Figure 5

Legend for figure 4. A heatmap of clusters with at least ten ORFs. In the main heatmap colour intensity of a cell shows the number of ORFs shown by clusters (rows) and by species (columns). Both rows and columns are ordered by hierarchical clustering to group similar rows or columns together. The dendrogram from hierarchical clustering is shown for columns and the phylum of species is indicated by a column colour bar between the heatmap and the dendrogram. Under the heatmap each species is specified by an abbreviation explained in Table 1. On the left side of the main heatmap a black and white side heatmap shows the percentage of ORFs in a cluster that have an InterPro entry of all cluster's ORFs analysed with InterProScan ("wIPR"), cluster's stability and cluster's Saccharomycotina to Pezizomycotina ratio in a clustering where inflation value (r) was 1.1 ("S/P r 1.1"). Stability reflects the ratio of cluster size between a clustering where r = 3.1 to that where r = 1.1. As Figure 1 shows, when r is set to its minimum value (1.1), TRIBE-MCL clustering produces a minimum amount of clusters and orphan clusters. In consequence the clusters are on average larger when r = 1.1. The ratio between cluster size r = 3.1 and r = 1.1 is shown as a percentage. "S/P r 1.1" reflects the ratio of count of Saccharomycotina ORFs to Pezizomycotina ORFs in a cluster when r = 1.1. By comparing "S/P r 1.1" to the species distribution of a cluster shown on the main heatmap one can see if a cluster retains the Saccharomycotina to Pezizomycotina ratio when r = 1.1. On the right side of the main heatmap, a side heatmap shows various functional classifications for the clusters. Whether or not the cluster has a Funcat classification ("Funcat") or has an ORF found in S. cerevisiae metabolic model iMH805 is shown ("iMH805"). Whether the proteins in the cluster are predicted by Protfun to have a signal sequence directing them into either mitochondrion or secretion pathway ("TargetP"), have transmembrane domains ("TMHMM") or are predicted to be enzymes is shown ("Enz."). Clusters belonging to regions A: "Pezizomycotina abundant", B: "Pezizomycotina specific", C: "Saccharomycotina absent" and D: "Saccharomycotina unique" are specified by a vertical bar between main and right heatmap.