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 | 1247 | N1247S | N2065S | nonsyn | aAt | aGt | 868 | 867 | 0.998848 | 6458-6460 |
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 | 1247 | N1247S | aAt | aGt | 867 | 868 | All | 0.000166 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 144 | 144 | B.1.1.519 | 0.005718 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 112 | 112 | B.1.1.7 | 0.0001 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 107 | 107 | AY.43 | 0.000474 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 40 | 41 | B.1.2 | 0.000352 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 32 | 32 | AY.29 | 0.000505 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 32 | 32 | B.1.177 | 0.000421 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 30 | 30 | B.1.351.5 | 0.017986 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 22 | 22 | AY.4 | 0.000034 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 19 | 19 | B.1.617.2 | 0.000072 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 18 | 18 | AY.103 | 0.000112 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 18 | 18 | AY.25 | 0.000108 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 17 | 17 | P.1.16 | 0.00636 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 15 | 15 | B.1.351 | 0.000446 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 14 | 14 | AY.47 | 0.000435 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 13 | 13 | AY.3 | 0.000129 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 13 | 13 | B.1.429 | 0.000306 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 13 | 13 | P.1 | 0.000205 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 12 | 12 | B.1.160 | 0.000374 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 10 | 10 | AY.44 | 0.000061 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 10 | 10 | B.1.149 | 0.034247 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 9 | 9 | AY.5 | 0.000186 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 8 | 8 | AY.57 | 0.005249 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 8 | 8 | B.1.1.25 | 0.004548 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 6 | 6 | AY.14 | 0.000528 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 6 | 6 | AY.9.2 | 0.00022 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 6 | 6 | B.1 | 0.000055 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 6 | 6 | B.1.234 | 0.000792 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 6 | 6 | B.1.526 | 0.000141 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 4 | 4 | AY.54 | 0.000381 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 4 | 4 | B | 0.000511 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | AY.120 | 0.000112 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | AY.20 | 0.000117 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | AY.39 | 0.000074 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | AY.7.1 | 0.000338 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | B.1.1 | 0.000054 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | B.1.1.33 | 0.001263 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | B.1.621 | 0.000266 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | B.1.637 | 0.000219 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 3 | 3 | C.37 | 0.000348 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.113 | 0.000285 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.116 | 0.000574 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.117 | 0.000169 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.13 | 0.000322 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.16.1 | 0.00094 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.26 | 0.000057 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.29.1 | 0.000441 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.4.2 | 0.000043 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.46 | 0.000208 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.75 | 0.000112 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.9 | 0.000135 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | AY.99 | 0.002099 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | B.1.1.28 | 0.000622 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | B.1.177.81 | 0.000379 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | B.1.36 | 0.000292 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | B.1.438.1 | 0.000215 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | B.1.524 | 0.002813 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | B.1.609 | 0.000959 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 2 | 2 | N.5 | 0.003534 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | A | 0.000387 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AE.3 | 0.032258 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AE.8 | 0.000489 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.116.1 | 0.000311 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.56 | 0.001605 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.7 | 0.000196 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.73 | 0.000665 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.1.269 | 0.001353 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.1.317 | 0.000412 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.1.525 | 0.005464 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.1.63 | 0.000386 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.206 | 0.000816 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.260 | 0.003344 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.349 | 0.000715 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.351.2 | 0.000303 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.36.1 | 0.00114 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.385 | 0.010638 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.426 | 0.001009 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.499 | 0.00105 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 1 | 1 | Q.8 | 0.000165 |
ORF1ab/nsp3 | 1247 | N1247S | aAt | aGt | 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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