>input_sequence_67245
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---ATGACCGCCACCTCGCGGCCACAGCATCCCAACGGGAGCCTAGCCCCGGCCTCCGACGGCGGCGAGTCCTTCGCCAA
GTTCTTCGAGTGCTGGATCTTGGAGCAGTCGCGTGACCTGGCCGCGCTCCGCGCCGCGGCCACGGCGCGGCCCGACGACG
CTGACCTCCGGCGCCTCGTCGACCGTGTCCTCGGCCACTACGAGCACTACTACCGCGCCAAGTCCGCGGCCGCCTCCGCC
GACGTGCTCCCCATGTTCGCGCCCTCGTGGATCTCCGCCACCGAGAGCCTCTACCTCTGGTGCGGCGGCTGGCGCCCCAC
CGCCGCGATCCAGCTGCTCTACTCCAAGTCCGGCGTGCAGCTCGAGGCCAAGCTCCCGGCCTTCCTCGACGGCGGCAGCC
TCGGGGACGGCGACCTCGGCGGCCTCTCCGCCGAGCAGCTCCAGGCCGCGGACCAGCTGCAGCGCCGCACCATCCGGGGG
GAACGGGAGATCGAGGAGGCCGCCGCCGGCGCGCAGGTAAACCGTTTACCAACCCCTGCCCCCTCCTTTTTTTTGA--TC
GGTAACTAATGTGAACATATAGGAGTCGTTGGCGACGACGAAGATGGTGGAGCTCGCCGGAAAAGGAGGTGTGGACGCGG
CGGAGGGGATGGAGCGGGAGATGGATGCCAAGGCGGAGGCGATGAAGCGCGTGCTGGAGATGGCGGACGCGCTGAGGCTG
GAGACGCTGCGCGGCGTGGTGGGGCTGCTCCGGCCTGCGCAGGCCGTGCACTTCCTCGTGGCCGCCGCGGAGCTCCACCT
CGCCGTGCACAAGTTCGGCCGGCGCAAGGACGGCGCCGCCGCGGCGGAGTGA----------------------------
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>chr3A_1_TraesCS3A01G103500
TATGAAGATAGAACCCCAAGTCCTCGGCTTGACGACCAGTTCTGTGACTACTGACGGTATCCTAGATTAGGGGGTGCACA
CCATGTCGGCTCACCGATCATGGGCCAGGCCGAGGACCCGTTCACAACCAAAGAATGGGACTCATATGCCATGACCCTCA
ACGTACTCAAGATGGAATCCTCCAAAGACTTGACGTACACTTCTAAGACGTATTTGAATTATCAGCATGTTTATCCCTAG
ATTGTAACCGGTCATGTGTAAACTCTAAATA-CCCCGATGCCTATATAAGCCGAGGGGTTTGGTGTGTAGAGACATGCAT
TGAAGACTTAGAGGTTAGAACTCATTCATACAATCTCAAGATAGATCATC-TGTATTTTTTACCACATCCAGAACCAATA
CAATACAATACAGGCAGGATGTGGAGTTTTACCTCTTCAAGAGGGCACGAACCTAGGTGA-AATTGTGTCCATTTTACTT
CTAGT-------GTACCAAGATCATCAGCTCGGGACCCCCCTGTCCGAGATCCGCTGGTTTAG-CACCGACATATGTGAT
GACTTTGTCAATCTCAAATTGTGTCGGCTCTGTATCTCCGAGGTAATAGGGGTAGGATGTGTGTGCATACGTTCATAGAG
ATGAGTGTATGTGCATGTATGTGAGGTTCTGCGTTGTACTGTGTTCATAATAATAATAATAATAATAATATATGG-----
------CATGCGGAGGCTTTGGTGTTATCCTCCGTCTTGGAAGAAAATTAATGATCTTTGGTTTTGTTGTTCGTGTCCGT
GGACTGTACTGGTACCGGTACCACCCGTATTTCTACTACTGCTCACT---CGTAGTACTTGTTTTGTC-TTTACCTGGCA
AAAATATATGCGAACAAAGATATAAATCCATGAAATGTCGTAGTACTATATCCGTTTTGCCGCCTTAAAAATCGCTCCGC
CGGTTCACTCCAAAGCCATCGAAACCTCCACCAAACGCAGAGC---------GAGCGAGAGCCACTTGGATCAC------
--CATGACCGCCACCTCGCGGCCACAGCATCCCAACGGGAGCCTAGCCCCGGCCTCCGACGGCGGCGAGTCCTTCGCCAA
GTTCTTCGAGTGCTGGATCTTGGAGCAGTCGCGTGACCTGGCCGCGCTCCGCGCCGCGGCCACGGCGCGGCCCGACGACG
CTGACCTCCGGCGCCTCGTCGACCGTGTCCTCGGCCACTACGAGCACTACTACCGCGCCAAGTCCGCGGCCGCCTCCGCC
GACGTGCTCCCCATGTTCGCGCCCTCGTGGATCTCCGCCACCGAGAGCCTCTACCTCTGGTGCGGCGGCTGGCGCCCCAC
CGCCGCGATCCAGCTGCTCTACTCCAAGTCCGGCGTGCAGCTCGAGGCCAAGCTCCCGGCCTTCCTCGACGGCGGCAGCC
TCGGGGACGGCGACCTCGGCGGCCTCTCCGCCGAGCAGCTCCAGGCCGCGGACCAGCTGCAGCGCCGCACCATCCGGGGG
GAACGGGAGATCGAGGAGGCCGCCGCCGGCGCGCAGGTAAACCGTTTACCAACCCCTGCCCCCTCCTTTTTTTTGA--TC
GGTAACTAATGTGAACATATAGGAGTCGTTGGCGACGACGAAGATGGTGGAGCTCGCCGGAAAAGGAGGTGTGGACGCGG
CGGAGGGGATGGAGCGGGAGATGGATGCCAAGGCGGAGGCGATGAAGCGCGTGCTGGAGATGGCGGACGCGCTGAGGCTG
GAGACGCTGCGCGGCGTGGTGGGGCTGCTCCGGCCTGCGCAGGCCGTGCACTTCCTCGTGGCCGCCGCGGAGCTCCACCT
CGCCGTGCACAAGTTCGGCCGGCGCAAGGACGGCGCCGCCGCGGCGGAGTGAGCCTGTAGGCTGCTGCGGCGCGCGCGCA
CGTGGTTGCTCTGCTCCGCGCAACGCTCGTCGTCTAGCTAGCTCCGAGCTGCCTTCGTTTCGCCTGGTCAACGCGAGGTG
TCGCGATAAGCTTTGACCATGATCCCCTTCTGCTTGGTCAACATGTGCGTTCTGCCGCAGTGTCAAATC-TGTGGTAAAA
CTTGTACGAAGTGGGC-------------ATGTATAATGCACAAGGTCATGCCATGTTGGCTTAGCTACTTTGTATGTAT
GT--------------------ATGGAGGCGTAAGAGCATAAATTTGGAGATGTAAAATAGAAGATGTAAAAATTTACAT
CTCTAAAATATGCTTTTACATTTAAAAAAAAATGTGACAACTCCAACAGA------------------------------
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------------------------------------------------------------TGATGCATATTGAAGTTGTA
AAACTGTAACTCGAACAGATGATGCAAAATGGAATTAGGTGTAAAAACTAGTGGGCTCACA-------------------
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-----------------------------------------------------------------TGAGCGGCCATGGTG
TTAATGGCCAAATGGTTGACGGCCACGTCTACCCCGGCG-CGGTGGTGTGTGGAGGCTGTGCTGCTTCAAAACCTACCTG
TGGCACGAGGAGGATGAAGCTAAAACTTCGCTCCCGTGCTGACAATTGGGTTCGGAGTGAGCTCCAAACGAGTCCCCCGC
GGTCTCC-------------AAATATGGCGTTTGAGAGGTGGATACTAGAGAGCTGTTATTT----TTTGTGCTCCGTGA
TCAGTATGATAGTTATTATGCAGTTTGAGATCTCCTTTGGTTTAAAGAAATTTCATAGGAATTCTAGAGGATAGGATTCT
TATAGGATTTTTTCCTTTAGAGCCATTTGGTTCATATGAATGGATTCTTATTCCTACATAGGATTGGTTCCTATCCTCCA
CATTTCATAGAAAAATAAAAAAGAGCCTAGACTCAATGAAAAAATTCCTTTGGTGTCAACCAAATGACATCTTGTTGAAC
CAAAAGAGGCCTGAGTGGATATGATAACTCTAATAGAGTTGCTCTTACATACTCCAAGCCACTCCAGGGCACACCAAC
>chr3B_5
----AAGATAGAA-CCCAAGTCCCCAACTTGAAGACCAGTTCAGTGGCTATTGACGGTATCCTGGATTAGGGGGTGCACA
CCACGTCGGCCCGCCGATCATGGGCCGGGCCGTGAACCCGTGCACAACCAAAGAATGGGACTCATATGCCCCGGCCCTCG
ATATACTCAAGGTGGAATCCTTCGAAGACTTGGCGTACACATC-AAGACGTATTTGAATGATCAGCATGTTTA-CCCTAG
ATTGTAACCGATCATGTGTAAACCCTAGATA-CCCCGGTGCCTATATAAACCGAGGGATTTGGTCCGTAGAGACAGACAT
TCAAGGCCTAGAGGTTAGAACTCATTCATATGATCTCCAGATAGAGAA--------------------------------
-----------------GAAGTATGGTTTTACCTCTTCAAAAGGGTGCGAACCTGGGTGAAAATTGTGTCCCCTTTACTT
ATAGT-------GTACCAAGATCACCAGTCAGGGACCCCC-TACCCGAGATCCGGCGGTTTTAACACCGACACATGTGAT
GACTTTGTCAATCTTAAATTGTGTCGGCTTAGTATCTCCGAGGTAACAGGGGTAGGATGTGCGTGTATACATTCATAGGG
ATGAGTTTATGTGTGTGTATGTGAGGTTCTGCGTTGTACTGTGTTCAAAATAGTAATAATAAAAATAATAATCAATAATA
GTATGACATGCGGAGGCTTTGGTGTTATCCTCCGTTTTGGAAGAAAAATAATGATCCTTGATTTTGTTGTTCGTGTCCGT
GGACTGTATTGGTACCGGTACCCCCCGTATTCCTACTACTGCTCACGCGCCGTAGTACTTGTTTTGTC-TTTACCTGGCA
AAA-TATAGGCGAAAACAGATAC-----------AT---GTCGTAGTATATCCGTTTTGCCGCCTTAAAAATCGCTCTGC
CGGTTCACTCCAAAGCCATTCAAACCTCCACCAAACGCAGAGC---------GAGCGAGAGCCACTTGGATCAGCAATTC
AGCATGACCGCCACCTCGCGGCCACAGCATCCCAACGGGAGCCTAGCCCCGGCCTCGGACGGCGGCGAGTCCTTCGCCAA
GTTCTTCGAGTGCTGGATCTTGGAGCAGTCCCGTGACCTGGCCGCGCTCCGCGCCGCGGCGACGGCGCGGCCCGACGACT
CTGACCTCCGGCGCCTCGTCGACCGTGTCCTCGGCCACTACGAGCACTACTACCGCGCCAAGTCCGCGGCCGCCTCCGCT
GATGTGCTCCCCATGTTCGCGCCCTCGTGGATCTCCGCCACCGAGAGCCTCTACCTCTGGTGCGGCGGCTGGCGCCCCAC
TTCCGCGATCCAGCTGCTCCACTCCAAGTCCGGCCTGCAGCTCGAGGCCCAGCTCCCGGCGTTCCTCGACGGCGGCAGCC
TCGGGGACGGCGACCTGGGCGGCCTCTCCGCGGAGCAGCTCCAGGCCGCCGACCAGCTGCAGCGCCGCACCGTCCGGAGG
GAACGGGCGATCGAGGAGGTCGCCGCCGGCGCGCAGGTAAACTGTTTACCAACCCCAGCTTCCTCTCCTTTTTTTGATTC
GTTAACTAATGTGAACATATAGGAGTCGTTGGCGACGACGAAGATGGTGGAGCTCGCCGGAAAAGGAGGTATGGACGCGG
CGGAGGGGATGGAGCTGGAGATGGATGCCAAGGCGGAGGCGATGAAGCGCGTGCTGGAGATGGCGGACGCGCTGAGGCTG
GAGACGCTGCGCGGCGTGGTGGGGCTGCTCCGGCCTGCGCAGGCCGTGCACTTCCTCGTGGCCGCCGCGGAGCTCCACCT
CGCCGTGCACGAGTTCGGCCGGCGCAAGGACGGCGCCGCGGCGGCGGAGTGAGCCTGCAGGCTGCTGGGGA-CGCGCGCA
CGTGGTTGCTCTGCTCCGCGCAACGCTAGTCGTCTAGCTAGCTCCGAGCTGCCTTCGTTTTGCCTGGTCAACGAGAGGTG
TCGCGATAAGCTTTGACCGTGATCCCTTTCTGTTTGGTCTACATGTGCGTTCTGCCAATGTCAAATACTATGTGGT--AA
CTTGTACGAAGAGGGCTAGCTACTTGTGTATGTATAATGCACAAGCTCATGCCATGCTGGTTTAGCTAC-TTGTATGTA-
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>chr1B_15
--------------CCAAAGCCCTCGGCTTGAAGACTACTTCAA-GGCTACTGACGGTGTCCTAGATTAGGGG-TGCACA
CCACTTCAGCTCGCCATTCATGGGCCTCTTCGACGACCCACCAACAACTGAAGAATGGGTCATGGCCGG-----------
-CGTACTCAAGATGGAGTCCTCTGAAGATTTGGCGTACACTTCG-AGGCATATTCAAATGATCGACATATTAT-CCGTAG
TTATACCCGACATACTTGT-AACCTTAGATACCCCCGATGCCTTTATAAGCCGAGGGGTTTAGTCTGTAGAGGCAAGGTT
TTTAGAC--------TAGAACACATTCATACGATCTCGGGGTAGATCATCATGTACTTTGTACCCCATCCACAATCAATA
CAATACAAA-----CAGGACGTAGGGTTTTACCTCTTCGAGAGGGCCCGAACCTGGGTAAATACAGTGCCCCCTTTACTT
CATGTTACCATCGTACCAAGATCATCAGCTCGGGACCCCC-TGCCCAAGATTCGTCGGTTTTAGCATCGA----------
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>chr3D_827
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---------------------------------------------------GTACTACTTGTTTTGTCTTTTACCTGGCA
AAA-TATCGGCGAAC-AAGATATAAATCCATGATAT---GTCGTAGTATATCCGTTTTGCCGCCTTAAAAACCGCTCCTC
CAGTTCACTCCAAAGCCATCGAAACCTCCACCAACTCTGACGCACGTTGATTGAGCGAGAGCCACTTGGATCAC------
--CATGACCGCCACCTCGCGGCCACAGCATCCCAACGGGAGCCTAGCCCCGGCCTCCGACGGCGGCGAGTCCTTCGCCAA
GTTCTTCGAGTGCTGGATCTTGGAGCAGTCCCGTGACCTGGCCGCGCTCCGCGCCGCGGCCACGGCGCGGCCCGACGACG
CTGACCTCCGGCGCCTCGTCGATCGTGTCCTCGGCCACTACGAGCACTACTACCGCGCCAAGTCCGCGGCCGCCTCCGCC
GATGTGCTCCCCATGTTCGCGCCCTCGTGGATCTCCGCCACCGAGAGCCTCTACCTCTGGTGCGGCGGCTGGCGCCCCAC
TTCCGCGATCCAGCTGCTCTACTCCAAGTCCGGCCTGCAGCTCGAGGCCCAGCTCCCGGCCTTCCTCGACGGCGGCAGCC
TCGGGGACGGTGACCTGGGCGGCCTCTCCGCGGAGCAGCTCCAGGCCGCCGACCAGCTGCAGCGCCGCACCATCCGGAGG
GAACGGGAGATCGAGGAGGCCGCCGCCGGCGCGCAGGTGAACTGTTTACCAACCCCAGCTTCCTCTCCTTTTTTGGATCC
GTTAACTAATGTGAACGTATAGGAGTCGTTGGCGACGACGAAGATGGTGGAGCTCGCCGGAAAGGGAGGGATGGACGCGG
CGGAGGGGATGGAGCTGGAGATGGATGCCAAGGCGGAGGCGATGAAGCGCGTGCTGGAGATGGCGGACGGGCTGAGGCTG
GAGACGCTGCGCGGCGTGGTGGGGCTGCTCCGGCCTGCCCAGGCCGTGCACTTCCTCGTGGCCGCCGCGGAGCTCCACCT
CGCCGTGCACAAGTTCGGCCGGCGCAAGGACGGCGCCGCGGCGGCGGAGTGAGCCTGCAGGCTGCTGGTG-GCGCGCGCA
AGTGGTTGCTCTGCTCCGCGCAACGCTCGTCGTCTAGCTAGCTCCGAGCTGCCTTCGTTTTGCCTGGTCAACGCGAGGTG
TCGCGATAAGCTTTGACCGTGATCCCCTTCTGTTTGGTCAGCATGTGCGTTCTGCCATTGTGTGAAACC-TGTGGT--AA
CTTGTACGAAGTGGGCTAGCTACTTGTGTATGTATAATGCACAAGCTCATGCCATGGTGGTTTAGCTAC-TTGTATGTAT
GTGTAATGCATTATTATGGAAAATGGAGGCGTAAAGGGGTGGCCAAATTCACTGTTTTGACCATATTTCATTAGTTTAGC
ACGATCTTATCCTATGTGCCAAAAAATTCGGATATGAACCTTTTTCTACCGTCACCCCGTCTTGGCGGTAGGTTTCACTA
CCTACCGCCACGGTCTTTAGCGGTAGTGGTCAACGTCGACGGCGTCGTCATGGACTGATGATGTAGACAAGTGCCTATCG
TCACAAACGTTGGCGGTAGGGTGTTATACCCTACCCATCATACCGCCACAGACGATGACGGTTGGGTACTATATAGGTAG
TTCCACTCGTGGAGGCGGGCCTCAACCACCACACAACCCCTTTCTTCCTCCTCTCCTCCATGAACAGAGGGGATGACACT
TTTCTCCTCCCAAATACCTCCTCGAATCTCCTTCTCCCCTCAACCATTTTGGCGGATCTTTGGTGCATATCGAAGAGGAA
TTTTAGGTTTGCCCACGGAAGCGCGCAAAGAGAAATGGACAAATTCATTGATAATCATAAAGAGAATAGAGACACATAAG
AGCATCTACAGCCGGACTCCTCAAATTGACCGGGTGGGCGCAGGGACCACTGAACGGACAGGAGAGAGAAGCAAAAAGTA
GCAAAAGGTTGACCCAACCGGACCTCTCAAATCATCCCTATACGCCCGGGATGTCCGCGAACCCTCAAATCCATCTCAAA
TATGGGGAGAATATGAGGGCTCGCGGACGCGCCCAGGCGCGCCAGGTCAGTCCGCCACGTAGGACGCTTCCCCAGCCCAG
ACCACCTTTTCTCTTTCTTTATTCATTCTTTTCTTTCTCTCTCTTCATCTTCACCAATCACATGCAAGTGACCGGACATA
TGAGGACGAACATGAGGAGCGCGGCTGCACGAACGGATAAATAGGGGCTCAAATGGGACACGCCGGTCACTGACCGGGCG
CGTCCGCGGGTGTTTAAGGGGTCATATTTGCTATGCCCAGCTGTAGATGTTCTAACACAACTCACAATTTGACGCTCTCA
AATTCATGACACATAGCACACAACTTAGGTCCACGACGTAGTTCATGACACATAGCACAACTTAGGTCTACCCCATAATT
CATGACGCATAGCACAATTTCGGTCCATGTCATAGCTCACAAATTCAGTACATAATTCTCAATAGCAACGGAAGTCAAGT
CTATTGGGTCACACGGGGCCATTTCCCATCCTTGTCACGTGCCTCATCCCTCCTTTTGCGCATCGCGAGCCCTTGCAAGC
TTTCTTGCCCTTTCCTCTTCACGAGCAGCCTTCTCTTTGCGGCCCTCTCCTCTTCACGAGCAGCCTTCTCTTTGCGGCCC
TCTCCTCTTCACGAGCAGCCTTCTCTTTGCGGCCCTCTCCTCCTCATGCTTCTTTCGCTCCTTCTTCTCCTTCTCGTCCG
AGGTTGGGCATGGATCGACGGGGCTAGCGCGTGGTCCTAAATCCGCCACTCTGTTTCAACGTCCCGCTTCATCTCGTCCC
AAAGGGGGTTGAGGGGATCTGACTGTTTCTCTTCCTCATCAACCCCAAAGTTGAAGATGAGGGGGAACTCATTCCTTTGT
GCCATTGACAAGGATGCGGTGAATTGAAGGTTGAGGAGAGTGCGAGGCACGAAGAGTGGAAAACATAAGAGAGAGGGTGG
GAAGGGCGCAGTTGGGGGGGCAGGAGCAATAGACGACCACAGAAAGCGCAGCCGCGCTCACACGCCTCCACCTGGGTTGC
TCACATGCAAGCCAGGAGATGATGCCGCGTGGCGGCCATCTGACGAGTCGCCATAGGAATTGGAGTGAGCGGCCATGGTG
TTAATGGCCAAATGGTTGACAACCGCGTTTCCCCCATCGCCGGTGGTGTGTGGAGGCTGTGCCACTTCAAATCCCACCTG
TGGCACGAGGAGGAAGAAGCTGGAACTTTCCTCCCACGCTGGCAGTTGGGTTCAGAGCAAGCTCCAAACGAGTCTCCATG
GTCTCCAAATACTTTGAAAAAAATATGGCGATTTAGTGGTGAATGACAACTCTAGTAGAGCTGTTCTTTGCGCTCCGTGA
TCTATATGATAGTTATTATGCAGTTTGG----------------------------------------------------
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--------------GTGGATATGATAACTCTAATAGAGTTGCTCTTACATA---------------------------
>SNPs
SSSS---------S------------------S---------S---S---------------------------------
---S--------S-------------S--------------S----------------------------SS-S-----S
-----------------------S--------S----------S---------------S-------------S------
----------S------------S---S------------------------------------S----------S----
-S-----S-----------------------S-----S-----------------S---S----S------S--S-----
--------SSSSSS-----S--S-S---------------------S-------S----------------SS-------
----------------------------------------S--S----------SS-----SS---------S-------
--------------S--------------SS---------------S--------------S---S----S-------S-
------S------SS--------------------------------S----S---------S-------SSSSS-----
-----------------------------------S-----------S--------S---S-------------------
--------S-------------S--------S--------------S---------------------------------
---S----S------------------------S--SSS--S---S----------------------------------
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------------------------------S-------------------------------------------------
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--S-----------------------------------------------------------------------------
SS--------------------------------S--------------S------------------------------
----------------S--------------S-----------------S---------------------------S--
------------------------------------------S-------------S--SS----SSS-------S----
-S--------------------------------------------------------------------S---------
---------------S----------------------------------------------------------------
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---------------------------------------S-----------------S---------S--S---------
------------------------------------------------------------S-------------------
------------------S-------------S-----------------------SSS----S---S--------SS--
---------------------------------------------S----------S---S--------S----------
----------------------------------SS-SS-SSSSSSSSSS-SSSSSSSS-SS-S--S-S-SS-S--SSSS
SSSSSSSSSSSSSS-S-S-SSSS---SSSSS--S---SSSS-SSSSS-SS------------------------------
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--------------------------------------------------------------S-------S----SS-S-
SSSSS-SSSSS-SS--S--S-SSSSS---SS---S-S-SSSS-SSS-S-SS-SSS-SS-S--------------------
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--------------------SS--S---S-S----SS-------------------------SS-------S--S-----
--------------S------SS-----SS-----SS----S--S--------S---SS---------------S--SSS
-SSSS-S-----------------------S--S--S----S--SSS-SSSSSSSSSS-SS---------S---------
--SS-----------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSS-------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_305
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---------------------------------------------ATAAGCCGAGGGGTTTGGTG---------------
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>reverse_2700
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-----------------------------------------------------------CATGAGCGGCCATGGTGTTA-
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