CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = G72G

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	72	G72G		syn	ggG	ggA	1029	847	0.823129	21776-21778
S	72	G72G		syn	ggG	ggT	1029	169	0.164237	21776-21778
S	72	G72G		syn	ggG	ggC	1029	13	0.0126336	21776-21778

Details of the mutation G72G 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	72	G72G	ggG	ggA	847	1029	All	0.000162
S	72	G72G	ggG	ggT	169	1029	All	0.000032
S	72	G72G	ggG	ggC	13	1029	All	0.000002
S	72	G72G	ggG	ggA	116	169	B.1.1.7	0.000104
S	72	G72G	ggG	ggT	53	169	B.1.1.7	0.000047
S	72	G72G	ggG	ggA	141	141	B.1.1.37	0.027194
S	72	G72G	ggG	ggA	133	133	AY.23	0.009277
S	72	G72G	ggG	ggA	54	55	B.1.1	0.00098
S	72	G72G	ggG	ggT	1	55	B.1.1	0.000018
S	72	G72G	ggG	ggA	21	37	AY.4	0.000033
S	72	G72G	ggG	ggT	15	37	AY.4	0.000023
S	72	G72G	ggG	ggC	1	37	AY.4	0.000002
S	72	G72G	ggG	ggA	31	37	B.1	0.000284
S	72	G72G	ggG	ggT	6	37	B.1	0.000055
S	72	G72G	ggG	ggA	24	34	B.1.2	0.000211
S	72	G72G	ggG	ggT	9	34	B.1.2	0.000079
S	72	G72G	ggG	ggC	1	34	B.1.2	0.000009
S	72	G72G	ggG	ggA	29	29	B.1.351	0.000862
S	72	G72G	ggG	ggA	23	23	B.1.1.242	1
S	72	G72G	ggG	ggA	13	23	B.1.617.2	0.000049
S	72	G72G	ggG	ggT	10	23	B.1.617.2	0.000038
S	72	G72G	ggG	ggA	17	17	AY.75	0.000952
S	72	G72G	ggG	ggA	9	17	B.1.177	0.000119
S	72	G72G	ggG	ggC	7	17	B.1.177	0.000092
S	72	G72G	ggG	ggT	1	17	B.1.177	0.000013
S	72	G72G	ggG	ggA	12	16	AY.43	0.000053
S	72	G72G	ggG	ggT	3	16	AY.43	0.000013
S	72	G72G	ggG	ggC	1	16	AY.43	0.000004
S	72	G72G	ggG	ggA	13	15	AY.29	0.000205
S	72	G72G	ggG	ggT	2	15	AY.29	0.000032
S	72	G72G	ggG	ggA	15	15	P.1	0.000236
S	72	G72G	ggG	ggT	10	14	AY.5	0.000206
S	72	G72G	ggG	ggA	4	14	AY.5	0.000083
S	72	G72G	ggG	ggA	8	13	AY.25	0.000048
S	72	G72G	ggG	ggT	5	13	AY.25	0.00003
S	72	G72G	ggG	ggA	12	12	B.1.1.519	0.000477
S	72	G72G	ggG	ggA	12	12	B.1.610	0.042553
S	72	G72G	ggG	ggA	11	11	B.1.1.214	0.00061
S	72	G72G	ggG	ggA	11	11	B.1.258.14	0.010784
S	72	G72G	ggG	ggT	6	10	AY.103	0.000037
S	72	G72G	ggG	ggA	3	10	AY.103	0.000019
S	72	G72G	ggG	ggC	1	10	AY.103	0.000006
S	72	G72G	ggG	ggA	6	10	AY.44	0.000037
S	72	G72G	ggG	ggT	4	10	AY.44	0.000024
S	72	G72G	ggG	ggA	8	9	AY.46.6	0.000578
S	72	G72G	ggG	ggT	1	9	AY.46.6	0.000072
S	72	G72G	ggG	ggA	9	9	B.1.177.53	0.021531
S	72	G72G	ggG	ggA	7	7	C.37	0.000812
S	72	G72G	ggG	ggA	6	6	AY.119	0.000212
S	72	G72G	ggG	ggT	4	6	B.1.427	0.000202
S	72	G72G	ggG	ggA	2	6	B.1.427	0.000101
S	72	G72G	ggG	ggT	5	6	B.1.466.2	0.001956
S	72	G72G	ggG	ggA	1	6	B.1.466.2	0.000391
S	72	G72G	ggG	ggA	4	5	AY.3	0.00004
S	72	G72G	ggG	ggT	1	5	AY.3	0.00001
S	72	G72G	ggG	ggA	5	5	B.1.239	0.006105
S	72	G72G	ggG	ggA	4	4	AY.39.1	0.000158
S	72	G72G	ggG	ggA	4	4	B	0.000511
S	72	G72G	ggG	ggA	3	4	B.1.221	0.000213
S	72	G72G	ggG	ggT	1	4	B.1.221	0.000071
S	72	G72G	ggG	ggT	2	3	AY.100	0.000092
S	72	G72G	ggG	ggA	1	3	AY.100	0.000046
S	72	G72G	ggG	ggA	2	3	AY.102	0.000053
S	72	G72G	ggG	ggT	1	3	AY.102	0.000027
S	72	G72G	ggG	ggA	3	3	AY.3.1	0.000256
S	72	G72G	ggG	ggA	3	3	AY.42	0.000121
S	72	G72G	ggG	ggA	3	3	AY.98	0.000237
S	72	G72G	ggG	ggT	2	3	B.1.1.416	0.00181
S	72	G72G	ggG	ggA	1	3	B.1.1.416	0.000905
S	72	G72G	ggG	ggA	3	3	B.1.143	0.06383
S	72	G72G	ggG	ggT	3	3	B.1.425	0.008982
S	72	G72G	ggG	ggA	3	3	B.1.429	0.000071
S	72	G72G	ggG	ggA	2	3	B.1.526	0.000047
S	72	G72G	ggG	ggT	1	3	B.1.526	0.000024
S	72	G72G	ggG	ggA	2	3	B.1.596	0.000174
S	72	G72G	ggG	ggT	1	3	B.1.596	0.000087
S	72	G72G	ggG	ggA	2	2	AY.14	0.000176
S	72	G72G	ggG	ggA	2	2	AY.4.2	0.000043
S	72	G72G	ggG	ggA	2	2	AY.46.2	0.001271
S	72	G72G	ggG	ggT	2	2	AY.61	0.00021
S	72	G72G	ggG	ggT	1	2	AY.7	0.000196
S	72	G72G	ggG	ggA	1	2	AY.7	0.000196
S	72	G72G	ggG	ggT	2	2	AY.9	0.000135
S	72	G72G	ggG	ggT	1	2	AY.9.2	0.000037
S	72	G72G	ggG	ggA	1	2	AY.9.2	0.000037
S	72	G72G	ggG	ggA	1	2	B.1.1.311	0.000358
S	72	G72G	ggG	ggT	1	2	B.1.1.311	0.000358
S	72	G72G	ggG	ggA	1	2	B.1.160	0.000031
S	72	G72G	ggG	ggT	1	2	B.1.160	0.000031
S	72	G72G	ggG	ggA	2	2	B.1.177.7	0.00033
S	72	G72G	ggG	ggA	2	2	B.1.210	0.004264
S	72	G72G	ggG	ggA	2	2	B.1.240	0.000431
S	72	G72G	ggG	ggT	2	2	B.1.523	0.004902
S	72	G72G	ggG	ggT	1	2	B.1.617.1	0.000129
S	72	G72G	ggG	ggA	1	2	B.1.617.1	0.000129
S	72	G72G	ggG	ggA	2	2	B.1.621	0.000177
S	72	G72G	ggG	ggT	2	2	D.2	0.00015
S	72	G72G	ggG	ggT	1	1	AY.120	0.000037
S	72	G72G	ggG	ggA	1	1	AY.19	0.00114
S	72	G72G	ggG	ggT	1	1	AY.20	0.000039
S	72	G72G	ggG	ggA	1	1	AY.24	0.000431
S	72	G72G	ggG	ggT	1	1	AY.34	0.000097
S	72	G72G	ggG	ggT	1	1	AY.39	0.000025
S	72	G72G	ggG	ggT	1	1	AY.46	0.000104
S	72	G72G	ggG	ggT	1	1	AY.47	0.000031
S	72	G72G	ggG	ggA	1	1	AY.55	0.000917
S	72	G72G	ggG	ggA	1	1	AY.59	0.00053
S	72	G72G	ggG	ggA	1	1	AY.6	0.000041
S	72	G72G	ggG	ggA	1	1	AY.67	0.000464
S	72	G72G	ggG	ggA	1	1	AY.69	0.000187
S	72	G72G	ggG	ggA	1	1	AY.73	0.000665
S	72	G72G	ggG	ggA	1	1	AY.84	0.000437
S	72	G72G	ggG	ggA	1	1	AY.93	0.000273
S	72	G72G	ggG	ggA	1	1	B.1.1.128	0.007092
S	72	G72G	ggG	ggA	1	1	B.1.1.141	0.002012
S	72	G72G	ggG	ggA	1	1	B.1.1.216	0.00089
S	72	G72G	ggG	ggT	1	1	B.1.1.277	0.000759
S	72	G72G	ggG	ggA	1	1	B.1.1.309	0.005848
S	72	G72G	ggG	ggA	1	1	B.1.1.333	0.001076
S	72	G72G	ggG	ggC	1	1	B.1.1.348	0.000796
S	72	G72G	ggG	ggT	1	1	B.1.1.8	0.003584
S	72	G72G	ggG	ggA	1	1	B.1.177.12	0.000152
S	72	G72G	ggG	ggA	1	1	B.1.177.35	0.000691
S	72	G72G	ggG	ggA	1	1	B.1.177.75	0.001041
S	72	G72G	ggG	ggA	1	1	B.1.232	0.000537
S	72	G72G	ggG	ggA	1	1	B.1.258	0.000067
S	72	G72G	ggG	ggA	1	1	B.1.36	0.000146
S	72	G72G	ggG	ggC	1	1	B.1.36.27	0.000763
S	72	G72G	ggG	ggA	1	1	B.1.408	0.00369
S	72	G72G	ggG	ggA	1	1	B.1.497	0.000315
S	72	G72G	ggG	ggA	1	1	B.1.567	0.003333
S	72	G72G	ggG	ggA	1	1	B.1.609	0.000479
S	72	G72G	ggG	ggA	1	1	B.1.620	0.000946
S	72	G72G	ggG	ggT	1	1	B.1.625	0.002353
S	72	G72G	ggG	ggA	1	1	B.1.627	0.00202
S	72	G72G	ggG	ggA	1	1	B.41	0.008
S	72	G72G	ggG	ggA	1	1	C.16	0.00106
S	72	G72G	ggG	ggA	1	1	P.1.12	0.000484
S	72	G72G	ggG	ggA	1	1	P.1.15	0.000232
S	72	G72G	ggG	ggA	1	1	P.1.7	0.000319
S	72	G72G	ggG	ggA	1	1	P.2	0.000187
S	72	G72G	ggG	ggA	1	1	Q.1	0.000126

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.