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/nsp4 | 371 | P371S | P3134S | nonsyn | Cct | Tct | 1619 | 1618 | 0.999382 | 9665-9667 |
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/nsp4 | 371 | P371S | Cct | Tct | 1618 | 1619 | All | 0.000309 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 349 | 349 | AY.25 | 0.002099 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 215 | 215 | B.1.2 | 0.001893 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 135 | 135 | B.1.1.7 | 0.000121 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 102 | 102 | AY.4 | 0.000159 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 90 | 90 | B.1.617.2 | 0.000339 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 74 | 74 | AY.44 | 0.00045 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 54 | 54 | AY.103 | 0.000335 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 41 | 41 | AY.3 | 0.000408 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 40 | 40 | AY.102 | 0.001061 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 34 | 34 | B.1.160 | 0.00106 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 30 | 30 | B.1.1.519 | 0.001191 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 28 | 28 | AY.95 | 0.021309 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 25 | 25 | B.1.1 | 0.000454 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 23 | 23 | AY.43 | 0.000102 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 21 | 21 | B.1.177 | 0.000277 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 19 | 19 | AY.39 | 0.00047 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 19 | 19 | AY.98 | 0.001501 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 18 | 18 | AY.29 | 0.000284 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 18 | 18 | B.1.234 | 0.002375 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 15 | 15 | AY.4.2 | 0.000325 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 13 | 14 | AY.5 | 0.000268 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 12 | 12 | B.1 | 0.00011 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 12 | 12 | B.1.243 | 0.000835 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 12 | 12 | B.1.346 | 0.015727 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 11 | 11 | AY.119 | 0.000388 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 11 | 11 | AY.26 | 0.000311 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 10 | 10 | AY.120 | 0.000372 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 10 | 10 | AY.46 | 0.001041 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 10 | 10 | P.1 | 0.000158 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 8 | 8 | AY.42 | 0.000322 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 7 | 7 | AY.100 | 0.000322 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 6 | 6 | AY.33 | 0.000401 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 6 | 6 | AY.98.1 | 0.000291 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 5 | 5 | AY.75 | 0.00028 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 4 | 4 | AY.1 | 0.001583 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 4 | 4 | AY.20 | 0.000155 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 4 | 4 | AY.70 | 0.000834 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 4 | 4 | B.1.429 | 0.000094 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 4 | 4 | C.36.3 | 0.002269 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 3 | 3 | AY.12 | 0.000948 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 3 | 3 | AY.5.4 | 0.00083 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 3 | 3 | AY.6 | 0.000123 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 3 | 3 | AY.9 | 0.000203 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 3 | 3 | B.1.438.1 | 0.000322 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | AY.110 | 0.000225 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | AY.117 | 0.000169 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | AY.121 | 0.000271 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | AY.61 | 0.00021 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | AY.75.1 | 0.000361 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | AY.85 | 0.000854 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | AY.99.2 | 0.000184 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.1.118 | 0.020408 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.1.420 | 0.002012 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.258 | 0.000133 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.36 | 0.000292 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.369 | 0.00057 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.427 | 0.000101 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.551 | 0.002581 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.595 | 0.000522 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | C.37 | 0.000232 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | C.38 | 0.016129 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | P.7 | 0.008734 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 2 | 2 | Q.4 | 0.00091 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | 0.055556 | |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | A.24 | 0.071429 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | A.5 | 0.001923 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.116.1 | 0.000311 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.2 | 0.000356 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.29.1 | 0.000221 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.60 | 0.000938 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.7 | 0.000196 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.71 | 0.000475 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | AY.80 | 0.001129 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.311 | 0.000358 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.398 | 0.003226 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.111 | 0.001175 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.177.7 | 0.000165 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.177.80 | 0.001912 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.177.82 | 0.000477 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.180 | 0.05 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.239 | 0.001221 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.258.14 | 0.00098 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.36.18 | 0.00042 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.36.36 | 0.000602 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.480 | 0.002488 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.523 | 0.002451 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.620 | 0.000946 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.1.91 | 0.002075 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | P.1.10 | 0.000269 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp4 | 371 | P371S | Cct | Tct | 1 | 1 | P.1.7 | 0.000319 |
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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