATGATAGGCGAGTTGAGATAGAGAATTGGAGCTGCAAGTGTACATTAAGATTTAGGATCCTCC
ACTGGTATAACCGTATAGGAGAGGTTGCTTGTGTTTTTGGCTGCTTCACAGCGACAGCTAGTGAAGTGTAATTTCAGACT
GATTTGTCTTGATAATTTCTTCCGAATCAAATGTATACCT---TATGTGAAGCCTTGCTGCTACTGTGCTTCAGCTGATA
TGTACTCCCTCTGTTAAGAAATATAAGAGCGTTTAGATCACTA------------------------CTTATATTTCTTT
ACGGAGGGAGTATGTAGTTTCTCTTAGGTGACAGGTATGCTTCAGCCTTGCTGCCACTATGCTTCAGCTGATAAAATCTC
TACCTTATTTTACTGCTTGCTGATGTCTTCTTGATATGTGATCCTTTTTTACCCTACTTATCATCGAACTAGTGAGCT-A
ACAGGATAGCAGTGTACATAATTACTCCGTCCGTTCCGAATTACTTGTCGCAGGTATGGATGTATCTAGATGTATTTTAG
TTCTAGATACATCCATTTCTACGACGAGTAATTTGGAACGGAGGGAGTACTTCTGTGAATGCGTTTTCG---TCAGGAGT
AGCACCACT---TTGGTCCAACAAGATGAAAA-TGGTTGGAATTTAGCTCGTGTGCTAAGTATGCTGATGAGTTTGAACC
ATTGTCAGTGTGTTGATGAGTTTGAACCATTTTCATCTTGTTTGATATACGTGAAGCCTTATTTTACTGCTTGCTGATGT
CTTCTTGATATGTGTTCCTTTTTGCCCTACTTATCATCGAACTAGTGGATAACAGTGTACACAATTACTTCTGCGAATGC
GTTTTGGTTTGCGTAGCACCACTTTGGTCCAACAAGATGAAAATGGCTCGAATTTAGCTCGTGTGCCAAGTTTGTTGATG
AGTTTGAACCACTGTCAACTTGTTGGACCAAAATGCTCCCATACGGTTGCTATTTCCTCTTCTCTTTTCT-TACCAGGGT
TGGCAGCTTGATTCTAATGGAAGATTGGGAGTCTTGCATTATAATTTCATAATTGCTGGATGTTTTGCATGACACAAGCT
CACAGTTGCTGTGGACGACTGGAGTTCACCTTTTGTATTGCCTTACATTTTACGTTTGTGCCAAGACTAGGACCAGGAAA
GGATG--------CTTGGTACATGTCGCCGAGAAATATTTCCATGGG
>SNPs
-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------S----S-
--SS-S-----------------------S---SSSSSSSSSSS------------------------------------
-----------------------------------------------S--------------------------------
------------------------------------------------------------------------S-------
S-------------------------S-----------------------------------------------------
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------------------S-------------------------------------------------------------
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----S---------------------------------------------------------------------------
--------------------------------------S-----------------------S-----------------
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--------------------------------------------------------S-----------------------
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-------------------------------S------------------------------------------------
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-------------S------------------S-----------------------------------------------
--------------S-------------S--------------------------S---------S--------------
------------S--S-------------------S----S-------------S-------------------------
---------------------S-----------S-------------------S--S----------------S----S-
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-------------------------------------------------------------------SSSSS---S----
S-------------------------------S-----S------------------S----------------------
---------S------S---------------S-----------------------------------------------
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------------------------S-------S-SS------S------------------S------SSS---------
-S------------S-----S---------------------------------S---------------S-------S-
-------S----SS-------S-------------------S----------S--S-S---S-S--------SSSS-S--
S-SSSSSSSSSSS----S----------S----------S-------
>forward_306
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----------------------------------------------GCAAATCAGGCCCTTAGGGT--------------
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>reverse_2192
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-------------------------------ATTCTACCATTAGGCGCCAGC----------------------------
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>forward_339
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-------------------------------------------------------------------------------T
CTGAGGTCGGCTCCATGTA-------------------------------------------------------------
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>reverse_2513
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--------------------------------TTATACCTTATGTGAAGCCTTGCTG-----------------------
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