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Our average composite-read lengths of 133 nt and a minimum nt divergence of 1% ensure that reads can generally be mapped uniquely to contigs.
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CH23 85, the most divergent isolate, showed 5.0%−6.0% nt divergence with other HBoV2 isolates from Chile.
The rodent-related strains showed 0.6% nt divergence among them, 2.1% nt sequence divergence with HPS-related strains, and 7.6% nt sequence divergence with the CASV prototype strain.
The maximum pairwise nt divergence for the SVMPIIs was 10.0%, corresponding to a maximum amino-acid divergence of 18.1%.
The 25 VR1-inner sequences exhibited 0%24.4%% nt divergence and 0%43.1%% aa acid divergence among pairwise comparisons.
For the SVMPIIIs, the maximum pairwise nt divergence was 20.4% with a maximum amino-acid divergence of 42.3%.
Five of the six clusters are all within 5% nt divergence of one another.
At the level of the SSR, the overall nt divergence appears much more significant: only 30% of nt positions are conserved among the 15 sequences.
The diversity of SVSPs within the C. adamanteus genome is high; maximum pairwise nt divergence is 20.6% and amino-acid divergence is 47.4%.
The TX8572 and TX8604 isolates cluster as outliers (>0.44% nt divergence) to the proposed phylogenetic groups and show increased divergence (1.13% nt and 0.38% aa) between these 2 isolates.
The observed upper limit of 11.9% nt divergence (7.2% aa divergence) among PPRVs is consistent with the low level of antigenic divergence observed because despite lineage differentiation, only a single serotype exists for PPRV.
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