Neighbor-joining phylogeny of the ZNF91 subfamily based on the spacer and flanking sequences. The tree includes 116 loci (including outgroups); the single best tree is shown, and bootstrap values above 70% based on 1000 bootstrap replicates are indicated on branches. Gene names without a leading number are from the chromosome 19p12 cluster; in all other cases, the initial number indicates the chromosome from which the locus derives (e.g., 7_ZNF588 is from HSA7). Loci with the ZNF catalog designation LLNLxxx (Figs. 1, 2; Supplemental Table S1) are abbreviated “Lxxx.” Colored boxes define certain well-supported clades as designated to the left. For the clades including genes from the main clusters, the box colors match the colored bars under the individual member genes on the cluster maps in Figures 1 and 2. Note that the “Y-chromosome related clade” contains genes from the cluster on HSA7, but these are outnumbered by the pseudogene loci on HSAY. The red arrows indicate the ZNF91 subfamily members in the cluster on HSA1; the gray arrows indicate two nonclustered genes mentioned in the results section. Pseudogenes are marked with a ψ. Processed pseudogenes are indicated by “r” ahead of the locus name.
