University of Turin logo DBIOS logo


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).

Go to home

Slovenia

Number of isolates sequences available: 148

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
Slovenia/4584/2020 EPI_ISL_4202942020-03-06
Slovenia/12304/2020 EPI_ISL_4202952020-03-24
Slovenia/808/2020 EPI_ISL_4205412020-03-05
Slovenia/MB0329/2020 EPI_ISL_4263792020-03-29
EPI_ISL_449799
EPI_ISL_635200
EPI_ISL_635201
EPI_ISL_635202
EPI_ISL_635203
EPI_ISL_635204
EPI_ISL_635205
EPI_ISL_635206
EPI_ISL_635207
EPI_ISL_635208
EPI_ISL_635209
EPI_ISL_635210
EPI_ISL_635211
EPI_ISL_635212
EPI_ISL_635213
EPI_ISL_635214
EPI_ISL_635215
EPI_ISL_635216
EPI_ISL_635217
EPI_ISL_635218
EPI_ISL_635219
EPI_ISL_635220
EPI_ISL_635221
EPI_ISL_635222
EPI_ISL_635223
EPI_ISL_635224
EPI_ISL_635225
EPI_ISL_635226
EPI_ISL_635227
EPI_ISL_635228
EPI_ISL_635229
EPI_ISL_635230
EPI_ISL_635231
EPI_ISL_635232
EPI_ISL_635233
EPI_ISL_635234
EPI_ISL_635235
EPI_ISL_635236
EPI_ISL_635237
EPI_ISL_635238
EPI_ISL_635239
EPI_ISL_635240
EPI_ISL_635241
EPI_ISL_635242
EPI_ISL_635243
EPI_ISL_635244
EPI_ISL_635245
EPI_ISL_635246
EPI_ISL_635247
EPI_ISL_635248
EPI_ISL_635249
EPI_ISL_635250
EPI_ISL_635251
EPI_ISL_635252
EPI_ISL_635253
EPI_ISL_635254
EPI_ISL_635255
EPI_ISL_635256
EPI_ISL_635257
EPI_ISL_635258
EPI_ISL_635259
EPI_ISL_635260
EPI_ISL_635261
EPI_ISL_635262
EPI_ISL_635263
EPI_ISL_635264
EPI_ISL_635265
EPI_ISL_635266
EPI_ISL_635267
EPI_ISL_635268
EPI_ISL_635269
EPI_ISL_635270
EPI_ISL_635271
EPI_ISL_635272
EPI_ISL_635273
EPI_ISL_635274
EPI_ISL_635275
EPI_ISL_635276
EPI_ISL_635277
EPI_ISL_635278
EPI_ISL_635279
EPI_ISL_635280
EPI_ISL_635281
EPI_ISL_635282
EPI_ISL_635283
EPI_ISL_635284
EPI_ISL_635285
EPI_ISL_635286
EPI_ISL_635287
EPI_ISL_635288
EPI_ISL_635289
EPI_ISL_635290
EPI_ISL_635291
EPI_ISL_635292
EPI_ISL_635293
EPI_ISL_635294
EPI_ISL_635295
EPI_ISL_635296
EPI_ISL_635297
EPI_ISL_635298
EPI_ISL_635299
EPI_ISL_636459
EPI_ISL_636460
EPI_ISL_636461
EPI_ISL_775268
EPI_ISL_846540
EPI_ISL_846582
EPI_ISL_848192
EPI_ISL_852616
EPI_ISL_877424
EPI_ISL_877425
EPI_ISL_877426
EPI_ISL_877427
EPI_ISL_877428
EPI_ISL_877429
EPI_ISL_877430
EPI_ISL_877431
EPI_ISL_877432
EPI_ISL_877433
EPI_ISL_877434
EPI_ISL_877435
EPI_ISL_877436
EPI_ISL_877437
EPI_ISL_877438
EPI_ISL_877439
EPI_ISL_877440
EPI_ISL_877441
EPI_ISL_877442
EPI_ISL_877443
EPI_ISL_877444
EPI_ISL_877445
EPI_ISL_877446
EPI_ISL_877447
EPI_ISL_877448
EPI_ISL_877449
EPI_ISL_877450
EPI_ISL_877451
EPI_ISL_877452
EPI_ISL_877453
EPI_ISL_877454
EPI_ISL_877455
EPI_ISL_892244
EPI_ISL_892365
EPI_ISL_892367

Download all results


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