PMC

Phylogenetic comparison of CaPVs. Genomic nucleotide sequences excluding terminal repetition were aligned by using Dialign () to generate the unrooted tree. The maximum-likelihood algorithm with HKY correction for multiple substitutions was used as implemented by the Phylip package (). Branch length values indicate changes per nucleotide. Similar results were obtained by using the maximum-parsimony algorithm and the neighbor-joining algorithm, which maintained 100% support for species-specific groupings after 1,000 bootstrap replicates (data not shown).