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Status of SARS-CoV-2 detection systems (RT-PCR)
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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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Argentina

Number of isolates sequences available: 38

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
Argentina/C3013/2020 EPI_ISL_4205982020-03-22
Argentina/C1374/2020 EPI_ISL_4205992020-03-18
Argentina/C121/2020 EPI_ISL_4206002020-03-07
EPI_ISL_430797Buenos Aires
EPI_ISL_430798Buenos Aires
EPI_ISL_430802Buenos Aires
EPI_ISL_430805Buenos Aires
EPI_ISL_430806Buenos Aires
EPI_ISL_476563Buenos Aires
EPI_ISL_430793Ciudad Autonoma de Buenos Aires
EPI_ISL_430794Ciudad Autonoma de Buenos Aires
EPI_ISL_430795Ciudad Autonoma de Buenos Aires
EPI_ISL_430796Ciudad Autonoma de Buenos Aires
EPI_ISL_430799Ciudad Autonoma de Buenos Aires
EPI_ISL_430800Ciudad Autonoma de Buenos Aires
EPI_ISL_430801Ciudad Autonoma de Buenos Aires
EPI_ISL_430803Ciudad Autonoma de Buenos Aires
EPI_ISL_430804Ciudad Autonoma de Buenos Aires
EPI_ISL_430807Ciudad Autonoma de Buenos Aires
EPI_ISL_430809Ciudad Autonoma de Buenos Aires
EPI_ISL_430810Ciudad Autonoma de Buenos Aires
EPI_ISL_430811Ciudad Autonoma de Buenos Aires
EPI_ISL_430812Ciudad Autonoma de Buenos Aires
EPI_ISL_430813Ciudad Autonoma de Buenos Aires
EPI_ISL_430814Ciudad Autonoma de Buenos Aires
EPI_ISL_430815Ciudad Autonoma de Buenos Aires
EPI_ISL_430816Ciudad Autonoma de Buenos Aires
EPI_ISL_430817Ciudad Autonoma de Buenos Aires
EPI_ISL_430818Ciudad Autonoma de Buenos Aires
EPI_ISL_476496Ciudad Autonoma de Buenos Aires
EPI_ISL_476561Ciudad Autonoma de Buenos Aires
EPI_ISL_476565Ciudad Autonoma de Buenos Aires
EPI_ISL_476567Ciudad Autonoma de Buenos Aires
EPI_ISL_476568Ciudad Autonoma de Buenos Aires
EPI_ISL_476571Ciudad Autonoma de Buenos Aires
EPI_ISL_499083Cordoba
EPI_ISL_430808Rio Negro
EPI_ISL_476573Tucuman

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