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Figure 3 | Veterinary Research

Figure 3

From: Evaluating the potential of whole-genome sequencing for tracing transmission routes in experimental infections and natural outbreaks of bovine respiratory syncytial virus

Figure 3

Within-sample diversity in the 20 samples from the 500 × coverage sequence set. Three measures of diversity are plotted: Shannon diversity at each site (blue shaded points, left axis); mean Shannon diversity across the genome (open blue circles, left axis), multiplied by 1000 to allow plotting on the same scale as site-specific Shannon diversity; and the number of sites with Shannon diversity > 0 (green triangles, right axis). Base proportions less than 1% were assumed to be due to NGS error and set to zero, and therefore did not contribute to diversity estimates. The mean number of sites for each sample was 14 562 (range 14 561–14 563). The challenge virus from experiment G, BRSV/Sweden/HPIG-SLU-620-Lovsta/2016, is abbreviated to G_BRSVSweden620p4.

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