Figure 6

Alignment of mitochondrial cytochrome oxidase subunit II. The alignment for the control mitochondrial quartet m7 (see Table 1) that supports the unexpected ((Homo sapiens, Cafeteria), Saccharomyces, Arabidopsis) topology. The exact matches for each tree topology are colored in three different colors. Blue corresponds to the ((Homo sapiens, Cafeteria), Saccharomyces, Arabidopsis), yellow corresponds to the ((Homo sapiens, Arabidopsis), Saccharomyces, Cafeteria) and green corresponds to the ((Homo sapiens, Saccharomyces), Arabidopsis, Cafeteria) tree topology. As can be seen, the majority of the matches are in favor of ((Homo sapiens, Cafeteria), Saccharomyces, Arabidopsis) tree topology. There are nine parsimony informative positions favoring the latter topology, and only three for each of the other two topologies.