CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = S1147S

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
S	1147	S1147S		syn	tcA	tcG	31143	30795	0.988826	25001-25003
S	1147	S1147S		syn	tcA	tcT	31143	304	0.00976142	25001-25003
S	1147	S1147S		syn	tcA	tcC	31143	44	0.00141284	25001-25003

Details of the mutation S1147S 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
S	1147	S1147S	tcA	tcG	30795	31143	All	0.00589
S	1147	S1147S	tcA	tcT	304	31143	All	0.000058
S	1147	S1147S	tcA	tcC	44	31143	All	0.000008
S	1147	S1147S	tcA	tcG	24054	24083	AY.120	0.8943
S	1147	S1147S	tcA	tcT	16	24083	AY.120	0.000595
S	1147	S1147S	tcA	tcC	13	24083	AY.120	0.000483
S	1147	S1147S	tcA	tcG	3016	3016	AY.120.1	0.968218
S	1147	S1147S	tcA	tcG	1995	2005	AY.120.2.1	0.994021
S	1147	S1147S	tcA	tcT	10	2005	AY.120.2.1	0.004983
S	1147	S1147S	tcA	tcG	774	774	AY.120.2	0.994859
S	1147	S1147S	tcA	tcG	387	414	B.1.617.2	0.001457
S	1147	S1147S	tcA	tcT	19	414	B.1.617.2	0.000072
S	1147	S1147S	tcA	tcC	8	414	B.1.617.2	0.00003
S	1147	S1147S	tcA	tcG	174	180	AY.4	0.000271
S	1147	S1147S	tcA	tcT	6	180	AY.4	0.000009
S	1147	S1147S	tcA	tcT	134	134	B.1.258.17	0.013932
S	1147	S1147S	tcA	tcG	113	130	B.1.1.7	0.000101
S	1147	S1147S	tcA	tcT	16	130	B.1.1.7	0.000014
S	1147	S1147S	tcA	tcC	1	130	B.1.1.7	0.000001
S	1147	S1147S	tcA	tcG	53	55	B.1.1	0.000961
S	1147	S1147S	tcA	tcT	1	55	B.1.1	0.000018
S	1147	S1147S	tcA	tcC	1	55	B.1.1	0.000018
S	1147	S1147S	tcA	tcG	52	52	B.1.1.467	1
S	1147	S1147S	tcA	tcG	18	29	AY.103	0.000112
S	1147	S1147S	tcA	tcT	11	29	AY.103	0.000068
S	1147	S1147S	tcA	tcG	17	25	AY.44	0.000103
S	1147	S1147S	tcA	tcT	8	25	AY.44	0.000049
S	1147	S1147S	tcA	tcT	11	22	AY.43	0.000049
S	1147	S1147S	tcA	tcG	10	22	AY.43	0.000044
S	1147	S1147S	tcA	tcC	1	22	AY.43	0.000004
S	1147	S1147S	tcA	tcG	18	18	AY.102	0.000477
S	1147	S1147S	tcA	tcG	17	17	B.1.1.51	0.02921
S	1147	S1147S	tcA	tcT	12	13	AY.25	0.000072
S	1147	S1147S	tcA	tcG	1	13	AY.25	0.000006
S	1147	S1147S	tcA	tcG	13	13	AY.4.5	0.001397
S	1147	S1147S	tcA	tcT	10	10	AY.10	0.005299
S	1147	S1147S	tcA	tcG	6	9	AY.39	0.000148
S	1147	S1147S	tcA	tcT	3	9	AY.39	0.000074
S	1147	S1147S	tcA	tcG	9	9	AY.46	0.000937
S	1147	S1147S	tcA	tcG	8	8	B.1.160	0.00025
S	1147	S1147S	tcA	tcG	7	7	AY.106	0.002344
S	1147	S1147S	tcA	tcC	7	7	AY.69	0.001307
S	1147	S1147S	tcA	tcT	3	7	B.1	0.000027
S	1147	S1147S	tcA	tcG	2	7	B.1	0.000018
S	1147	S1147S	tcA	tcC	2	7	B.1	0.000018
S	1147	S1147S	tcA	tcT	4	6	AY.4.2	0.000087
S	1147	S1147S	tcA	tcG	2	6	AY.4.2	0.000043
S	1147	S1147S	tcA	tcG	6	6	AY.99.2	0.000553
S	1147	S1147S	tcA	tcT	3	5		0.166667
S	1147	S1147S	tcA	tcG	1	5		0.055556
S	1147	S1147S	tcA	tcC	1	5		0.055556
S	1147	S1147S	tcA	tcT	4	5	AY.118	0.000251
S	1147	S1147S	tcA	tcG	1	5	AY.118	0.000063
S	1147	S1147S	tcA	tcC	3	5	AY.3	0.00003
S	1147	S1147S	tcA	tcT	2	5	AY.3	0.00002
S	1147	S1147S	tcA	tcG	5	5	AY.46.1	0.005133
S	1147	S1147S	tcA	tcG	2	4	P.1	0.000032
S	1147	S1147S	tcA	tcT	2	4	P.1	0.000032
S	1147	S1147S	tcA	tcG	3	3	AY.23	0.000209
S	1147	S1147S	tcA	tcG	3	3	AY.54	0.000286
S	1147	S1147S	tcA	tcT	2	3	B.1.221	0.000142
S	1147	S1147S	tcA	tcC	1	3	B.1.221	0.000071
S	1147	S1147S	tcA	tcG	2	3	B.1.36	0.000292
S	1147	S1147S	tcA	tcT	1	3	B.1.36	0.000146
S	1147	S1147S	tcA	tcT	3	3	B.1.525	0.000339
S	1147	S1147S	tcA	tcG	3	3	B.1.621	0.000266
S	1147	S1147S	tcA	tcG	2	2	AY.110	0.000225
S	1147	S1147S	tcA	tcG	1	2	AY.117	0.000085
S	1147	S1147S	tcA	tcT	1	2	AY.117	0.000085
S	1147	S1147S	tcA	tcC	2	2	AY.14	0.000176
S	1147	S1147S	tcA	tcG	1	2	AY.33	0.000067
S	1147	S1147S	tcA	tcT	1	2	AY.33	0.000067
S	1147	S1147S	tcA	tcT	1	2	AY.47	0.000031
S	1147	S1147S	tcA	tcG	1	2	AY.47	0.000031
S	1147	S1147S	tcA	tcG	2	2	AY.5	0.000041
S	1147	S1147S	tcA	tcT	2	2	AY.75.1	0.000361
S	1147	S1147S	tcA	tcT	2	2	AY.9.1	0.000167
S	1147	S1147S	tcA	tcC	2	2	B.1.177	0.000026
S	1147	S1147S	tcA	tcT	1	2	B.1.2	0.000009
S	1147	S1147S	tcA	tcG	1	2	B.1.2	0.000009
S	1147	S1147S	tcA	tcT	2	2	B.1.258	0.000133
S	1147	S1147S	tcA	tcT	1	1	A.2.5	0.000499
S	1147	S1147S	tcA	tcG	1	1	A.23.1	0.000704
S	1147	S1147S	tcA	tcG	1	1	AY.116	0.000287
S	1147	S1147S	tcA	tcT	1	1	AY.119	0.000035
S	1147	S1147S	tcA	tcT	1	1	AY.20	0.000039
S	1147	S1147S	tcA	tcT	1	1	AY.29	0.000016
S	1147	S1147S	tcA	tcG	1	1	AY.45	0.000122
S	1147	S1147S	tcA	tcG	1	1	AY.5.4	0.000277
S	1147	S1147S	tcA	tcG	1	1	AY.6	0.000041
S	1147	S1147S	tcA	tcT	1	1	AY.61	0.000105
S	1147	S1147S	tcA	tcG	1	1	AY.68	0.000274
S	1147	S1147S	tcA	tcC	1	1	AY.7	0.000196
S	1147	S1147S	tcA	tcT	1	1	AY.82	0.001357
S	1147	S1147S	tcA	tcG	1	1	AY.92	0.000287
S	1147	S1147S	tcA	tcG	1	1	AY.98	0.000079
S	1147	S1147S	tcA	tcG	1	1	B.1.1.351	0.002793
S	1147	S1147S	tcA	tcT	1	1	B.1.1.4	0.002976
S	1147	S1147S	tcA	tcG	1	1	B.1.1.434	0.000349
S	1147	S1147S	tcA	tcT	1	1	B.1.146	0.004237
S	1147	S1147S	tcA	tcG	1	1	B.1.177.10	0.000878
S	1147	S1147S	tcA	tcT	1	1	B.1.177.16	0.000664
S	1147	S1147S	tcA	tcT	1	1	B.1.177.4	0.000211
S	1147	S1147S	tcA	tcT	1	1	B.1.177.73	0.000566
S	1147	S1147S	tcA	tcT	1	1	B.1.258.11	0.000396
S	1147	S1147S	tcA	tcG	1	1	B.1.351	0.00003
S	1147	S1147S	tcA	tcG	1	1	B.1.367	0.000792
S	1147	S1147S	tcA	tcC	1	1	B.1.499	0.00105
S	1147	S1147S	tcA	tcG	1	1	B.1.526	0.000024
S	1147	S1147S	tcA	tcG	1	1	B.1.599	0.00365
S	1147	S1147S	tcA	tcT	1	1	B.1.637	0.000073

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.