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


Update: Sun Jan 31 07:00:30 2021 (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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Mozambique

Number of isolates sequences available: 94

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_636975Cabo Delgado
EPI_ISL_636976Cabo Delgado
EPI_ISL_636977Cabo Delgado
EPI_ISL_636978Cabo Delgado
EPI_ISL_636979Cabo Delgado
EPI_ISL_636980Gaza
EPI_ISL_887430Inhambane
EPI_ISL_887449Inhambane
EPI_ISL_636981Manica
EPI_ISL_887419Maputo
EPI_ISL_887422Maputo
EPI_ISL_887423Maputo
EPI_ISL_887424Maputo
EPI_ISL_887425Maputo
EPI_ISL_887427Maputo
EPI_ISL_887428Maputo
EPI_ISL_887432Maputo
EPI_ISL_887433Maputo
EPI_ISL_887435Maputo
EPI_ISL_887436Maputo
EPI_ISL_887437Maputo
EPI_ISL_887438Maputo
EPI_ISL_887439Maputo
EPI_ISL_887440Maputo
EPI_ISL_887441Maputo
EPI_ISL_887442Maputo
EPI_ISL_887443Maputo
EPI_ISL_887444Maputo
EPI_ISL_887445Maputo
EPI_ISL_887446Maputo
EPI_ISL_887447Maputo
EPI_ISL_887448Maputo
EPI_ISL_887450Maputo
EPI_ISL_887451Maputo
EPI_ISL_887452Maputo
EPI_ISL_887453Maputo
EPI_ISL_887454Maputo
EPI_ISL_887455Maputo
EPI_ISL_887456Maputo
EPI_ISL_887457Maputo
EPI_ISL_887458Maputo
EPI_ISL_887459Maputo
EPI_ISL_887460Maputo
EPI_ISL_887461Maputo
EPI_ISL_887462Maputo
EPI_ISL_887463Maputo
EPI_ISL_887464Maputo
EPI_ISL_887465Maputo
EPI_ISL_887466Maputo
EPI_ISL_887467Maputo
EPI_ISL_887468Maputo
EPI_ISL_887469Maputo
EPI_ISL_887470Maputo
EPI_ISL_887471Maputo
EPI_ISL_887472Maputo
EPI_ISL_887473Maputo
EPI_ISL_887474Maputo
EPI_ISL_887475Maputo
EPI_ISL_887476Maputo
EPI_ISL_887477Maputo
EPI_ISL_887478Maputo
EPI_ISL_887479Maputo
EPI_ISL_887480Maputo
EPI_ISL_887481Maputo
EPI_ISL_887482Maputo
EPI_ISL_887483Maputo
EPI_ISL_887484Maputo
EPI_ISL_887485Maputo
EPI_ISL_887486Maputo
EPI_ISL_887487Maputo
EPI_ISL_887488Maputo
EPI_ISL_887489Maputo
EPI_ISL_887490Maputo
EPI_ISL_887491Maputo
EPI_ISL_887492Maputo
EPI_ISL_887493Maputo
EPI_ISL_887494Maputo
EPI_ISL_887495Maputo
EPI_ISL_887496Maputo
EPI_ISL_887497Maputo
EPI_ISL_887498Maputo
EPI_ISL_887499Maputo
EPI_ISL_887504Nampula
EPI_ISL_887505Nampula
EPI_ISL_887420Sofala
EPI_ISL_887421Sofala
EPI_ISL_887426Sofala
EPI_ISL_887429Sofala
EPI_ISL_887431Sofala
EPI_ISL_887434Sofala
EPI_ISL_887500Sofala
EPI_ISL_887501Sofala
EPI_ISL_887502Sofala
EPI_ISL_887503Sofala

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