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 | 8 | N8N | syn | aaT | aaC | 2798 | 2798 | 1 | 28295-28297 |
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 |
N | 8 | N8N | aaT | aaC | 2798 | 2798 | All | 0.000535 |
N | 8 | N8N | aaT | aaC | 971 | 971 | B.1.620 | 0.918638 |
N | 8 | N8N | aaT | aaC | 560 | 560 | AY.40 | 0.540019 |
N | 8 | N8N | aaT | aaC | 171 | 171 | B.1.1.7 | 0.000153 |
N | 8 | N8N | aaT | aaC | 141 | 141 | AY.25 | 0.000848 |
N | 8 | N8N | aaT | aaC | 132 | 132 | AY.38 | 0.065901 |
N | 8 | N8N | aaT | aaC | 107 | 107 | AY.4 | 0.000167 |
N | 8 | N8N | aaT | aaC | 62 | 62 | B.1 | 0.000568 |
N | 8 | N8N | aaT | aaC | 57 | 57 | AY.44 | 0.000347 |
N | 8 | N8N | aaT | aaC | 45 | 45 | B.1.2 | 0.000396 |
N | 8 | N8N | aaT | aaC | 41 | 41 | B.1.616 | 1 |
N | 8 | N8N | aaT | aaC | 39 | 39 | B.1.351.2 | 0.0118 |
N | 8 | N8N | aaT | aaC | 36 | 36 | B.1.617.2 | 0.000136 |
N | 8 | N8N | aaT | aaC | 22 | 22 | B.1.576 | 0.019946 |
N | 8 | N8N | aaT | aaC | 22 | 22 | C.37 | 0.002553 |
N | 8 | N8N | aaT | aaC | 19 | 19 | AY.103 | 0.000118 |
N | 8 | N8N | aaT | aaC | 18 | 18 | B.1.526 | 0.000423 |
N | 8 | N8N | aaT | aaC | 17 | 17 | AY.43 | 0.000075 |
N | 8 | N8N | aaT | aaC | 15 | 15 | AY.29 | 0.000237 |
N | 8 | N8N | aaT | aaC | 14 | 14 | AY.75 | 0.000784 |
N | 8 | N8N | aaT | aaC | 14 | 14 | B.4.8 | 1 |
N | 8 | N8N | aaT | aaC | 13 | 13 | AY.42 | 0.000523 |
N | 8 | N8N | aaT | aaC | 13 | 13 | AY.7.1 | 0.001465 |
N | 8 | N8N | aaT | aaC | 11 | 11 | B.1.427 | 0.000555 |
N | 8 | N8N | aaT | aaC | 10 | 10 | AY.102 | 0.000265 |
N | 8 | N8N | aaT | aaC | 10 | 10 | B.1.1 | 0.000181 |
N | 8 | N8N | aaT | aaC | 10 | 10 | B.1.1.243 | 0.040816 |
N | 8 | N8N | aaT | aaC | 9 | 9 | B.1.177 | 0.000119 |
N | 8 | N8N | aaT | aaC | 9 | 9 | P.1.7 | 0.002874 |
N | 8 | N8N | aaT | aaC | 8 | 8 | B.1.258 | 0.000532 |
N | 8 | N8N | aaT | aaC | 7 | 7 | AY.39 | 0.000173 |
N | 8 | N8N | aaT | aaC | 7 | 7 | B.1.429 | 0.000165 |
N | 8 | N8N | aaT | aaC | 6 | 6 | AY.100 | 0.000276 |
N | 8 | N8N | aaT | aaC | 6 | 6 | AY.14 | 0.000528 |
N | 8 | N8N | aaT | aaC | 6 | 6 | AY.23 | 0.000418 |
N | 8 | N8N | aaT | aaC | 6 | 6 | AY.26 | 0.00017 |
N | 8 | N8N | aaT | aaC | 5 | 5 | AY.118 | 0.000313 |
N | 8 | N8N | aaT | aaC | 5 | 5 | AY.47 | 0.000156 |
N | 8 | N8N | aaT | aaC | 5 | 5 | AY.5 | 0.000103 |
N | 8 | N8N | aaT | aaC | 5 | 5 | C.38 | 0.040323 |
N | 8 | N8N | aaT | aaC | 4 | 4 | AY.53 | 0.00115 |
N | 8 | N8N | aaT | aaC | 4 | 4 | AY.69 | 0.000747 |
N | 8 | N8N | aaT | aaC | 4 | 4 | B | 0.000511 |
N | 8 | N8N | aaT | aaC | 4 | 4 | B.1.1.318 | 0.001207 |
N | 8 | N8N | aaT | aaC | 4 | 4 | B.1.575 | 0.001214 |
N | 8 | N8N | aaT | aaC | 4 | 4 | B.1.596 | 0.000349 |
N | 8 | N8N | aaT | aaC | 3 | 3 | A | 0.001161 |
N | 8 | N8N | aaT | aaC | 3 | 3 | AY.119 | 0.000106 |
N | 8 | N8N | aaT | aaC | 3 | 3 | AY.24 | 0.001293 |
N | 8 | N8N | aaT | aaC | 3 | 3 | AY.3 | 0.00003 |
N | 8 | N8N | aaT | aaC | 3 | 3 | AY.39.1 | 0.000119 |
N | 8 | N8N | aaT | aaC | 3 | 3 | AY.99.2 | 0.000276 |
N | 8 | N8N | aaT | aaC | 3 | 3 | B.1.1.157 | 0.00274 |
N | 8 | N8N | aaT | aaC | 3 | 3 | B.1.160 | 0.000094 |
N | 8 | N8N | aaT | aaC | 3 | 3 | B.1.36 | 0.000438 |
N | 8 | N8N | aaT | aaC | 3 | 3 | B.1.617.1 | 0.000387 |
N | 8 | N8N | aaT | aaC | 3 | 3 | B.6 | 0.00273 |
N | 8 | N8N | aaT | aaC | 3 | 3 | Q.1 | 0.000379 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.107 | 0.000932 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.114 | 0.000462 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.121 | 0.000271 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.20 | 0.000078 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.4.2 | 0.000043 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.46.5 | 0.000397 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.55 | 0.001835 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.61 | 0.00021 |
N | 8 | N8N | aaT | aaC | 2 | 2 | AY.9.2 | 0.000073 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.1.333 | 0.002153 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.1.351 | 0.005587 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.1.519 | 0.000079 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.221 | 0.000142 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.258.17 | 0.000208 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.561 | 0.000794 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.565 | 0.001621 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.575.1 | 0.004878 |
N | 8 | N8N | aaT | aaC | 2 | 2 | B.1.621 | 0.000177 |
N | 8 | N8N | aaT | aaC | 2 | 2 | P.1.12 | 0.000968 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.113 | 0.000142 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.120 | 0.000037 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.23.1 | 0.000417 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.35 | 0.000233 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.4.2.1 | 0.000149 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.4.4 | 0.000409 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.45 | 0.000122 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.54 | 0.000095 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.56 | 0.001605 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.58 | 0.000907 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.6 | 0.000041 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.62 | 0.000436 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.77 | 0.001127 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.95 | 0.000761 |
N | 8 | N8N | aaT | aaC | 1 | 1 | AY.98 | 0.000079 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.214 | 0.000055 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.241 | 0.00207 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.28 | 0.000311 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.291 | 0.000742 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.306 | 0.000438 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.33 | 0.000421 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.39 | 0.00051 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.420 | 0.001006 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.1.523 | 0.001563 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.157 | 0.002985 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.160.14 | 0.002119 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.160.16 | 0.000929 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.177.57 | 0.000281 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.243 | 0.00007 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.336 | 0.002439 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.349 | 0.000715 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.356 | 0.001727 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.36.17 | 0.000494 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.400 | 0.000429 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.470 | 0.001404 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.517 | 0.000427 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.609 | 0.000479 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.628 | 0.000352 |
N | 8 | N8N | aaT | aaC | 1 | 1 | B.1.93 | 0.000934 |
N | 8 | N8N | aaT | aaC | 1 | 1 | C.36 | 0.000911 |
N | 8 | N8N | aaT | aaC | 1 | 1 | C.36.3.1 | 0.002717 |
N | 8 | N8N | aaT | aaC | 1 | 1 | D.2 | 0.000075 |
N | 8 | N8N | aaT | aaC | 1 | 1 | P.1 | 0.000016 |
N | 8 | N8N | aaT | aaC | 1 | 1 | P.1.17 | 0.000162 |
N | 8 | N8N | aaT | aaC | 1 | 1 | Q.8 | 0.000165 |
N | 8 | N8N | aaT | aaC | 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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