[comment]: <> Table of contents is generated automatically
Please do cite and link back to CoVariants.org if you use this resource!
If you use screenshots from CoVariants.org, please do ensure you credit the website and provide a link back to CoVariants.org.
Citation:
Emma B. Hodcroft. 2021. "CoVariants: SARS-CoV-2 Mutations and Variants of Interest." https://covariants.org/
Emma Hodcroft, PhD, is a researcher at the Institute of Social and Preventive Medicine, University of Bern in Bern, Switzerland and member of SIB Swiss Insitute of Bioinformatics, Switzerland.
Ivan Aksamentov is a major contributor to this project and is based in the Neher Lab at the University of Basel.
CoVariants is Copyright 2020-2021 Emma Hodcroft.
This CoVariants code and work is licensed under a GNU Affero General Public License (AGPL). You can view this license here. CoVariants is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU Affero General Public License for more details.
This work is enabled by data made available on GISAID. See the GISAID Terms of Use for more information about how this data can be used. Note that under the terms of use, data on GISAID cannot be redistributed.
The raw data behind these charts comes from GISAID. See the GISAID Terms of Use for more information about how this data can be used. Note that under the terms of use, data on GISAID cannot be redistributed.
The derived sequence counts used to generate the plots seen here are available. You can find them 'per variant' as JSON or TSV files in this Github folder, or 'per country' as a JSON file here.
If you use this data please credit this resource appropriately, including linking back to this website.
PR requests to this repository providing new links and information are very welcome! The more detail you can include in a pull request (PR) the faster we will be able to review it!
If possible, provide a PR that adds/edits the appropriate links/etc, and it can be merged faster - if you can't or don't know how to do that, making an issue is fine! (But might be incorporated a little slower!)
You can also use the "Propose changes to this section" links that you will often see in the top-right of sections across the website.
To stay up-to-date on SARS-CoV-2 variants, you can follow Emma Hodcroft on Twitter (@firefoxx66) - she often tweets about updates and changes to the website.
You should also follow Nextstrain (@nextstrain) - there is an update every weekday on the latest sequences available from around the world.
You can also check out the CoV-Lineages Global Report to read more information on some of the variants.
Variants/mutations are listed by the location of a mutation in the spike protein (S:). The letter after : indicates the original amino-acid, the number is the position of the amino-acid in the spike protein, and the last letter is the 'new' amino-acid.
For some builds, like S:N501 and S:E484, there is no last letter. This is because the builds track multiple amino-acid changes.
Some variants have different names, like 20A.EU1 and 20A.EU2. This is because of their prominence - they've been given 'clade' and 'subclade' names. A defining mutation is often listed in parentheses after the name.
Generally, variants are added due to a few criteria:
- If they seem to account for a significant fraction of sequences in a region or a country
- If they have expanded quickly in a region or country
- If they are considered a variant of concern or interest
- If their defining mutations are considered of concern or interest
So far, the focus of this website has primarily been on variants found in Europe, but work is in motion to expand this to be more broad.
Check out the links below:
Overview of all mutation tables & graphs
Overview of all mutation country plots
- Go to home page
- View variants
- See shared mutations