Superinfection with drug-resistant HIV is rare and does not contribute substantially to therapy failure in a large European cohort

Table 1 Comparison of methods and calibration of support threshold for cluster based prediction

MB	RAxML	Intersect	RAxML	MB	RAxML	MB
			only	only	sum	sum
0.7	0.6	70	2	4	72	74
0.7	0.7	63	2	11	65	74
0.7	0.95	40	2	34	42	74
0.8	0.6	70	2	3	72	73
0.8	0.7	63	2	10	65	73
0.8	0.95	40	2	33	42	73
● 0.95	0.6	69	3	2	72	71
0.95	0.7	62	3	9	65	71
0.95	0.95	40	2	31	42	71

Comparison of results obtained by RAxML and MrBayes at varied thresholds for branch support or posterior probability used in the collapsing of phylogenetic trees. Numbers of patients with non-monophyletic sequences for given threshold values are shown in the cells. Tree size was 150 in all cases (i.e. the tree was constructed from an alignment of 150 sequences). The analyses were performed on a set of 170 patients derived from a preliminary analysis and enriched in superinfection cases. Full circle indicates the choice of parameters for the final analyses.

ISSN: 1471-2334