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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).

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Hungary

Number of isolates sequences available: 85

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_435422Balassagyarmat
EPI_ISL_435423Balassagyarmat
EPI_ISL_435424Balassagyarmat
EPI_ISL_435421Balatonfured
Hungary/mbl49/2020 EPI_ISL_416744Baranya2020-03-20
Hungary/mbl2/2020 EPI_ISL_418183Baranya2020-03-17
EPI_ISL_435403Baranya
EPI_ISL_435404Baranya
EPI_ISL_435405Baranya
EPI_ISL_435406Baranya
EPI_ISL_435407Baranya
EPI_ISL_435408Baranya
EPI_ISL_435409Baranya
EPI_ISL_435410Baranya
EPI_ISL_435411Baranya
EPI_ISL_435412Baranya
EPI_ISL_435413Baranya
EPI_ISL_435414Baranya
EPI_ISL_435415Baranya
EPI_ISL_435416Baranya
EPI_ISL_435417Baranya
EPI_ISL_435418Baranya
EPI_ISL_435419Baranya
EPI_ISL_483637Baranya
EPI_ISL_435428Bekesszentandras
EPI_ISL_526227Borsod-Abauj-Zemplen county
EPI_ISL_476072Borsod-Abaúj-Zemplén County
EPI_ISL_476076Borsod-Abaúj-Zemplén County
EPI_ISL_477009Borsod-Abaúj-Zemplén County
EPI_ISL_477011Borsod-Abaúj-Zemplén County
EPI_ISL_477012Borsod-Abaúj-Zemplén County
Hungary/mbl1/2020 EPI_ISL_416426Budapest2020-03-17
EPI_ISL_435420Budapest
EPI_ISL_477624Bács-Kiskun County
EPI_ISL_477625Bács-Kiskun County
EPI_ISL_477620Békés County
EPI_ISL_477623Békés County
EPI_ISL_476078Csongrád County
EPI_ISL_477615Csongrád County
EPI_ISL_477616Csongrád County
EPI_ISL_477617Csongrád County
EPI_ISL_477618Csongrád County
EPI_ISL_477619Csongrád County
EPI_ISL_477621Csongrád County
EPI_ISL_477622Csongrád County
EPI_ISL_476069Debrecen
EPI_ISL_476071Debrecen
EPI_ISL_477010Debrecen
EPI_ISL_476068Heves County
EPI_ISL_476073Heves County
EPI_ISL_476074Heves County
EPI_ISL_476075Heves County
EPI_ISL_476077Heves County
EPI_ISL_476070Jász-Nagykun-Szolnok county
EPI_ISL_435426Kecskemet
EPI_ISL_435430Kecskemet
EPI_ISL_435431Kecskemet
EPI_ISL_435427Oroshaza
EPI_ISL_526215Pest county
EPI_ISL_526216Pest county
EPI_ISL_526217Pest county
EPI_ISL_526218Pest county
EPI_ISL_526219Pest county
EPI_ISL_526220Pest county
EPI_ISL_526221Pest county
EPI_ISL_526222Pest county
EPI_ISL_526223Pest county
EPI_ISL_526224Pest county
EPI_ISL_526225Pest county
EPI_ISL_526226Pest county
EPI_ISL_526228Pest county
EPI_ISL_526229Pest county
EPI_ISL_526230Pest county
EPI_ISL_526231Pest county
EPI_ISL_526232Pest county
EPI_ISL_526233Pest county
EPI_ISL_526234Pest county
EPI_ISL_526235Pest county
EPI_ISL_526236Pest county
EPI_ISL_526237Pest county
EPI_ISL_526238Pest county
EPI_ISL_477008Szabolcs-Szatmár-Bereg County
EPI_ISL_477013Szabolcs-Szatmár-Bereg County
EPI_ISL_435425Szeged
EPI_ISL_435429Szeged

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