Figure 3
From: CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment
Smith-Waterman in CUDA running on single and double GPU vs. BLAST and SSEARCH. Substitution matrix used: BLOSUM50. Gap-open penalty: 10. Gap-extension penalty: 2.
Database used: SwissProt (Dec. 2006 – 250,296 proteins and 91,694,534 amino acids).
* Smith-Waterman in CUDA running on an NVidia GeForce 8800 GTX
** Smith-Waterman in CUDA running on two NVidia GeForce 8800 GTX