. 2010 Jul 23;59(5):518–533. doi: 10.1093/sysbio/syq037

TABLE 1.

Support for major clades of eukaryotes in analyses containing varying levels of taxon inclusion and missing data

	10:16	6:16	4: 16	all:16	9:15	5:15	3:15	all:15
Supported clades
Opisthokonta	99^a	97^a	97^a	69	100^a	99^a	85	19
Rhizaria	100^a	99^a	94^a	82	100^a	100^a	47	29
SAR	97^a	98^a	63	22	100^a	100^a	32	19
Rhizaria + stramenopiles	94^a	94^a	57	26	92^a	96^a	29	18
Excavata	83	77	65	6	84	76	44	19
Amoebozoa	59	46	49	nm	68	56	44	5
“Unikonta”	63	39	21	nm	54	50	15	3
Weak/unsupported hypotheses
“Archaeplastida”	nm	nm	nm	nm	nm	nm	nm	nm
“Chromalveloata”	nm	nm	nm	nm	nm	nm	nm	nm
Cryptomonads + haptophytes	33	50	nm	29	38	56	22	25
Haptophytes + SAR	nm	nm	15	nm	nm	nm	nm	nm
Alveolates + stramenopiles	nm	nm	nm	nm	nm	nm	nm	nm
Red algae + green algae	nm	nm	nm	nm	nm	nm	nm	nm
Red, Green, Glauco, Hapto, Crypt	47	32	nm	9	39	27	16	8
Data set statistics
Number of taxa	88	111	160	451	88	111	160	240
Number of lineages	26	30	45	72	26	30	45	54
% Missing data (characters)	17	25	38	69	19	28	43	59

Note: Supported clades are stable across analyses, albeit with decreasing support as the percentage of missing data increases. Bootstrap support values from RAxML analyses. Support values greater than 75 are indicated by bold text and greater than 85 are indicated with a. nm = nonmonophyletic. Column headings describe the data sets. For example, “10:16” includes all taxa that have at least 10 of the 16 genes, with a total of 88 taxa representing 26 lineages and containing 17% missing data. The “all:15” includes the protein-coding genes from all taxa and contains 59% missing data. See Table S2 for lineages and Figure S1a–h for individual trees.

Support values greater than 85.