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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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Vietnam

Number of isolates sequences available: 87

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_435308
EPI_ISL_435310
EPI_ISL_435311
EPI_ISL_435312
EPI_ISL_435315
EPI_ISL_483625The sequence is not availableThe sequence is not availableThe sequence is not availableThe sequence is not availableThe sequence is not available
Vietnam/CM295/2020 EPI_ISL_416430Hanoi2020-03-06
Vietnam/CM296/2020 EPI_ISL_416431Hanoi2020-03-06
EPI_ISL_435303Hanoi
EPI_ISL_435305Hanoi
EPI_ISL_435313Hanoi
EPI_ISL_435314Hanoi
EPI_ISL_435316Hanoi
EPI_ISL_435317Hanoi
EPI_ISL_455694Hanoi
EPI_ISL_455695Hanoi
EPI_ISL_455696Hanoi
EPI_ISL_455697Hanoi
EPI_ISL_455698Hanoi
EPI_ISL_455699Hanoi
EPI_ISL_455700Hanoi
EPI_ISL_455701Hanoi
EPI_ISL_455702Hanoi
EPI_ISL_455703Hanoi
EPI_ISL_455704Hanoi
EPI_ISL_455705Hanoi
EPI_ISL_455706Hanoi
EPI_ISL_455707Hanoi
EPI_ISL_455708Hanoi
EPI_ISL_455709Hanoi
EPI_ISL_455710Hanoi
EPI_ISL_455712Hanoi
EPI_ISL_455713Hanoi
EPI_ISL_455716Hanoi
EPI_ISL_455717Hanoi
EPI_ISL_455718Hanoi
EPI_ISL_479756Hanoi
EPI_ISL_479757Hanoi
EPI_ISL_479758Hanoi
EPI_ISL_511891Hanoi
EPI_ISL_511892Hanoi
EPI_ISL_511893Hanoi
EPI_ISL_511894Hanoi
EPI_ISL_511895Hanoi
EPI_ISL_511896Hanoi
EPI_ISL_511897Hanoi
EPI_ISL_511898Hanoi
Vietnam/19-02S/2020 EPI_ISL_418267Ho Chi Minh City2020-01-22
Vietnam/19-01S/2020 EPI_ISL_418269Ho Chi Minh City2020-01-22
EPI_ISL_448222Ho Chi Minh City
EPI_ISL_450738Ho Chi Minh City
EPI_ISL_450739Ho Chi Minh City
EPI_ISL_450740Ho Chi Minh City
EPI_ISL_450741Ho Chi Minh City
EPI_ISL_450742Ho Chi Minh City
EPI_ISL_450743Ho Chi Minh City
EPI_ISL_450744Ho Chi Minh City
EPI_ISL_450745Ho Chi Minh City
EPI_ISL_498171Ho Chi Minh City
EPI_ISL_498172Ho Chi Minh City
EPI_ISL_498173Ho Chi Minh City
EPI_ISL_498174Ho Chi Minh City
EPI_ISL_498175Ho Chi Minh City
EPI_ISL_498176Ho Chi Minh City
EPI_ISL_498177Ho Chi Minh City
EPI_ISL_498178Ho Chi Minh City
EPI_ISL_498179Ho Chi Minh City
EPI_ISL_498180Ho Chi Minh City
EPI_ISL_498181Ho Chi Minh City
EPI_ISL_498182Ho Chi Minh City
EPI_ISL_498183Ho Chi Minh City
EPI_ISL_498184Ho Chi Minh City
EPI_ISL_498185Ho Chi Minh City
EPI_ISL_498186Ho Chi Minh City
EPI_ISL_498187Ho Chi Minh City
EPI_ISL_498188Ho Chi Minh City
EPI_ISL_498189Ho Chi Minh City
EPI_ISL_498190Ho Chi Minh City
EPI_ISL_498191Ho Chi Minh City
EPI_ISL_498192Ho Chi Minh City
EPI_ISL_455715Laocai
Vietnam/39607/2020 EPI_ISL_416428Quangning2020-03-07
EPI_ISL_455714Quangninh
Vietnam/VR03-38142/2020 EPI_ISL_408668Thanh Hoa2020-01-24
Vietnam/38142/2020 EPI_ISL_416427Thanhhoa2020-01-24
Vietnam/CM99/2020 EPI_ISL_416429Vinhphuc2020-02-11
EPI_ISL_455711Vinhphuc

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