Fig. 2

Distributions of long-branch scores and gene occupancy for Total1080 and Best108 matrices. In long-branch score heat maps, the scores were Z-scaled across columns to highlight among-taxon variability. Red indicates high long-branch scores relative to other taxa and blue denotes low scores. White in gene occupancy plots corresponds to missing data. The cladograms illustrate results of similarity by hierarchical clustering. Note that in the Total1080 dataset, Amphimedon, Mnemiopsis and Tetranychus cluster with other long-branched taxa that include the outgroups, the nematodes, and Oikopleura. However, in the Best108 matrix these taxa cluster with the main group, leaving only the outgroups, nematodes and Oikopleura in the long-branch cluster