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 |
N | 80 | P80R | nonsyn | cCa | cGa | 114785 | 114772 | 0.999887 | 28511-28513 | |
N | 80 | P80R | nonsyn | cCA | cGC | 114785 | 10 | 0.0000871194 | 28511-28513 | |
N | 80 | P80R | nonsyn | cCA | cGG | 114785 | 3 | 0.0000261358 | 28511-28513 |
Details of the mutation P80R 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 |
N | 80 | P80R | cCa | cGa | 114772 | 114785 | All | 0.021952 |
N | 80 | P80R | cCA | cGC | 10 | 114785 | All | 0.000002 |
N | 80 | P80R | cCA | cGG | 3 | 114785 | All | 0.000001 |
N | 80 | P80R | cCa | cGa | 62802 | 62815 | P.1 | 0.989382 |
N | 80 | P80R | cCA | cGC | 10 | 62815 | P.1 | 0.000158 |
N | 80 | P80R | cCA | cGG | 3 | 62815 | P.1 | 0.000047 |
N | 80 | P80R | cCa | cGa | 20880 | 20880 | P.1.14 | 0.998088 |
N | 80 | P80R | cCa | cGa | 6154 | 6154 | P.1.17 | 0.995471 |
N | 80 | P80R | cCa | cGa | 4270 | 4270 | P.1.15 | 0.9921 |
N | 80 | P80R | cCa | cGa | 3683 | 3683 | P.1.10 | 0.992455 |
N | 80 | P80R | cCa | cGa | 3102 | 3102 | P.1.7 | 0.990421 |
N | 80 | P80R | cCa | cGa | 3048 | 3048 | P.1.1 | 0.968234 |
N | 80 | P80R | cCa | cGa | 2611 | 2611 | P.1.16 | 0.976805 |
N | 80 | P80R | cCa | cGa | 1918 | 1918 | P.1.12 | 0.928364 |
N | 80 | P80R | cCa | cGa | 1138 | 1138 | P.1.17.1 | 0.995626 |
N | 80 | P80R | cCa | cGa | 1105 | 1105 | P.1.13 | 0.992812 |
N | 80 | P80R | cCa | cGa | 1023 | 1023 | P.1.4 | 0.999023 |
N | 80 | P80R | cCa | cGa | 863 | 863 | P.1.2 | 0.997688 |
N | 80 | P80R | cCa | cGa | 510 | 510 | P.1.6 | 0.992218 |
N | 80 | P80R | cCa | cGa | 209 | 209 | P.1.8 | 1 |
N | 80 | P80R | cCa | cGa | 207 | 207 | P.1.9 | 0.995192 |
N | 80 | P80R | cCa | cGa | 189 | 189 | B.1.630 | 0.989529 |
N | 80 | P80R | cCa | cGa | 185 | 185 | B.1 | 0.001695 |
N | 80 | P80R | cCa | cGa | 163 | 163 | B.1.1 | 0.002957 |
N | 80 | P80R | cCa | cGa | 112 | 112 | P.1.10.1 | 0.910569 |
N | 80 | P80R | cCa | cGa | 98 | 98 | P.1.11 | 1 |
N | 80 | P80R | cCa | cGa | 47 | 47 | B.1.177.35 | 0.032481 |
N | 80 | P80R | cCa | cGa | 37 | 37 | B.1.1.528 | 0.177885 |
N | 80 | P80R | cCa | cGa | 29 | 29 | P.1.3 | 1 |
N | 80 | P80R | cCa | cGa | 27 | 27 | C.37 | 0.003134 |
N | 80 | P80R | cCa | cGa | 25 | 25 | C.1.2 | 0.106383 |
N | 80 | P80R | cCa | cGa | 24 | 24 | B.1.1.28 | 0.00747 |
N | 80 | P80R | cCa | cGa | 24 | 24 | P.1.10.2 | 1 |
N | 80 | P80R | cCa | cGa | 17 | 17 | B.1.160 | 0.00053 |
N | 80 | P80R | cCa | cGa | 15 | 15 | B.1.177 | 0.000198 |
N | 80 | P80R | cCa | cGa | 13 | 13 | B.1.1.7 | 0.000012 |
N | 80 | P80R | cCa | cGa | 13 | 13 | P.1.5 | 1 |
N | 80 | P80R | cCa | cGa | 12 | 12 | B.1.1.519 | 0.000477 |
N | 80 | P80R | cCa | cGa | 11 | 11 | AY.103 | 0.000068 |
N | 80 | P80R | cCa | cGa | 11 | 11 | B.1.429 | 0.000259 |
N | 80 | P80R | cCa | cGa | 9 | 9 | B.1.214.2 | 0.005396 |
N | 80 | P80R | cCa | cGa | 9 | 9 | B.1.349 | 0.006433 |
N | 80 | P80R | cCa | cGa | 8 | 8 | A.2.5 | 0.003992 |
N | 80 | P80R | cCa | cGa | 6 | 6 | AY.3 | 0.00006 |
N | 80 | P80R | cCa | cGa | 6 | 6 | AY.43 | 0.000027 |
N | 80 | P80R | cCa | cGa | 6 | 6 | B.1.351 | 0.000178 |
N | 80 | P80R | cCa | cGa | 6 | 6 | B.1.398 | 0.017857 |
N | 80 | P80R | cCa | cGa | 6 | 6 | B.1.617.2 | 0.000023 |
N | 80 | P80R | cCa | cGa | 5 | 5 | AY.44 | 0.00003 |
N | 80 | P80R | cCa | cGa | 5 | 5 | B.1.596 | 0.000436 |
N | 80 | P80R | cCa | cGa | 4 | 4 | B | 0.000511 |
N | 80 | P80R | cCa | cGa | 4 | 4 | B.1.1.523 | 0.00625 |
N | 80 | P80R | cCa | cGa | 4 | 4 | B.1.526 | 0.000094 |
N | 80 | P80R | cCa | cGa | 4 | 4 | B.1.621 | 0.000354 |
N | 80 | P80R | cCa | cGa | 4 | 4 | C.37.1 | 0.010471 |
N | 80 | P80R | cCa | cGa | 3 | 3 | B.1.1.161 | 0.010601 |
N | 80 | P80R | cCa | cGa | 3 | 3 | B.1.1.220 | 0.005576 |
N | 80 | P80R | cCa | cGa | 3 | 3 | B.1.1.372 | 0.002066 |
N | 80 | P80R | cCa | cGa | 3 | 3 | B.1.1.507 | 0.026087 |
N | 80 | P80R | cCa | cGa | 3 | 3 | B.1.221 | 0.000213 |
N | 80 | P80R | cCa | cGa | 3 | 3 | B.1.234 | 0.000396 |
N | 80 | P80R | cCa | cGa | 3 | 3 | C.36.3.1 | 0.008152 |
N | 80 | P80R | cCa | cGa | 3 | 3 | P.2 | 0.00056 |
N | 80 | P80R | cCa | cGa | 2 | 2 | AY.101 | 0.000981 |
N | 80 | P80R | cCa | cGa | 2 | 2 | AY.102 | 0.000053 |
N | 80 | P80R | cCa | cGa | 2 | 2 | AY.20 | 0.000078 |
N | 80 | P80R | cCa | cGa | 2 | 2 | AY.23 | 0.000139 |
N | 80 | P80R | cCa | cGa | 2 | 2 | AY.63 | 0.000774 |
N | 80 | P80R | cCa | cGa | 2 | 2 | AY.9.2 | 0.000073 |
N | 80 | P80R | cCa | cGa | 2 | 2 | AZ.1 | 0.001735 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.1.117 | 0.019417 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.1.348 | 0.001592 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.1.409 | 0.005666 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.177.7 | 0.00033 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.177.73 | 0.001133 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.2 | 0.000018 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.241 | 0.001623 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.311 | 0.000549 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.324 | 0.00321 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.369 | 0.00057 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.524 | 0.002813 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.533 | 0.019231 |
N | 80 | P80R | cCa | cGa | 2 | 2 | B.1.623 | 0.001073 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.108 | 0.001103 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.120.2 | 0.001285 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.13 | 0.000161 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.16.1 | 0.00047 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.2 | 0.000356 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.25 | 0.000006 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.35 | 0.000233 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.39 | 0.000025 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.39.1 | 0.00004 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.4 | 0.000002 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.4.5 | 0.000107 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.47 | 0.000031 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.5 | 0.000021 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.61 | 0.000105 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.62 | 0.000436 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.75.1 | 0.00018 |
N | 80 | P80R | cCa | cGa | 1 | 1 | AY.99.2 | 0.000092 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.121 | 0.002427 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.198 | 0.001468 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.236 | 0.006897 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.265 | 0.003155 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.294 | 0.001266 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.306 | 0.000438 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.33 | 0.000421 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.54 | 0.003021 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.1.99 | 0.02381 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.111 | 0.001175 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.170 | 0.00431 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.177.42 | 0.000894 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.179 | 0.003759 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.214 | 0.003663 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.236 | 0.002053 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.36 | 0.000146 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.367 | 0.000792 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.415 | 0.014286 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.497 | 0.000315 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.575 | 0.000303 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.609 | 0.000479 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.620 | 0.000946 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.636 | 0.006711 |
N | 80 | P80R | cCa | cGa | 1 | 1 | B.1.637 | 0.000073 |
N | 80 | P80R | cCa | cGa | 1 | 1 | C.13 | 0.025641 |
N | 80 | P80R | cCa | cGa | 1 | 1 | D.2 | 0.000075 |
N | 80 | P80R | cCa | cGa | 1 | 1 | P.4 | 0.003802 |
N | 80 | P80R | cCa | cGa | 1 | 1 | P.7 | 0.004367 |
N | 80 | P80R | cCa | cGa | 1 | 1 | Q.1 | 0.000126 |
N | 80 | P80R | cCa | cGa | 1 | 1 | Q.8 | 0.000165 |
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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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