CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : Mut = S122S

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/nsp2122S122SS302SsyntcTtcC137313300.9686821169-1171
ORF1ab/nsp2122S122SS302SsyntcTtcG1373390.0284051169-1171
ORF1ab/nsp2122S122SS302SsyntcTtcA137330.0021851169-1171
ORF1ab/nsp2122S122SS302SsynTCTAGC137310.0007283321169-1171

Details of the mutation S122S within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp2122S122StcTtcC13301373All0.000254
ORF1ab/nsp2122S122StcTtcG391373All0.000007
ORF1ab/nsp2122S122StcTtcA31373All0.000001
ORF1ab/nsp2122S122STCTAGC11373All0
ORF1ab/nsp2122S122StcTtcC976976B.1.3750.8
ORF1ab/nsp2122S122StcTtcC110110AY.470.003422
ORF1ab/nsp2122S122StcTtcC4040AY.390.000988
ORF1ab/nsp2122S122StcTtcG2634B.1.1770.000342
ORF1ab/nsp2122S122StcTtcC834B.1.1770.000105
ORF1ab/nsp2122S122StcTtcC3131B.10.000284
ORF1ab/nsp2122S122StcTtcC2224AY.40.000034
ORF1ab/nsp2122S122StcTtcG224AY.40.000003
ORF1ab/nsp2122S122StcTtcC1823B.1.1.70.000016
ORF1ab/nsp2122S122StcTtcA323B.1.1.70.000003
ORF1ab/nsp2122S122StcTtcG223B.1.1.70.000002
ORF1ab/nsp2122S122StcTtcC2222AY.30.000219
ORF1ab/nsp2122S122StcTtcC1922AY.440.000116
ORF1ab/nsp2122S122StcTtcG222AY.440.000012
ORF1ab/nsp2122S122STCTAGC122AY.440.000006
ORF1ab/nsp2122S122StcTtcC1414AY.430.000062
ORF1ab/nsp2122S122StcTtcC99B.1.351.50.005396
ORF1ab/nsp2122S122StcTtcC89B.1.617.20.00003
ORF1ab/nsp2122S122StcTtcG19B.1.617.20.000004
ORF1ab/nsp2122S122StcTtcC88B.1.2060.006525
ORF1ab/nsp2122S122StcTtcC44B.1.1.3060.001754
ORF1ab/nsp2122S122StcTtcC44B.1.3670.00317
ORF1ab/nsp2122S122StcTtcC33B.1.10.000054
ORF1ab/nsp2122S122StcTtcC33B.1.5250.000339
ORF1ab/nsp2122S122StcTtcG12AY.130.000161
ORF1ab/nsp2122S122StcTtcC12AY.130.000161
ORF1ab/nsp2122S122StcTtcC22AY.250.000012
ORF1ab/nsp2122S122StcTtcC22AY.4.20.000043
ORF1ab/nsp2122S122StcTtcC22B.1.1.2840.000215
ORF1ab/nsp2122S122StcTtcC22B.1.20.000018
ORF1ab/nsp2122S122StcTtcC22B.1.5260.000047
ORF1ab/nsp2122S122StcTtcC22B.1.6370.000146
ORF1ab/nsp2122S122StcTtcC22P.1.170.000324
ORF1ab/nsp2122S122StcTtcC11A0.000387
ORF1ab/nsp2122S122StcTtcC11AY.1020.000027
ORF1ab/nsp2122S122StcTtcG11AY.1030.000006
ORF1ab/nsp2122S122StcTtcC11AY.1190.000035
ORF1ab/nsp2122S122StcTtcG11AY.200.000039
ORF1ab/nsp2122S122StcTtcC11AY.260.000028
ORF1ab/nsp2122S122StcTtcC11AY.290.000016
ORF1ab/nsp2122S122StcTtcC11AY.50.000021
ORF1ab/nsp2122S122StcTtcC11AY.670.000464
ORF1ab/nsp2122S122StcTtcC11AY.7.20.000559
ORF1ab/nsp2122S122StcTtcC11AY.9.10.000084
ORF1ab/nsp2122S122StcTtcC11AY.910.00073
ORF1ab/nsp2122S122StcTtcG11B.1.1.2270.004348
ORF1ab/nsp2122S122StcTtcC11B.1.2400.000216
ORF1ab/nsp2122S122StcTtcC11B.1.3690.000285
ORF1ab/nsp2122S122StcTtcC11B.1.3820.008929
ORF1ab/nsp2122S122StcTtcC11B.1.3960.000706
ORF1ab/nsp2122S122StcTtcC11B.1.4270.00005
ORF1ab/nsp2122S122StcTtcG11B.310.003731
ORF1ab/nsp2122S122StcTtcC11B.400.000364
ORF1ab/nsp2122S122StcTtcG11Q.80.000165

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

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.