An Improved Distance Matrix Computation Algorithm for Multicore Clusters

Table 3

Performance comparison (in GCUPS) for scanning the datasets.

Number of sequences (Length of sequence)	DistVect1	DistVect	SSE2	ClustalW-MPI
20 (163,650)	2.32	0.79	0.84	0.25
2,000 (1,750)	5.82	2.68	4.17	0.87
4,000 (1,750)	6.27	2.81	4.36	0.95
3,000 (858)	6.66	3.33	5.03	1.03
6,000 (858)	6.69	3.26	5.22	1.10
200 (30,500)	11.69	4.01	4.15	1.42
50 (161,000)	7.03	2.39	2.67	0.80
500 (30,000)	10.75	3.92	3.85	0.00