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/nsp2 | 200 | P200S | P380S | nonsyn | Cct | Tct | 2420 | 2418 | 0.999174 | 1403-1405 |
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/nsp2 | 200 | P200S | Cct | Tct | 2418 | 2420 | All | 0.000462 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1517 | 1517 | AY.57 | 0.995407 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 245 | 245 | B.1.1.7 | 0.000219 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 225 | 225 | AY.25 | 0.001353 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 33 | 33 | B.1.2 | 0.000291 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 30 | 30 | AY.4 | 0.000047 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 29 | 29 | B.1.177 | 0.000382 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 27 | 27 | B.1.617.2 | 0.000102 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 25 | 25 | B.1.359 | 0.568182 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 16 | 16 | B.1.177.18 | 0.018561 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 15 | 15 | AY.103 | 0.000093 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 14 | 14 | P.1.1 | 0.004447 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 13 | 13 | AY.6 | 0.000535 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 13 | 13 | B.1.429 | 0.000306 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 10 | 12 | AY.44 | 0.000061 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 12 | 12 | B.1.1.28 | 0.003735 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 11 | 11 | B.1 | 0.000101 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 9 | 9 | B.1.177.4 | 0.0019 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 7 | 7 | A.1 | 0.001973 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 7 | 7 | AY.75 | 0.000392 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 6 | 6 | B.1.258.17 | 0.000624 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 5 | 5 | AY.26 | 0.000142 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 5 | 5 | AY.43 | 0.000022 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 5 | 5 | AY.60 | 0.00469 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 5 | 5 | B.1.1.519 | 0.000199 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 5 | 5 | B.1.351 | 0.000149 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 5 | 5 | P.1 | 0.000079 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 4 | 4 | AY.29 | 0.000063 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 4 | 4 | AY.5 | 0.000083 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 4 | 4 | B.1.177.21 | 0.000306 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 4 | 4 | C.37 | 0.000464 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 3 | 3 | A.2.5 | 0.001497 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 3 | 3 | AY.3 | 0.00003 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 3 | 3 | AY.46.6 | 0.000217 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 3 | 3 | AY.62 | 0.001307 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 3 | 3 | AY.75.1 | 0.000541 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 3 | 3 | B.1.1.214 | 0.000166 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 3 | 3 | B.1.1.384 | 0.071429 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 3 | 3 | B.1.1.63 | 0.001157 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | AY.121 | 0.000271 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | AY.46.4 | 0.000329 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | AY.73 | 0.001331 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.1 | 0.000036 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.1.25 | 0.001137 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.1.284 | 0.000215 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.1.351 | 0.005587 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.1.397 | 0.004505 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.1.70 | 0.000682 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.234 | 0.000264 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.351.2 | 0.000605 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.36.18 | 0.00084 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.466.2 | 0.000782 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | B.1.561 | 0.000794 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | C.1 | 0.004785 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 2 | 2 | C.14 | 0.008658 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | A.23.1 | 0.000704 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.4.3 | 0.000842 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.4.4 | 0.000409 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.1.157 | 0.000913 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.1.317 | 0.000412 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.1.375 | 0.011905 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.1.398 | 0.003226 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.111 | 0.001175 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.160.17 | 0.001701 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.177.16 | 0.000664 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.177.42 | 0.000894 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.177.58 | 0.001332 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.210 | 0.002132 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.23 | 0.006061 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.258.11 | 0.000396 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.260 | 0.003344 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.36.31 | 0.001751 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.36.38 | 0.001642 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp2 | 200 | P200S | Cct | Tct | 1 | 1 | Q.8 | 0.000165 |
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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