Table 1.
Summary of ViruSurf content as of 4 August 2020. For each taxon name (identified by a taxon ID and rank) and each source, we specify the number of distinct sequences and the reference genome; we also provide the average number of annotations, nucleotide variants and amino acid variants per sequence. The GISAID-only entry refers to those GISAID sequences that are not also present in the other three sources
| Taxon rank | Taxon ID | Taxon name | Source | #Seq. | Reference | Avg Annot. | Avg Nuc Var | Avg AA Var |
|---|---|---|---|---|---|---|---|---|
| No rank | 2697049 | SARS-CoV-2 | GISAID all | 76 664 | EPI_ISL_402124 | – | – | 4.8 |
| No rank | 2697049 | SARS-CoV-2 | GISAID only | 46 366 | EPI_ISL_402124 | – | – | 4.7 |
| No rank | 2697049 | SARS-CoV-2 | GenBank + RefSeq | 13 309 | NC_045512.2 | 28.0 | 17.6 | 24.0 |
| No rank | 2697049 | SARS-CoV-2 | COG-UK | 38 124 | NC_045512.2 | 28.0 | 25.5 | 58.0 |
| No rank | 2697049 | SARS-CoV-2 | NMDC | 295 | NC_045512.2 | 28.1 | 28.8 | 56.5 |
| Species | 694009 | SARS-CoV | GenBank + RefSeq | 673 | NC_004718.3 | 14.0 | 91.6 | 19.7 |
| Species | 1335626 | MERS-CoV | GenBank + RefSeq | 1381 | NC_019843.3 | 27.0 | 104.0 | 87.4 |
| Species | 2010960 | Bombali ebolavirus | GenBank + RefSeq | 5 | NC_039345.1 | 9.0 | 126.8 | 41.6 |
| Species | 565995 | Bundibugyo ebolavirus | GenBank + RefSeq | 22 | NC_014373.1 | 9.0 | 130.5 | 40.9 |
| Species | 186539 | Reston ebolavirus | GenBank + RefSeq | 57 | NC_004161.1 | 9.0 | 126.1 | 29.4 |
| Species | 186540 | Sudan ebolavirus | GenBank + RefSeq | 40 | NC_006432.1 | 9.0 | 368.6 | 51.0 |
| Species | 186541 | Tai Forest ebolavirus | GenBank + RefSeq | 9 | NC_014372.1 | 9.0 | 4.6 | 2.8 |
| Species | 186538 | Zaire ebolavirus | GenBank + RefSeq | 2938 | NC_002549.1 | 9.0 | 503.7 | 66.3 |
| Strain | 11053 | Dengue virus 1 | GenBank + RefSeq | 11 185 | NC_001477.1 | 15.0 | 469.7 | 200.9 |
| Strain | 11060 | Dengue virus 2 | GenBank + RefSeq | 8692 | NC_001474.2 | 15.0 | 410.0 | 117.7 |
| Strain | 11069 | Dengue virus 3 | GenBank + RefSeq | 5344 | NC_001475.2 | 15.0 | 269.3 | 118.6 |
| Strain | 11070 | Dengue virus 4 | GenBank + RefSeq | 2492 | NC_002640.1 | 15.0 | 265.1 | 147.2 |