Table 3.

Within and between host species comparisons of genetic distances between the two SIVmus groups, SIVgsn and SIVmon.

	Gag	Pol1	Pol2	Env
Aa: SIVmus-1 (1239 vs 1085)	0.12	0.12	0.10	0.11
B: SIVmus-2 (1246 vs 2500)	0.14	0.15	0.13	0.18
C: SIVgsn (71 vs 166)	0.12	0.06	0.06	0.15
D: SIVmon (CML1 vs NG)	d	0.27	0.23	0.22
A vs Bb: mus-1 vs mus-2	0.24	0.43	0.38	0.19
A vs Cc: mus-1 vs gsn	0.26	0.48	0.32	0.46
B vs C: mus-2 vs gsn	0.26	0.44	0.32	0.44
A vs D: mus-1 vs mon	0.31	0.62	0.37	0.53
B vs D: mus-2 vs mon	0.32	0.59	0.49	0.51
C vs D: gsn vs mon	0.33	0.53	0.43	0.51

^aA, B, C, and D are within host species comparisons and are calculated by summing the branch lengths between isolates named in Gag, Pol1, Pol2 and Env trees in Figure 5.

^bA vs B is the average branch length between SIVmus-1 and SIVmus-2 in each of the trees in Figure 5.

^cA vs C, B vs C, A vs D, B vs D, and C vs D are between host species comparisons: A versus C is the average branch length between, SIVmus-01CM1085 and SIVgsn.99CM71, SIVmus-01CM1085 and SIVgsn-99CM166, SIVmus-01CM1239 and SIVgsn.99CM71 and SIVmus-01CM1239 and SIVgsn-99CM166 in each of the trees in Figure 5. Comparisons B versus C, A versus D, B versus D and C versus D were similarly obtained.

^dThe distance could not be calculated in Gag for SIVmon since full-length gag sequence is not available for SIVmonNG.