Figure 1.

Approaches to vectorisation of Smith-Waterman alignments. Alignment matrices are shown with the elements that form the first five vectors processed indicated in black, blue, red, green and yellow. For simplicity, vectors of only 4 elements are shown, while 16 elements would normally be used. (A) Vectors along the anti-diagonal, described by Wozniak et al[8]. (B) Vectors along the query, described by Rognes and Seeberg [9]. (C) Striped approach, described by Farrar [10]. (D) Multi-sequence vectors, described by Alpern et al[6]. and in this paper.

Rognes BMC Bioinformatics 2011 12:221   doi:10.1186/1471-2105-12-221
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