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Phylogenetic trees showing shifts in phylogenetic position of segments of K94P05 on either side of the putative breakpoints: nucleotides 1–8822 (a), 8823–9246 (b), and 9247–10,982 (c). Percent bootstrap support (n = 1000) for the putative recombinant strain K94P05 (highlighted in a square text box) clustering with different genotypes is indicated. The trees are unrooted, and branch lengths are drawn to scale. The genotype IV isolate JKT6468 was used as an outgroup
