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Status of SARS-CoV-2 detection systems (RT-PCR)
enabled by data from GISAID logo


Update: Sun Oct 25 07:18:47 2020 (UTC+2)

Author: Olivier Friard - Department of Life Sciences and Systems Biology - University of Turin - Italy

We gratefully acknowledge the Authors of the Originating and Submitting laboratories of the genetic sequence and metadata shared via GISAID, on which this research is based.
The isolates collection dates are in YYYY-MM-DD format (ISO 8601).

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Romania

Number of isolates sequences available: 112

Method

When the target sequence of amplification systems is available the primers and probe are aligned against the target sequence using the Smith-Waterman local sequence alignment algorithm and the alignments are classified in 3 categories:
             Full match - All primers and probe have a 100% identity with the target sequence. In case of a 2 probes system (RdRP) at least one probe must have a 100% identity.
             The identities of forward/reverse primers AND probe are greater than or equal to 80% AND the length of the amplification product is comprised between the reference length plus/minus 8 bp.
             The identity of one primer OR the probe are less than 80% OR the length of the amplification product is NOT comprised between reference length plus/minus 8 bp.

If the target sequence is not available the The sequence is not available warning is shown.
Please note that the reverse primer sequence is shown reverted-complemented in the alignments.

Results

Move the mouse cursor over elements to see the details.

Virus name / Accession IDRegionCollection date2019-nCoV_N12019-nCoV_N22019-nCoV_N3E-SarbecoRdRP
EPI_ISL_455473Arges
EPI_ISL_455474Arges
EPI_ISL_455475Arges
EPI_ISL_445220Bucharest
EPI_ISL_455468Bucuresti
EPI_ISL_455469Bucuresti
EPI_ISL_455470Bucuresti
EPI_ISL_455471Bucuresti
EPI_ISL_455476Bucuresti
EPI_ISL_455477Bucuresti
EPI_ISL_455479Bucuresti
EPI_ISL_467778Bucuresti
EPI_ISL_467779Bucuresti
EPI_ISL_468134Bucuresti
EPI_ISL_468135Bucuresti
EPI_ISL_468136Bucuresti
EPI_ISL_468145Bucuresti
EPI_ISL_468147Bucuresti
EPI_ISL_468148Bucuresti
EPI_ISL_468149Bucuresti
EPI_ISL_468150Bucuresti
EPI_ISL_468151Bucuresti
EPI_ISL_468152Bucuresti
EPI_ISL_468153Bucuresti
EPI_ISL_468154Bucuresti
EPI_ISL_468155Bucuresti
EPI_ISL_471420Bucuresti
EPI_ISL_471422Bucuresti
EPI_ISL_455472Buzau
EPI_ISL_471416Buzau
EPI_ISL_471417Buzau
EPI_ISL_471419Buzau
EPI_ISL_471423Buzau
EPI_ISL_445243Constanta
EPI_ISL_447054Constanta
EPI_ISL_467781Constanta
EPI_ISL_468156Mioveni
EPI_ISL_468137Suceava
EPI_ISL_468138Suceava
EPI_ISL_468139Suceava
EPI_ISL_468140Suceava
EPI_ISL_468141Suceava
EPI_ISL_468142Suceava
EPI_ISL_468143Suceava
EPI_ISL_468144Suceava
EPI_ISL_468146Suceava
EPI_ISL_468157Suceava
EPI_ISL_468158Suceava
EPI_ISL_471421Suceava
EPI_ISL_486834Suceava
EPI_ISL_486854Suceava
EPI_ISL_486855Suceava
EPI_ISL_486856Suceava
EPI_ISL_491036Suceava
EPI_ISL_491037Suceava
EPI_ISL_491038Suceava
EPI_ISL_491039Suceava
EPI_ISL_491040Suceava
EPI_ISL_491041Suceava
EPI_ISL_491042Suceava
EPI_ISL_491043Suceava
EPI_ISL_491044Suceava
EPI_ISL_491045Suceava
EPI_ISL_491046Suceava
EPI_ISL_491047Suceava
EPI_ISL_491048Suceava
EPI_ISL_491049Suceava
EPI_ISL_491050Suceava
EPI_ISL_491051Suceava
EPI_ISL_491052Suceava
EPI_ISL_491053Suceava
EPI_ISL_491054Suceava
EPI_ISL_491055Suceava
EPI_ISL_491056Suceava
EPI_ISL_491057Suceava
EPI_ISL_491058Suceava
EPI_ISL_491059Suceava
EPI_ISL_491060Suceava
EPI_ISL_491061Suceava
EPI_ISL_491062Suceava
EPI_ISL_491063Suceava
EPI_ISL_491064Suceava
EPI_ISL_491065Suceava
EPI_ISL_491066Suceava
EPI_ISL_491067Suceava
EPI_ISL_491068Suceava
EPI_ISL_491069Suceava
EPI_ISL_491070Suceava
EPI_ISL_491071Suceava
EPI_ISL_491072Suceava
EPI_ISL_491073Suceava
EPI_ISL_491074Suceava
EPI_ISL_491075Suceava
EPI_ISL_491076Suceava
EPI_ISL_491077Suceava
EPI_ISL_491078Suceava
EPI_ISL_491079Suceava
EPI_ISL_491080Suceava
EPI_ISL_491081Suceava
EPI_ISL_491082Suceava
EPI_ISL_491083Suceava
EPI_ISL_491084Suceava
EPI_ISL_491085Suceava
EPI_ISL_491086Suceava
EPI_ISL_491087Suceava
EPI_ISL_491088Suceava
EPI_ISL_491089Suceava
EPI_ISL_491090Suceava
EPI_ISL_491091Suceava
EPI_ISL_467780Teleorman
EPI_ISL_471424Valcea
EPI_ISL_471418Vrancea

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