Reconstruction of real and simulated phylogenies based on quartet plurality inference

BMC Genomics

Table 2 A summary of the properties of the different characters of the suggested phylogenies

	Classification by phylum	Classification by order
QP1 tree	Tree is not perfect. One leaf misplaced	Tree is perfect
COG tree	Tree is not perfect. Eight leaves misplaced	Tree is not perfect. One leaf misplaced
Ribosomal protein tree	Tree is perfect	Tree is perfect

A tree can either be perfect (i.e., induce a perfect separation with respect to the relevant character) or not, in which case the number of taxa needed to be replaced in order to make the tree perfect is indicated. We see that the ribosomal protein tree is perfect with respect to both characters, and that the QP1 tree is perfect apart from one misplaced taxon

ISSN: 1471-2164