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 | 1237 | P1237L | P2055L | nonsyn | cCt | cTt | 771 | 768 | 0.996109 | 6428-6430 |
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 | 1237 | P1237L | cCt | cTt | 768 | 771 | All | 0.000147 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 101 | 101 | B.1.2 | 0.000889 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 100 | 100 | P.1.15 | 0.023234 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 99 | 99 | B.1.1.7 | 0.000089 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 85 | 85 | AY.4 | 0.000132 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 46 | 46 | B.1.177 | 0.000606 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 26 | 26 | B.1.438.1 | 0.002789 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 23 | 23 | AY.3 | 0.000229 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 21 | 21 | B.1.617.2 | 0.000079 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 17 | 17 | B.1.617.1 | 0.002192 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 16 | 16 | AY.44 | 0.000097 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 16 | 16 | AY.74 | 0.00185 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 14 | 15 | P.1 | 0.000221 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 14 | 14 | B.1.1 | 0.000254 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 13 | 13 | B.1.1.70 | 0.004434 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 12 | 12 | AY.25 | 0.000072 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 10 | 10 | B.1.36 | 0.001459 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 9 | 9 | AY.46.6 | 0.00065 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 9 | 9 | B.1.429 | 0.000212 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 8 | 8 | AY.120.1 | 0.002568 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 8 | 8 | B.1 | 0.000073 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 7 | 7 | AY.43 | 0.000031 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 6 | 6 | B.1.1.207 | 0.007092 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 6 | 6 | B.1.1.306 | 0.00263 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 5 | 5 | AY.102 | 0.000133 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 5 | 5 | AY.13 | 0.000805 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 5 | 5 | C.37 | 0.00058 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 4 | 4 | AY.106 | 0.00134 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 4 | 4 | AY.29 | 0.000063 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 4 | AY.39 | 0.000049 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 4 | 4 | B.1.1.298 | 0.003448 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 3 | 3 | AY.111 | 0.000549 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 3 | 3 | B.1.1.318 | 0.000905 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 3 | 3 | B.1.396 | 0.002117 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 3 | 3 | D.2 | 0.000225 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | AY.109 | 0.001479 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | AY.6 | 0.000082 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | AY.61 | 0.00021 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | B.1.1.28 | 0.000622 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 2 | 2 | P.1.1 | 0.000635 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.1 | 0.000396 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.7 | 0.000196 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.1.121 | 0.002427 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.1.125 | 0.010204 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.1.176 | 0.000439 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.1.52 | 0.012195 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.103 | 0.019231 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.177.56 | 0.000668 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.177.60 | 0.000218 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.36.16 | 0.001425 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.36.36 | 0.000602 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.422 | 0.000812 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.470 | 0.001404 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.609 | 0.000479 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.620 | 0.000946 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | C.36.3 | 0.000567 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 1 | 1 | C.37.1 | 0.002618 |
ORF1ab/nsp3 | 1237 | P1237L | cCt | cTt | 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
|