Genomic Diversity, Phylogenetic Structure, and In Silico Diagnostic Primer Compatibility of Available DENV-1 Genotype V from Mexico

Codon alignments, maximum-likelihood trees and HyPhy selection analyses supporting the study of DENV-1 genotype V in Mexico. The archive contains the polyprotein coding alignment of 119 public Mexican DENV-1 genomes and its per-gene partitions, the trees inferred in IQ-TREE with clade A labelled as foreground for branch-site tests, the R pipeline and HyPhy scripts that produced every table and figure, the complete FEL, MEME, FUBAR, BUSTED, RELAX, aBSREL and GARD output, and the eight supplementary tables of the article. All input sequences are public and were retrieved from GenBank; no new sequences were generated.