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 | 25 | P25T | nonsyn | Ccc | Acc | 1297 | 1292 | 0.996145 | 21635-21637 | |
S | 25 | P25T | nonsyn | CcC | AcT | 1297 | 5 | 0.00385505 | 21635-21637 |
Details of the mutation P25T 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 | 25 | P25T | Ccc | Acc | 1292 | 1297 | All | 0.000247 |
S | 25 | P25T | CcC | AcT | 5 | 1297 | All | 0.000001 |
S | 25 | P25T | Ccc | Acc | 262 | 262 | AY.4 | 0.000408 |
S | 25 | P25T | Ccc | Acc | 209 | 214 | B.1.1.7 | 0.000187 |
S | 25 | P25T | CcC | AcT | 5 | 214 | B.1.1.7 | 0.000004 |
S | 25 | P25T | Ccc | Acc | 138 | 138 | B.1.617.2 | 0.00052 |
S | 25 | P25T | Ccc | Acc | 106 | 106 | B.1.637 | 0.007746 |
S | 25 | P25T | Ccc | Acc | 52 | 52 | B.1.258.22 | 0.138667 |
S | 25 | P25T | Ccc | Acc | 44 | 44 | AY.43 | 0.000195 |
S | 25 | P25T | Ccc | Acc | 35 | 35 | AY.103 | 0.000217 |
S | 25 | P25T | Ccc | Acc | 33 | 33 | AY.29 | 0.000521 |
S | 25 | P25T | Ccc | Acc | 21 | 21 | AY.25 | 0.000126 |
S | 25 | P25T | Ccc | Acc | 21 | 21 | AY.26 | 0.000595 |
S | 25 | P25T | Ccc | Acc | 21 | 21 | B.1.429 | 0.000494 |
S | 25 | P25T | Ccc | Acc | 18 | 18 | AY.44 | 0.00011 |
S | 25 | P25T | Ccc | Acc | 18 | 18 | B.1.2 | 0.000158 |
S | 25 | P25T | Ccc | Acc | 17 | 17 | AY.39 | 0.00042 |
S | 25 | P25T | Ccc | Acc | 17 | 17 | B.1.351 | 0.000505 |
S | 25 | P25T | Ccc | Acc | 16 | 16 | B.1.221 | 0.001137 |
S | 25 | P25T | Ccc | Acc | 14 | 14 | B.1 | 0.000128 |
S | 25 | P25T | Ccc | Acc | 12 | 12 | B.1.1 | 0.000218 |
S | 25 | P25T | Ccc | Acc | 12 | 12 | B.1.1.434 | 0.004183 |
S | 25 | P25T | Ccc | Acc | 11 | 11 | AY.3 | 0.000109 |
S | 25 | P25T | Ccc | Acc | 10 | 10 | AY.5 | 0.000206 |
S | 25 | P25T | Ccc | Acc | 9 | 9 | AY.121 | 0.001218 |
S | 25 | P25T | Ccc | Acc | 9 | 9 | AY.36 | 0.001334 |
S | 25 | P25T | Ccc | Acc | 9 | 9 | B.1.438.1 | 0.000965 |
S | 25 | P25T | Ccc | Acc | 7 | 7 | AY.5.3 | 0.002362 |
S | 25 | P25T | Ccc | Acc | 6 | 6 | AY.102 | 0.000159 |
S | 25 | P25T | Ccc | Acc | 6 | 6 | AY.120 | 0.000223 |
S | 25 | P25T | Ccc | Acc | 6 | 6 | AY.53 | 0.001725 |
S | 25 | P25T | Ccc | Acc | 6 | 6 | B.1.1.519 | 0.000238 |
S | 25 | P25T | Ccc | Acc | 5 | 5 | AY.109 | 0.003698 |
S | 25 | P25T | Ccc | Acc | 5 | 5 | AY.119 | 0.000177 |
S | 25 | P25T | Ccc | Acc | 5 | 5 | AY.23 | 0.000349 |
S | 25 | P25T | Ccc | Acc | 5 | 5 | AY.42 | 0.000201 |
S | 25 | P25T | Ccc | Acc | 5 | 5 | AY.9.2 | 0.000184 |
S | 25 | P25T | Ccc | Acc | 4 | 4 | AY.118 | 0.000251 |
S | 25 | P25T | Ccc | Acc | 4 | 4 | AY.39.1 | 0.000158 |
S | 25 | P25T | Ccc | Acc | 4 | 4 | AY.47 | 0.000124 |
S | 25 | P25T | Ccc | Acc | 4 | 4 | AY.9 | 0.00027 |
S | 25 | P25T | Ccc | Acc | 4 | 4 | AY.9.1 | 0.000335 |
S | 25 | P25T | Ccc | Acc | 4 | 4 | B.1.1.159 | 0.018692 |
S | 25 | P25T | Ccc | Acc | 4 | 4 | B.1.177 | 0.000053 |
S | 25 | P25T | Ccc | Acc | 4 | 4 | N.9 | 0.02381 |
S | 25 | P25T | Ccc | Acc | 3 | 3 | AY.27 | 0.000194 |
S | 25 | P25T | Ccc | Acc | 3 | 3 | AY.34 | 0.000291 |
S | 25 | P25T | Ccc | Acc | 3 | 3 | AY.78 | 0.004622 |
S | 25 | P25T | Ccc | Acc | 3 | 3 | B.1.160 | 0.000094 |
S | 25 | P25T | Ccc | Acc | 3 | 3 | B.1.427 | 0.000151 |
S | 25 | P25T | Ccc | Acc | 3 | 3 | B.1.588 | 0.00273 |
S | 25 | P25T | Ccc | Acc | 3 | 3 | Q.8 | 0.000495 |
S | 25 | P25T | Ccc | Acc | 3 | 3 | R.1 | 0.00027 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | AY.108 | 0.002205 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | AY.111 | 0.000366 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | AY.20 | 0.000078 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | AY.4.2 | 0.000043 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | AY.46 | 0.000208 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | AY.75 | 0.000112 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | AY.86 | 0.00166 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | AY.98 | 0.000158 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | B.1.1.269 | 0.002706 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | B.1.1.317 | 0.000823 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | B.1.326 | 0.015152 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | B.1.526 | 0.000047 |
S | 25 | P25T | Ccc | Acc | 2 | 2 | B.1.596 | 0.000174 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | A | 0.000387 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | A.1 | 0.000282 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.100 | 0.000046 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.117 | 0.000085 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.13 | 0.000161 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.2 | 0.000356 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.29.1 | 0.000221 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.3.1 | 0.000085 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.45 | 0.000122 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.46.4 | 0.000165 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.46.6 | 0.000072 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.5.4 | 0.000277 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.6 | 0.000041 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.98.1 | 0.000048 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | AY.99.2 | 0.000092 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B | 0.000128 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.1.133 | 0.008475 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.1.141 | 0.002012 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.1.207 | 0.001182 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.1.28 | 0.000311 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.1.348 | 0.000796 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.111 | 0.001175 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.160.16 | 0.000929 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.177.15 | 0.000631 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.177.21 | 0.000076 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.177.46 | 0.000918 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.177.56 | 0.000668 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.199 | 0.004132 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.280 | 0.007143 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.36.16 | 0.001425 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.36.29 | 0.000517 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.36.31 | 0.001751 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.375 | 0.00082 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.377 | 0.004566 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.466.2 | 0.000391 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.1.499 | 0.00105 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | B.3 | 0.000831 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | D.2 | 0.000075 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | P.1 | 0.000016 |
S | 25 | P25T | Ccc | Acc | 1 | 1 | W.4 | 0.001351 |
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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