CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp1 : CodonNum = 111 & Codon = gtT

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
ORF1ab/nsp1	111	V111V	V111V	syn	gtG	gtT	2995	1672	0.558264	596-598

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
ORF1ab/nsp1	111	V111V	gtG	gtT	1672	2995	All	0.00032
ORF1ab/nsp1	111	V111V	gtG	gtT	1	868	P.1.14	0.000048
ORF1ab/nsp1	111	V111V	gtG	gtT	335	396	B.1.1.7	0.0003
ORF1ab/nsp1	111	V111V	gtG	gtT	297	297	AY.47	0.009238
ORF1ab/nsp1	111	V111V	gtG	gtT	153	166	B.1.617.2	0.000576
ORF1ab/nsp1	111	V111V	gtG	gtT	135	136	B.1.2	0.001189
ORF1ab/nsp1	111	V111V	gtG	gtT	6	126	AY.5	0.000124
ORF1ab/nsp1	111	V111V	gtG	gtT	81	121	AY.4	0.000126
ORF1ab/nsp1	111	V111V	gtG	gtT	73	73	AY.98	0.005767
ORF1ab/nsp1	111	V111V	gtG	gtT	29	65	AY.103	0.00018
ORF1ab/nsp1	111	V111V	gtG	gtT	58	60	B.1	0.000531
ORF1ab/nsp1	111	V111V	gtG	gtT	38	38	B.1.243	0.002644
ORF1ab/nsp1	111	V111V	gtG	gtT	22	30	AY.43	0.000097
ORF1ab/nsp1	111	V111V	gtG	gtT	18	27	AY.102	0.000477
ORF1ab/nsp1	111	V111V	gtG	gtT	26	26	C.37	0.003018
ORF1ab/nsp1	111	V111V	gtG	gtT	22	25	AY.25	0.000132
ORF1ab/nsp1	111	V111V	gtG	gtT	17	25	AY.3	0.000169
ORF1ab/nsp1	111	V111V	gtG	gtT	23	24	AY.98.1	0.001114
ORF1ab/nsp1	111	V111V	gtG	gtT	12	23	AY.44	0.000073
ORF1ab/nsp1	111	V111V	gtG	gtT	1	20	AY.6	0.000041
ORF1ab/nsp1	111	V111V	gtG	gtT	19	19	AY.35	0.004428
ORF1ab/nsp1	111	V111V	gtG	gtT	18	18	AY.116	0.005162
ORF1ab/nsp1	111	V111V	gtG	gtT	10	17	P.1	0.000158
ORF1ab/nsp1	111	V111V	gtG	gtT	16	16	B.1.1.222	0.003264
ORF1ab/nsp1	111	V111V	gtG	gtT	11	13	AY.120	0.000409
ORF1ab/nsp1	111	V111V	gtG	gtT	6	13	B.1.1	0.000109
ORF1ab/nsp1	111	V111V	gtG	gtT	10	11	AY.20	0.000389
ORF1ab/nsp1	111	V111V	gtG	gtT	11	11	AY.84	0.004812
ORF1ab/nsp1	111	V111V	gtG	gtT	10	10	B.1.177	0.000132
ORF1ab/nsp1	111	V111V	gtG	gtT	9	9	B	0.00115
ORF1ab/nsp1	111	V111V	gtG	gtT	8	8	AY.100	0.000368
ORF1ab/nsp1	111	V111V	gtG	gtT	8	8	AY.33	0.000534
ORF1ab/nsp1	111	V111V	gtG	gtT	3	8	B.1.1.519	0.000119
ORF1ab/nsp1	111	V111V	gtG	gtT	5	7	AY.26	0.000142
ORF1ab/nsp1	111	V111V	gtG	gtT	6	7	B.1.232	0.003224
ORF1ab/nsp1	111	V111V	gtG	gtT	5	7	B.1.596	0.000436
ORF1ab/nsp1	111	V111V	gtG	gtT	7	7	P.1.7	0.002235
ORF1ab/nsp1	111	V111V	gtG	gtT	5	6	AY.118	0.000313
ORF1ab/nsp1	111	V111V	gtG	gtT	5	6	AY.61	0.000524
ORF1ab/nsp1	111	V111V	gtG	gtT	3	6	B.1.36	0.000438
ORF1ab/nsp1	111	V111V	gtG	gtT	4	6	B.1.429	0.000094
ORF1ab/nsp1	111	V111V	gtG	gtT	4	5	AY.23	0.000279
ORF1ab/nsp1	111	V111V	gtG	gtT	2	5	AY.39	0.000049
ORF1ab/nsp1	111	V111V	gtG	gtT	5	5	AY.45	0.000608
ORF1ab/nsp1	111	V111V	gtG	gtT	5	5	B.1.1.54	0.015106
ORF1ab/nsp1	111	V111V	gtG	gtT	1	5	B.1.221	0.000071
ORF1ab/nsp1	111	V111V	gtG	gtT	5	5	P.1.15	0.001162
ORF1ab/nsp1	111	V111V	gtG	gtT	2	4		0.111111
ORF1ab/nsp1	111	V111V	gtG	gtT	2	4	AY.29	0.000032
ORF1ab/nsp1	111	V111V	gtG	gtT	1	4	AY.3.1	0.000085
ORF1ab/nsp1	111	V111V	gtG	gtT	1	4	AY.42	0.00004
ORF1ab/nsp1	111	V111V	gtG	gtT	4	4	AY.48	0.00186
ORF1ab/nsp1	111	V111V	gtG	gtT	4	4	B.1.1.159	0.018692
ORF1ab/nsp1	111	V111V	gtG	gtT	1	4	B.1.1.214	0.000055
ORF1ab/nsp1	111	V111V	gtG	gtT	4	4	B.1.1.28	0.001245
ORF1ab/nsp1	111	V111V	gtG	gtT	2	4	B.1.258	0.000133
ORF1ab/nsp1	111	V111V	gtG	gtT	2	4	B.1.351	0.000059
ORF1ab/nsp1	111	V111V	gtG	gtT	3	4	B.1.526	0.000071
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	AY.111	0.000549
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	AY.4.2.1	0.000447
ORF1ab/nsp1	111	V111V	gtG	gtT	2	3	AY.75.1	0.000361
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	B.1.1.277	0.002276
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	B.1.1.50	0.002037
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	B.1.235	0.007557
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	B.1.398	0.008929
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	B.1.466.2	0.001174
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	B.1.582	0.001472
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	C.37.1	0.007853
ORF1ab/nsp1	111	V111V	gtG	gtT	3	3	P.1.12	0.001452
ORF1ab/nsp1	111	V111V	gtG	gtT	2	2	A.2.5	0.000998
ORF1ab/nsp1	111	V111V	gtG	gtT	1	2	AY.108	0.001103
ORF1ab/nsp1	111	V111V	gtG	gtT	2	2	AY.119	0.000071
ORF1ab/nsp1	111	V111V	gtG	gtT	2	2	AY.14	0.000176
ORF1ab/nsp1	111	V111V	gtG	gtT	1	2	AY.27	0.000065
ORF1ab/nsp1	111	V111V	gtG	gtT	1	2	AY.36	0.000148
ORF1ab/nsp1	111	V111V	gtG	gtT	2	2	AY.67	0.000929
ORF1ab/nsp1	111	V111V	gtG	gtT	2	2	AY.69	0.000373
ORF1ab/nsp1	111	V111V	gtG	gtT	2	2	AY.73	0.001331
ORF1ab/nsp1	111	V111V	gtG	gtT	2	2	B.1.1.207	0.002364
ORF1ab/nsp1	111	V111V	gtG	gtT	1	2	B.1.621	0.000089
ORF1ab/nsp1	111	V111V	gtG	gtT	2	2	B.1.623	0.001073
ORF1ab/nsp1	111	V111V	gtG	gtT	1	2	N.4	0.004255
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AD.2	0.000219
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.1	0.000396
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.104	0.001984
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.106	0.000335
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.107	0.000466
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.109	0.00074
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.113	0.000142
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.121	0.000135
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.37	0.000316
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.4.2	0.000022
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.4.4	0.000409
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.59	0.00053
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.62	0.000436
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.65	0.000533
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.70	0.000209
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.75	0.000056
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.88	0.000884
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.9.2	0.000037
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.92	0.000287
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.99	0.001049
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	AY.99.2	0.000092
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.1.269	0.001353
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.1.318	0.000302
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.1.33	0.000421
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.1.37	0.000193
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.1.372	0.000689
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.1.409	0.002833
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.1.70	0.000341
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.111	0.001175
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.160.14	0.002119
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.167	0.007812
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.177.21	0.000076
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.177.52	0.001757
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.206	0.000816
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.291	0.019231
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.36.18	0.00042
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.413	0.004255
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.453	0.003236
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.1.588	0.00091
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	B.40	0.000364
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	C.30	0.001727
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	C.36	0.000911
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	P.1.1	0.000318
ORF1ab/nsp1	111	V111V	gtG	gtT	1	1	P.2	0.000187
ORF1ab/nsp1	111	V111V	gtG	gtT	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.