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Here, we estimate the time of the most recent common ancestor of sequenced viruses:
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Site numbering and genome structure uses [BetaCoV/Wuhan-Hu-1/2019](https://www.ncbi.nlm.nih.gov/nuccore/MN908947) as reference. The phylogeny is rooted relative to early samples from Wuhan. Temporal resolution assumes a nucleotide substitution rate of 3 &times; 10^-4 subs per site per year. There were SNPs present in the nCoV samples in the first and last few bases of the alignment that were masked as likely sequencing artifacts. The sample Wuhan/IPBCAMS-WH-05/2020 has been dropped from the analysis due to the appearance of clustered, spurious SNPs. Full details on bioinformatic processing can be found [here](https://github.com/nextstrain/ncov).
