Fig. 5

Distribution of csRNA sequences across the 20,047 Global Pneumococcal Sequencing (GPS) project isolates. A A maximum-likelihood phylogeny of 388 csRNA sequences, representing the non-redundant set identified within the GPS collection after excluding examples that were <80 nt in length or contained ambiguous bases. Nodes are coloured according to assignment to the eight different csRNA types shown in panel (B). B The predicted structure of the most common sequence of each csRNA type is shown. The sequence CAAUCA is highlighted in red where it is present. The total frequency of all sequences assigned to the named allele in the GPS isolates is shown in parentheses. C The distribution of csRNA3 allele combinations across the GPS collection. The bar chart quantifies the prevalences of different combinations of the unmodified csRNA3 type, and the prophage-modified csRNA3L and csRNA3R types, across isolates. D Distribution of different csRNA3 type combinations across Global Pneumococcal Sequence Clusters 1 to 99 in the GPS collection