Thanks for sharing! Did you characterise defective/DI-RNAs? Think there were some large deletions of the structural genes reported before in WNV.
We just did a big push on our West Nile genomics studies and now have >500 genomes from California. Check out the project (and download the data) here:https://andersen-lab.com/secrets/data/west-nile-genomics/ …
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My internet is a bit crappy today, so the site doesn't load. But if the lab's method of choice (400bp overlap fragments) was used, then I'd assume that this is not ideal to look for DIs
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