Table 2.
Sequences of 20D Clade.
| Seq-Name | QC |
Clade | Ns Mut. | S-gene Mut. | non-ACGTN | Ns (missing) | Gaps | Ins. | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| N | M | P | C | F | S | ||||||||
| HCoV-19/Egypt/ARMY-231/2021 EPI_ISL_1936134 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | S12F-F59I-W64R-D138Y-W152R-A222V-R346S-L452R-E484K-N501T-T572I-Q613H-D614G-Q677H-D796Y-A871S-A899S-D1163Y-M1237I-C1243S-P1263Q-V1264M-V1268D | 0 | 0 | 0 | 0 |
| HCoV-19/Egypt/ARMY-203/2021 EPI_ISL_1936136 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-204/2021 EPI_ISL_1936137 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-205/2021 EPI_ISL_1936138 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-217/2021 EPI_ISL_1936144 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave361/2021 EPI_ISL_1936291 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave362/2021 EPI_ISL_1936292 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave363/2021 EPI_ISL_1936293 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave364/2021 EPI_ISL_1936294 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 27 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-267/2021 EPI_ISL_1936127 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 28 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-250/2021 EPI_ISL_1936112 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-251/2021 EPI_ISL_1936113 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-290/2021 EPI_ISL_1936114 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-291/2021 EPI_ISL_1936115 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-252/2021 EPI_ISL_1936116 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-255/2021 EPI_ISL_1936117 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-256/2021 EPI_ISL_1936118 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-257/2021 EPI_ISL_1936119 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-258/2021 EPI_ISL_1936120 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-260/2021 EPI_ISL_1936121 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-261/2021 EPI_ISL_1936122 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-262/2021 EPI_ISL_1936123 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-264/2021 EPI_ISL_1936124 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-265/2021 EPI_ISL_1936125 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-266/2021 EPI_ISL_1936126 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave340/2021 EPI_ISL_1936273 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave342/2021 EPI_ISL_1936274 |
✓ | ✓ | ✘ | ✓ | ✓ | ✓ | 20D | 29 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave320/2021 EPI_ISL_1936259 |
✓ | ✓ | ✘ | ✘ | ✓ | ✓ | 20D | 30 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave321/2021 EPI_ISL_1936260 |
✓ | ✓ | ✘ | ✘ | ✓ | ✓ | 20D | 30 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-208/2021 EPI_ISL_1936102 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 31 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-213/2021 EPI_ISL_1936104 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 32 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-207/2021 EPI_ISL_1936139 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 32 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-211/2021 EPI_ISL_1936140 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 32 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-218/2021 EPI_ISL_1936145 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 32 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave305/2021 EPI_ISL_1936244 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 32 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave306/2021 EPI_ISL_1936245 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 32 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave307/2021 EPI_ISL_1936246 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 32 | 0 | 0 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-210/2021 EPI_ISL_1936103 |
✓ | ✓ | ✘ | ✓ | ✓ | ✓ | 20D | 34 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave315/2021 EPI_ISL_1936254 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 34 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave316/2021 EPI_ISL_1936255 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 34 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave317/2021 EPI_ISL_1936256 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 34 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave343/2021 EPI_ISL_1936275 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 36 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave300/2021 EPI_ISL_1936240 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave301/2021 EPI_ISL_1936241 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave303/2021 EPI_ISL_1936242 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave304/2021 EPI_ISL_1936243 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave308/2021 EPI_ISL_1936247 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave309/2021 EPI_ISL_1936248 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| HCoV-19/Egypt/Egypt-Army-Thirdwave327/2021 EPI_ISL_1936264 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave328/2021 EPI_ISL_1936265 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave329/2021 EPI_ISL_1936266 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave330/2021 EPI_ISL_1936267 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave331/2021 EPI_ISL_1936268 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave332/2021 EPI_ISL_1936269 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave333/2021 EPI_ISL_1936270 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave334/2021 EPI_ISL_1936271 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave335/2021 EPI_ISL_1936272 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 37 | 0 | 1 | 0 | 0 | |
| HCoV-19/Egypt/ARMY-297/2021 EPI_ISL_1936135 |
✓ | ✓ | ✓ | ✘ | ✓ | ✓ | 20D | 38 | 0 | 0 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave324/2021 EPI_ISL_1936261 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 39 | 0 | 3 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave325/2021 EPI_ISL_1936262 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 39 | 0 | 3 | 0 | 0 | |
| hCoV-19/Egypt/Egypt-Army-Thirdwave326/2021 EPI_ISL_1936263 |
✓ | ✓ | ✓ | ✓ | ✓ | ✓ | 20D | 39 | 0 | 3 | 0 | 0 | |
N: Missing Data M: Mixed Sites P: Private Mutations C: Mutation Clusters F: Frame shifts S: Stop codons.