CoV-GLUE | Mutations | Mutation
Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):
ORF | CodonNum | Mut | ORF1abMut | MutType | RefCodon | MutCodon | AACount | CodonCount | CodonProp | Genome Position |
S | 479 | P479S | nonsyn | Cct | Tct | 3363 | 3360 | 0.999108 | 22997-22999 | |
S | 479 | P479S | nonsyn | CcT | TcA | 3363 | 2 | 0.000594707 | 22997-22999 | |
S | 479 | P479S | nonsyn | CcT | TcC | 3363 | 1 | 0.000297354 | 22997-22999 | |
S | 479 | P479L | nonsyn | cCt | cTt | 903 | 896 | 0.992248 | 22997-22999 | |
S | 479 | P479L | nonsyn | CCT | TTA | 903 | 3 | 0.00332226 | 22997-22999 | |
S | 479 | P479L | nonsyn | cCT | cTC | 903 | 2 | 0.00221484 | 22997-22999 | |
S | 479 | P479L | nonsyn | cCT | cTA | 903 | 2 | 0.00221484 | 22997-22999 | |
S | 479 | P479R | nonsyn | cCt | cGt | 318 | 317 | 0.996855 | 22997-22999 | |
S | 479 | P479R | nonsyn | cCT | cGG | 318 | 1 | 0.00314465 | 22997-22999 | |
S | 479 | P479P | syn | ccT | ccC | 227 | 106 | 0.46696 | 22997-22999 | |
S | 479 | P479P | syn | ccT | ccG | 227 | 105 | 0.462555 | 22997-22999 | |
S | 479 | P479P | syn | ccT | ccA | 227 | 16 | 0.0704846 | 22997-22999 | |
S | 479 | P479H | nonsyn | cCt | cAt | 128 | 127 | 0.992188 | 22997-22999 | |
S | 479 | P479H | nonsyn | cCT | cAC | 128 | 1 | 0.0078125 | 22997-22999 | |
S | 479 | P479del | del | CCT | --- | 50 | 50 | 1 | 22997-22999 | |
S | 479 | P479T | nonsyn | Cct | Act | 28 | 25 | 0.892857 | 22997-22999 | |
S | 479 | P479T | nonsyn | CcT | AcC | 28 | 2 | 0.0714286 | 22997-22999 | |
S | 479 | P479T | nonsyn | CcT | AcA | 28 | 1 | 0.0357143 | 22997-22999 | |
S | 479 | P479A | nonsyn | Cct | Gct | 7 | 7 | 1 | 22997-22999 | |
S | 479 | P479F | nonsyn | CCt | TTt | 6 | 5 | 0.833333 | 22997-22999 | |
S | 479 | P479F | nonsyn | CCT | TTC | 6 | 1 | 0.166667 | 22997-22999 | |
S | 479 | P479del1 | del | Cct | -ct | 5 | 3 | 0.6 | 22997-22999 | |
S | 479 | P479del1 | del | ccT | cc- | 5 | 2 | 0.4 | 22997-22999 | |
S | 479 | P479Q | nonsyn | cCT | cAG | 2 | 1 | 0.5 | 22997-22999 | |
S | 479 | P479Q | nonsyn | cCT | cAA | 2 | 1 | 0.5 | 22997-22999 | |
S | 479 | P479I | nonsyn | CCT | ATA | 1 | 1 | 1 | 22997-22999 | |
S | 479 | P479K | nonsyn | CCT | AAA | 1 | 1 | 1 | 22997-22999 |
Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):
ORF | CodonNum | Mut | RefCodon | MutCodon | CodonCount | AACount | Lineage | LineageCodonProp |
S | 479 | P479S | Cct | Tct | 3360 | 3363 | All | 0.000643 |
S | 479 | P479S | CcT | TcA | 2 | 3363 | All | 0 |
S | 479 | P479S | CcT | TcC | 1 | 3363 | All | 0 |
S | 479 | P479L | cCt | cTt | 896 | 903 | All | 0.000171 |
S | 479 | P479L | CCT | TTA | 3 | 903 | All | 0.000001 |
S | 479 | P479L | cCT | cTC | 2 | 903 | All | 0 |
S | 479 | P479L | cCT | cTA | 2 | 903 | All | 0 |
S | 479 | P479S | Cct | Tct | 748 | 748 | AY.4 | 0.001164 |
S | 479 | P479S | Cct | Tct | 538 | 538 | AY.44 | 0.003275 |
S | 479 | P479R | cCt | cGt | 317 | 318 | All | 0.000061 |
S | 479 | P479R | cCT | cGG | 1 | 318 | All | 0 |
S | 479 | P479R | cCt | cGt | 285 | 285 | AY.44 | 0.001735 |
S | 479 | P479S | Cct | Tct | 250 | 250 | B.1.1.7 | 0.000224 |
S | 479 | P479P | ccT | ccC | 106 | 227 | All | 0.00002 |
S | 479 | P479P | ccT | ccG | 105 | 227 | All | 0.00002 |
S | 479 | P479P | ccT | ccA | 16 | 227 | All | 0.000003 |
S | 479 | P479S | Cct | Tct | 193 | 193 | AY.3 | 0.00192 |
S | 479 | P479S | Cct | Tct | 180 | 180 | B.1.617.2 | 0.000678 |
S | 479 | P479L | cCt | cTt | 169 | 169 | AY.4 | 0.000263 |
S | 479 | P479S | Cct | Tct | 164 | 164 | AY.103 | 0.001018 |
S | 479 | P479S | Cct | Tct | 137 | 137 | B.1.1 | 0.002485 |
S | 479 | P479L | cCt | cTt | 131 | 131 | AY.43 | 0.00058 |
S | 479 | P479H | cCt | cAt | 127 | 128 | All | 0.000024 |
S | 479 | P479H | cCT | cAC | 1 | 128 | All | 0 |
S | 479 | P479S | Cct | Tct | 109 | 109 | B.1.2 | 0.00096 |
S | 479 | P479S | Cct | Tct | 81 | 81 | B.1.142 | 0.234783 |
S | 479 | P479S | Cct | Tct | 74 | 74 | AY.43 | 0.000328 |
S | 479 | P479S | Cct | Tct | 62 | 62 | AY.119 | 0.002189 |
S | 479 | P479S | Cct | Tct | 59 | 59 | AY.58 | 0.053539 |
S | 479 | P479L | cCt | cTt | 58 | 58 | B.1.1.7 | 0.000052 |
S | 479 | P479L | cCt | cTt | 58 | 58 | B.1.617.2 | 0.000218 |
S | 479 | P479S | Cct | Tct | 55 | 55 | B.1 | 0.000504 |
S | 479 | P479del | CCT | --- | 50 | 50 | All | 0.00001 |
S | 479 | P479S | Cct | Tct | 46 | 46 | AY.25 | 0.000277 |
S | 479 | P479L | cCt | cTt | 43 | 43 | AY.103 | 0.000267 |
S | 479 | P479S | Cct | Tct | 43 | 43 | AY.42 | 0.00173 |
S | 479 | P479L | cCt | cTt | 42 | 43 | AY.44 | 0.000256 |
S | 479 | P479L | cCT | cTC | 1 | 43 | AY.44 | 0.000006 |
S | 479 | P479L | cCt | cTt | 43 | 43 | AY.47 | 0.001338 |
S | 479 | P479S | Cct | Tct | 42 | 42 | AY.26 | 0.001189 |
S | 479 | P479L | cCt | cTt | 42 | 42 | AY.3 | 0.000418 |
S | 479 | P479S | Cct | Tct | 42 | 42 | B.1.1.384 | 1 |
S | 479 | P479P | ccT | ccG | 26 | 40 | AY.4 | 0.00004 |
S | 479 | P479P | ccT | ccC | 14 | 40 | AY.4 | 0.000022 |
S | 479 | P479L | cCt | cTt | 38 | 38 | AY.9.2 | 0.001396 |
S | 479 | P479S | Cct | Tct | 31 | 31 | AY.4.2 | 0.000672 |
S | 479 | P479P | ccT | ccG | 31 | 31 | AY.44 | 0.000189 |
S | 479 | P479H | cCt | cAt | 30 | 30 | AY.4 | 0.000047 |
S | 479 | P479S | Cct | Tct | 29 | 29 | AY.20 | 0.001127 |
S | 479 | P479S | Cct | Tct | 29 | 29 | AY.29 | 0.000457 |
S | 479 | P479T | Cct | Act | 25 | 28 | All | 0.000005 |
S | 479 | P479T | CcT | AcC | 2 | 28 | All | 0 |
S | 479 | P479T | CcT | AcA | 1 | 28 | All | 0 |
S | 479 | P479L | cCt | cTt | 27 | 27 | P.1.14 | 0.001291 |
S | 479 | P479S | Cct | Tct | 25 | 25 | AY.39 | 0.000618 |
S | 479 | P479S | Cct | Tct | 25 | 25 | AY.91 | 0.018262 |
S | 479 | P479S | Cct | Tct | 24 | 24 | AY.23 | 0.001674 |
S | 479 | P479L | cCt | cTt | 24 | 24 | AY.25 | 0.000144 |
S | 479 | P479P | ccT | ccC | 22 | 24 | AY.43 | 0.000097 |
S | 479 | P479P | ccT | ccG | 2 | 24 | AY.43 | 0.000009 |
S | 479 | P479S | Cct | Tct | 22 | 22 | AY.102 | 0.000583 |
S | 479 | P479S | Cct | Tct | 22 | 22 | C.39 | 0.415094 |
S | 479 | P479S | Cct | Tct | 21 | 21 | B.1.429 | 0.000494 |
S | 479 | P479H | cCt | cAt | 19 | 20 | B.1 | 0.000174 |
S | 479 | P479H | cCT | cAC | 1 | 20 | B.1 | 0.000009 |
S | 479 | P479S | Cct | Tct | 18 | 18 | AY.12 | 0.005689 |
S | 479 | P479H | cCt | cAt | 18 | 18 | AY.26 | 0.00051 |
S | 479 | P479L | cCt | cTt | 18 | 18 | AY.5 | 0.000372 |
S | 479 | P479P | ccT | ccG | 14 | 14 | AY.4.5 | 0.001505 |
S | 479 | P479P | ccT | ccC | 9 | 14 | B.1.1.7 | 0.000008 |
S | 479 | P479P | ccT | ccG | 3 | 14 | B.1.1.7 | 0.000003 |
S | 479 | P479P | ccT | ccA | 2 | 14 | B.1.1.7 | 0.000002 |
S | 479 | P479P | ccT | ccC | 8 | 14 | B.1.617.2 | 0.00003 |
S | 479 | P479P | ccT | ccG | 4 | 14 | B.1.617.2 | 0.000015 |
S | 479 | P479P | ccT | ccA | 2 | 14 | B.1.617.2 | 0.000008 |
S | 479 | P479S | Cct | Tct | 12 | 12 | AY.6 | 0.000494 |
S | 479 | P479S | Cct | Tct | 12 | 12 | P.1 | 0.000189 |
S | 479 | P479S | Cct | Tct | 11 | 11 | AY.98.1 | 0.000533 |
S | 479 | P479L | cCt | cTt | 11 | 11 | B.1 | 0.000101 |
S | 479 | P479H | cCt | cAt | 11 | 11 | B.1.1.7 | 0.00001 |
S | 479 | P479R | cCt | cGt | 11 | 11 | B.1.617.2 | 0.000041 |
S | 479 | P479H | cCt | cAt | 11 | 11 | B.1.617.2 | 0.000041 |
S | 479 | P479L | cCt | cTt | 10 | 10 | AY.75 | 0.00056 |
S | 479 | P479S | Cct | Tct | 9 | 9 | A.2.5 | 0.004491 |
S | 479 | P479S | Cct | Tct | 9 | 9 | AY.114 | 0.00208 |
S | 479 | P479S | Cct | Tct | 9 | 9 | AY.33 | 0.000601 |
S | 479 | P479del | CCT | --- | 9 | 9 | AY.43 | 0.00004 |
S | 479 | P479S | Cct | Tct | 9 | 9 | AY.9.1 | 0.000754 |
S | 479 | P479P | ccT | ccC | 9 | 9 | P.1 | 0.000142 |
S | 479 | P479L | cCt | cTt | 8 | 8 | AY.1 | 0.003166 |
S | 479 | P479S | Cct | Tct | 8 | 8 | AY.117 | 0.000676 |
S | 479 | P479L | cCt | cTt | 8 | 8 | AY.39 | 0.000198 |
S | 479 | P479S | Cct | Tct | 8 | 8 | AY.98 | 0.000632 |
S | 479 | P479A | Cct | Gct | 7 | 7 | All | 0.000001 |
S | 479 | P479L | cCt | cTt | 7 | 7 | AY.26 | 0.000198 |
S | 479 | P479S | Cct | Tct | 7 | 7 | AY.5 | 0.000145 |
S | 479 | P479L | cCt | cTt | 7 | 7 | AY.6 | 0.000288 |
S | 479 | P479P | ccT | ccC | 7 | 7 | B.1.258 | 0.000466 |
S | 479 | P479L | cCt | cTt | 2 | 6 | 0.111111 | |
S | 479 | P479L | CCT | TTA | 2 | 6 | 0.111111 | |
S | 479 | P479L | cCT | cTA | 2 | 6 | 0.111111 | |
S | 479 | P479F | CCt | TTt | 5 | 6 | All | 0.000001 |
S | 479 | P479F | CCT | TTC | 1 | 6 | All | 0 |
S | 479 | P479L | cCt | cTt | 6 | 6 | AY.27 | 0.000388 |
S | 479 | P479A | Cct | Gct | 6 | 6 | AY.4 | 0.000009 |
S | 479 | P479del | CCT | --- | 6 | 6 | B.1.1.7 | 0.000005 |
S | 479 | P479P | ccT | ccC | 6 | 6 | B.1.160 | 0.000187 |
S | 479 | P479S | Cct | Tct | 6 | 6 | B.1.177 | 0.000079 |
S | 479 | P479del1 | Cct | -ct | 3 | 5 | All | 0.000001 |
S | 479 | P479del1 | ccT | cc- | 2 | 5 | All | 0 |
S | 479 | P479L | cCt | cTt | 5 | 5 | AY.114 | 0.001156 |
S | 479 | P479S | Cct | Tct | 5 | 5 | AY.118 | 0.000313 |
S | 479 | P479T | Cct | Act | 5 | 5 | AY.25 | 0.00003 |
S | 479 | P479L | cCt | cTt | 5 | 5 | AY.33 | 0.000334 |
S | 479 | P479P | ccT | ccC | 5 | 5 | AY.39 | 0.000124 |
S | 479 | P479R | cCt | cGt | 5 | 5 | AY.4 | 0.000008 |
S | 479 | P479T | Cct | Act | 5 | 5 | AY.4 | 0.000008 |
S | 479 | P479H | cCt | cAt | 5 | 5 | AY.43 | 0.000022 |
S | 479 | P479P | ccT | ccG | 5 | 5 | AY.9 | 0.000338 |
S | 479 | P479L | cCt | cTt | 5 | 5 | AY.99 | 0.005247 |
S | 479 | P479S | Cct | Tct | 5 | 5 | B.1.1.1 | 0.001633 |
S | 479 | P479S | Cct | Tct | 5 | 5 | B.1.1.174 | 0.016892 |
S | 479 | P479L | cCt | cTt | 4 | 5 | B.1.2 | 0.000035 |
S | 479 | P479L | cCT | cTC | 1 | 5 | B.1.2 | 0.000009 |
S | 479 | P479S | Cct | Tct | 2 | 4 | 0.111111 | |
S | 479 | P479S | CcT | TcA | 2 | 4 | 0.111111 | |
S | 479 | P479L | cCt | cTt | 4 | 4 | AY.100 | 0.000184 |
S | 479 | P479S | Cct | Tct | 4 | 4 | AY.13 | 0.000644 |
S | 479 | P479L | cCt | cTt | 4 | 4 | AY.20 | 0.000155 |
S | 479 | P479R | cCt | cGt | 4 | 4 | AY.27 | 0.000259 |
S | 479 | P479S | Cct | Tct | 4 | 4 | AY.3.1 | 0.000341 |
S | 479 | P479S | Cct | Tct | 4 | 4 | AY.32 | 0.00213 |
S | 479 | P479S | Cct | Tct | 4 | 4 | AY.34 | 0.000388 |
S | 479 | P479R | cCt | cGt | 3 | 4 | AY.43 | 0.000013 |
S | 479 | P479R | cCT | cGG | 1 | 4 | AY.43 | 0.000004 |
S | 479 | P479S | Cct | Tct | 4 | 4 | AY.46.4 | 0.000658 |
S | 479 | P479S | Cct | Tct | 4 | 4 | AY.5.3 | 0.00135 |
S | 479 | P479S | Cct | Tct | 4 | 4 | AY.54 | 0.000381 |
S | 479 | P479P | ccT | ccG | 4 | 4 | AY.8 | 0.002424 |
S | 479 | P479P | ccT | ccG | 3 | 4 | B.1 | 0.000027 |
S | 479 | P479P | ccT | ccC | 1 | 4 | B.1 | 0.000009 |
S | 479 | P479S | Cct | Tct | 4 | 4 | B.1.1.519 | 0.000159 |
S | 479 | P479L | cCt | cTt | 4 | 4 | B.1.221 | 0.000284 |
S | 479 | P479S | Cct | Tct | 4 | 4 | B.1.416 | 0.005076 |
S | 479 | P479S | Cct | Tct | 4 | 4 | B.1.596 | 0.000349 |
S | 479 | P479P | ccT | ccA | 2 | 3 | 0.111111 | |
S | 479 | P479P | ccT | ccC | 1 | 3 | 0.055556 | |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.100 | 0.000138 |
S | 479 | P479H | cCt | cAt | 3 | 3 | AY.102 | 0.00008 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.111 | 0.000549 |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.116 | 0.00086 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.117 | 0.000254 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.118 | 0.000188 |
S | 479 | P479P | ccT | ccA | 3 | 3 | AY.119 | 0.000106 |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.120 | 0.000112 |
S | 479 | P479P | ccT | ccG | 2 | 3 | AY.120 | 0.000074 |
S | 479 | P479P | ccT | ccC | 1 | 3 | AY.120 | 0.000037 |
S | 479 | P479del | CCT | --- | 3 | 3 | AY.25 | 0.000018 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.29 | 0.000047 |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.36 | 0.000445 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.39.1 | 0.000119 |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.4.4 | 0.001227 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.4.5 | 0.000322 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.45 | 0.000365 |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.45 | 0.000365 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.46 | 0.000312 |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.47 | 0.000093 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.53 | 0.000863 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.91 | 0.002191 |
S | 479 | P479L | cCt | cTt | 3 | 3 | AY.92 | 0.000862 |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.94 | 0.001328 |
S | 479 | P479S | Cct | Tct | 3 | 3 | AY.99.2 | 0.000276 |
S | 479 | P479del | CCT | --- | 3 | 3 | B.1 | 0.000027 |
S | 479 | P479S | Cct | Tct | 3 | 3 | B.1.1.50 | 0.002037 |
S | 479 | P479L | cCt | cTt | 3 | 3 | B.1.1.519 | 0.000119 |
S | 479 | P479L | cCt | cTt | 3 | 3 | B.1.177.86 | 0.00055 |
S | 479 | P479P | ccT | ccC | 2 | 3 | B.1.2 | 0.000018 |
S | 479 | P479P | ccT | ccA | 1 | 3 | B.1.2 | 0.000009 |
S | 479 | P479S | Cct | Tct | 3 | 3 | B.1.351 | 0.000089 |
S | 479 | P479del | CCT | --- | 3 | 3 | B.1.617.2 | 0.000011 |
S | 479 | P479S | Cct | Tct | 3 | 3 | C.18 | 0.007772 |
S | 479 | P479S | Cct | Tct | 3 | 3 | Q.8 | 0.000495 |
S | 479 | P479del1 | Cct | -ct | 2 | 2 | 0.111111 | |
S | 479 | P479F | CCt | TTt | 2 | 2 | 0.111111 | |
S | 479 | P479del | CCT | --- | 2 | 2 | 0.111111 | |
S | 479 | P479Q | cCT | cAA | 1 | 2 | All | 0 |
S | 479 | P479Q | cCT | cAG | 1 | 2 | All | 0 |
S | 479 | P479H | cCt | cAt | 2 | 2 | AY.103 | 0.000012 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.107 | 0.000932 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.111 | 0.000366 |
S | 479 | P479del | CCT | --- | 2 | 2 | AY.113 | 0.000285 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.119 | 0.000071 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.120 | 0.000074 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.120.1 | 0.000642 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.23 | 0.000139 |
S | 479 | P479H | cCt | cAt | 2 | 2 | AY.25 | 0.000012 |
S | 479 | P479P | ccT | ccC | 2 | 2 | AY.27 | 0.000129 |
S | 479 | P479H | cCt | cAt | 2 | 2 | AY.3 | 0.00002 |
S | 479 | P479R | cCt | cGt | 2 | 2 | AY.3 | 0.00002 |
S | 479 | P479P | ccT | ccC | 2 | 2 | AY.3 | 0.00002 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.34 | 0.000194 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.38 | 0.000999 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.39.1 | 0.000079 |
S | 479 | P479del | CCT | --- | 2 | 2 | AY.4 | 0.000003 |
S | 479 | P479P | ccT | ccG | 1 | 2 | AY.4.2 | 0.000022 |
S | 479 | P479P | ccT | ccC | 1 | 2 | AY.4.2 | 0.000022 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.4.2.1 | 0.000298 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.4.5 | 0.000215 |
S | 479 | P479H | cCt | cAt | 2 | 2 | AY.45 | 0.000243 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.46.5 | 0.000397 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.55 | 0.001835 |
S | 479 | P479H | cCt | cAt | 2 | 2 | AY.55 | 0.001835 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.58 | 0.001815 |
S | 479 | P479P | ccT | ccA | 1 | 2 | AY.58 | 0.000907 |
S | 479 | P479P | ccT | ccG | 1 | 2 | AY.58 | 0.000907 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.61 | 0.00021 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.65 | 0.001066 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.68 | 0.000547 |
S | 479 | P479R | cCt | cGt | 2 | 2 | AY.73 | 0.001331 |
S | 479 | P479del | CCT | --- | 2 | 2 | AY.75 | 0.000112 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.75 | 0.000112 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.75.1 | 0.000361 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.82 | 0.002714 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.84 | 0.000875 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.9.2 | 0.000073 |
S | 479 | P479H | cCt | cAt | 2 | 2 | AY.9.2 | 0.000073 |
S | 479 | P479S | Cct | Tct | 2 | 2 | AY.92 | 0.000575 |
S | 479 | P479L | cCt | cTt | 2 | 2 | AY.93 | 0.000546 |
S | 479 | P479L | cCt | cTt | 1 | 2 | B.1.1 | 0.000018 |
S | 479 | P479F | CCT | TTC | 1 | 2 | B.1.1 | 0.000018 |
S | 479 | P479F | CCt | TTt | 1 | 2 | B.1.1 | 0.000018 |
S | 479 | P479L | CCT | TTA | 1 | 2 | B.1.1 | 0.000018 |
S | 479 | P479S | Cct | Tct | 2 | 2 | B.1.1.12 | 0.014925 |
S | 479 | P479S | Cct | Tct | 2 | 2 | B.1.1.178 | 0.083333 |
S | 479 | P479S | Cct | Tct | 2 | 2 | B.1.1.329 | 0.007692 |
S | 479 | P479S | Cct | Tct | 2 | 2 | B.1.1.374 | 0.004751 |
S | 479 | P479S | Cct | Tct | 2 | 2 | B.1.1.434 | 0.000697 |
S | 479 | P479P | ccT | ccC | 2 | 2 | B.1.177 | 0.000026 |
S | 479 | P479T | Cct | Act | 2 | 2 | B.1.177.60 | 0.000437 |
S | 479 | P479S | Cct | Tct | 2 | 2 | B.1.221 | 0.000142 |
S | 479 | P479S | Cct | Tct | 2 | 2 | B.1.258 | 0.000133 |
S | 479 | P479P | ccT | ccG | 2 | 2 | B.1.258.17 | 0.000208 |
S | 479 | P479L | cCt | cTt | 2 | 2 | B.1.36.1 | 0.002281 |
S | 479 | P479L | cCt | cTt | 2 | 2 | B.1.427 | 0.000101 |
S | 479 | P479S | Cct | Tct | 2 | 2 | B.1.525 | 0.000226 |
S | 479 | P479T | Cct | Act | 2 | 2 | B.1.617.2 | 0.000008 |
S | 479 | P479del | CCT | --- | 1 | 1 | A | 0.000387 |
S | 479 | P479S | Cct | Tct | 1 | 1 | A | 0.000387 |
S | 479 | P479S | Cct | Tct | 1 | 1 | A.2 | 0.000662 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AD.2 | 0.000219 |
S | 479 | P479I | CCT | ATA | 1 | 1 | All | 0 |
S | 479 | P479K | CCT | AAA | 1 | 1 | All | 0 |
S | 479 | P479R | cCt | cGt | 1 | 1 | AY.100 | 0.000046 |
S | 479 | P479P | ccT | ccC | 1 | 1 | AY.100 | 0.000046 |
S | 479 | P479del | CCT | --- | 1 | 1 | AY.102 | 0.000027 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.102 | 0.000027 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.106 | 0.000335 |
S | 479 | P479del | CCT | --- | 1 | 1 | AY.107 | 0.000466 |
S | 479 | P479del | CCT | --- | 1 | 1 | AY.108 | 0.001103 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.110 | 0.000113 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.110 | 0.000113 |
S | 479 | P479P | ccT | ccA | 1 | 1 | AY.116 | 0.000287 |
S | 479 | P479P | ccT | ccC | 1 | 1 | AY.117 | 0.000085 |
S | 479 | P479del1 | ccT | cc- | 1 | 1 | AY.117 | 0.000085 |
S | 479 | P479del | CCT | --- | 1 | 1 | AY.119 | 0.000035 |
S | 479 | P479R | cCt | cGt | 1 | 1 | AY.119 | 0.000035 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.12 | 0.000316 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.121 | 0.000135 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.14 | 0.000088 |
S | 479 | P479P | ccT | ccC | 1 | 1 | AY.16 | 0.00038 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.16.1 | 0.00047 |
S | 479 | P479P | ccT | ccG | 1 | 1 | AY.17 | 0.008197 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.2 | 0.000356 |
S | 479 | P479T | Cct | Act | 1 | 1 | AY.23 | 0.00007 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.23 | 0.00007 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.23.1 | 0.000417 |
S | 479 | P479T | Cct | Act | 1 | 1 | AY.26 | 0.000028 |
S | 479 | P479P | ccT | ccC | 1 | 1 | AY.26 | 0.000028 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.27 | 0.000065 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.29.1 | 0.000221 |
S | 479 | P479T | Cct | Act | 1 | 1 | AY.3 | 0.00001 |
S | 479 | P479del | CCT | --- | 1 | 1 | AY.3 | 0.00001 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.30 | 0.000396 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.32 | 0.000532 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.32 | 0.000532 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.34.1 | 0.00051 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.35 | 0.000233 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.38 | 0.000499 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.39.2 | 0.001541 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.4.2 | 0.000022 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.4.2 | 0.000022 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.4.2.1 | 0.000149 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.4.3 | 0.000842 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.41 | 0.000294 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.42 | 0.00004 |
S | 479 | P479P | ccT | ccA | 1 | 1 | AY.42 | 0.00004 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.42 | 0.00004 |
S | 479 | P479del1 | Cct | -ct | 1 | 1 | AY.43 | 0.000004 |
S | 479 | P479T | CcT | AcC | 1 | 1 | AY.44 | 0.000006 |
S | 479 | P479F | CCt | TTt | 1 | 1 | AY.44 | 0.000006 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.44 | 0.000006 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.46 | 0.000104 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.46.2 | 0.000635 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.46.4 | 0.000165 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.46.6 | 0.000072 |
S | 479 | P479T | Cct | Act | 1 | 1 | AY.47 | 0.000031 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.48 | 0.000465 |
S | 479 | P479R | cCt | cGt | 1 | 1 | AY.5 | 0.000021 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.5.1 | 0.003759 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.5.3 | 0.000337 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.53 | 0.000288 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.54 | 0.000095 |
S | 479 | P479T | Cct | Act | 1 | 1 | AY.55 | 0.000917 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.6 | 0.000041 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.62 | 0.000436 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.63 | 0.000387 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.64 | 0.000595 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.64 | 0.000595 |
S | 479 | P479del | CCT | --- | 1 | 1 | AY.67 | 0.000464 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.68 | 0.000274 |
S | 479 | P479T | Cct | Act | 1 | 1 | AY.69 | 0.000187 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.69 | 0.000187 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.69 | 0.000187 |
S | 479 | P479R | cCt | cGt | 1 | 1 | AY.7.1 | 0.000113 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.7.1 | 0.000113 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.7.1 | 0.000113 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.7.2 | 0.000559 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.71 | 0.000475 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.75.1 | 0.00018 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.84 | 0.000437 |
S | 479 | P479del | CCT | --- | 1 | 1 | AY.84 | 0.000437 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.85 | 0.000427 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.86 | 0.00083 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.86 | 0.00083 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.9 | 0.000068 |
S | 479 | P479S | Cct | Tct | 1 | 1 | AY.9 | 0.000068 |
S | 479 | P479I | CCT | ATA | 1 | 1 | AY.9.2 | 0.000037 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.95 | 0.000761 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.98 | 0.000079 |
S | 479 | P479H | cCt | cAt | 1 | 1 | AY.98.1 | 0.000048 |
S | 479 | P479del | CCT | --- | 1 | 1 | AY.99 | 0.001049 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AY.99.2 | 0.000092 |
S | 479 | P479L | cCt | cTt | 1 | 1 | AZ.3 | 0.00152 |
S | 479 | P479del | CCT | --- | 1 | 1 | B | 0.000128 |
S | 479 | P479Q | cCT | cAG | 1 | 1 | B.1 | 0.000009 |
S | 479 | P479A | Cct | Gct | 1 | 1 | B.1 | 0.000009 |
S | 479 | P479H | cCt | cAt | 1 | 1 | B.1.1 | 0.000018 |
S | 479 | P479P | ccT | ccC | 1 | 1 | B.1.1 | 0.000018 |
S | 479 | P479del | CCT | --- | 1 | 1 | B.1.1.139 | 0.022727 |
S | 479 | P479P | ccT | ccC | 1 | 1 | B.1.1.172 | 0.018182 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.1.222 | 0.000204 |
S | 479 | P479H | cCt | cAt | 1 | 1 | B.1.1.230 | 0.009174 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.1.258 | 0.003257 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.1.28 | 0.000311 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.1.294 | 0.001266 |
S | 479 | P479del | CCT | --- | 1 | 1 | B.1.1.306 | 0.000438 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.1.315 | 0.008475 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.1.33 | 0.000421 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.1.372 | 0.000689 |
S | 479 | P479R | cCt | cGt | 1 | 1 | B.1.1.39 | 0.00051 |
S | 479 | P479Q | cCT | cAA | 1 | 1 | B.1.1.507 | 0.008696 |
S | 479 | P479H | cCt | cAt | 1 | 1 | B.1.1.507 | 0.008696 |
S | 479 | P479P | ccT | ccA | 1 | 1 | B.1.1.507 | 0.008696 |
S | 479 | P479T | CcT | AcA | 1 | 1 | B.1.1.519 | 0.00004 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.1.61 | 0.008772 |
S | 479 | P479T | Cct | Act | 1 | 1 | B.1.1.7 | 0.000001 |
S | 479 | P479del1 | ccT | cc- | 1 | 1 | B.1.1.7 | 0.000001 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.112 | 0.005181 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.13 | 0.002375 |
S | 479 | P479T | Cct | Act | 1 | 1 | B.1.160 | 0.000031 |
S | 479 | P479P | ccT | ccA | 1 | 1 | B.1.177.33 | 0.001645 |
S | 479 | P479P | ccT | ccC | 1 | 1 | B.1.177.35 | 0.000691 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.177.43 | 0.001477 |
S | 479 | P479P | ccT | ccC | 1 | 1 | B.1.177.73 | 0.000566 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.177.82 | 0.000477 |
S | 479 | P479del | CCT | --- | 1 | 1 | B.1.2 | 0.000009 |
S | 479 | P479T | Cct | Act | 1 | 1 | B.1.2 | 0.000009 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.206 | 0.000816 |
S | 479 | P479P | ccT | ccG | 1 | 1 | B.1.221 | 0.000071 |
S | 479 | P479P | ccT | ccG | 1 | 1 | B.1.234 | 0.000132 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.240 | 0.000216 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.243 | 0.00007 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.258 | 0.000067 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.311 | 0.000275 |
S | 479 | P479del | CCT | --- | 1 | 1 | B.1.351 | 0.00003 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.351 | 0.00003 |
S | 479 | P479T | Cct | Act | 1 | 1 | B.1.351 | 0.00003 |
S | 479 | P479P | ccT | ccC | 1 | 1 | B.1.351 | 0.00003 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.351.2 | 0.000303 |
S | 479 | P479H | cCt | cAt | 1 | 1 | B.1.36.17 | 0.000494 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.36.18 | 0.00042 |
S | 479 | P479F | CCt | TTt | 1 | 1 | B.1.36.2 | 0.010753 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.36.2 | 0.010753 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.36.2 | 0.010753 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.36.29 | 0.000517 |
S | 479 | P479P | ccT | ccG | 1 | 1 | B.1.36.36 | 0.000602 |
S | 479 | P479T | Cct | Act | 1 | 1 | B.1.377 | 0.004566 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.380 | 0.006623 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.396 | 0.000706 |
S | 479 | P479P | ccT | ccG | 1 | 1 | B.1.409 | 0.000781 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.426 | 0.001009 |
S | 479 | P479P | ccT | ccC | 1 | 1 | B.1.429 | 0.000024 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.456 | 0.003268 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.508 | 0.025641 |
S | 479 | P479del | CCT | --- | 1 | 1 | B.1.526 | 0.000024 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.526 | 0.000024 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.526 | 0.000024 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.565 | 0.00081 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.567 | 0.003333 |
S | 479 | P479H | cCt | cAt | 1 | 1 | B.1.575 | 0.000303 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.587 | 0.001898 |
S | 479 | P479P | ccT | ccC | 1 | 1 | B.1.596 | 0.000087 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.596 | 0.000087 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.597 | 0.00463 |
S | 479 | P479P | ccT | ccG | 1 | 1 | B.1.599 | 0.00365 |
S | 479 | P479S | Cct | Tct | 1 | 1 | B.1.609 | 0.000479 |
S | 479 | P479K | CCT | AAA | 1 | 1 | B.1.617.2 | 0.000004 |
S | 479 | P479del | CCT | --- | 1 | 1 | B.1.620 | 0.000946 |
S | 479 | P479P | ccT | ccC | 1 | 1 | B.1.623 | 0.000536 |
S | 479 | P479L | cCt | cTt | 1 | 1 | B.1.637 | 0.000073 |
S | 479 | P479del | CCT | --- | 1 | 1 | B.34 | 0.013699 |
S | 479 | P479S | Cct | Tct | 1 | 1 | C.1.2 | 0.004255 |
S | 479 | P479P | ccT | ccA | 1 | 1 | C.18 | 0.002591 |
S | 479 | P479S | Cct | Tct | 1 | 1 | C.35 | 0.000774 |
S | 479 | P479S | Cct | Tct | 1 | 1 | D.2 | 0.000075 |
S | 479 | P479P | ccT | ccC | 1 | 1 | D.2 | 0.000075 |
S | 479 | P479H | cCt | cAt | 1 | 1 | D.2 | 0.000075 |
S | 479 | P479L | cCt | cTt | 1 | 1 | P.1 | 0.000016 |
S | 479 | P479S | Cct | Tct | 1 | 1 | P.1.1 | 0.000318 |
S | 479 | P479del | CCT | --- | 1 | 1 | P.1.1 | 0.000318 |
S | 479 | P479H | cCt | cAt | 1 | 1 | P.1.14 | 0.000048 |
S | 479 | P479S | Cct | Tct | 1 | 1 | P.1.14 | 0.000048 |
S | 479 | P479S | Cct | Tct | 1 | 1 | P.1.15 | 0.000232 |
S | 479 | P479T | CcT | AcC | 1 | 1 | P.1.17 | 0.000162 |
S | 479 | P479S | CcT | TcC | 1 | 1 | P.1.17 | 0.000162 |
S | 479 | P479P | ccT | ccC | 1 | 1 | P.1.17 | 0.000162 |
S | 479 | P479L | cCt | cTt | 1 | 1 | Q.1 | 0.000126 |
S | 479 | P479S | Cct | Tct | 1 | 1 | Q.1 | 0.000126 |
S | 479 | P479S | Cct | Tct | 1 | 1 | Q.7 | 0.001111 |
S | 479 | P479P | ccT | ccG | 1 | 1 | Q.8 | 0.000165 |
CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk
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