University of Turin logo DBIOS logo


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).

Go to home

Suriname

Number of isolates sequences available: 71

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_517612
EPI_ISL_517613
EPI_ISL_517614
EPI_ISL_517615
EPI_ISL_517616
EPI_ISL_517617
EPI_ISL_517618
EPI_ISL_517619
EPI_ISL_517620
EPI_ISL_517621
EPI_ISL_517622
EPI_ISL_517623
EPI_ISL_517624
EPI_ISL_517625
EPI_ISL_517626
EPI_ISL_517627
EPI_ISL_517628
EPI_ISL_517629
EPI_ISL_517630
EPI_ISL_517631
EPI_ISL_517632
EPI_ISL_517633
EPI_ISL_517634
EPI_ISL_517635
EPI_ISL_517636
EPI_ISL_517637
EPI_ISL_517638
EPI_ISL_517639
EPI_ISL_517640
EPI_ISL_517641
EPI_ISL_517642
EPI_ISL_517643
EPI_ISL_517644
EPI_ISL_517645
EPI_ISL_517646
EPI_ISL_517647
EPI_ISL_517648
EPI_ISL_517649
EPI_ISL_517650
EPI_ISL_517651
EPI_ISL_517652
EPI_ISL_517653
EPI_ISL_517654
EPI_ISL_517655
EPI_ISL_517656The sequence is not available
EPI_ISL_517657
EPI_ISL_517658
EPI_ISL_517659
EPI_ISL_517660
EPI_ISL_517661
EPI_ISL_517662
EPI_ISL_518799
EPI_ISL_518800
EPI_ISL_518801
EPI_ISL_518802
EPI_ISL_518803
EPI_ISL_518804
EPI_ISL_518805
EPI_ISL_518806
EPI_ISL_518807
EPI_ISL_518808
EPI_ISL_518809
EPI_ISL_518810
EPI_ISL_518811
EPI_ISL_518812
EPI_ISL_518813
EPI_ISL_518814
EPI_ISL_518815
EPI_ISL_518816
EPI_ISL_518817
EPI_ISL_518818

Download all results


GISAID data provided on this website is subject to GISAID’s Terms and Conditions | Privacy policy of University of Turin.