CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = S187S

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
N	187	S187S		syn	tcA	tcG	459	347	0.755991	28832-28834
N	187	S187S		syn	tcA	tcT	459	88	0.191721	28832-28834
N	187	S187S		syn	tcA	tcC	459	24	0.0522876	28832-28834

Details of the mutation S187S 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
N	187	S187S	tcA	tcG	347	459	All	0.000066
N	187	S187S	tcA	tcT	88	459	All	0.000017
N	187	S187S	tcA	tcC	24	459	All	0.000005
N	187	S187S	tcA	tcG	34	50	AY.4	0.000053
N	187	S187S	tcA	tcT	15	50	AY.4	0.000023
N	187	S187S	tcA	tcC	1	50	AY.4	0.000002
N	187	S187S	tcA	tcG	36	39	B.1.617.2	0.000136
N	187	S187S	tcA	tcT	3	39	B.1.617.2	0.000011
N	187	S187S	tcA	tcG	36	36	AY.72	0.04898
N	187	S187S	tcA	tcG	28	34	B.1.1.7	0.000025
N	187	S187S	tcA	tcC	4	34	B.1.1.7	0.000004
N	187	S187S	tcA	tcT	2	34	B.1.1.7	0.000002
N	187	S187S	tcA	tcG	26	26	AY.25	0.000156
N	187	S187S	tcA	tcG	17	21	AY.98.1	0.000823
N	187	S187S	tcA	tcT	4	21	AY.98.1	0.000194
N	187	S187S	tcA	tcG	15	20	AY.3	0.000149
N	187	S187S	tcA	tcT	5	20	AY.3	0.00005
N	187	S187S	tcA	tcG	14	17	AY.43	0.000062
N	187	S187S	tcA	tcT	3	17	AY.43	0.000013
N	187	S187S	tcA	tcG	16	16	AY.103	0.000099
N	187	S187S	tcA	tcT	15	15	AY.107	0.00699
N	187	S187S	tcA	tcT	9	14	B.1	0.000082
N	187	S187S	tcA	tcG	3	14	B.1	0.000027
N	187	S187S	tcA	tcC	2	14	B.1	0.000018
N	187	S187S	tcA	tcG	12	12	B.1.2	0.000106
N	187	S187S	tcA	tcG	8	10	AY.47	0.000249
N	187	S187S	tcA	tcC	2	10	AY.47	0.000062
N	187	S187S	tcA	tcG	10	10	B.1.1.153	0.010953
N	187	S187S	tcA	tcG	8	9	P.1	0.000126
N	187	S187S	tcA	tcT	1	9	P.1	0.000016
N	187	S187S	tcA	tcG	7	8	AY.29	0.00011
N	187	S187S	tcA	tcC	1	8	AY.29	0.000016
N	187	S187S	tcA	tcG	8	8	B.1.351	0.000238
N	187	S187S	tcA	tcG	7	7	AY.44	0.000043
N	187	S187S	tcA	tcT	7	7	B.1.1.370	0.088608
N	187	S187S	tcA	tcG	6	6	AY.100	0.000276
N	187	S187S	tcA	tcG	6	6	AY.39	0.000148
N	187	S187S	tcA	tcG	6	6	B.1.1	0.000109
N	187	S187S	tcA	tcT	5	6	B.1.258	0.000333
N	187	S187S	tcA	tcG	1	6	B.1.258	0.000067
N	187	S187S	tcA	tcG	5	5	B.1.1.222	0.00102
N	187	S187S	tcA	tcC	3	3	AY.36	0.000445
N	187	S187S	tcA	tcG	3	3	AY.9	0.000203
N	187	S187S	tcA	tcT	3	3	AY.9.2	0.00011
N	187	S187S	tcA	tcG	3	3	AY.91	0.002191
N	187	S187S	tcA	tcC	3	3	AY.99.2	0.000276
N	187	S187S	tcA	tcT	3	3	B.1.1.25	0.001706
N	187	S187S	tcA	tcC	2	3	B.1.177	0.000026
N	187	S187S	tcA	tcG	1	3	B.1.177	0.000013
N	187	S187S	tcA	tcT	3	3	B.1.369	0.000856
N	187	S187S	tcA	tcG	2	2	AY.113	0.000285
N	187	S187S	tcA	tcT	1	2	AY.23	0.00007
N	187	S187S	tcA	tcG	1	2	AY.23	0.00007
N	187	S187S	tcA	tcG	2	2	AY.3.1	0.000171
N	187	S187S	tcA	tcG	2	2	AY.33	0.000134
N	187	S187S	tcA	tcT	2	2	AY.5.3	0.000675
N	187	S187S	tcA	tcG	2	2	AY.98	0.000158
N	187	S187S	tcA	tcC	1	2	B.1.160	0.000031
N	187	S187S	tcA	tcG	1	2	B.1.160	0.000031
N	187	S187S	tcA	tcG	2	2	B.1.599	0.007299
N	187	S187S	tcA	tcT	1	1		0.055556
N	187	S187S	tcA	tcC	1	1	A.2.5	0.000499
N	187	S187S	tcA	tcG	1	1	AY.102	0.000027
N	187	S187S	tcA	tcT	1	1	AY.105	0.000643
N	187	S187S	tcA	tcG	1	1	AY.117	0.000085
N	187	S187S	tcA	tcG	1	1	AY.119	0.000035
N	187	S187S	tcA	tcG	1	1	AY.120	0.000037
N	187	S187S	tcA	tcG	1	1	AY.121	0.000135
N	187	S187S	tcA	tcG	1	1	AY.13	0.000161
N	187	S187S	tcA	tcC	1	1	AY.26	0.000028
N	187	S187S	tcA	tcG	1	1	AY.29.1	0.000221
N	187	S187S	tcA	tcG	1	1	AY.32	0.000532
N	187	S187S	tcA	tcG	1	1	AY.4.2	0.000022
N	187	S187S	tcA	tcT	1	1	AY.5	0.000021
N	187	S187S	tcA	tcG	1	1	AY.5.4	0.000277
N	187	S187S	tcA	tcG	1	1	AY.61	0.000105
N	187	S187S	tcA	tcT	1	1	AY.7.2	0.000559
N	187	S187S	tcA	tcG	1	1	AY.71	0.000475
N	187	S187S	tcA	tcG	1	1	AY.75	0.000056
N	187	S187S	tcA	tcG	1	1	AY.84	0.000437
N	187	S187S	tcA	tcT	1	1	B	0.000128
N	187	S187S	tcA	tcG	1	1	B.1.1.214	0.000055
N	187	S187S	tcA	tcC	1	1	B.1.1.28	0.000311
N	187	S187S	tcA	tcG	1	1	B.1.1.413	0.006897
N	187	S187S	tcA	tcC	1	1	B.1.234	0.000132
N	187	S187S	tcA	tcT	1	1	B.1.427	0.00005
N	187	S187S	tcA	tcC	1	1	B.1.429	0.000024
N	187	S187S	tcA	tcG	1	1	B.1.526	0.000024
N	187	S187S	tcA	tcT	1	1	B.1.596	0.000087
N	187	S187S	tcA	tcG	1	1	B.1.637	0.000073
N	187	S187S	tcA	tcG	1	1	B.10	0.008264

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.