Table 2.

Congruence of phylogenetic trees inferred from consensus and supertree methods (that ignore or consider branch lengths). CI: Rohlf’s consensus information index (ranges from 0 to 1; 0 being a bush and 1 a fully resolved tree), PM: partition metric, D1: maximum agreement subtrees. Indices range from 0 to 1. MR: majority rule consensus, MRC: majority rule consensus with compatible groupings, MRP: matrix representation with parsimony, MSS: most similar supertree, SFIT: maximum splits fit, AC: average consensus, SDM: unweighted super-distance matrix, SDMw: weighted super-distance matrix.

		CII	Model tree 1 (MT1)		Model tree 1 (MT2)
			PM	D1	PM	D1
Topological consensus methods	Strict	0.02	0.46	0.94	0.39	0.94
	MR	0.10	0.30	0.79	0.25	0.73
	MRC	0.94	0.22	0.39	0.23	0.46
	Adams	0.18	0.42	0.78	0.36	0.75
Topological supertree methods	MRPa	0.98	0.23	0.47	0.23	0.43
	MSSb	0.91	0.54	0.62	0.56	0.60
	SFITc	0.53	0.24	0.51	0.22	0.50
Branch-length supertree methods	AC	1.00	0.25	0.43	0.22	0.49
	SDM	1.00	0.27	0.45	0.24	0.50
	SDMw	1.00	0.30	0.45	0.27	0.50

^aStrict consensus of five most parsimonious trees.

^bStrict consensus of two equally optimal supertrees.

^cStrict consensus of 184 equally optimal supertrees.