3.2 | Phylogenetic analysis
All FMDV positive samples generated a single VP1 sequence apart from SUD/7/2017 where a mixture of O and SAT 2 were recovered. The most appropriate nucleotide substitution models for each serotype were found to be the Tamura-Nei (TN-93) model, gamma distributed with invariant sites (G+I) (type O and type SAT 2); and the Hasegawa-Kishino-Yano (HKY) model, G+I (type A).