Global evolution of SARS-CoV-2 and dynamic monitoring & prediction of COVID-19

Country/territory-wise SARS-CoV-2 lineage distributions of 13,898,247 genomes from GISAID (up to January 17, 2025) based on the combinations of bases at 206 marker sites and variants of concern (VOCs) defining mutation sites. In total 15,581,049 genomes were retrieved from GISAID (as of January 17, 2025), 13,898,247 genomes were used in the analysis after quality control. Criteria for quality control : 1) Ns < 5%; 2) length > 29,000 after removing Ns.

Estimation of the reproduction number (R) and prediction of the infected population of SARS-CoV-2 for each country by fitting a Susceptible, Un-quanrantined infected, Quarantined infected, Confirmed infected (SUQC) model.

Estimation of the global reproduction number (R) of SARS-CoV-2

Prediction of the infected population of SARS-CoV-2

A tool for assigning SARS-CoV-2 genomes into defined lineages based on the combinations of bases at 206 marker sites and variants of concern (VOCs) defining mutation sites.

Input your FASTA sequences

Summary of global dynamics of COVID-19 pandemic, including the cumulative confirmed cases, daily confirmed cases, active confirmed cases, deaths, and matality for each country.

Cumulative confirmed cases

Active confirmed cases

Cumulative confirmed cases in last 7 days

Daily confirmed cases

Visualizing variant sites (29,895 in total, degenerate bases excluded) in 13,898,247 SARS-CoV-2 genomes from GISAID (up to January 17, 2025). Quality control: 1) Ns < 5%; 2) length > 29,000 after removing Ns.

Mutation statistics

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