CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : Mut = A558S

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORFCodonNumMutORF1abMutMutTypeRefCodonMutCodonAACountCodonCountCodonPropGenome Position
ORF1ab/nsp12558A558SA4950SnonsynGctTct82730.89024415112-15114
ORF1ab/nsp12558A558SA4950SnonsynGCtAGt8230.036585415112-15114
ORF1ab/nsp12558A558SA4950SnonsynGcTTcC8220.024390215112-15114
ORF1ab/nsp12558A558SA4950SnonsynGCTAGC8220.024390215112-15114
ORF1ab/nsp12558A558SA4950SnonsynGcTTcA8210.012195115112-15114
ORF1ab/nsp12558A558SA4950SnonsynGcTTcG8210.012195115112-15114

Details of the mutation A558S within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp12558A558SGctTct7382All0.000014
ORF1ab/nsp12558A558SGCtAGt382All0.000001
ORF1ab/nsp12558A558SGCTAGC282All0
ORF1ab/nsp12558A558SGcTTcC282All0
ORF1ab/nsp12558A558SGcTTcG182All0
ORF1ab/nsp12558A558SGcTTcA182All0
ORF1ab/nsp12558A558SGctTct1010AY.40.000016
ORF1ab/nsp12558A558SGCtAGt390.166667
ORF1ab/nsp12558A558SGctTct290.111111
ORF1ab/nsp12558A558SGCTAGC290.111111
ORF1ab/nsp12558A558SGcTTcC290.111111
ORF1ab/nsp12558A558SGctTct77B.1.1.70.000006
ORF1ab/nsp12558A558SGctTct66AY.430.000027
ORF1ab/nsp12558A558SGctTct44AY.1210.000541
ORF1ab/nsp12558A558SGctTct44B.1.617.20.000015
ORF1ab/nsp12558A558SGctTct33AY.250.000018
ORF1ab/nsp12558A558SGctTct33B.10.000027
ORF1ab/nsp12558A558SGctTct22AY.30.00002
ORF1ab/nsp12558A558SGctTct22AY.4.20.000043
ORF1ab/nsp12558A558SGctTct22AY.440.000012
ORF1ab/nsp12558A558SGctTct22AY.470.000062
ORF1ab/nsp12558A558SGctTct11A0.000387
ORF1ab/nsp12558A558SGctTct11A.2.50.000499
ORF1ab/nsp12558A558SGctTct11AY.100.00053
ORF1ab/nsp12558A558SGctTct11AY.1020.000027
ORF1ab/nsp12558A558SGctTct11AY.1030.000006
ORF1ab/nsp12558A558SGctTct11AY.1180.000063
ORF1ab/nsp12558A558SGctTct11AY.290.000016
ORF1ab/nsp12558A558SGctTct11AY.330.000067
ORF1ab/nsp12558A558SGctTct11AY.390.000025
ORF1ab/nsp12558A558SGctTct11AY.460.000104
ORF1ab/nsp12558A558SGctTct11AY.50.000021
ORF1ab/nsp12558A558SGctTct11AY.60.000041
ORF1ab/nsp12558A558SGcTTcG11AY.670.000464
ORF1ab/nsp12558A558SGctTct11AY.840.000437
ORF1ab/nsp12558A558SGctTct11AY.980.000079
ORF1ab/nsp12558A558SGctTct11B.1.1.10.000327
ORF1ab/nsp12558A558SGctTct11B.1.1.170.016667
ORF1ab/nsp12558A558SGctTct11B.1.1.1890.001513
ORF1ab/nsp12558A558SGctTct11B.1.1.3740.002375
ORF1ab/nsp12558A558SGctTct11B.1.1.4090.002833
ORF1ab/nsp12558A558SGctTct11B.1.1.5190.00004
ORF1ab/nsp12558A558SGcTTcA11B.1.20.000009
ORF1ab/nsp12558A558SGctTct11B.1.2430.00007
ORF1ab/nsp12558A558SGctTct11B.1.3510.00003
ORF1ab/nsp12558A558SGctTct11B.1.360.000146
ORF1ab/nsp12558A558SGctTct11B.1.5230.002451
ORF1ab/nsp12558A558SGctTct11B.1.617.10.000129
ORF1ab/nsp12558A558SGctTct11B.340.013699

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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