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BLASTn is a ubiquitous and important tool used for large scale DNA analysis. As such, it is a good candidate for acceleration with FPGAs. The aim of this paper is two-fold. First, building upon our prior BLAST work we describe a design composed of multiple cores that can be scaled in two dimensions. The ungapped extension and a second dimension are new in this work. Second, we use this non-trivial...
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