CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 175

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	175	G175G		syn	ggG	ggT	4326	2907	0.671983	28796-28798
N	175	G175G		syn	ggG	ggA	4326	1413	0.32663	28796-28798
N	175	G175G		syn	ggG	ggC	4326	6	0.00138696	28796-28798
N	175	G175del		del	GGG	---	55	55	1	28796-28798
N	175	G175R		nonsyn	Ggg	Agg	20	17	0.85	28796-28798
N	175	G175R		nonsyn	Ggg	Cgg	20	3	0.15	28796-28798
N	175	G175W		nonsyn	Ggg	Tgg	16	16	1	28796-28798
N	175	G175V		nonsyn	gGg	gTg	16	16	1	28796-28798
N	175	G175N		nonsyn	GGG	AAC	10	10	1	28796-28798
N	175	G175del1		del	Ggg	-gg	9	8	0.888889	28796-28798
N	175	G175del1		del	ggG	gg-	9	1	0.111111	28796-28798
N	175	G175A		nonsyn	gGg	gCg	5	5	1	28796-28798
N	175	G175E		nonsyn	gGg	gAg	3	3	1	28796-28798
N	175	G175C		nonsyn	GgG	TgT	3	3	1	28796-28798
N	175	G175T		nonsyn	GGg	ACg	1	1	1	28796-28798
N	175	G175M		nonsyn	GGg	ATg	1	1	1	28796-28798

Details of the mutation no 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	175	G175G	ggG	ggT	2907	4326	All	0.000556
N	175	G175G	ggG	ggA	1413	4326	All	0.00027
N	175	G175G	ggG	ggC	6	4326	All	0.000001
N	175	G175G	ggG	ggT	2169	2170	AY.5	0.044788
N	175	G175G	ggG	ggA	1	2170	AY.5	0.000021
N	175	G175G	ggG	ggA	744	818	B.1.1.7	0.000666
N	175	G175G	ggG	ggT	73	818	B.1.1.7	0.000065
N	175	G175G	ggG	ggC	1	818	B.1.1.7	0.000001
N	175	G175G	ggG	ggA	132	188	AY.4	0.000205
N	175	G175G	ggG	ggT	56	188	AY.4	0.000087
N	175	G175G	ggG	ggT	71	98	B.1.617.2	0.000267
N	175	G175G	ggG	ggA	27	98	B.1.617.2	0.000102
N	175	G175G	ggG	ggT	71	71	AY.5.3	0.023954
N	175	G175G	ggG	ggA	52	60	AY.103	0.000323
N	175	G175G	ggG	ggT	8	60	AY.103	0.00005
N	175	G175G	ggG	ggT	59	60	AY.29	0.000931
N	175	G175G	ggG	ggA	1	60	AY.29	0.000016
N	175	G175G	ggG	ggA	58	58	B.1.258.20	0.920635
N	175	G175del	GGG	---	55	55	All	0.000011
N	175	G175G	ggG	ggA	52	52	B.1.599	0.189781
N	175	G175G	ggG	ggT	43	49	AY.46	0.004475
N	175	G175G	ggG	ggA	6	49	AY.46	0.000624
N	175	G175G	ggG	ggT	46	46	AY.108	0.050717
N	175	G175G	ggG	ggT	29	45	B.1	0.000266
N	175	G175G	ggG	ggA	13	45	B.1	0.000119
N	175	G175G	ggG	ggC	3	45	B.1	0.000027
N	175	G175G	ggG	ggA	41	44	AY.26	0.001161
N	175	G175G	ggG	ggT	3	44	AY.26	0.000085
N	175	G175G	ggG	ggA	27	41	AY.44	0.000164
N	175	G175G	ggG	ggT	14	41	AY.44	0.000085
N	175	G175G	ggG	ggT	27	37	B.1.2	0.000238
N	175	G175G	ggG	ggA	10	37	B.1.2	0.000088
N	175	G175G	ggG	ggT	32	32	P.1.14	0.00153
N	175	G175G	ggG	ggA	23	29	AY.25	0.000138
N	175	G175G	ggG	ggT	6	29	AY.25	0.000036
N	175	G175G	ggG	ggA	21	29	AY.3	0.000209
N	175	G175G	ggG	ggT	8	29	AY.3	0.00008
N	175	G175G	ggG	ggT	22	22	B.1.1.170	0.027431
N	175	G175G	ggG	ggT	12	21	B.1.427	0.000606
N	175	G175G	ggG	ggA	9	21	B.1.427	0.000454
N	175	G175R	Ggg	Agg	17	20	All	0.000003
N	175	G175R	Ggg	Cgg	3	20	All	0.000001
N	175	G175G	ggG	ggT	13	20	AY.43	0.000058
N	175	G175G	ggG	ggA	7	20	AY.43	0.000031
N	175	G175G	ggG	ggT	13	20	B.1.177	0.000171
N	175	G175G	ggG	ggA	7	20	B.1.177	0.000092
N	175	G175G	ggG	ggA	11	19	AY.47	0.000342
N	175	G175G	ggG	ggT	8	19	AY.47	0.000249
N	175	G175G	ggG	ggT	17	17	AY.120	0.000632
N	175	G175G	ggG	ggT	17	17	AY.98	0.001343
N	175	G175V	gGg	gTg	16	16	All	0.000003
N	175	G175W	Ggg	Tgg	16	16	All	0.000003
N	175	G175G	ggG	ggA	9	16	AY.102	0.000239
N	175	G175G	ggG	ggT	7	16	AY.102	0.000186
N	175	G175G	ggG	ggA	13	16	P.1	0.000205
N	175	G175G	ggG	ggT	3	16	P.1	0.000047
N	175	G175G	ggG	ggA	10	11	B.1.351	0.000297
N	175	G175G	ggG	ggT	1	11	B.1.351	0.00003
N	175	G175N	GGG	AAC	10	10	All	0.000002
N	175	G175del	GGG	---	10	10	B.1	0.000092
N	175	G175del1	Ggg	-gg	8	9	All	0.000002
N	175	G175del1	ggG	gg-	1	9	All	0
N	175	G175G	ggG	ggT	8	9	AY.42	0.000322
N	175	G175G	ggG	ggA	1	9	AY.42	0.00004
N	175	G175G	ggG	ggA	8	9	B.1.1	0.000145
N	175	G175G	ggG	ggC	1	9	B.1.1	0.000018
N	175	G175del	GGG	---	9	9	B.1.1.7	0.000008
N	175	G175G	ggG	ggA	7	9	B.1.429	0.000165
N	175	G175G	ggG	ggT	2	9	B.1.429	0.000047
N	175	G175G	ggG	ggA	8	8	B.1.258.17	0.000832
N	175	G175G	ggG	ggA	7	7	AY.39.1	0.000277
N	175	G175G	ggG	ggA	7	7	B.1.1.414	1
N	175	G175R	Ggg	Agg	6	7	B.1.1.7	0.000005
N	175	G175R	Ggg	Cgg	1	7	B.1.1.7	0.000001
N	175	G175G	ggG	ggA	5	6	B.1.160	0.000156
N	175	G175G	ggG	ggT	1	6	B.1.160	0.000031
N	175	G175G	ggG	ggT	6	6	B.1.507	0.067416
N	175	G175G	ggG	ggA	6	6	B.1.577	0.004124
N	175	G175A	gGg	gCg	5	5	All	0.000001
N	175	G175G	ggG	ggT	3	5	AY.119	0.000106
N	175	G175G	ggG	ggA	2	5	AY.119	0.000071
N	175	G175G	ggG	ggA	4	5	AY.20	0.000155
N	175	G175G	ggG	ggT	1	5	AY.20	0.000039
N	175	G175G	ggG	ggT	3	5	AY.39	0.000074
N	175	G175G	ggG	ggA	2	5	AY.39	0.000049
N	175	G175V	gGg	gTg	5	5	B.1	0.000046
N	175	G175G	ggG	ggA	4	5	B.1.526	0.000094
N	175	G175G	ggG	ggT	1	5	B.1.526	0.000024
N	175	G175G	ggG	ggA	3	5	C.37	0.000348
N	175	G175G	ggG	ggT	2	5	C.37	0.000232
N	175	G175G	ggG	ggA	4	4	AY.48	0.00186
N	175	G175G	ggG	ggT	4	4	AY.54	0.000381
N	175	G175G	ggG	ggA	4	4	AY.75	0.000224
N	175	G175G	ggG	ggA	4	4	B.1.36.31	0.007005
N	175	G175G	ggG	ggA	4	4	B.1.400	0.001716
N	175	G175G	ggG	ggA	3	4	B.1.621	0.000266
N	175	G175G	ggG	ggT	1	4	B.1.621	0.000089
N	175	G175E	gGg	gAg	3	3	All	0.000001
N	175	G175C	GgG	TgT	3	3	All	0.000001
N	175	G175G	ggG	ggA	2	3	AY.117	0.000169
N	175	G175G	ggG	ggC	1	3	AY.117	0.000085
N	175	G175G	ggG	ggT	3	3	AY.23	0.000209
N	175	G175G	ggG	ggA	3	3	AY.34	0.000291
N	175	G175V	gGg	gTg	3	3	AY.4	0.000005
N	175	G175G	ggG	ggT	2	3	AY.4.2	0.000043
N	175	G175G	ggG	ggA	1	3	AY.4.2	0.000022
N	175	G175G	ggG	ggT	3	3	AY.45	0.000365
N	175	G175G	ggG	ggT	3	3	AY.69	0.00056
N	175	G175G	ggG	ggT	3	3	AY.9	0.000203
N	175	G175W	Ggg	Tgg	3	3	B.1.1	0.000054
N	175	G175G	ggG	ggA	3	3	B.1.1.337	0.010791
N	175	G175G	ggG	ggT	2	3	B.1.221	0.000142
N	175	G175G	ggG	ggA	1	3	B.1.221	0.000071
N	175	G175G	ggG	ggA	3	3	C.35	0.002322
N	175	G175G	ggG	ggA	3	3	P.2	0.00056
N	175	G175G	ggG	ggT	2	2	AE.1	0.022727
N	175	G175G	ggG	ggA	2	2	AY.113	0.000285
N	175	G175G	ggG	ggT	2	2	AY.121	0.000271
N	175	G175G	ggG	ggT	2	2	AY.33	0.000134
N	175	G175del	GGG	---	2	2	AY.40	0.001929
N	175	G175del	GGG	---	2	2	AY.43	0.000009
N	175	G175R	Ggg	Agg	2	2	AY.44	0.000012
N	175	G175del	GGG	---	2	2	AY.50	0.001599
N	175	G175G	ggG	ggT	2	2	AY.73	0.001331
N	175	G175N	GGG	AAC	2	2	AY.9.2	0.000073
N	175	G175del1	Ggg	-gg	2	2	AY.9.2	0.000073
N	175	G175W	Ggg	Tgg	2	2	B.1	0.000018
N	175	G175del	GGG	---	2	2	B.1.1	0.000036
N	175	G175del	GGG	---	2	2	B.1.1.28	0.000622
N	175	G175G	ggG	ggA	2	2	B.1.1.48	0.005747
N	175	G175del1	Ggg	-gg	2	2	B.1.1.7	0.000002
N	175	G175del	GGG	---	2	2	B.1.177	0.000026
N	175	G175G	ggG	ggT	2	2	B.1.177.73	0.001133
N	175	G175R	Ggg	Agg	2	2	B.1.2	0.000018
N	175	G175G	ggG	ggA	2	2	B.1.36	0.000292
N	175	G175del	GGG	---	2	2	C.37.1	0.005236
N	175	G175G	ggG	ggT	1	2	D.2	0.000075
N	175	G175G	ggG	ggA	1	2	D.2	0.000075
N	175	G175C	GgG	TgT	1	1	A	0.000387
N	175	G175G	ggG	ggT	1	1	A	0.000387
N	175	G175W	Ggg	Tgg	1	1	A	0.000387
N	175	G175W	Ggg	Tgg	1	1	A.2.2	0.001689
N	175	G175G	ggG	ggA	1	1	A.2.5	0.000499
N	175	G175T	GGg	ACg	1	1	All	0
N	175	G175M	GGg	ATg	1	1	All	0
N	175	G175G	ggG	ggA	1	1	AY.100	0.000046
N	175	G175del	GGG	---	1	1	AY.102	0.000027
N	175	G175E	gGg	gAg	1	1	AY.103	0.000006
N	175	G175N	GGG	AAC	1	1	AY.110	0.000113
N	175	G175G	ggG	ggT	1	1	AY.12	0.000316
N	175	G175del1	Ggg	-gg	1	1	AY.23	0.00007
N	175	G175W	Ggg	Tgg	1	1	AY.23	0.00007
N	175	G175del	GGG	---	1	1	AY.25	0.000006
N	175	G175R	Ggg	Agg	1	1	AY.27	0.000065
N	175	G175del1	ggG	gg-	1	1	AY.29	0.000016
N	175	G175N	GGG	AAC	1	1	AY.3	0.00001
N	175	G175T	GGg	ACg	1	1	AY.3	0.00001
N	175	G175del1	Ggg	-gg	1	1	AY.32	0.000532
N	175	G175G	ggG	ggT	1	1	AY.34.1	0.00051
N	175	G175G	ggG	ggT	1	1	AY.36	0.000148
N	175	G175V	gGg	gTg	1	1	AY.39	0.000025
N	175	G175W	Ggg	Tgg	1	1	AY.39	0.000025
N	175	G175W	Ggg	Tgg	1	1	AY.4	0.000002
N	175	G175del	GGG	---	1	1	AY.4	0.000002
N	175	G175R	Ggg	Agg	1	1	AY.4	0.000002
N	175	G175G	ggG	ggT	1	1	AY.4.3	0.000842
N	175	G175N	GGG	AAC	1	1	AY.42	0.00004
N	175	G175W	Ggg	Tgg	1	1	AY.43	0.000004
N	175	G175C	GgG	TgT	1	1	AY.43	0.000004
N	175	G175del	GGG	---	1	1	AY.46	0.000104
N	175	G175G	ggG	ggA	1	1	AY.46.4	0.000165
N	175	G175G	ggG	ggA	1	1	AY.46.5	0.000198
N	175	G175del1	Ggg	-gg	1	1	AY.46.6	0.000072
N	175	G175G	ggG	ggT	1	1	AY.46.6	0.000072
N	175	G175G	ggG	ggT	1	1	AY.5.4	0.000277
N	175	G175G	ggG	ggT	1	1	AY.52	0.000814
N	175	G175G	ggG	ggA	1	1	AY.59	0.00053
N	175	G175G	ggG	ggA	1	1	AY.6	0.000041
N	175	G175G	ggG	ggA	1	1	AY.61	0.000105
N	175	G175G	ggG	ggA	1	1	AY.67	0.000464
N	175	G175G	ggG	ggA	1	1	AY.70	0.000209
N	175	G175N	GGG	AAC	1	1	AY.75	0.000056
N	175	G175del	GGG	---	1	1	AY.75	0.000056
N	175	G175G	ggG	ggT	1	1	AY.84	0.000437
N	175	G175G	ggG	ggT	1	1	AY.88	0.000884
N	175	G175del1	Ggg	-gg	1	1	AY.9.1	0.000084
N	175	G175R	Ggg	Agg	1	1	AY.9.2	0.000037
N	175	G175G	ggG	ggT	1	1	AY.9.2	0.000037
N	175	G175G	ggG	ggT	1	1	AY.93	0.000273
N	175	G175del	GGG	---	1	1	AY.95	0.000761
N	175	G175R	Ggg	Agg	1	1	AY.98	0.000079
N	175	G175V	gGg	gTg	1	1	AY.98.1	0.000048
N	175	G175G	ggG	ggA	1	1	AY.99.1	0.001553
N	175	G175G	ggG	ggA	1	1	AY.99.2	0.000092
N	175	G175G	ggG	ggT	1	1	B	0.000128
N	175	G175A	gGg	gCg	1	1	B.1	0.000009
N	175	G175R	Ggg	Cgg	1	1	B.1	0.000009
N	175	G175C	GgG	TgT	1	1	B.1	0.000009
N	175	G175N	GGG	AAC	1	1	B.1	0.000009
N	175	G175R	Ggg	Cgg	1	1	B.1.1	0.000018
N	175	G175V	gGg	gTg	1	1	B.1.1	0.000018
N	175	G175W	Ggg	Tgg	1	1	B.1.1.186	0.003436
N	175	G175A	gGg	gCg	1	1	B.1.1.196	0.005714
N	175	G175G	ggG	ggA	1	1	B.1.1.214	0.000055
N	175	G175V	gGg	gTg	1	1	B.1.1.216	0.00089
N	175	G175G	ggG	ggA	1	1	B.1.1.222	0.000204
N	175	G175G	ggG	ggT	1	1	B.1.1.25	0.000569
N	175	G175G	ggG	ggA	1	1	B.1.1.263	0.001558
N	175	G175G	ggG	ggA	1	1	B.1.1.28	0.000311
N	175	G175G	ggG	ggA	1	1	B.1.1.311	0.000358
N	175	G175del	GGG	---	1	1	B.1.1.33	0.000421
N	175	G175G	ggG	ggT	1	1	B.1.1.413	0.006897
N	175	G175G	ggG	ggA	1	1	B.1.1.519	0.00004
N	175	G175W	Ggg	Tgg	1	1	B.1.1.7	0.000001
N	175	G175E	gGg	gAg	1	1	B.1.1.7	0.000001
N	175	G175N	GGG	AAC	1	1	B.1.1.7	0.000001
N	175	G175V	gGg	gTg	1	1	B.1.160.12	0.00641
N	175	G175E	gGg	gAg	1	1	B.1.160.16	0.000929
N	175	G175G	ggG	ggA	1	1	B.1.162	0.005025
N	175	G175A	gGg	gCg	1	1	B.1.177	0.000013
N	175	G175G	ggG	ggT	1	1	B.1.177.12	0.000152
N	175	G175del	GGG	---	1	1	B.1.177.62	0.001192
N	175	G175M	GGg	ATg	1	1	B.1.177.63	0.002703
N	175	G175del	GGG	---	1	1	B.1.177.68	0.015152
N	175	G175del	GGG	---	1	1	B.1.2	0.000009
N	175	G175V	gGg	gTg	1	1	B.1.2	0.000009
N	175	G175R	Ggg	Agg	1	1	B.1.221	0.000071
N	175	G175G	ggG	ggA	1	1	B.1.235	0.002519
N	175	G175V	gGg	gTg	1	1	B.1.236	0.002053
N	175	G175G	ggG	ggA	1	1	B.1.239	0.001221
N	175	G175G	ggG	ggA	1	1	B.1.240	0.000216
N	175	G175G	ggG	ggA	1	1	B.1.258	0.000067
N	175	G175W	Ggg	Tgg	1	1	B.1.284	0.013158
N	175	G175G	ggG	ggT	1	1	B.1.346	0.001311
N	175	G175W	Ggg	Tgg	1	1	B.1.351	0.00003
N	175	G175del	GGG	---	1	1	B.1.351	0.00003
N	175	G175R	Ggg	Agg	1	1	B.1.351	0.00003
N	175	G175G	ggG	ggA	1	1	B.1.356	0.001727
N	175	G175G	ggG	ggT	1	1	B.1.36.18	0.00042
N	175	G175G	ggG	ggA	1	1	B.1.36.29	0.000517
N	175	G175G	ggG	ggA	1	1	B.1.367	0.000792
N	175	G175G	ggG	ggA	1	1	B.1.369	0.000285
N	175	G175del	GGG	---	1	1	B.1.416.1	0.001563
N	175	G175W	Ggg	Tgg	1	1	B.1.427	0.00005
N	175	G175del	GGG	---	1	1	B.1.427	0.00005
N	175	G175A	gGg	gCg	1	1	B.1.429	0.000024
N	175	G175G	ggG	ggA	1	1	B.1.438.1	0.000107
N	175	G175G	ggG	ggT	1	1	B.1.462	0.007246
N	175	G175del	GGG	---	1	1	B.1.465	0.003802
N	175	G175G	ggG	ggA	1	1	B.1.509	0.000866
N	175	G175del	GGG	---	1	1	B.1.525	0.000113
N	175	G175G	ggG	ggA	1	1	B.1.525	0.000113
N	175	G175del	GGG	---	1	1	B.1.560	0.00463
N	175	G175del	GGG	---	1	1	B.1.576	0.000907
N	175	G175G	ggG	ggT	1	1	B.1.582	0.000491
N	175	G175G	ggG	ggA	1	1	B.1.587	0.001898
N	175	G175del	GGG	---	1	1	B.1.596	0.000087
N	175	G175del	GGG	---	1	1	B.1.617.1	0.000129
N	175	G175N	GGG	AAC	1	1	B.1.617.1	0.000129
N	175	G175V	gGg	gTg	1	1	B.1.617.2	0.000004
N	175	G175del	GGG	---	1	1	B.1.617.2	0.000004
N	175	G175N	GGG	AAC	1	1	B.1.617.2	0.000004
N	175	G175G	ggG	ggA	1	1	B.1.620	0.000946
N	175	G175G	ggG	ggA	1	1	B.1.628	0.000352
N	175	G175R	Ggg	Agg	1	1	C.35	0.000774
N	175	G175A	gGg	gCg	1	1	D.2	0.000075
N	175	G175del	GGG	---	1	1	P.1	0.000016
N	175	G175del	GGG	---	1	1	P.1.15	0.000232
N	175	G175G	ggG	ggA	1	1	Q.7	0.001111

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.