CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = S1717S

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/nsp31717S1717SS2535SsyntcAtcG110310190.9238447868-7870
ORF1ab/nsp31717S1717SS2535SsyntcAtcT1103680.061657868-7870
ORF1ab/nsp31717S1717SS2535SsyntcAtcC1103160.01450597868-7870

Details of the mutation S1717S within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31717S1717StcAtcG10191103All0.000195
ORF1ab/nsp31717S1717StcAtcT681103All0.000013
ORF1ab/nsp31717S1717StcAtcC161103All0.000003
ORF1ab/nsp31717S1717StcAtcG377414B.1.1.70.000337
ORF1ab/nsp31717S1717StcAtcT35414B.1.1.70.000031
ORF1ab/nsp31717S1717StcAtcC2414B.1.1.70.000002
ORF1ab/nsp31717S1717StcAtcG171171AY.1030.001062
ORF1ab/nsp31717S1717StcAtcG165165B.1.3010.976331
ORF1ab/nsp31717S1717StcAtcG4954AY.40.000076
ORF1ab/nsp31717S1717StcAtcT454AY.40.000006
ORF1ab/nsp31717S1717StcAtcC154AY.40.000002
ORF1ab/nsp31717S1717StcAtcG4646B.1.20.000405
ORF1ab/nsp31717S1717StcAtcG4445AY.440.000268
ORF1ab/nsp31717S1717StcAtcC145AY.440.000006
ORF1ab/nsp31717S1717StcAtcG1923B.10.000174
ORF1ab/nsp31717S1717StcAtcC223B.10.000018
ORF1ab/nsp31717S1717StcAtcT223B.10.000018
ORF1ab/nsp31717S1717StcAtcG1315AY.430.000058
ORF1ab/nsp31717S1717StcAtcT115AY.430.000004
ORF1ab/nsp31717S1717StcAtcC115AY.430.000004
ORF1ab/nsp31717S1717StcAtcG913AY.200.00035
ORF1ab/nsp31717S1717StcAtcC313AY.200.000117
ORF1ab/nsp31717S1717StcAtcT113AY.200.000039
ORF1ab/nsp31717S1717StcAtcT1313B.1.1.1760.005712
ORF1ab/nsp31717S1717StcAtcG88B.1.6370.000585
ORF1ab/nsp31717S1717StcAtcG77AY.250.000042
ORF1ab/nsp31717S1717StcAtcG77B.1.1.700.002387
ORF1ab/nsp31717S1717StcAtcG77B.1.617.20.000026
ORF1ab/nsp31717S1717StcAtcG77P.10.00011
ORF1ab/nsp31717S1717StcAtcG66AY.1000.000276
ORF1ab/nsp31717S1717StcAtcG55B.1.5960.000436
ORF1ab/nsp31717S1717StcAtcG45B.1.6210.000354
ORF1ab/nsp31717S1717StcAtcC15B.1.6210.000089
ORF1ab/nsp31717S1717StcAtcG44AY.390.000099
ORF1ab/nsp31717S1717StcAtcG44AY.90.00027
ORF1ab/nsp31717S1717StcAtcG44B.1.1.3770.005525
ORF1ab/nsp31717S1717StcAtcG33AY.1020.00008
ORF1ab/nsp31717S1717StcAtcG33AY.1200.000112
ORF1ab/nsp31717S1717StcAtcG33AY.30.00003
ORF1ab/nsp31717S1717StcAtcG23AY.3.10.000171
ORF1ab/nsp31717S1717StcAtcT13AY.3.10.000085
ORF1ab/nsp31717S1717StcAtcC13AY.4.20.000022
ORF1ab/nsp31717S1717StcAtcG13AY.4.20.000022
ORF1ab/nsp31717S1717StcAtcT13AY.4.20.000022
ORF1ab/nsp31717S1717StcAtcG33B0.000383
ORF1ab/nsp31717S1717StcAtcG23B.1.10.000036
ORF1ab/nsp31717S1717StcAtcT13B.1.10.000018
ORF1ab/nsp31717S1717StcAtcG33B.1.1770.00004
ORF1ab/nsp31717S1717StcAtcG33C.370.000348
ORF1ab/nsp31717S1717StcAtcT33Q.10.000379
ORF1ab/nsp31717S1717StcAtcG12AY.230.00007
ORF1ab/nsp31717S1717StcAtcT12AY.230.00007
ORF1ab/nsp31717S1717StcAtcG22AY.450.000243
ORF1ab/nsp31717S1717StcAtcG22AY.470.000062
ORF1ab/nsp31717S1717StcAtcG22AY.540.000191
ORF1ab/nsp31717S1717StcAtcG22AY.98.10.000097
ORF1ab/nsp31717S1717StcAtcC12B.1.177.40.000211
ORF1ab/nsp31717S1717StcAtcT12B.1.177.40.000211
ORF1ab/nsp31717S1717StcAtcG12B.1.4290.000024
ORF1ab/nsp31717S1717StcAtcC12B.1.4290.000024
ORF1ab/nsp31717S1717StcAtcG22C.360.001821
ORF1ab/nsp31717S1717StcAtcG22P.1.140.000096
ORF1ab/nsp31717S1717StcAtcG11A.10.000282
ORF1ab/nsp31717S1717StcAtcG11AY.1170.000085
ORF1ab/nsp31717S1717StcAtcG11AY.1180.000063
ORF1ab/nsp31717S1717StcAtcG11AY.140.000088
ORF1ab/nsp31717S1717StcAtcG11AY.240.000431
ORF1ab/nsp31717S1717StcAtcG11AY.39.10.00004
ORF1ab/nsp31717S1717StcAtcG11AY.420.00004
ORF1ab/nsp31717S1717StcAtcG11AY.46.20.000635
ORF1ab/nsp31717S1717StcAtcG11AY.50.000021
ORF1ab/nsp31717S1717StcAtcG11AY.590.00053
ORF1ab/nsp31717S1717StcAtcG11AY.60.000041
ORF1ab/nsp31717S1717StcAtcG11AY.600.000938
ORF1ab/nsp31717S1717StcAtcT11AY.620.000436
ORF1ab/nsp31717S1717StcAtcG11AY.750.000056
ORF1ab/nsp31717S1717StcAtcT11B.1.1.100.001115
ORF1ab/nsp31717S1717StcAtcG11B.1.1.1350.004695
ORF1ab/nsp31717S1717StcAtcC11B.1.1.1570.000913
ORF1ab/nsp31717S1717StcAtcG11B.1.1.2160.00089
ORF1ab/nsp31717S1717StcAtcG11B.1.1.2540.011236
ORF1ab/nsp31717S1717StcAtcG11B.1.1.3720.000689
ORF1ab/nsp31717S1717StcAtcG11B.1.1.3750.011905
ORF1ab/nsp31717S1717StcAtcG11B.1.2400.000216
ORF1ab/nsp31717S1717StcAtcG11B.1.2430.00007
ORF1ab/nsp31717S1717StcAtcG11B.1.258.170.000104
ORF1ab/nsp31717S1717StcAtcG11B.1.3510.00003
ORF1ab/nsp31717S1717StcAtcC11B.1.3960.000706
ORF1ab/nsp31717S1717StcAtcG11B.1.4270.00005
ORF1ab/nsp31717S1717StcAtcG11B.1.5090.000866
ORF1ab/nsp31717S1717StcAtcG11B.1.617.10.000129
ORF1ab/nsp31717S1717StcAtcT11B.310.003731
ORF1ab/nsp31717S1717StcAtcT11P.1.10.000318
ORF1ab/nsp31717S1717StcAtcG11P.1.70.000319

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

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