Phylogenetic input data used in the analyses.
Sequence metadata and identifiers for the 50,887 genome sequences used. The sequences themselves can be downloaded from COG-UK and GISAID. For complete details see the Genomic data section of the Supplementary Materials.
Maximum-likelihood phylogenies generated for the 5 subsets of the sequence data constructed in FastTree (with branches shorter than 5e-6 substitutions per site collapsed). For complete details see the Phylogenetic analysis and molecular clock dating section of the Supplementary Materials.