University of Turin logo DBIOS logo


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).

Go to home

Chile

Number of isolates sequences available: 183

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_445266Antofagasta
EPI_ISL_445267Antofagasta
EPI_ISL_445271Chillan
EPI_ISL_445331Chillan
EPI_ISL_445332Chillan
EPI_ISL_445378Chillan
EPI_ISL_468760Chillan
EPI_ISL_445281Concepcion
EPI_ISL_445333Concepcion
EPI_ISL_445336Concepcion
EPI_ISL_468754Copiapo
EPI_ISL_468755Copiapo
EPI_ISL_468756Copiapo
EPI_ISL_468757Copiapo
EPI_ISL_468758Copiapo
EPI_ISL_468759Copiapo
EPI_ISL_445296Coyhaique
EPI_ISL_468753Huasco
EPI_ISL_445246Puerto Montt
EPI_ISL_445334Puerto Montt
EPI_ISL_445335Puerto Montt
EPI_ISL_459861Puerto Natales
EPI_ISL_445268Punta Arenas
EPI_ISL_445269Punta Arenas
EPI_ISL_445280Punta Arenas
EPI_ISL_445282Punta Arenas
EPI_ISL_445283Punta Arenas
EPI_ISL_445284Punta Arenas
EPI_ISL_445288Punta Arenas
EPI_ISL_445289Punta Arenas
EPI_ISL_445290Punta Arenas
EPI_ISL_445291Punta Arenas
EPI_ISL_445292Punta Arenas
EPI_ISL_445293Punta Arenas
EPI_ISL_445294Punta Arenas
EPI_ISL_445295Punta Arenas
EPI_ISL_445299Punta Arenas
EPI_ISL_445301Punta Arenas
EPI_ISL_445372Punta Arenas
EPI_ISL_445273Rancagua
EPI_ISL_445274Rancagua
EPI_ISL_445275Rancagua
EPI_ISL_445276Rancagua
EPI_ISL_445277Rancagua
EPI_ISL_445278Rancagua
EPI_ISL_445297Rancagua
EPI_ISL_445298Rancagua
EPI_ISL_445300Rancagua
Chile/Santiago-1/2020 EPI_ISL_414579Santiago2020-03-03
Chile/Santiago-2/2020 EPI_ISL_414580Santiago2020-03-05
Chile/Santiago_op2d1/2020 EPI_ISL_415658Santiago2020-03-06
Chile/Santiago_op3d1/2020 EPI_ISL_415660Santiago2020-03-07
Chile/Santiago_op4d1/2020 EPI_ISL_415661Santiago2020-03-08
EPI_ISL_445245Santiago
EPI_ISL_445247Santiago
EPI_ISL_445248Santiago
EPI_ISL_445249Santiago
EPI_ISL_445250Santiago
EPI_ISL_445251Santiago
EPI_ISL_445252Santiago
EPI_ISL_445253Santiago
EPI_ISL_445254Santiago
EPI_ISL_445255Santiago
EPI_ISL_445256Santiago
EPI_ISL_445257Santiago
EPI_ISL_445258Santiago
EPI_ISL_445259Santiago
EPI_ISL_445260Santiago
EPI_ISL_445261Santiago
EPI_ISL_445262Santiago
EPI_ISL_445263Santiago
EPI_ISL_445264Santiago
EPI_ISL_445265Santiago
EPI_ISL_445302Santiago
EPI_ISL_445303Santiago
EPI_ISL_445304Santiago
EPI_ISL_445305Santiago
EPI_ISL_445306Santiago
EPI_ISL_445307Santiago
EPI_ISL_445308Santiago
EPI_ISL_445309Santiago
EPI_ISL_445310Santiago
EPI_ISL_445311Santiago
EPI_ISL_445312Santiago
EPI_ISL_445313Santiago
EPI_ISL_445314Santiago
EPI_ISL_445315Santiago
EPI_ISL_445316Santiago
EPI_ISL_445317Santiago
EPI_ISL_445318Santiago
EPI_ISL_445319Santiago
EPI_ISL_445320Santiago
EPI_ISL_445321Santiago
EPI_ISL_445322Santiago
EPI_ISL_445323Santiago
EPI_ISL_445324Santiago
EPI_ISL_445325Santiago
EPI_ISL_445326Santiago
EPI_ISL_445327Santiago
EPI_ISL_445328Santiago
EPI_ISL_445329Santiago
EPI_ISL_445330Santiago
EPI_ISL_445349Santiago
EPI_ISL_445350Santiago
EPI_ISL_445351Santiago
EPI_ISL_445352Santiago
EPI_ISL_445353Santiago
EPI_ISL_445354Santiago
EPI_ISL_445355Santiago
EPI_ISL_445356Santiago
EPI_ISL_445357Santiago
EPI_ISL_445358Santiago
EPI_ISL_445359Santiago
EPI_ISL_445360Santiago
EPI_ISL_445361Santiago
EPI_ISL_445362Santiago
EPI_ISL_445363Santiago
EPI_ISL_445364Santiago
EPI_ISL_445365Santiago
EPI_ISL_445366Santiago
EPI_ISL_445367Santiago
EPI_ISL_445368Santiago
EPI_ISL_445369Santiago
EPI_ISL_445370Santiago
EPI_ISL_445371Santiago
EPI_ISL_445373Santiago
EPI_ISL_445374Santiago
EPI_ISL_445375Santiago
EPI_ISL_445376Santiago
EPI_ISL_445377Santiago
EPI_ISL_445379Santiago
EPI_ISL_449800Santiago
EPI_ISL_459856Santiago
EPI_ISL_459857Santiago
EPI_ISL_459858Santiago
EPI_ISL_459859Santiago
EPI_ISL_459860Santiago
EPI_ISL_459862Santiago
EPI_ISL_468747Santiago
EPI_ISL_468748Santiago
EPI_ISL_468749Santiago
EPI_ISL_468750Santiago
EPI_ISL_468751Santiago
EPI_ISL_468752Santiago
EPI_ISL_591519Santiago
EPI_ISL_591520Santiago
EPI_ISL_591521Santiago
EPI_ISL_591522Santiago
EPI_ISL_591523Santiago
EPI_ISL_591524Santiago
EPI_ISL_591525Santiago
EPI_ISL_591526Santiago
EPI_ISL_591527Santiago
EPI_ISL_591528Santiago
EPI_ISL_591529Santiago
EPI_ISL_591530Santiago
EPI_ISL_591531Santiago
EPI_ISL_591532Santiago
EPI_ISL_591533Santiago
EPI_ISL_591534Santiago
Chile/Talca-1/2020 EPI_ISL_414577Talca2020-03-02
Chile/Talca-2/2020 EPI_ISL_414578Talca2020-03-04
EPI_ISL_459863Talca
EPI_ISL_445270Temuco
EPI_ISL_445279Temuco
EPI_ISL_445338Temuco
EPI_ISL_445339Temuco
EPI_ISL_445340Temuco
EPI_ISL_445341Temuco
EPI_ISL_445342Temuco
EPI_ISL_445343Temuco
EPI_ISL_445344Temuco
EPI_ISL_445345Temuco
EPI_ISL_445346Temuco
EPI_ISL_445347Temuco
EPI_ISL_445348Temuco
EPI_ISL_447119Temuco
EPI_ISL_445272Valparaiso
EPI_ISL_445285Valparaiso
EPI_ISL_445286Valparaiso
EPI_ISL_445287Valparaiso
EPI_ISL_445337Valparaiso
EPI_ISL_459864Vina del Mar

Download all results


GISAID data provided on this website is subject to GISAID’s Terms and Conditions | Privacy policy of University of Turin.