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 |
noncoding | 29719 | C29719T | noncoding | C | T | 6237 | 6237 | 1 | 29719-29719 |
Details of the mutation C29719T 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 |
noncoding | 29719 | C29719T | C | T | 6237 | 6237 | All | 0.001193 |
noncoding | 29719 | C29719T | C | T | 3158 | 3158 | B.1.575 | 0.958131 |
noncoding | 29719 | C29719T | C | T | 491 | 491 | B.1.1.7 | 0.00044 |
noncoding | 29719 | C29719T | C | T | 361 | 361 | B.1.575.1 | 0.880488 |
noncoding | 29719 | C29719T | C | T | 316 | 316 | AY.4 | 0.000492 |
noncoding | 29719 | C29719T | C | T | 204 | 204 | B.1.575.2 | 0.980769 |
noncoding | 29719 | C29719T | C | T | 196 | 196 | B.1.617.2 | 0.000738 |
noncoding | 29719 | C29719T | C | T | 101 | 101 | B.1 | 0.000925 |
noncoding | 29719 | C29719T | C | T | 98 | 98 | AY.44 | 0.000597 |
noncoding | 29719 | C29719T | C | T | 87 | 87 | AY.4.2 | 0.001887 |
noncoding | 29719 | C29719T | C | T | 79 | 79 | AY.61 | 0.008277 |
noncoding | 29719 | C29719T | C | T | 76 | 76 | B.1.526 | 0.001786 |
noncoding | 29719 | C29719T | C | T | 57 | 57 | AY.38 | 0.028457 |
noncoding | 29719 | C29719T | C | T | 51 | 51 | AY.103 | 0.000317 |
noncoding | 29719 | C29719T | C | T | 48 | 48 | AY.43 | 0.000213 |
noncoding | 29719 | C29719T | C | T | 47 | 47 | AY.3 | 0.000467 |
noncoding | 29719 | C29719T | C | T | 46 | 46 | B.1.2 | 0.000405 |
noncoding | 29719 | C29719T | C | T | 39 | 39 | P.1 | 0.000614 |
noncoding | 29719 | C29719T | C | T | 33 | 33 | AY.29 | 0.000521 |
noncoding | 29719 | C29719T | C | T | 32 | 32 | AY.102 | 0.000848 |
noncoding | 29719 | C29719T | C | T | 27 | 27 | B.1.595 | 0.007046 |
noncoding | 29719 | C29719T | C | T | 26 | 26 | B.1.621 | 0.002301 |
noncoding | 29719 | C29719T | C | T | 25 | 25 | B.1.427 | 0.001262 |
noncoding | 29719 | C29719T | C | T | 24 | 24 | AY.26 | 0.000679 |
noncoding | 29719 | C29719T | C | T | 22 | 22 | AY.41 | 0.006467 |
noncoding | 29719 | C29719T | C | T | 20 | 20 | Q.1 | 0.002527 |
noncoding | 29719 | C29719T | C | T | 19 | 19 | B.1.1.291 | 0.014105 |
noncoding | 29719 | C29719T | C | T | 19 | 19 | B.1.565 | 0.015397 |
noncoding | 29719 | C29719T | C | T | 18 | 18 | AY.20 | 0.0007 |
noncoding | 29719 | C29719T | C | T | 17 | 17 | B.1.177.71 | 0.171717 |
noncoding | 29719 | C29719T | C | T | 17 | 17 | B.1.429 | 0.0004 |
noncoding | 29719 | C29719T | C | T | 16 | 16 | B.1.221 | 0.001137 |
noncoding | 29719 | C29719T | C | T | 15 | 15 | B.1.177 | 0.000198 |
noncoding | 29719 | C29719T | C | T | 14 | 14 | B.1.1 | 0.000254 |
noncoding | 29719 | C29719T | C | T | 13 | 13 | AY.98.1 | 0.00063 |
noncoding | 29719 | C29719T | C | T | 12 | 12 | AY.25 | 0.000072 |
noncoding | 29719 | C29719T | C | T | 12 | 12 | B.1.596 | 0.001046 |
noncoding | 29719 | C29719T | C | T | 11 | 11 | AY.9.2 | 0.000404 |
noncoding | 29719 | C29719T | C | T | 11 | 11 | B.1.177.86 | 0.002018 |
noncoding | 29719 | C29719T | C | T | 10 | 10 | AY.39 | 0.000247 |
noncoding | 29719 | C29719T | C | T | 10 | 10 | AY.46.6 | 0.000722 |
noncoding | 29719 | C29719T | C | T | 10 | 10 | B.1.1.519 | 0.000397 |
noncoding | 29719 | C29719T | C | T | 10 | 10 | B.1.258 | 0.000665 |
noncoding | 29719 | C29719T | C | T | 10 | 10 | P.1.12 | 0.00484 |
noncoding | 29719 | C29719T | C | T | 9 | 9 | B.1.1.219 | 0.045 |
noncoding | 29719 | C29719T | C | T | 9 | 9 | P.1.14 | 0.00043 |
noncoding | 29719 | C29719T | C | T | 8 | 8 | AY.119 | 0.000282 |
noncoding | 29719 | C29719T | C | T | 8 | 8 | AY.33 | 0.000534 |
noncoding | 29719 | C29719T | C | T | 8 | 8 | B.1.160 | 0.00025 |
noncoding | 29719 | C29719T | C | T | 8 | 8 | B.1.234 | 0.001056 |
noncoding | 29719 | C29719T | C | T | 7 | 7 | AY.34.1 | 0.00357 |
noncoding | 29719 | C29719T | C | T | 7 | 7 | AY.6 | 0.000288 |
noncoding | 29719 | C29719T | C | T | 7 | 7 | B.1.36 | 0.001021 |
noncoding | 29719 | C29719T | C | T | 7 | 7 | B.1.637 | 0.000512 |
noncoding | 29719 | C29719T | C | T | 7 | 7 | D.2 | 0.000525 |
noncoding | 29719 | C29719T | C | T | 6 | 6 | AY.46.1 | 0.00616 |
noncoding | 29719 | C29719T | C | T | 6 | 6 | B.1.621.1 | 0.003035 |
noncoding | 29719 | C29719T | C | T | 5 | 5 | AY.13 | 0.000805 |
noncoding | 29719 | C29719T | C | T | 5 | 5 | AY.42 | 0.000201 |
noncoding | 29719 | C29719T | C | T | 5 | 5 | B.1.210 | 0.010661 |
noncoding | 29719 | C29719T | C | T | 5 | 5 | B.1.351 | 0.000149 |
noncoding | 29719 | C29719T | C | T | 5 | 5 | B.1.404 | 0.00651 |
noncoding | 29719 | C29719T | C | T | 5 | 5 | B.1.623 | 0.002682 |
noncoding | 29719 | C29719T | C | T | 4 | 4 | AY.120 | 0.000149 |
noncoding | 29719 | C29719T | C | T | 4 | 4 | AY.36 | 0.000593 |
noncoding | 29719 | C29719T | C | T | 4 | 4 | B.1.1.46 | 0.017467 |
noncoding | 29719 | C29719T | C | T | 4 | 4 | B.1.1.521 | 0.02139 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | AY.100 | 0.000138 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | AY.12 | 0.000948 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | AY.3.1 | 0.000256 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | AY.5 | 0.000062 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | AY.51 | 0.002727 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | AY.7.2 | 0.001678 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | B.1.1.306 | 0.001315 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | B.1.1.333 | 0.003229 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | B.1.36.29 | 0.001552 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | B.1.561 | 0.001191 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | B.1.610 | 0.010638 |
noncoding | 29719 | C29719T | C | T | 3 | 3 | B.55 | 0.00885 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | A | 0.000774 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AF.1 | 0.074074 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.106 | 0.00067 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.108 | 0.002205 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.110 | 0.000225 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.114 | 0.000462 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.121 | 0.000271 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.14 | 0.000176 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.23 | 0.000139 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.34 | 0.000194 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.37 | 0.000632 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.46.3 | 0.001867 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.52 | 0.001629 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.58 | 0.001815 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.60 | 0.001876 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.65 | 0.001066 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.75 | 0.000112 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.75.1 | 0.000361 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.9 | 0.000135 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | AY.98 | 0.000158 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B | 0.000256 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.1.298 | 0.001724 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.1.326 | 0.003521 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.1.70 | 0.000682 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.110.3 | 0.001437 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.177.15 | 0.001262 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.177.73 | 0.001133 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.206 | 0.001631 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.311 | 0.000549 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.36.8 | 0.002 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.396 | 0.001411 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.466.2 | 0.000782 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.517 | 0.000854 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.617.1 | 0.000258 |
noncoding | 29719 | C29719T | C | T | 2 | 2 | B.1.93 | 0.001867 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | A.2 | 0.000662 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.1 | 0.000396 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.10 | 0.00053 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.105 | 0.000643 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.109 | 0.00074 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.113 | 0.000142 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.116.1 | 0.000311 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.16.1 | 0.00047 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.27 | 0.000065 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.39.1 | 0.00004 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.4.2.1 | 0.000149 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.4.3 | 0.000842 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.46 | 0.000104 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.47 | 0.000031 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.5.2 | 0.002463 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.54 | 0.000095 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.66 | 0.00107 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.67 | 0.000464 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.78 | 0.001541 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.82 | 0.001357 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.84 | 0.000437 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.85 | 0.000427 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.89 | 0.004902 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.97 | 0.001701 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.99.1 | 0.001553 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | AY.99.2 | 0.000092 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.189 | 0.001513 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.194 | 0.00495 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.214 | 0.000055 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.216 | 0.00089 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.28 | 0.000311 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.311 | 0.000358 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.316 | 0.000925 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.322 | 0.008772 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.33 | 0.000421 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.368 | 0.003086 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.389 | 0.006061 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.409 | 0.002833 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.1.419 | 0.007407 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.177.12 | 0.000152 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.177.16 | 0.000664 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.177.17 | 0.000821 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.177.3 | 0.007634 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.177.33 | 0.001645 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.177.45 | 0.000381 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.177.87 | 0.000728 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.232 | 0.000537 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.279 | 0.000514 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.314 | 0.007519 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.351.5 | 0.0006 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.36.39 | 0.002217 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.361 | 0.001289 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.399 | 0.001934 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.416 | 0.001269 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.428.1 | 0.034483 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.431 | 0.04 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.438.1 | 0.000107 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.465 | 0.003802 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.470 | 0.001404 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.511 | 0.034483 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.527 | 0.003704 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.537 | 0.02 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.567 | 0.003333 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.574 | 0.002151 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.582 | 0.000491 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.1.628 | 0.000352 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.4.1 | 0.018868 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.6 | 0.00091 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | B.6.6 | 0.000889 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | C.36.3 | 0.000567 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | C.37 | 0.000116 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | P.1.13 | 0.000898 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | P.1.17 | 0.000162 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | P.1.4 | 0.000977 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | P.1.7 | 0.000319 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | P.7 | 0.004367 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | Q.2 | 0.000613 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | Q.3 | 0.000145 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | Q.8 | 0.000165 |
noncoding | 29719 | C29719T | C | T | 1 | 1 | R.1 | 0.00009 |
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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