Table 1.

Comparison of runtimes of OrthoMCL and PorthoMCL for different number of genomes

Genomes	Proteins	BLAST Hits	OrthoMCL	PorthoMCL	Speedup
10	19,240	298,647	0:00:18	0:00:11	164 %
	29,912	637,091	0:01:07	0:00:21	319%
	30,111	656,689	0:01:16	0:00:23	330 %
	32,962	721,997	0:01:12	0:00:24	300 %
50	126,020	5,771,483	0:15:55	0:05:55	269 %
	127,724	6,363,917	0:27:53	0:06:08	455 %
	133,974	6,418,035	0:08:29	0:06:15	136 %
	138,258	7,008,798	0:24:06	0:06:18	383 %
100	252,109	18,326,608	1:02:58	0:31:49	198 %
500	1,327,716	283,850,847	-	17:38:55	∞