Phylogenetic tree data

core_gene_alignment.aln Multiple sequence alignment of all core genes in the Vagococcus fluvialis genomes. Alignment used to infer phylogenetic tree illustrated in Figure 3. core_gene_alignment.aln.treefile Newick format maximum-likelihood phylogenetic tree of the core genes of the Vagococcus fluvialis genome. This tree is illustrated in Figure 3. all_prophage_alignment.fasta Multiple sequence alignment of all chromosomal prophage sequences found in the Vagococcus fluvialis genomes. Alignment used to infer tree illustrated in Supplementary Figure S9. all_prophage.aln.treefile Newick format file of the unrooted maximum-likelihood phylogenetic tree of all chromosomal prophage sequences detected in the Vagococcus fluvialis genomes. Illustrated in Supplementary Figure S9.