Table 2.

Genetic distances of capsid and E1/E2 (including HVR1) quasispecies from plasma and LVP in three chronically infected patients.

Patient and compartment	Number of clones*		Normalized nucleotide entropy†			Normalized amino acid entropy†			Mean genetic distance‡ (standard deviation)
	capsid	E1/E2	capsid	E1/E2	HVR1	capsid	E1/E2	HVR1	capsid	E1/E2
Patient B
Plasma	10	10	0.76	0.88	0.58	0.41	0.88	0.35	0.0072§ (0.0049)	0.0359 (0.0313)
LVP	12	14	0.54	0.87	0.35	0.34	0.59	0.31	0.0042§ (0.0059)	0.0436 (0.0387)
Patient C
Plasma	14	18	0.92	0.80	0.50	0.54	0.79	0.40	0.0097§ (0.0046)	0.0265§ (0.0213)
LVP	15	13	0.63	0.21	0.11	0.39	0.21	0.11	0.0056§ (0.0043)	0.0014§ (0.0017)
Patient G
Plasma	10	14	0.88	0.89	0.71	0.53	0.74	0.45	0.0092§ (0.0064)	0.0488§ (0.0433)
LVP	12	11	0.81	0.87	0.64	0.44	0.61	0.36	0.0083§ (0.0043)	0.0286§ (0.0359)

^*Number of independantly analyzed clones.

^†Shannon entropy values were compared for the three patients and compartments by the Wilcoxon test (P<0.05).

^‡Within sample genetic distances were calculated with PHYLO_WIN based on a Kimura two parameter matrix with a transition to transversion ratio of 2. Mean genetic distances between plasma and LVP for each patient were compared by using the Mann and Whitney test (^§ indicates P<0.01).