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Old 06-13-2019, 02:42 AM   #2
GenoMax
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Location: East Coast USA

Join Date: Feb 2008
Posts: 7,030
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You could take an example sequence and then use "bbduk.sh" from BBMap suite in filter mode to extract reads containing that sequence with "literal=sequence_you_want" option. Guide to use bbduk is here.
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