CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = S1230S

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/nsp31230S1230SS2048SsyntcTtcC130311830.9079056407-6409
ORF1ab/nsp31230S1230SS2048SsyntcTtcA1303910.06983886407-6409
ORF1ab/nsp31230S1230SS2048SsyntcTtcG1303290.02225636407-6409

Details of the mutation S1230S within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31230S1230StcTtcC11831303All0.000226
ORF1ab/nsp31230S1230StcTtcA911303All0.000017
ORF1ab/nsp31230S1230StcTtcG291303All0.000006
ORF1ab/nsp31230S1230StcTtcC610623B.1.1.70.000546
ORF1ab/nsp31230S1230StcTtcG10623B.1.1.70.000009
ORF1ab/nsp31230S1230StcTtcA3623B.1.1.70.000003
ORF1ab/nsp31230S1230StcTtcC225226AY.30.002238
ORF1ab/nsp31230S1230StcTtcA1226AY.30.00001
ORF1ab/nsp31230S1230StcTtcC6063AY.250.000361
ORF1ab/nsp31230S1230StcTtcG363AY.250.000018
ORF1ab/nsp31230S1230StcTtcC3849B.1.617.20.000143
ORF1ab/nsp31230S1230StcTtcA1149B.1.617.20.000041
ORF1ab/nsp31230S1230StcTtcA3840B.1.5960.003311
ORF1ab/nsp31230S1230StcTtcC240B.1.5960.000174
ORF1ab/nsp31230S1230StcTtcC3739AY.40.000058
ORF1ab/nsp31230S1230StcTtcG139AY.40.000002
ORF1ab/nsp31230S1230StcTtcA139AY.40.000002
ORF1ab/nsp31230S1230StcTtcC3637AY.1030.000224
ORF1ab/nsp31230S1230StcTtcA137AY.1030.000006
ORF1ab/nsp31230S1230StcTtcC2728AY.440.000164
ORF1ab/nsp31230S1230StcTtcA128AY.440.000006
ORF1ab/nsp31230S1230StcTtcC2021B.1.20.000176
ORF1ab/nsp31230S1230StcTtcA121B.1.20.000009
ORF1ab/nsp31230S1230StcTtcC1919B.1.2400.004096
ORF1ab/nsp31230S1230StcTtcC1515B.1.36.240.092593
ORF1ab/nsp31230S1230StcTtcC1111AY.420.000443
ORF1ab/nsp31230S1230StcTtcG511AY.430.000022
ORF1ab/nsp31230S1230StcTtcA411AY.430.000018
ORF1ab/nsp31230S1230StcTtcC211AY.430.000009
ORF1ab/nsp31230S1230StcTtcC88AY.1020.000212
ORF1ab/nsp31230S1230StcTtcC46B.1.10.000073
ORF1ab/nsp31230S1230StcTtcA26B.1.10.000036
ORF1ab/nsp31230S1230StcTtcC45AY.470.000124
ORF1ab/nsp31230S1230StcTtcG15AY.470.000031
ORF1ab/nsp31230S1230StcTtcG35B.1.1770.00004
ORF1ab/nsp31230S1230StcTtcC15B.1.1770.000013
ORF1ab/nsp31230S1230StcTtcA15B.1.1770.000013
ORF1ab/nsp31230S1230StcTtcC44AY.1180.000251
ORF1ab/nsp31230S1230StcTtcC44AY.150.008889
ORF1ab/nsp31230S1230StcTtcC34B.1.2210.000213
ORF1ab/nsp31230S1230StcTtcA14B.1.2210.000071
ORF1ab/nsp31230S1230StcTtcA34B.1.360.000438
ORF1ab/nsp31230S1230StcTtcC14B.1.360.000146
ORF1ab/nsp31230S1230StcTtcC44P.10.000063
ORF1ab/nsp31230S1230StcTtcA23AY.290.000032
ORF1ab/nsp31230S1230StcTtcC13AY.290.000016
ORF1ab/nsp31230S1230StcTtcC33AY.4.20.000065
ORF1ab/nsp31230S1230StcTtcA33B.1.2390.003663
ORF1ab/nsp31230S1230StcTtcA33B.1.2580.0002
ORF1ab/nsp31230S1230StcTtcC23B.1.4290.000047
ORF1ab/nsp31230S1230StcTtcA13B.1.4290.000024
ORF1ab/nsp31230S1230StcTtcC23B.1.5250.000226
ORF1ab/nsp31230S1230StcTtcA13B.1.5250.000113
ORF1ab/nsp31230S1230StcTtcC22AY.1090.001479
ORF1ab/nsp31230S1230StcTtcC22AY.330.000134
ORF1ab/nsp31230S1230StcTtcC22AY.340.000194
ORF1ab/nsp31230S1230StcTtcC22AY.450.000243
ORF1ab/nsp31230S1230StcTtcC12AY.540.000095
ORF1ab/nsp31230S1230StcTtcG12AY.540.000095
ORF1ab/nsp31230S1230StcTtcC22AY.60.000082
ORF1ab/nsp31230S1230StcTtcA12AY.980.000079
ORF1ab/nsp31230S1230StcTtcC12AY.980.000079
ORF1ab/nsp31230S1230StcTtcA12B.10.000009
ORF1ab/nsp31230S1230StcTtcC12B.10.000009
ORF1ab/nsp31230S1230StcTtcC22B.1.1.2430.008163
ORF1ab/nsp31230S1230StcTtcG22B.1.1.3060.000877
ORF1ab/nsp31230S1230StcTtcC22B.1.177.350.001382
ORF1ab/nsp31230S1230StcTtcA22B.1.3690.00057
ORF1ab/nsp31230S1230StcTtcC22B.1.5260.000047
ORF1ab/nsp31230S1230StcTtcC11AY.1170.000085
ORF1ab/nsp31230S1230StcTtcG11AY.1190.000035
ORF1ab/nsp31230S1230StcTtcG11AY.140.000088
ORF1ab/nsp31230S1230StcTtcC11AY.390.000025
ORF1ab/nsp31230S1230StcTtcC11AY.39.10.00004
ORF1ab/nsp31230S1230StcTtcC11AY.4.2.10.000149
ORF1ab/nsp31230S1230StcTtcC11AY.460.000104
ORF1ab/nsp31230S1230StcTtcC11AY.46.40.000165
ORF1ab/nsp31230S1230StcTtcC11AY.50.000021
ORF1ab/nsp31230S1230StcTtcC11AY.920.000287
ORF1ab/nsp31230S1230StcTtcC11AY.930.000273
ORF1ab/nsp31230S1230StcTtcC11AY.98.10.000048
ORF1ab/nsp31230S1230StcTtcG11AY.990.001049
ORF1ab/nsp31230S1230StcTtcA11B.1.1.1930.111111
ORF1ab/nsp31230S1230StcTtcA11B.1.1.2650.003155
ORF1ab/nsp31230S1230StcTtcC11B.1.177.860.000183
ORF1ab/nsp31230S1230StcTtcC11B.1.2430.00007
ORF1ab/nsp31230S1230StcTtcA11B.1.3510.00003
ORF1ab/nsp31230S1230StcTtcC11B.1.3560.001727
ORF1ab/nsp31230S1230StcTtcC11B.1.416.10.001563
ORF1ab/nsp31230S1230StcTtcA11B.1.4270.00005
ORF1ab/nsp31230S1230StcTtcC11B.1.5500.013699
ORF1ab/nsp31230S1230StcTtcA11B.1.5640.000426
ORF1ab/nsp31230S1230StcTtcC11B.1.5750.000303
ORF1ab/nsp31230S1230StcTtcC11B.1.617.10.000129
ORF1ab/nsp31230S1230StcTtcA11B.1.6210.000089
ORF1ab/nsp31230S1230StcTtcC11B.6.80.008264
ORF1ab/nsp31230S1230StcTtcC11C.300.001727
ORF1ab/nsp31230S1230StcTtcA11C.350.000774
ORF1ab/nsp31230S1230StcTtcC11D.20.000075
ORF1ab/nsp31230S1230StcTtcA11P.1.140.000048
ORF1ab/nsp31230S1230StcTtcC11Q.80.000165
ORF1ab/nsp31230S1230StcTtcA11R.10.00009

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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