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 |
ORF1ab/nsp3 | 1200 | P1200L | P2018L | nonsyn | cCa | cTa | 3106 | 2976 | 0.958145 | 6317-6319 |
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 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2976 | 3106 | All | 0.000569 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 854 | 877 | B.1.1.7 | 0.000765 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 431 | 431 | AY.4 | 0.000671 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 323 | 323 | B.1.177 | 0.004253 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 178 | 178 | B.1.1 | 0.003229 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 133 | 133 | B.1.351 | 0.003954 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 103 | 103 | AY.44 | 0.000627 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 78 | 78 | AY.119 | 0.002754 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 71 | 72 | AY.25 | 0.000427 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 70 | 70 | B.1.617.2 | 0.000264 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 62 | 62 | AY.3 | 0.000617 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 56 | 56 | D.5 | 0.278607 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 52 | 52 | B.1.2 | 0.000458 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 49 | 49 | AY.43 | 0.000217 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 46 | 46 | B.1 | 0.000421 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 41 | 41 | AY.103 | 0.000255 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 39 | 39 | AY.5 | 0.000805 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 37 | 37 | AY.29 | 0.000584 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 32 | 32 | B.1.429 | 0.000753 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 24 | 24 | B.1.396 | 0.016937 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 19 | 19 | AY.102 | 0.000504 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 19 | 19 | B.1.400 | 0.008151 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 17 | 17 | B.1.526 | 0.0004 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 13 | 13 | B.1.177.77 | 0.009441 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 10 | 10 | AY.39 | 0.000247 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 10 | 10 | AY.9.2 | 0.000367 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 10 | 10 | P.2 | 0.001866 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 8 | 8 | AY.10 | 0.00424 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 7 | 7 | AY.99.2 | 0.000645 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 7 | 7 | B.1.160 | 0.000218 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 7 | 7 | B.1.221 | 0.000497 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 7 | 7 | B.1.609 | 0.003356 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 6 | 6 | AY.36 | 0.000889 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 5 | 5 | AY.120 | 0.000186 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 5 | 5 | AY.26 | 0.000142 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 5 | 5 | AY.75 | 0.00028 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 4 | 4 | AY.23 | 0.000279 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 4 | 4 | AY.4.2 | 0.000087 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 4 | 4 | AY.4.5 | 0.00043 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 4 | 4 | AY.46 | 0.000416 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 4 | 4 | AY.47 | 0.000124 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 4 | 4 | B.1.1.519 | 0.000159 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 4 | 4 | D.2 | 0.0003 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 3 | 3 | AY.34.1 | 0.00153 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 3 | 3 | AY.40 | 0.002893 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 3 | 3 | B.1.1.241 | 0.006211 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 3 | 3 | B.1.177.32 | 0.004049 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 3 | 3 | B.1.258.17 | 0.000312 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 3 | 3 | B.1.565 | 0.002431 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 3 | 3 | C.37 | 0.000348 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AL.1 | 0.025974 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.14 | 0.000176 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.27 | 0.000129 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.39.1 | 0.000079 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.45 | 0.000243 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.61 | 0.00021 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.69 | 0.000373 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.85 | 0.000854 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | AY.95 | 0.001522 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | B | 0.000256 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 2 | B.1.177.6 | 0.000977 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | B.1.36.29 | 0.001035 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | B.1.409 | 0.001563 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | B.1.427 | 0.000101 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 2 | 2 | Q.8 | 0.00033 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AE.5 | 0.018519 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AW.1 | 0.003049 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.116.1 | 0.000311 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.120.2 | 0.001285 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.22 | 0.002092 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.29.1 | 0.000221 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.63 | 0.000387 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.71 | 0.000475 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.82 | 0.001357 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.174 | 0.003378 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.186 | 0.003436 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.189 | 0.001513 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.227 | 0.004348 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.262 | 0.015152 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.316 | 0.000925 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.1.8 | 0.003584 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.177.15 | 0.000631 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.177.45 | 0.000381 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.177.53 | 0.002392 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.232 | 0.000537 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.36.17 | 0.000494 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.402 | 0.009804 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.459 | 0.004082 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.521 | 0.004975 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | B.39 | 0.002331 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | C.35 | 0.000774 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | L.3 | 0.003546 |
ORF1ab/nsp3 | 1200 | P1200L | cCa | cTa | 1 | 1 | P.3 | 0.001595 |
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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