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COVID-19 Viral Genome Analysis Pipeline
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This website provides analyses and tools for exploring accruing mutations in hCoV-19 (SARS-CoV-2) geographically and over time, with an emphasis on the Spike protein, using data from GISAID.

The SARS-CoV-2 sequence data used for these analyses was updated from GISAID on Jul 13, 2024.

With the ever growing database of sequences in GISAID, sometimes the web connection times out before the analysis is complete. If you have this problem, please check "email results" and an email with a link will be sent to you when the job is complete.


Aug 23, 2023
We have released a new update to our listings of SARS-CoV-2 Spike Variants.

May 23, 2023
We have released COV CATNAP (Compile, Analyze and Tally NAb Panels) for analysis of neutralization by monoclonal antibodies against SARS-CoV-2.

See more


Frequencies of Key Pango Lineage Groupings Over Time

Data Summaries

These analyses are updated several times a week. Our web-based tools can focus on specific geographic regions and time frames, using the links listed under “Tools” in the blue menu bar.

Current data shared through GISAID

How to cite


We gratefully acknowledge the authors, originating and submitting laboratories of the sequences from GISAID on which this research is based. The original data are available from

This COVID-19 response analysis pipeline is supported by: The Laboratory Directed Research and Development program of Los Alamos National Laboratory (20200706ER), and by the National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Services, under Interagency Agreement No. AAI12007-001-00000.

GISAID data provided on this website is subject to GISAID’s Terms and Conditions

Questions or comments? Contact us at

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