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 | 108 | P108L | P926L | nonsyn | cCt | cTt | 614 | 610 | 0.993485 | 3041-3043 |
ORF1ab/nsp3 | 108 | P108L | P926L | nonsyn | cCT | cTC | 614 | 4 | 0.00651466 | 3041-3043 |
Details of the mutation P108L 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 | 108 | P108L | cCt | cTt | 610 | 614 | All | 0.000117 |
ORF1ab/nsp3 | 108 | P108L | cCT | cTC | 4 | 614 | All | 0.000001 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 124 | 124 | B.1.336 | 0.302439 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 108 | 108 | AY.46.6 | 0.007798 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 86 | 86 | B.1.1.7 | 0.000077 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 34 | 34 | AY.103 | 0.000211 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 21 | 21 | AY.4 | 0.000033 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 21 | 21 | B.1.617.2 | 0.000079 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 16 | 16 | AY.44 | 0.000097 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 14 | 14 | B.1.234 | 0.001847 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 14 | 14 | B.1.635 | 0.245614 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 13 | 13 | B.1.258 | 0.000865 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 12 | 12 | AY.91 | 0.008766 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 12 | 12 | B.1.1 | 0.000218 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 10 | 10 | B.1 | 0.000092 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 8 | 9 | AY.43 | 0.000035 |
ORF1ab/nsp3 | 108 | P108L | cCT | cTC | 1 | 9 | AY.43 | 0.000004 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 8 | 8 | B.1.177 | 0.000105 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 7 | 7 | B.1.429 | 0.000165 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 6 | 6 | B.1.1.158 | 0.073171 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 5 | 5 | AY.25 | 0.00003 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 4 | 5 | AY.3 | 0.00004 |
ORF1ab/nsp3 | 108 | P108L | cCT | cTC | 1 | 5 | AY.3 | 0.00001 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 4 | 4 | AY.47 | 0.000124 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 4 | 4 | B.1.1.317 | 0.001647 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 4 | 4 | B.1.311 | 0.001098 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 3 | 4 | D.2 | 0.000225 |
ORF1ab/nsp3 | 108 | P108L | cCT | cTC | 1 | 4 | D.2 | 0.000075 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 3 | 3 | B.1.2 | 0.000026 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | AY.27 | 0.000129 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | AY.4.2 | 0.000043 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | AY.75 | 0.000112 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.1.218 | 0.015385 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.1.270 | 0.020619 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.1.306 | 0.000877 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.258.17 | 0.000208 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.351.3 | 0.001753 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.36.18 | 0.00084 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.438.1 | 0.000215 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | A.28 | 0.002646 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AE.1 | 0.011364 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AJ.1 | 0.045455 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.105 | 0.000643 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.116.1 | 0.000311 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.67 | 0.000464 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.86 | 0.00083 |
ORF1ab/nsp3 | 108 | P108L | cCT | cTC | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.99 | 0.001049 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.1.1 | 0.000327 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.1.117 | 0.009709 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.1.263 | 0.001558 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.1.291 | 0.000742 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.1.298 | 0.000862 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.1.50 | 0.000679 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.177.87 | 0.000728 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.324 | 0.001605 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.351.2 | 0.000303 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.588 | 0.00091 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp3 | 108 | P108L | cCt | cTt | 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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