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Phylogeny of lineage 1 isolates from Kinabalu, Malaysia and 480 publicly available Thai M. tuberculosis genomes [22] (blue tips). Maximum-likelihood tree with bootstrap values above 75 for all major branches created using RAxML at 1000 bootstraps, GTRCAT nucleotide substitution model based on 8321 SNPs. Clade branch colours: 1.2.1.1 – red, 1.2.1.2 – purple, 1.2.1.3 – green, 1.2.1.X – yellow.
