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 |
E | 30 | T30I | nonsyn | aCa | aTa | 990 | 990 | 1 | 26332-26334 |
Details of the mutation T30I 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 |
E | 30 | T30I | aCa | aTa | 990 | 990 | All | 0.000189 |
E | 30 | T30I | aCa | aTa | 196 | 196 | B.1.1.7 | 0.000175 |
E | 30 | T30I | aCa | aTa | 71 | 71 | B.1 | 0.00065 |
E | 30 | T30I | aCa | aTa | 71 | 71 | B.1.351 | 0.002111 |
E | 30 | T30I | aCa | aTa | 53 | 53 | B.1.2 | 0.000467 |
E | 30 | T30I | aCa | aTa | 44 | 44 | B.1.1 | 0.000798 |
E | 30 | T30I | aCa | aTa | 41 | 41 | B.1.616 | 1 |
E | 30 | T30I | aCa | aTa | 37 | 37 | B.1.160 | 0.001154 |
E | 30 | T30I | aCa | aTa | 37 | 37 | B.1.177 | 0.000487 |
E | 30 | T30I | aCa | aTa | 33 | 33 | AY.4 | 0.000051 |
E | 30 | T30I | aCa | aTa | 30 | 30 | B.1.258 | 0.001996 |
E | 30 | T30I | aCa | aTa | 18 | 18 | B.1.221 | 0.001279 |
E | 30 | T30I | aCa | aTa | 16 | 16 | B.1.617.2 | 0.00006 |
E | 30 | T30I | aCa | aTa | 12 | 12 | AY.43 | 0.000053 |
E | 30 | T30I | aCa | aTa | 12 | 12 | P.1 | 0.000189 |
E | 30 | T30I | aCa | aTa | 11 | 11 | B.1.1.284 | 0.001181 |
E | 30 | T30I | aCa | aTa | 11 | 11 | B.1.243 | 0.000765 |
E | 30 | T30I | aCa | aTa | 10 | 10 | AY.3 | 0.000099 |
E | 30 | T30I | aCa | aTa | 10 | 10 | B | 0.001278 |
E | 30 | T30I | aCa | aTa | 10 | 10 | B.1.429 | 0.000235 |
E | 30 | T30I | aCa | aTa | 7 | 7 | B.1.1.214 | 0.000388 |
E | 30 | T30I | aCa | aTa | 7 | 7 | B.1.486 | 0.777778 |
E | 30 | T30I | aCa | aTa | 6 | 6 | B.1.351.2 | 0.001815 |
E | 30 | T30I | aCa | aTa | 5 | 5 | AY.100 | 0.00023 |
E | 30 | T30I | aCa | aTa | 5 | 5 | AY.103 | 0.000031 |
E | 30 | T30I | aCa | aTa | 5 | 5 | B.1.320 | 0.006227 |
E | 30 | T30I | aCa | aTa | 4 | 4 | AB.1 | 0.032787 |
E | 30 | T30I | aCa | aTa | 4 | 4 | AY.44 | 0.000024 |
E | 30 | T30I | aCa | aTa | 4 | 4 | B.1.1.1 | 0.001307 |
E | 30 | T30I | aCa | aTa | 4 | 4 | B.1.1.519 | 0.000159 |
E | 30 | T30I | aCa | aTa | 4 | 4 | B.1.526 | 0.000094 |
E | 30 | T30I | aCa | aTa | 4 | 4 | D.2 | 0.0003 |
E | 30 | T30I | aCa | aTa | 3 | 3 | AY.102 | 0.00008 |
E | 30 | T30I | aCa | aTa | 3 | 3 | AY.111 | 0.000549 |
E | 30 | T30I | aCa | aTa | 3 | 3 | AY.25 | 0.000018 |
E | 30 | T30I | aCa | aTa | 3 | 3 | AY.39 | 0.000074 |
E | 30 | T30I | aCa | aTa | 3 | 3 | AY.46.2 | 0.001906 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.1.1.269 | 0.00406 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.1.1.369 | 0.001339 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.1.1.39 | 0.001529 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.1.165 | 0.035714 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.1.258.16 | 0.00491 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.1.319 | 0.009146 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.1.596 | 0.000261 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.1.621 | 0.000266 |
E | 30 | T30I | aCa | aTa | 3 | 3 | B.3 | 0.002492 |
E | 30 | T30I | aCa | aTa | 2 | 2 | A | 0.000774 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AH.3 | 0.007605 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.23 | 0.000139 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.29 | 0.000032 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.36 | 0.000296 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.42 | 0.00008 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.45 | 0.000243 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.46.4 | 0.000329 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.6 | 0.000082 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.69 | 0.000373 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.9 | 0.000135 |
E | 30 | T30I | aCa | aTa | 2 | 2 | AY.98.1 | 0.000097 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.1.25 | 0.001137 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.1.380 | 0.019608 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.1.385 | 0.008929 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.104 | 0.00738 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.177.15 | 0.001262 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.177.17 | 0.001642 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.177.19 | 0.002861 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.177.50 | 0.00939 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.177.85 | 0.01087 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.222 | 0.003384 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.240 | 0.000431 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.332 | 0.006993 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.343 | 0.041667 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.36 | 0.000292 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.400 | 0.000858 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.427 | 0.000101 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.497 | 0.00063 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.517 | 0.000854 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.1.595 | 0.000522 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.29 | 0.007018 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.4 | 0.004415 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.55 | 0.0059 |
E | 30 | T30I | aCa | aTa | 2 | 2 | B.58 | 0.020408 |
E | 30 | T30I | aCa | aTa | 1 | 1 | 0.055556 | |
E | 30 | T30I | aCa | aTa | 1 | 1 | A.2 | 0.000662 |
E | 30 | T30I | aCa | aTa | 1 | 1 | A.3 | 0.002096 |
E | 30 | T30I | aCa | aTa | 1 | 1 | A.5 | 0.001923 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AD.2 | 0.000219 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AE.8 | 0.000489 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AP.1 | 0.001502 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AU.1 | 0.001266 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.113 | 0.000142 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.119 | 0.000035 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.120.2.1 | 0.000498 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.16.1 | 0.00047 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.2 | 0.000356 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.20 | 0.000039 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.26 | 0.000028 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.39.1 | 0.00004 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.46.6 | 0.000072 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.47 | 0.000031 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.5 | 0.000021 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.5.3 | 0.000337 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.54 | 0.000095 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.62 | 0.000436 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.7.1 | 0.000113 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.7.2 | 0.000559 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.71 | 0.000475 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.74 | 0.000116 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.79 | 0.001211 |
E | 30 | T30I | aCa | aTa | 1 | 1 | AY.9.2 | 0.000037 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.129 | 0.009174 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.141 | 0.002012 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.170 | 0.001247 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.186 | 0.003436 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.207 | 0.001182 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.216 | 0.00089 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.225 | 0.007194 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.277 | 0.000759 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.317 | 0.000412 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.336 | 0.016667 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.34 | 0.013158 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.37 | 0.000193 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.401 | 0.066667 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.417 | 0.002703 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.464 | 0.001473 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.1.482 | 0.023256 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.146 | 0.004237 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.159 | 0.012195 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.160.16 | 0.000929 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.18 | 0.00116 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.21 | 0.000076 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.23 | 0.003236 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.4 | 0.000211 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.45 | 0.000381 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.46 | 0.000918 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.53 | 0.002392 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.7 | 0.000165 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.81 | 0.000189 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.86 | 0.000183 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.177.9 | 0.001332 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.179 | 0.003759 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.232 | 0.000537 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.234 | 0.000132 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.241 | 0.000812 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.258.19 | 0.007092 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.279 | 0.000514 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.3 | 0.002618 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.311 | 0.000275 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.346 | 0.001311 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.351.3 | 0.000876 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.356 | 0.001727 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.36.10 | 0.004785 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.36.18 | 0.00042 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.36.29 | 0.000517 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.36.8 | 0.001 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.389 | 0.001002 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.396 | 0.000706 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.438.1 | 0.000107 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.439 | 0.005917 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.509 | 0.000866 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.525 | 0.000113 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.558 | 0.004566 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.567 | 0.003333 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.576 | 0.000907 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.582 | 0.000491 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.588 | 0.00091 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.599 | 0.00365 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.623 | 0.000536 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.1.637 | 0.000073 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.27 | 0.015385 |
E | 30 | T30I | aCa | aTa | 1 | 1 | B.47 | 0.020408 |
E | 30 | T30I | aCa | aTa | 1 | 1 | C.11 | 0.010638 |
E | 30 | T30I | aCa | aTa | 1 | 1 | C.3 | 0.007634 |
E | 30 | T30I | aCa | aTa | 1 | 1 | C.30 | 0.001727 |
E | 30 | T30I | aCa | aTa | 1 | 1 | C.37 | 0.000116 |
E | 30 | T30I | aCa | aTa | 1 | 1 | P.1.1 | 0.000318 |
E | 30 | T30I | aCa | aTa | 1 | 1 | P.1.14 | 0.000048 |
E | 30 | T30I | aCa | aTa | 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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