Table 3.
Variant analysis of clinical samples obtained using PCR ID 980 and different bioinformatics tools.
| Sample | Identification based on WGS | Mutation map 1 | GISAID blast | Nextclade |
|---|---|---|---|---|
| swab_1 | – | A222V | GV_B.1.177 | 20E (EU1) |
| swab_2 | – | S477N | GH_B.1.160 | 20A |
| swab_3 | – | S477N | GH_B.1.160 | 20A |
| swab_4 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_5 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_6 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_7 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_8 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_9 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_10 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_11 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_12 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_13 | – | S477N | GH_B.1.160 | 20A |
| swab_14 | – | – | Not assignable 2 | 20A |
| swab_15 | – | – | Not assignable 3 | 20A |
| swab_16 | – | S477N | GH_B.1.160 | 20A |
| swab_17 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_18 | – | A222V, A262S, P272L | GV_ B.1.177 4 | 20E (EU1) |
| swab_19 | – | S98F | G_B.1.221 | 20A |
| swab_20 | – | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_21 | – | n.d. | n.d. | n.d. |
| swab_22 | – | n.d. | n.d. | n.d. |
| swab_23 | – | S477N | GH_B.1.160 | 20A |
| swab_24 | – | A222V, A411S | GV_B.1.177 | 20E (EU1) |
| swab_25 | G B.1 / 20A | – | Not assignable 5 | 19A |
| swab_26 | G B.1 / 20A | D215H | Not assignable 6 | 19A |
| swab_27 | GR B.1.1.316 / 20B | – | Not assignable 5 | 19A |
| swab_28 | GR B.1.1.229 / 20B | – | Not assignable 5 | 19A |
| swab_29 | GV B.1.177 / 20E EU1 | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_30 | GV B.1.177 / 20E EU1 | A222V | GV_ B.1.177 | 20E (EU1) |
| swab_31 | GR B.1.1.7 / 20I/501Y.V1 | H69del, V70del, Y144del, N501Y, A570D | GR/501Y.V1 (B.1.1.7) | 20B |
Analysis with GISAID CoVsurver: Mutation Analysis (https://www.gisaid.org/epiflu-applications/covsurver-mutations-app/).
100% identity with sequences assigned to the following clades: G_B.1.241; G_B.1.78; G_B.1.416; GR_B.1.1.216; G_B.1; GR_B.1.1.297; GRB.1.1.8_GR_B.1.1.105; GH_B.1.2.
100% identity with sequences assigned to the following clades: GH_B.1.2; G_B.1; GR_B.1.1.37; GR_B.1.1.306.
100% identity with sequences assigned to the following clades: GV_B.1.177 or GV_B.1.177.2.
100% identity with sequences assigned to the following clades: GR_B.1.1.222; GR_B.1.1.70; GR_B.1.1.119; GR_B.1.1.28; GR_B.1.1.316; GR_B.1.1.33; GR_B.1.1.103; GH_B.1.2; GH_B.1.425; G_B.1; G_B.1.91; GH_B.1.4703.
100% identity with sequences assigned to the following clades: G_B.1; GH_B.1.2; GR_B.1.1.47; GR_B.1.1.304; GR_B.1.1.127; GR_B.1.1.284; GR_B.1.1.119; O_B-13, n.d. not done due to absence of PCR amplification.