CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF1ab/nsp5A-B : CodonNum = 241 & Codon = Tct
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/nsp5A-B | 241 | P241S | P3504S | nonsyn | Cct | Tct | 4350 | 4348 | 0.99954 | 10775-10777 |
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/nsp5A-B | 241 | P241S | Cct | Tct | 4348 | 4350 | All | 0.000832 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 3267 | 3267 | B.1.526 | 0.076789 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 424 | 424 | B.1.625 | 0.997647 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 225 | 225 | B.1.1.7 | 0.000201 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 55 | 55 | AY.4 | 0.000086 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 38 | 38 | B.1.1 | 0.000689 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 35 | 35 | B.1.617.2 | 0.000132 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 26 | 27 | B.1 | 0.000238 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 25 | 25 | B.1.497 | 0.007869 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 21 | 22 | AY.43 | 0.000093 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 17 | 17 | AY.103 | 0.000106 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 13 | 13 | B.1.2 | 0.000114 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 12 | 12 | AY.25 | 0.000072 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 12 | 12 | P.1 | 0.000189 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 11 | 11 | AY.44 | 0.000067 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 9 | 9 | B.1.258 | 0.000599 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 6 | 6 | AY.3 | 0.00006 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 6 | 6 | B.1.128 | 0.003812 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 6 | 6 | B.1.214 | 0.021978 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 6 | 6 | B.1.351 | 0.000178 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 6 | 6 | B.1.36 | 0.000875 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 6 | 6 | B.1.427 | 0.000303 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 5 | 5 | AY.23 | 0.000349 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 5 | 5 | AY.4.2 | 0.000108 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 5 | 5 | B.1.429 | 0.000118 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 5 | 5 | D.2 | 0.000375 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 4 | 4 | AY.39 | 0.000099 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 4 | 4 | AY.7.1 | 0.000451 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 4 | 4 | P.1.14 | 0.000191 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 3 | 3 | B.1.351.2 | 0.000908 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 3 | 3 | N.4 | 0.012766 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 3 | 3 | P.1.13 | 0.002695 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 3 | 3 | Q.8 | 0.000495 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.100 | 0.000092 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.119 | 0.000071 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.14 | 0.000176 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.20 | 0.000078 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.26 | 0.000057 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.27 | 0.000129 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.45 | 0.000243 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.47 | 0.000062 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.51 | 0.001818 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | AY.9.2 | 0.000073 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.1.214 | 0.000111 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.1.349 | 0.020619 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.110.3 | 0.001437 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.177 | 0.000026 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.177.73 | 0.001133 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.214.2 | 0.001199 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.560 | 0.009259 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.596 | 0.000174 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 2 | 2 | B.1.621 | 0.000177 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | A | 0.000387 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | A.23 | 0.010526 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | A.23.1 | 0.000704 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.102 | 0.000027 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.114 | 0.000231 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.120 | 0.000037 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.13 | 0.000161 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.29 | 0.000016 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.39.1 | 0.00004 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.4.2.1 | 0.000149 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.42 | 0.00004 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.46.2 | 0.000635 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.46.6 | 0.000072 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.5.4 | 0.000277 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.54 | 0.000095 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.59 | 0.00053 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.61 | 0.000105 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.68 | 0.000274 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.70 | 0.000209 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.75 | 0.000056 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | AY.85 | 0.000427 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.1.372 | 0.000689 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.1.432 | 0.001266 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.160 | 0.000031 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.160.14 | 0.002119 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.177.57 | 0.000281 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.177.65 | 0.000665 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.336 | 0.002439 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.36.16 | 0.001425 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.396 | 0.000706 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.577 | 0.000687 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.580 | 0.004065 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.590 | 0.004545 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.609 | 0.000479 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.1.619 | 0.000871 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | B.4 | 0.002208 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | C.18 | 0.002591 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | P.1.15 | 0.000232 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | P.1.7 | 0.000319 |
| ORF1ab/nsp5A-B | 241 | P241S | Cct | Tct | 1 | 1 | P.6 | 0.003145 |
 |
 |
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
|