CoVerage
Lineage and protein dynamics, by pathogen
CoVerage follows which lineages of a pathogen are growing, which of them deserve attention, and how the amino acids of its surface proteins change over time. It began with SARS-CoV-2; the same analyses now run for other pathogens, each on its own site.
At a glance
Where the sequences come from
Each country is shaded by how many of the pathogens have sequences from it. Hover over a country to see its counts.
Recently flagged
The newest lineages whose growth made them stand out, with the country where it was first seen.
Lineages flagged to watch, by year
One dot per lineage, in the year it was first flagged.
All flagged lineages as a table
Choose a pathogen
How it works
- SequencesPublic genomes per country and month, from GISAID, NCBI Virus and NCBI Pathogen Detection, with reported case numbers.
- Lineage dynamicsPer country, which lineages grow faster than the others, tested month by month (year by year for S. pneumoniae).
- Lineages to watchLineages whose growth stands out, with the date they were first flagged and their weight in reported cases.
- Protein allele dynamicsHow often each amino acid of a surface protein occurs over time, on an ancestral reconstruction, with significant rises in colour.
Each site lists its own data sources and methods. The date on a card is the newest data that site was built from. “Circulating now” pools the newest complete months (years for S. pneumoniae) over all countries, so the countries that sequence the most weigh the most.