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

Number of isolates sequences available: 82

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_492075
EPI_ISL_492076
EPI_ISL_492077
EPI_ISL_492078
EPI_ISL_492079
EPI_ISL_492080
EPI_ISL_492081
EPI_ISL_492082
EPI_ISL_492083
EPI_ISL_492084
EPI_ISL_492085
EPI_ISL_492086
EPI_ISL_677715Bitola
EPI_ISL_677718Bitola
EPI_ISL_516413Kumanovo
EPI_ISL_677705Kumanovo
EPI_ISL_677707Kumanovo
EPI_ISL_678252Kumanovo
EPI_ISL_677704Ohrid
EPI_ISL_677709Ohrid
EPI_ISL_677711Ohrid
EPI_ISL_677722Ohrid
EPI_ISL_677725Ohrid
EPI_ISL_677726Ohrid
EPI_ISL_678255Ohrid
EPI_ISL_678256Ohrid
EPI_ISL_514354Prilep
EPI_ISL_677674Prilep
EPI_ISL_677703Prilep
EPI_ISL_677712Prilep
EPI_ISL_677713Prilep
EPI_ISL_677714Prilep
EPI_ISL_678258Prilep
EPI_ISL_516426Shtip
EPI_ISL_516427Shtip
EPI_ISL_516428Shtip
EPI_ISL_516429Shtip
EPI_ISL_516430Shtip
EPI_ISL_516431Shtip
EPI_ISL_677676Shtip
EPI_ISL_677677Shtip
EPI_ISL_677716Shtip
EPI_ISL_677717Shtip
EPI_ISL_677720Shtip
EPI_ISL_677721Shtip
EPI_ISL_677724Shtip
EPI_ISL_678250Shtip
EPI_ISL_678259Shtip
EPI_ISL_516414Skopje
EPI_ISL_516415Skopje
EPI_ISL_516416Skopje
EPI_ISL_516417Skopje
EPI_ISL_516418Skopje
EPI_ISL_516419Skopje
EPI_ISL_516420Skopje
EPI_ISL_516421Skopje
EPI_ISL_516422Skopje
EPI_ISL_516423Skopje
EPI_ISL_516424Skopje
EPI_ISL_516425Skopje
EPI_ISL_677700Skopje
EPI_ISL_677701Skopje
EPI_ISL_677702Skopje
EPI_ISL_677706Skopje
EPI_ISL_677708Skopje
EPI_ISL_677723Skopje
EPI_ISL_678248Skopje
EPI_ISL_678249Skopje
EPI_ISL_678251Skopje
EPI_ISL_678253Skopje
EPI_ISL_735392Skopje
EPI_ISL_735393Skopje
EPI_ISL_735394Skopje
EPI_ISL_735395Skopje
EPI_ISL_760059Skopje
EPI_ISL_760246Skopje
EPI_ISL_677719Struga
EPI_ISL_678257Struga
EPI_ISL_678260Struga
EPI_ISL_678254Strumica
EPI_ISL_677675Veles
EPI_ISL_677710Veles

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