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 |
ORF3a | 262 | P262L | nonsyn | cCa | cTa | 1338 | 1337 | 0.999253 | 26176-26178 | |
ORF3a | 262 | P262L | nonsyn | CCa | TTa | 1338 | 1 | 0.000747384 | 26176-26178 |
Details of the mutation P262L 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 |
ORF3a | 262 | P262L | cCa | cTa | 1337 | 1338 | All | 0.000256 |
ORF3a | 262 | P262L | CCa | TTa | 1 | 1338 | All | 0 |
ORF3a | 262 | P262L | cCa | cTa | 246 | 247 | B.1.1.7 | 0.00022 |
ORF3a | 262 | P262L | CCa | TTa | 1 | 247 | B.1.1.7 | 0.000001 |
ORF3a | 262 | P262L | cCa | cTa | 204 | 204 | AY.25 | 0.001227 |
ORF3a | 262 | P262L | cCa | cTa | 167 | 167 | AY.44 | 0.001016 |
ORF3a | 262 | P262L | cCa | cTa | 142 | 142 | B.1.2 | 0.00125 |
ORF3a | 262 | P262L | cCa | cTa | 120 | 120 | B.1.525 | 0.013579 |
ORF3a | 262 | P262L | cCa | cTa | 70 | 70 | AY.4 | 0.000109 |
ORF3a | 262 | P262L | cCa | cTa | 45 | 45 | B.1.177.60 | 0.00983 |
ORF3a | 262 | P262L | cCa | cTa | 31 | 31 | B.1 | 0.000284 |
ORF3a | 262 | P262L | cCa | cTa | 26 | 26 | AY.43 | 0.000115 |
ORF3a | 262 | P262L | cCa | cTa | 23 | 23 | AY.103 | 0.000143 |
ORF3a | 262 | P262L | cCa | cTa | 22 | 22 | B.1.36.17 | 0.01087 |
ORF3a | 262 | P262L | cCa | cTa | 17 | 17 | B.1.427 | 0.000858 |
ORF3a | 262 | P262L | cCa | cTa | 13 | 13 | AY.102 | 0.000345 |
ORF3a | 262 | P262L | cCa | cTa | 13 | 13 | AY.3 | 0.000129 |
ORF3a | 262 | P262L | cCa | cTa | 13 | 13 | D.5 | 0.064677 |
ORF3a | 262 | P262L | cCa | cTa | 12 | 12 | B.1.1.519 | 0.000477 |
ORF3a | 262 | P262L | cCa | cTa | 11 | 11 | B.1.617.2 | 0.000041 |
ORF3a | 262 | P262L | cCa | cTa | 11 | 11 | C.36 | 0.010018 |
ORF3a | 262 | P262L | cCa | cTa | 9 | 9 | P.1 | 0.000142 |
ORF3a | 262 | P262L | cCa | cTa | 8 | 8 | AY.29 | 0.000126 |
ORF3a | 262 | P262L | cCa | cTa | 6 | 6 | B.1.351 | 0.000178 |
ORF3a | 262 | P262L | cCa | cTa | 5 | 5 | AY.20 | 0.000194 |
ORF3a | 262 | P262L | cCa | cTa | 5 | 5 | AY.46.2 | 0.003177 |
ORF3a | 262 | P262L | cCa | cTa | 5 | 5 | AY.46.6 | 0.000361 |
ORF3a | 262 | P262L | cCa | cTa | 5 | 5 | B.1.139 | 0.003666 |
ORF3a | 262 | P262L | cCa | cTa | 4 | 4 | AY.39 | 0.000099 |
ORF3a | 262 | P262L | cCa | cTa | 4 | 4 | AY.47 | 0.000124 |
ORF3a | 262 | P262L | cCa | cTa | 4 | 4 | AY.98.1 | 0.000194 |
ORF3a | 262 | P262L | cCa | cTa | 4 | 4 | B.1.1 | 0.000073 |
ORF3a | 262 | P262L | cCa | cTa | 4 | 4 | B.1.526 | 0.000094 |
ORF3a | 262 | P262L | cCa | cTa | 4 | 4 | B.1.596 | 0.000349 |
ORF3a | 262 | P262L | cCa | cTa | 3 | 3 | AY.4.2 | 0.000065 |
ORF3a | 262 | P262L | cCa | cTa | 3 | 3 | B.1.221 | 0.000213 |
ORF3a | 262 | P262L | cCa | cTa | 3 | 3 | B.1.468 | 0.017143 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | AA.1 | 0.014493 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | AY.116 | 0.000574 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | AY.23 | 0.000139 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | AY.26 | 0.000057 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | AY.27 | 0.000129 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | AY.42 | 0.00008 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | AY.48 | 0.00093 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | AY.94 | 0.000885 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | B.1.1.26 | 0.010471 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | B.1.258.3 | 0.00335 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | B.1.409 | 0.001563 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | B.1.429 | 0.000047 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | B.1.499 | 0.002101 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | B.1.621 | 0.000177 |
ORF3a | 262 | P262L | cCa | cTa | 2 | 2 | R.1 | 0.00018 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | A.1 | 0.000282 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | A.23.1 | 0.000704 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AE.8 | 0.000489 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.1 | 0.000396 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.100 | 0.000046 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.107 | 0.000466 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.109 | 0.00074 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.114 | 0.000231 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.118 | 0.000063 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.119 | 0.000035 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.12 | 0.000316 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.13 | 0.000161 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.46.4 | 0.000165 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.5 | 0.000021 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.55 | 0.000917 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.62 | 0.000436 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.66 | 0.00107 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.75.1 | 0.00018 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.79 | 0.001211 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.91 | 0.00073 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.99 | 0.001049 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | AY.99.2 | 0.000092 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.1.1 | 0.000327 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.1.214 | 0.000055 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.1.222 | 0.000204 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.1.306 | 0.000438 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.1.317 | 0.000412 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.1.318 | 0.000302 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.1.70 | 0.000341 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.126 | 0.001276 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.160 | 0.000031 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.177.21 | 0.000076 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.23 | 0.006061 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.240 | 0.000216 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.260 | 0.003344 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.36.29 | 0.000517 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.565 | 0.00081 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.569 | 0.014493 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.595 | 0.000261 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.1.637 | 0.000073 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.40 | 0.000364 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | B.6 | 0.00091 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | D.2 | 0.000075 |
ORF3a | 262 | P262L | cCa | cTa | 1 | 1 | P.1.14 | 0.000048 |
ORF3a | 262 | P262L | cCa | cTa | 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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