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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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Jordan

Number of isolates sequences available: 581

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_429992Amman
EPI_ISL_429993Amman
EPI_ISL_429994Amman
EPI_ISL_429995Amman
EPI_ISL_429996Amman
EPI_ISL_429997Amman
EPI_ISL_429998Amman
EPI_ISL_429999Amman
EPI_ISL_430000Amman
EPI_ISL_430001Amman
EPI_ISL_430002Amman
EPI_ISL_430003Amman
EPI_ISL_430004Amman
EPI_ISL_430005Amman
EPI_ISL_430006Amman
EPI_ISL_430007Amman
EPI_ISL_430008Amman
EPI_ISL_430011Amman
EPI_ISL_430013Amman
EPI_ISL_430014Amman
EPI_ISL_430015Amman
EPI_ISL_434516Amman
EPI_ISL_450186Amman
EPI_ISL_450187Amman
EPI_ISL_450188Amman
EPI_ISL_450189Amman
EPI_ISL_635778Amman
EPI_ISL_635781Amman
EPI_ISL_635782Amman
EPI_ISL_636267Amman
EPI_ISL_636269Amman
EPI_ISL_636270Amman
EPI_ISL_636271Amman
EPI_ISL_636272Amman
EPI_ISL_636273Amman
EPI_ISL_636274Amman
EPI_ISL_636275Amman
EPI_ISL_636276Amman
EPI_ISL_636277Amman
EPI_ISL_636278Amman
EPI_ISL_636279Amman
EPI_ISL_636280Amman
EPI_ISL_636281Amman
EPI_ISL_636282Amman
EPI_ISL_636284Amman
EPI_ISL_636285Amman
EPI_ISL_636286Amman
EPI_ISL_636287Amman
EPI_ISL_636288Amman
EPI_ISL_636289Amman
EPI_ISL_636290Amman
EPI_ISL_636291Amman
EPI_ISL_636292Amman
EPI_ISL_636293Amman
EPI_ISL_636294Amman
EPI_ISL_636295Amman
EPI_ISL_636296Amman
EPI_ISL_636297Amman
EPI_ISL_636298Amman
EPI_ISL_636299Amman
EPI_ISL_636300Amman
EPI_ISL_636301Amman
EPI_ISL_636302Amman
EPI_ISL_636303Amman
EPI_ISL_636304Amman
EPI_ISL_636305Amman
EPI_ISL_636306Amman
EPI_ISL_636307Amman
EPI_ISL_636308Amman
EPI_ISL_636309Amman
EPI_ISL_636310Amman
EPI_ISL_636311Amman
EPI_ISL_636312Amman
EPI_ISL_636314Amman
EPI_ISL_636315Amman
EPI_ISL_636316Amman
EPI_ISL_636317Amman
EPI_ISL_636318Amman
EPI_ISL_636319Amman
EPI_ISL_636320Amman
EPI_ISL_636321Amman
EPI_ISL_636322Amman
EPI_ISL_636323Amman
EPI_ISL_636324Amman
EPI_ISL_636325Amman
EPI_ISL_636326Amman
EPI_ISL_636327Amman
EPI_ISL_636328Amman
EPI_ISL_636329Amman
EPI_ISL_636330Amman
EPI_ISL_636331Amman
EPI_ISL_636332Amman
EPI_ISL_636333Amman
EPI_ISL_636334Amman
EPI_ISL_636335Amman
EPI_ISL_636336Amman
EPI_ISL_636337Amman
EPI_ISL_636338Amman
EPI_ISL_636339Amman
EPI_ISL_636340Amman
EPI_ISL_636341Amman
EPI_ISL_636342Amman
EPI_ISL_636343Amman
EPI_ISL_636344Amman
EPI_ISL_636345Amman
EPI_ISL_636346Amman
EPI_ISL_636347Amman
EPI_ISL_636348Amman
EPI_ISL_636349Amman
EPI_ISL_636350Amman
EPI_ISL_636351Amman
EPI_ISL_636352Amman
EPI_ISL_636353Amman
EPI_ISL_636354Amman
EPI_ISL_636355Amman
EPI_ISL_636356Amman
EPI_ISL_636357Amman
EPI_ISL_636358Amman
EPI_ISL_636359Amman
EPI_ISL_636360Amman
EPI_ISL_636361Amman
EPI_ISL_636362Amman
EPI_ISL_636363Amman
EPI_ISL_636364Amman
EPI_ISL_636365Amman
EPI_ISL_636366Amman
EPI_ISL_636367Amman
EPI_ISL_636368Amman
EPI_ISL_636369Amman
EPI_ISL_636370Amman
EPI_ISL_636371Amman
EPI_ISL_636372Amman
EPI_ISL_636373Amman
EPI_ISL_636374Amman
EPI_ISL_636375Amman
EPI_ISL_636376Amman
EPI_ISL_636377Amman
EPI_ISL_636378Amman
EPI_ISL_636379Amman
EPI_ISL_636380Amman
EPI_ISL_636381Amman
EPI_ISL_636382Amman
EPI_ISL_636383Amman
EPI_ISL_636384Amman
EPI_ISL_636385Amman
EPI_ISL_636386Amman
EPI_ISL_636387Amman
EPI_ISL_636388Amman
EPI_ISL_636389Amman
EPI_ISL_636390Amman
EPI_ISL_636391Amman
EPI_ISL_636392Amman
EPI_ISL_636393Amman
EPI_ISL_636394Amman
EPI_ISL_636395Amman
EPI_ISL_636396Amman
EPI_ISL_636397Amman
EPI_ISL_636398Amman
EPI_ISL_636399Amman
EPI_ISL_636400Amman
EPI_ISL_636401Amman
EPI_ISL_636402Amman
EPI_ISL_636403Amman
EPI_ISL_636404Amman
EPI_ISL_636405Amman
EPI_ISL_636406Amman
EPI_ISL_636407Amman
EPI_ISL_636408Amman
EPI_ISL_636409Amman
EPI_ISL_636410Amman
EPI_ISL_636411Amman
EPI_ISL_636412Amman
EPI_ISL_636413Amman
EPI_ISL_636414Amman
EPI_ISL_636415Amman
EPI_ISL_636416Amman
EPI_ISL_636417Amman
EPI_ISL_636418Amman
EPI_ISL_636419Amman
EPI_ISL_636420Amman
EPI_ISL_636421Amman
EPI_ISL_636422Amman
EPI_ISL_636423Amman
EPI_ISL_636424Amman
EPI_ISL_636425Amman
EPI_ISL_636426Amman
EPI_ISL_636427Amman
EPI_ISL_636428Amman
EPI_ISL_636429Amman
EPI_ISL_636430Amman
EPI_ISL_636431Amman
EPI_ISL_636432Amman
EPI_ISL_636433Amman
EPI_ISL_636434Amman
EPI_ISL_636435Amman
EPI_ISL_636436Amman
EPI_ISL_636437Amman
EPI_ISL_636438Amman
EPI_ISL_636439Amman
EPI_ISL_636440Amman
EPI_ISL_636441Amman
EPI_ISL_636442Amman
EPI_ISL_636443Amman
EPI_ISL_636444Amman
EPI_ISL_636445Amman
EPI_ISL_636446Amman
EPI_ISL_636447Amman
EPI_ISL_636448Amman
EPI_ISL_636449Amman
EPI_ISL_636450Amman
EPI_ISL_636451Amman
EPI_ISL_636452Amman
EPI_ISL_636453Amman
EPI_ISL_636454Amman
EPI_ISL_636455Amman
EPI_ISL_636456Amman
EPI_ISL_636457Amman
EPI_ISL_636458Amman
EPI_ISL_730229Amman
EPI_ISL_730230Amman
EPI_ISL_730231Amman
EPI_ISL_730232Amman
EPI_ISL_730233Amman
EPI_ISL_730234Amman
EPI_ISL_730235Amman
EPI_ISL_730236Amman
EPI_ISL_730237Amman
EPI_ISL_730238Amman
EPI_ISL_730239Amman
EPI_ISL_730240Amman
EPI_ISL_730241Amman
EPI_ISL_730242Amman
EPI_ISL_730243Amman
EPI_ISL_730244Amman
EPI_ISL_730245Amman
EPI_ISL_730246Amman
EPI_ISL_730247Amman
EPI_ISL_730248Amman
EPI_ISL_730249Amman
EPI_ISL_730250Amman
EPI_ISL_730251Amman
EPI_ISL_730252Amman
EPI_ISL_730253Amman
EPI_ISL_730254Amman
EPI_ISL_730255Amman
EPI_ISL_730256Amman
EPI_ISL_730257Amman
EPI_ISL_730258Amman
EPI_ISL_730259Amman
EPI_ISL_730260Amman
EPI_ISL_730261Amman
EPI_ISL_730262Amman
EPI_ISL_730263Amman
EPI_ISL_730264Amman
EPI_ISL_730265Amman
EPI_ISL_730266Amman
EPI_ISL_730267Amman
EPI_ISL_730268Amman
EPI_ISL_730269Amman
EPI_ISL_730270Amman
EPI_ISL_730271Amman
EPI_ISL_730272Amman
EPI_ISL_730273Amman
EPI_ISL_730274Amman
EPI_ISL_730275Amman
EPI_ISL_730276Amman
EPI_ISL_730277Amman
EPI_ISL_730278Amman
EPI_ISL_730279Amman
EPI_ISL_730280Amman
EPI_ISL_730281Amman
EPI_ISL_730282Amman
EPI_ISL_730283Amman
EPI_ISL_730284Amman
EPI_ISL_730285Amman
EPI_ISL_730286Amman
EPI_ISL_730287Amman
EPI_ISL_730288Amman
EPI_ISL_730289Amman
EPI_ISL_730290Amman
EPI_ISL_730372Amman
EPI_ISL_730373Amman
EPI_ISL_730374Amman
EPI_ISL_730375Amman
EPI_ISL_730376Amman
EPI_ISL_730377Amman
EPI_ISL_730378Amman
EPI_ISL_730379Amman
EPI_ISL_730380Amman
EPI_ISL_730381Amman
EPI_ISL_730382Amman
EPI_ISL_730383Amman
EPI_ISL_730384Amman
EPI_ISL_730385Amman
EPI_ISL_730386Amman
EPI_ISL_730387Amman
EPI_ISL_730388Amman
EPI_ISL_730389Amman
EPI_ISL_730390Amman
EPI_ISL_730391Amman
EPI_ISL_730392Amman
EPI_ISL_730393Amman
EPI_ISL_730394Amman
EPI_ISL_730395Amman
EPI_ISL_730396Amman
EPI_ISL_730397Amman
EPI_ISL_730398Amman
EPI_ISL_730399Amman
EPI_ISL_730400Amman
EPI_ISL_730401Amman
EPI_ISL_730402Amman
EPI_ISL_730403Amman
EPI_ISL_730404Amman
EPI_ISL_730405Amman
EPI_ISL_730406Amman
EPI_ISL_730407Amman
EPI_ISL_730408Amman
EPI_ISL_730409Amman
EPI_ISL_730410Amman
EPI_ISL_730411Amman
EPI_ISL_730412Amman
EPI_ISL_730413Amman
EPI_ISL_730414Amman
EPI_ISL_730415Amman
EPI_ISL_730416Amman
EPI_ISL_730417Amman
EPI_ISL_730418Amman
EPI_ISL_730419Amman
EPI_ISL_730420Amman
EPI_ISL_730421Amman
EPI_ISL_730422Amman
EPI_ISL_730423Amman
EPI_ISL_730424Amman
EPI_ISL_730425Amman
EPI_ISL_730426Amman
EPI_ISL_730427Amman
EPI_ISL_730428Amman
EPI_ISL_730518Amman
EPI_ISL_730519Amman
EPI_ISL_730520Amman
EPI_ISL_730521Amman
EPI_ISL_730522Amman
EPI_ISL_730523Amman
EPI_ISL_730524Amman
EPI_ISL_730525Amman
EPI_ISL_730526Amman
EPI_ISL_730527Amman
EPI_ISL_730528Amman
EPI_ISL_730529Amman
EPI_ISL_730530Amman
EPI_ISL_730531Amman
EPI_ISL_730532Amman
EPI_ISL_730534Amman
EPI_ISL_730535Amman
EPI_ISL_730536Amman
EPI_ISL_730539Amman
EPI_ISL_730540Amman
EPI_ISL_730541Amman
EPI_ISL_730542Amman
EPI_ISL_730543Amman
EPI_ISL_730544Amman
EPI_ISL_730545Amman
EPI_ISL_730546Amman
EPI_ISL_730547Amman
EPI_ISL_730548Amman
EPI_ISL_730549Amman
EPI_ISL_730550Amman
EPI_ISL_730551Amman
EPI_ISL_730552Amman
EPI_ISL_730553Amman
EPI_ISL_730554Amman
EPI_ISL_730555Amman
EPI_ISL_730556Amman
EPI_ISL_730557Amman
EPI_ISL_730558Amman
EPI_ISL_730559Amman
EPI_ISL_730560Amman
EPI_ISL_730561Amman
EPI_ISL_730562Amman
EPI_ISL_730563Amman
EPI_ISL_755118Amman
EPI_ISL_755120Amman
EPI_ISL_755121Amman
EPI_ISL_755122Amman
EPI_ISL_755123Amman
EPI_ISL_755124Amman
EPI_ISL_755125Amman
EPI_ISL_755126Amman
EPI_ISL_755127Amman
EPI_ISL_755128Amman
EPI_ISL_755129Amman
EPI_ISL_755141Amman
EPI_ISL_755142Amman
EPI_ISL_755143Amman
EPI_ISL_755144Amman
EPI_ISL_755145Amman
EPI_ISL_755210Amman
EPI_ISL_755211Amman
EPI_ISL_755213Amman
EPI_ISL_755214Amman
EPI_ISL_755232Amman
EPI_ISL_755233Amman
EPI_ISL_755235Amman
EPI_ISL_755236Amman
EPI_ISL_755237Amman
EPI_ISL_755238Amman
EPI_ISL_755239Amman
EPI_ISL_755240Amman
EPI_ISL_755241Amman
EPI_ISL_755242Amman
EPI_ISL_755243Amman
EPI_ISL_755244Amman
EPI_ISL_755245Amman
EPI_ISL_755246Amman
EPI_ISL_755247Amman
EPI_ISL_755248Amman
EPI_ISL_755249Amman
EPI_ISL_755250Amman
EPI_ISL_755251Amman
EPI_ISL_755252Amman
EPI_ISL_755253Amman
EPI_ISL_755254Amman
EPI_ISL_755255Amman
EPI_ISL_755256Amman
EPI_ISL_755257Amman
EPI_ISL_755258Amman
EPI_ISL_755259Amman
EPI_ISL_755260Amman
EPI_ISL_755261Amman
EPI_ISL_755262Amman
EPI_ISL_755264Amman
EPI_ISL_755265Amman
EPI_ISL_755266Amman
EPI_ISL_755267Amman
EPI_ISL_755268Amman
EPI_ISL_878440Amman
EPI_ISL_878443Amman
EPI_ISL_878445Amman
EPI_ISL_878448Amman
EPI_ISL_878450Amman
EPI_ISL_878452Amman
EPI_ISL_878455Amman
EPI_ISL_878457Amman
EPI_ISL_878460Amman
EPI_ISL_878463Amman
EPI_ISL_878465Amman
EPI_ISL_878468Amman
EPI_ISL_878470Amman
EPI_ISL_878472Amman
EPI_ISL_878474Amman
EPI_ISL_878477Amman
EPI_ISL_878480Amman
EPI_ISL_878483Amman
EPI_ISL_878485Amman
EPI_ISL_878488Amman
EPI_ISL_878491Amman
EPI_ISL_878492Amman
EPI_ISL_878495Amman
EPI_ISL_878498Amman
EPI_ISL_878500Amman
EPI_ISL_878503Amman
EPI_ISL_878506Amman
EPI_ISL_878509Amman
EPI_ISL_878511Amman
EPI_ISL_878514Amman
EPI_ISL_878516Amman
EPI_ISL_878519Amman
EPI_ISL_878522Amman
EPI_ISL_878526Amman
EPI_ISL_878571Amman
EPI_ISL_878574Amman
EPI_ISL_878576Amman
EPI_ISL_878579Amman
EPI_ISL_878581Amman
EPI_ISL_904015Amman
EPI_ISL_904016Amman
EPI_ISL_730478Aqaba
EPI_ISL_730479Aqaba
EPI_ISL_730480Aqaba
EPI_ISL_730481Aqaba
EPI_ISL_730482Aqaba
EPI_ISL_730483Aqaba
EPI_ISL_730484Aqaba
EPI_ISL_730485Aqaba
EPI_ISL_730486Aqaba
EPI_ISL_730487Aqaba
EPI_ISL_730488Aqaba
EPI_ISL_730489Aqaba
EPI_ISL_730490Aqaba
EPI_ISL_730491Aqaba
EPI_ISL_730492Aqaba
EPI_ISL_730493Aqaba
EPI_ISL_730494Aqaba
EPI_ISL_730495Aqaba
EPI_ISL_730496Aqaba
EPI_ISL_730497Aqaba
EPI_ISL_730498Aqaba
EPI_ISL_730499Aqaba
EPI_ISL_730500Aqaba
EPI_ISL_730501Aqaba
EPI_ISL_730502Aqaba
EPI_ISL_730503Aqaba
EPI_ISL_730504Aqaba
EPI_ISL_730505Aqaba
EPI_ISL_730506Aqaba
EPI_ISL_730507Aqaba
EPI_ISL_730508Aqaba
EPI_ISL_730509Aqaba
EPI_ISL_730510Aqaba
EPI_ISL_730511Aqaba
EPI_ISL_730512Aqaba
EPI_ISL_730513Aqaba
EPI_ISL_730514Aqaba
EPI_ISL_730515Aqaba
EPI_ISL_730516Aqaba
EPI_ISL_755212Aqaba
EPI_ISL_755263Aqaba
EPI_ISL_430009Irbid
EPI_ISL_430012Irbid
EPI_ISL_635777Irbid
EPI_ISL_636268Irbid
EPI_ISL_636283Irbid
EPI_ISL_636313Irbid
EPI_ISL_730429Irbid
EPI_ISL_730430Irbid
EPI_ISL_730431Irbid
EPI_ISL_730432Irbid
EPI_ISL_730433Irbid
EPI_ISL_730434Irbid
EPI_ISL_730435Irbid
EPI_ISL_730436Irbid
EPI_ISL_730437Irbid
EPI_ISL_730438Irbid
EPI_ISL_730439Irbid
EPI_ISL_730440Irbid
EPI_ISL_730441Irbid
EPI_ISL_730442Irbid
EPI_ISL_730443Irbid
EPI_ISL_730444Irbid
EPI_ISL_730445Irbid
EPI_ISL_730446Irbid
EPI_ISL_730447Irbid
EPI_ISL_730448Irbid
EPI_ISL_730449Irbid
EPI_ISL_730450Irbid
EPI_ISL_730451Irbid
EPI_ISL_730452Irbid
EPI_ISL_730453Irbid
EPI_ISL_730454Irbid
EPI_ISL_730455Irbid
EPI_ISL_730456Irbid
EPI_ISL_730457Irbid
EPI_ISL_730458Irbid
EPI_ISL_730459Irbid
EPI_ISL_730461Irbid
EPI_ISL_730462Irbid
EPI_ISL_730463Irbid
EPI_ISL_730464Irbid
EPI_ISL_730466Irbid
EPI_ISL_730467Irbid
EPI_ISL_730468Irbid
EPI_ISL_730469Irbid
EPI_ISL_730470Irbid
EPI_ISL_730471Irbid
EPI_ISL_730472Irbid
EPI_ISL_730473Irbid
EPI_ISL_730474Irbid
EPI_ISL_730475Irbid
EPI_ISL_730476Irbid
EPI_ISL_730477Irbid
EPI_ISL_730517Irbid
EPI_ISL_730538Irbid
EPI_ISL_755131Irbid
EPI_ISL_755234Irbid
EPI_ISL_635779Mafraq
EPI_ISL_635780Mafraq
EPI_ISL_730460Zarqa
EPI_ISL_730465Zarqa
EPI_ISL_730533Zarqa
EPI_ISL_730537Zarqa
EPI_ISL_878524Zarqa

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