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COVID-19 In Vitro Diagnostic Devices and Test Methods Database

SARS-CoV-2 NAAT target regions

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Strain Region Country Number of differences Genome Date Navigate
Strain: Albania/Cento-30536457/2020 Region: Europe Country: Albania Number of differences: 0 Collection Date: 05/09/2020 Go to details
Strain: Algeria/G0638_2264/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 02/03/2020 Go to details
Strain: Algeria/G0640_2265/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 08/03/2020 Go to details
Strain: Algeria/G0860_2262/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 02/03/2020 Go to details
Strain: Algeria/G33030-8855/2020 Region: Africa Country: Algeria Number of differences: 1 Collection Date: 2020-06 Go to details
Strain: Algeria/G35014-8856/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 09/06/2020 Go to details
Strain: Algeria/G35081-8858/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 15/06/2020 Go to details
Strain: Algeria/G35155-8850/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 15/07/2020 Go to details
Strain: Algeria/G37138-8854/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 18/06/2020 Go to details
Strain: Algeria/G37308-8864/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 17/06/2020 Go to details
Strain: Algeria/G37318-8849/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 15/06/2020 Go to details
Strain: Algeria/G38029-8861/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 19/06/2020 Go to details
Strain: Algeria/G38218-8852/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 19/06/2020 Go to details
Strain: Algeria/G38599-8859/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 20/06/2020 Go to details
Strain: Algeria/G38882-8853/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 20/06/2020 Go to details
Strain: Algeria/G40009-8862/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 22/06/2020 Go to details
Strain: Algeria/G41498-8846/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 29/06/2020 Go to details
Strain: Algeria/G42452-8847/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 24/06/2020 Go to details
Strain: Algeria/G43521-8863/2020 Region: Africa Country: Algeria Number of differences: 0 Collection Date: 21/06/2020 Go to details
Strain: Andorra/202552/2020 Region: Europe Country: Andorra Number of differences: 0 Collection Date: 13/03/2020 Go to details
Strain: Anhui/SZ005/2020 Region: Asia Country: China Number of differences: 0 Collection Date: 24/01/2020 Go to details
Strain: AntiguaandBarbuda/ATG39386/2020 Region: North America Country: Antigua and Barbuda Number of differences: 0 Collection Date: 29/10/2020 Go to details
Strain: Argentina/argenTAG-1252C02E/2020 Region: South America Country: Argentina Number of differences: 0 Collection Date: 22/07/2020 Go to details
Strain: Argentina/argenTAG-12568054/2020 Region: South America Country: Argentina Number of differences: 0 Collection Date: 22/07/2020 Go to details
Strain: Argentina/argenTAG-126BE00A/2020 Region: South America Country: Argentina Number of differences: 0 Collection Date: 20/07/2020 Go to details

Pre-calculated values are obtained by using ThermonucleotideBLAST (Gans JD, Wolinsky M. 2008), which performs in silico simulations with the NAAT methods stored in our database on the selected high-quality (<1% Ns and <0.05% unique amino acid mutations) and full length (>29,000bp) viral genomes made available by GISAID. The aims are both to detect potential target regions of the NAAT methods and to highlight possible differences with the expected reference sequence which might affect the NAAT performance.

The database contains amplicons collected by screening viral shared genomic sequences of SARSCoV- 2 by in silico determination of PCR-based molecular assays to diagnose COVID-19. The information is retrieved periodically. Acknowledgements

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