Figure 6

Phylogenetic tree inferred from a concatenated set of 99 proteins (52 nucleomorph-/nucleus-encoded proteins and 47 plastid proteins) using PhyloBayes with the CAT + GTR + gamma model (4 rate categories). Support values below the lines indicate Bayesian posterior probabilities, while the upper numbers are bootstrap support values based on RAxML. Black circles indicate branches supported with 100% bootstrap values and posterior probabilities of 1.0. Nodes where support values are less than 50% are shown with an asterisk (*). Scale bars shown by solid and broken lines indicate inferred number of amino acid substitutions per site. The fraction of amino acid sites present in the data matrix (site coverage) is shown on the left.