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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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Poland

Number of isolates sequences available: 440

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_645000
EPI_ISL_645001
EPI_ISL_645002
EPI_ISL_645003
EPI_ISL_645004
EPI_ISL_645005
EPI_ISL_645006
EPI_ISL_645007
EPI_ISL_645008
EPI_ISL_645009
EPI_ISL_645010
EPI_ISL_645011
EPI_ISL_645012
EPI_ISL_645013
EPI_ISL_645014
EPI_ISL_645015
EPI_ISL_645016
EPI_ISL_645017
EPI_ISL_645018
EPI_ISL_645019
EPI_ISL_645020
EPI_ISL_645021
EPI_ISL_645022
EPI_ISL_645023
EPI_ISL_645024
EPI_ISL_645025
EPI_ISL_645026
EPI_ISL_645027
EPI_ISL_645028
EPI_ISL_645029
EPI_ISL_645030
EPI_ISL_645031
EPI_ISL_645032
EPI_ISL_645033
EPI_ISL_645034
EPI_ISL_645035
EPI_ISL_645036
EPI_ISL_645037
EPI_ISL_645038
EPI_ISL_645039
EPI_ISL_645040
EPI_ISL_645041
EPI_ISL_645042
EPI_ISL_645043
EPI_ISL_645044
EPI_ISL_645045
EPI_ISL_645046
EPI_ISL_645047
EPI_ISL_645048
EPI_ISL_645049
EPI_ISL_645050
EPI_ISL_645051
EPI_ISL_645052
EPI_ISL_645053
EPI_ISL_645054
EPI_ISL_645055
EPI_ISL_645056
EPI_ISL_645057
EPI_ISL_645058
EPI_ISL_645059
EPI_ISL_645060
EPI_ISL_645061
EPI_ISL_645062
EPI_ISL_645063
EPI_ISL_645064
EPI_ISL_645065
EPI_ISL_645066
EPI_ISL_645067
EPI_ISL_645068
EPI_ISL_645069
EPI_ISL_645070
EPI_ISL_645071
EPI_ISL_645072
EPI_ISL_645073
EPI_ISL_645074
EPI_ISL_645075
EPI_ISL_645076
EPI_ISL_645077
EPI_ISL_645078
EPI_ISL_645079
EPI_ISL_645080
EPI_ISL_645081
EPI_ISL_645082
EPI_ISL_645083
EPI_ISL_645084
EPI_ISL_645085
EPI_ISL_645086
EPI_ISL_645087
EPI_ISL_645088
EPI_ISL_645089
EPI_ISL_645090
EPI_ISL_645091
EPI_ISL_645092
EPI_ISL_645093
EPI_ISL_645094
EPI_ISL_645095
EPI_ISL_645096
EPI_ISL_645097
EPI_ISL_645098
EPI_ISL_645099
EPI_ISL_645100
EPI_ISL_645101
EPI_ISL_645102
EPI_ISL_645103
EPI_ISL_645104
EPI_ISL_645105
EPI_ISL_645106
EPI_ISL_645107
EPI_ISL_645108
EPI_ISL_645109
EPI_ISL_732827
EPI_ISL_732828
EPI_ISL_732829
EPI_ISL_732830
EPI_ISL_732831
EPI_ISL_732832
EPI_ISL_732833
EPI_ISL_732834
EPI_ISL_732835
EPI_ISL_732836
EPI_ISL_732837
EPI_ISL_732838
EPI_ISL_732839
EPI_ISL_732840
EPI_ISL_732841
EPI_ISL_732842
EPI_ISL_732843
EPI_ISL_732844
EPI_ISL_732845
EPI_ISL_732846
EPI_ISL_732847
EPI_ISL_732848
EPI_ISL_732849
EPI_ISL_732850
EPI_ISL_732851
EPI_ISL_732852
EPI_ISL_732853
EPI_ISL_732854
EPI_ISL_732855
EPI_ISL_732856
EPI_ISL_732857
EPI_ISL_732858
EPI_ISL_732859
EPI_ISL_732860
EPI_ISL_732861
EPI_ISL_732862
EPI_ISL_732863
EPI_ISL_732864
EPI_ISL_732865
EPI_ISL_732866
EPI_ISL_732867
EPI_ISL_732868
EPI_ISL_732869
EPI_ISL_732870
EPI_ISL_732871
EPI_ISL_732872
EPI_ISL_732873
EPI_ISL_732874
EPI_ISL_732875
EPI_ISL_732876
EPI_ISL_732877
EPI_ISL_732878
EPI_ISL_732879
EPI_ISL_732880
EPI_ISL_732881
EPI_ISL_732883
EPI_ISL_732884
EPI_ISL_732885
EPI_ISL_732886
EPI_ISL_732887
EPI_ISL_732888
EPI_ISL_732889
EPI_ISL_732890
EPI_ISL_732891
EPI_ISL_732892
EPI_ISL_732893
EPI_ISL_732894
EPI_ISL_732895
EPI_ISL_732896
EPI_ISL_732897
EPI_ISL_732898
EPI_ISL_732899
EPI_ISL_732900
EPI_ISL_732901
EPI_ISL_732902
EPI_ISL_732903
EPI_ISL_732904
EPI_ISL_732905
EPI_ISL_732906
EPI_ISL_732907
EPI_ISL_732908
EPI_ISL_732909
EPI_ISL_732910
EPI_ISL_732911
EPI_ISL_732912
EPI_ISL_732913
EPI_ISL_732914
EPI_ISL_732915
EPI_ISL_732916
EPI_ISL_732917
EPI_ISL_732918
EPI_ISL_732919
EPI_ISL_732920
EPI_ISL_732921
EPI_ISL_732922
EPI_ISL_732923
EPI_ISL_732924
EPI_ISL_732925
EPI_ISL_732926
EPI_ISL_437625Dolnoslakie
EPI_ISL_435723Dolnoslaskie
EPI_ISL_582031Dolnośląskie
EPI_ISL_876014Iodzkie
EPI_ISL_876015Iodzkie
EPI_ISL_509017Lodzkie
EPI_ISL_509018Lodzkie
EPI_ISL_509019Lodzkie
EPI_ISL_509020Lodzkie
EPI_ISL_509021Lodzkie
EPI_ISL_509022Lodzkie
EPI_ISL_509023Lodzkie
EPI_ISL_509024Lodzkie
EPI_ISL_509026Lodzkie
EPI_ISL_509028Lodzkie
EPI_ISL_509029Lodzkie
EPI_ISL_509031Lodzkie
EPI_ISL_509033Lodzkie
EPI_ISL_509035Lodzkie
EPI_ISL_509037Lodzkie
EPI_ISL_509038Lodzkie
EPI_ISL_509051Lodzkie
EPI_ISL_451971Malopolska
EPI_ISL_451972Malopolska
EPI_ISL_451973Malopolska
EPI_ISL_451974Malopolska
EPI_ISL_451975Malopolska
EPI_ISL_451976Malopolska
EPI_ISL_451977Malopolska
EPI_ISL_451978Malopolska
EPI_ISL_451979Malopolska
EPI_ISL_451980Malopolska
EPI_ISL_451981Malopolska
EPI_ISL_451982Malopolska
EPI_ISL_451983Malopolska
EPI_ISL_451984Malopolska
EPI_ISL_451985Malopolska
EPI_ISL_451986Malopolska
EPI_ISL_451987Malopolska
EPI_ISL_455441Malopolska
EPI_ISL_455443Malopolska
EPI_ISL_455448Malopolska
Poland/PL_P2/2020 EPI_ISL_428925Malopolskie2020-03-28
Poland/PL_P3/2020 EPI_ISL_428926Malopolskie2020-03-28
Poland/PL_P4/2020 EPI_ISL_428927Malopolskie2020-03-28
Poland/PL_P5/2020 EPI_ISL_428928Malopolskie2020-03-30
Poland/PL_P6/2020 EPI_ISL_428929Malopolskie2020-03-29
Poland/PL_P7/2020 EPI_ISL_428930Malopolskie2020-03-29
Poland/PL_P8/2020 EPI_ISL_428931Malopolskie2020-03-28
Poland/PL_P9/2020 EPI_ISL_428932Malopolskie2020-03-28
EPI_ISL_852842Malopolskie
EPI_ISL_754902Masovia
EPI_ISL_754903Masovia
EPI_ISL_754904Masovia
EPI_ISL_754905Masovia
EPI_ISL_754906Masovia
EPI_ISL_754907Masovia
EPI_ISL_754908Masovia
EPI_ISL_754909Masovia
EPI_ISL_754910Masovia
EPI_ISL_754911Masovia
EPI_ISL_754912Masovia
EPI_ISL_754913Masovia
EPI_ISL_455440Mazowieckie
EPI_ISL_455442Mazowieckie
EPI_ISL_455445Mazowieckie
EPI_ISL_455446Mazowieckie
EPI_ISL_455447Mazowieckie
EPI_ISL_455450Mazowieckie
EPI_ISL_455451Mazowieckie
EPI_ISL_455452Mazowieckie
EPI_ISL_492066Mazowieckie
EPI_ISL_492067Mazowieckie
EPI_ISL_492068Mazowieckie
EPI_ISL_492069Mazowieckie
EPI_ISL_492070Mazowieckie
EPI_ISL_492071Mazowieckie
EPI_ISL_492072Mazowieckie
EPI_ISL_492073Mazowieckie
EPI_ISL_846587Mazowieckie
EPI_ISL_856910Mazowieckie
EPI_ISL_856911Mazowieckie
EPI_ISL_864580Mazowieckie
EPI_ISL_882957Mazowieckie
EPI_ISL_882958Mazowieckie
EPI_ISL_882959Mazowieckie
EPI_ISL_882960Mazowieckie
EPI_ISL_882961Mazowieckie
EPI_ISL_882962Mazowieckie
EPI_ISL_904122Mazowieckie
EPI_ISL_904123Mazowieckie
EPI_ISL_904124Mazowieckie
EPI_ISL_904125Mazowieckie
EPI_ISL_904126Mazowieckie
EPI_ISL_485399Opolskie
Poland/Pom1/2020 EPI_ISL_428209Pomerania2020-04-06
EPI_ISL_450746Pomerania
Poland/1104795/2020 EPI_ISL_428232Pomorskie2020-03-18
Poland/1105644/2020 EPI_ISL_428233Pomorskie2020-03-18
Poland/1105973/2020 EPI_ISL_428234Pomorskie2020-03-19
Poland/1107355/2020 EPI_ISL_428235Pomorskie2020-03-23
Poland/1109171/2020 EPI_ISL_428236Pomorskie2020-03-27
EPI_ISL_450525Pomorskie
EPI_ISL_450526Pomorskie
EPI_ISL_450527Pomorskie
EPI_ISL_450528Pomorskie
EPI_ISL_450529Pomorskie
EPI_ISL_450530Pomorskie
EPI_ISL_512296Pomorskie
EPI_ISL_512297Pomorskie
EPI_ISL_512298Pomorskie
EPI_ISL_512299Pomorskie
EPI_ISL_512300Pomorskie
EPI_ISL_512301Pomorskie
EPI_ISL_512302Pomorskie
EPI_ISL_512303Pomorskie
EPI_ISL_732948Pomorskie
EPI_ISL_732949Pomorskie
EPI_ISL_732950Pomorskie
EPI_ISL_732951Pomorskie
EPI_ISL_732952Pomorskie
EPI_ISL_732953Pomorskie
EPI_ISL_732954Pomorskie
EPI_ISL_732955Pomorskie
EPI_ISL_732956Pomorskie
EPI_ISL_732957Pomorskie
EPI_ISL_732958Pomorskie
EPI_ISL_732959Pomorskie
EPI_ISL_451644Pomorze
EPI_ISL_451645Pomorze
EPI_ISL_451646Pomorze
EPI_ISL_451647Pomorze
EPI_ISL_451648Pomorze
EPI_ISL_451649Pomorze
EPI_ISL_451650Pomorze
EPI_ISL_451651Pomorze
EPI_ISL_451652Pomorze
EPI_ISL_451653Pomorze
EPI_ISL_451654Pomorze
EPI_ISL_451655Slask
EPI_ISL_451656Slask
EPI_ISL_451657Slask
EPI_ISL_451658Slask
EPI_ISL_451659Slask
EPI_ISL_451660Slask
EPI_ISL_451661Slask
EPI_ISL_451662Slask
EPI_ISL_451663Slask
EPI_ISL_451664Slask
EPI_ISL_455444Warminsko-Mazurskie
EPI_ISL_455453Warminsko-Mazurskie
EPI_ISL_455449Wielkopolska
EPI_ISL_450294Wielkopolskie
EPI_ISL_450295Wielkopolskie
EPI_ISL_450338Wielkopolskie
EPI_ISL_462480Wielkopolskie
EPI_ISL_582032Wielkopolskie
Poland/PL_P1/2020 EPI_ISL_416488Zielonogorskie2020-03-03
EPI_ISL_904138Zuid Holland
EPI_ISL_875966dolnoslaskie
EPI_ISL_875967dolnoslaskie
EPI_ISL_875980dolnoslaskie
EPI_ISL_875981dolnoslaskie
EPI_ISL_875982dolnoslaskie
EPI_ISL_875983dolnoslaskie
EPI_ISL_875984dolnoslaskie
EPI_ISL_875985dolnoslaskie
EPI_ISL_876012dolnoslaskie
EPI_ISL_876013dolnoslaskie
EPI_ISL_875968lubuskie
EPI_ISL_875977lubuskie
EPI_ISL_875986lubuskie
EPI_ISL_875987lubuskie
EPI_ISL_875988lubuskie
EPI_ISL_876016lubuskie
EPI_ISL_875959malopolskie
EPI_ISL_875960malopolskie
EPI_ISL_875961malopolskie
EPI_ISL_875989malopolskie
EPI_ISL_875990malopolskie
EPI_ISL_875991malopolskie
EPI_ISL_875992malopolskie
EPI_ISL_875993malopolskie
EPI_ISL_876017malopolskie
EPI_ISL_875979opolskie
EPI_ISL_876018podkarpackie
EPI_ISL_875962pomorskie
EPI_ISL_875969pomorskie
EPI_ISL_875994pomorskie
EPI_ISL_875995pomorskie
EPI_ISL_875963slaskie
EPI_ISL_875970slaskie
EPI_ISL_875996slaskie
EPI_ISL_875997slaskie
EPI_ISL_876019slaskie
EPI_ISL_876020slaskie
EPI_ISL_876021slaskie
EPI_ISL_875964swietokrzyskie
EPI_ISL_875971swietokrzyskie
EPI_ISL_875972swietokrzyskie
EPI_ISL_875973swietokrzyskie
EPI_ISL_875974swietokrzyskie
EPI_ISL_875998swietokrzyskie
EPI_ISL_875999swietokrzyskie
EPI_ISL_876022swietokrzyskie
EPI_ISL_876023swietokrzyskie
EPI_ISL_876000warminsko-mazurskie
EPI_ISL_876001warminsko-mazurskie
EPI_ISL_876002warminsko-mazurskie
EPI_ISL_876003warminsko-mazurskie
EPI_ISL_876004warminsko-mazurskie
EPI_ISL_876005warminsko-mazurskie
EPI_ISL_876006warminsko-mazurskie
EPI_ISL_876007warminsko-mazurskie
EPI_ISL_876008warminsko-mazurskie
EPI_ISL_876009warminsko-mazurskie
EPI_ISL_876024warminsko-mazurskie
EPI_ISL_876025warminsko-mazurskie
EPI_ISL_876026warminsko-mazurskie
EPI_ISL_876027warminsko-mazurskie
EPI_ISL_875965zachodniopomorskie
EPI_ISL_875975zachodniopomorskie
EPI_ISL_875976zachodniopomorskie
EPI_ISL_875978zachodniopomorskie
EPI_ISL_876010zachodniopomorskie
EPI_ISL_876011zachodniopomorskie
EPI_ISL_876028zachodniopomorskie
EPI_ISL_876029zachodniopomorskie
EPI_ISL_876030zachodniopomorskie
EPI_ISL_876031zachodniopomorskie
EPI_ISL_485400Łódzkie

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