Phylogenetic tree depicting amino acid replacements inferred in COX5Ap within the anthropoid clade determined via maximum parsimony (ACCTRAN and DELTRAN) as implemented in PAUP* , and the codon substitution model  implemented in PAML 3.15. Non-prosimian outgroup species are not shown. Bold type indicates positively selected amino acids identified via the branch site test using PAML (Table 1). * Amino acid replacements in which the charge has changed, ** amino acid replacements in which the polarity has changed.
Uddin et al. BMC Evolutionary Biology 2008 8:8 doi:10.1186/1471-2148-8-8