CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 3 & Codon = CTt

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	3	D3L		nonsyn	GAt	CTt	1132443	1959	0.00172989	28280-28282

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	3	D3L	GAt	CTt	1959	1132443	All	0.000375
N	3	D3L	GAt	CTt	513	1100535	B.1.1.7	0.000459
N	3	D3L	GAt	CTt	8	7784	Q.1	0.001011
N	3	D3L	GAt	CTt	1	6708	Q.3	0.000145
N	3	D3L	GAt	CTt	607	3380	B.1.1	0.011012
N	3	D3L	GAt	CTt	1	1966	Q.4	0.000455
N	3	D3L	GAt	CTt	1	1624	Q.2	0.000613
N	3	D3L	GAt	CTt	466	1489	B.1	0.004268
N	3	D3L	GAt	CTt	58	202	B.1.177.73	0.032843
N	3	D3L	GAt	CTt	35	71	B.1.1.409	0.09915
N	3	D3L	GAt	CTt	6	64	B	0.000767
N	3	D3L	GAt	CTt	14	62	B.1.375	0.011475
N	3	D3L	GAt	CTt	14	60	B.1.177	0.000184
N	3	D3L	GAt	CTt	20	59	B.1.221	0.001421
N	3	D3L	GAt	CTt	15	52	B.1.2	0.000132
N	3	D3L	GAt	CTt	3	47	B.1.258.17	0.000312
N	3	D3L	GAt	CTt	9	47	B.1.576	0.00816
N	3	D3L	GAt	CTt	3	47	P.1	0.000047
N	3	D3L	GAt	CTt	7	43	B.1.526	0.000165
N	3	D3L	GAt	CTt	1	39	P.1.1	0.000318
N	3	D3L	GAt	CTt	3	38	AY.44	0.000018
N	3	D3L	GAt	CTt	11	38	B.1.177.7	0.001813
N	3	D3L	GAt	CTt	13	38	B.1.596	0.001133
N	3	D3L	GAt	CTt	13	27	B.1.1.507	0.113043
N	3	D3L	GAt	CTt	5	26	B.1.617.2	0.000019
N	3	D3L	GAt	CTt	10	21	B.1.1.161	0.035336
N	3	D3L	GAt	CTt	3	21	B.1.1.519	0.000119
N	3	D3L	GAt	CTt	2	21	B.1.351	0.000059
N	3	D3L	GAt	CTt	4	20	B.1.160	0.000125
N	3	D3L	GAt	CTt	7	19	AY.43	0.000031
N	3	D3L	GAt	CTt	4	16		0.222222
N	3	D3L	GAt	CTt	2	15	B.1.1.220	0.003717
N	3	D3L	GAt	CTt	1	12	AY.29	0.000016
N	3	D3L	GAt	CTt	2	11	B.1.429	0.000047
N	3	D3L	GAt	CTt	3	11	B.1.623	0.001609
N	3	D3L	GAt	CTt	3	10	B.1.139	0.002199
N	3	D3L	GAt	CTt	2	10	B.1.427	0.000101
N	3	D3L	GAt	CTt	3	9	AY.4	0.000005
N	3	D3L	GAt	CTt	2	9	B.1.311	0.000549
N	3	D3L	GAt	CTt	1	9	B.1.621	0.000089
N	3	D3L	GAt	CTt	3	8	A.2.5	0.001497
N	3	D3L	GAt	CTt	4	8	AY.42	0.000161
N	3	D3L	GAt	CTt	1	8	B.1.1.70	0.000341
N	3	D3L	GAt	CTt	3	7	A	0.001161
N	3	D3L	GAt	CTt	1	7	AY.25	0.000006
N	3	D3L	GAt	CTt	1	7	B.1.1.28	0.000311
N	3	D3L	GAt	CTt	1	7	B.1.617.1	0.000129
N	3	D3L	GAt	CTt	3	7	B.1.637	0.000219
N	3	D3L	GAt	CTt	3	6	AY.92	0.000862
N	3	D3L	GAt	CTt	1	6	B.1.1.10	0.001115
N	3	D3L	GAt	CTt	3	6	B.1.1.370	0.037975
N	3	D3L	GAt	CTt	3	6	B.1.369	0.000856
N	3	D3L	GAt	CTt	2	6	B.1.595	0.000522
N	3	D3L	GAt	CTt	2	6	P.1.12	0.000968
N	3	D3L	GAt	CTt	2	5	AY.52	0.001629
N	3	D3L	GAt	CTt	2	5	B.1.580	0.00813
N	3	D3L	GAt	CTt	1	5	B.1.628	0.000352
N	3	D3L	GAt	CTt	1	4	AY.75.1	0.00018
N	3	D3L	GAt	CTt	1	4	B.1.149	0.003425
N	3	D3L	GAt	CTt	2	4	B.1.177.86	0.000367
N	3	D3L	GAt	CTt	1	4	B.1.234	0.000132
N	3	D3L	GAt	CTt	1	4	B.1.243	0.00007
N	3	D3L	GAt	CTt	2	4	B.1.397	0.009709
N	3	D3L	GAt	CTt	2	4	B.1.599	0.007299
N	3	D3L	GAt	CTt	2	4	B.1.94	0.054054
N	3	D3L	GAt	CTt	2	4	P.1.13	0.001797
N	3	D3L	GAt	CTt	1	4	P.1.15	0.000232
N	3	D3L	GAt	CTt	1	3	AY.39.1	0.00004
N	3	D3L	GAt	CTt	1	3	B.1.1.99	0.02381
N	3	D3L	GAt	CTt	1	3	B.1.524	0.001406
N	3	D3L	GAt	CTt	1	3	B.1.565	0.00081
N	3	D3L	GAt	CTt	1	3	B.1.577	0.000687
N	3	D3L	GAt	CTt	1	3	B.1.619	0.000871
N	3	D3L	GAt	CTt	1	3	B.1.620	0.000946
N	3	D3L	GAt	CTt	1	2	AY.13	0.000161
N	3	D3L	GAt	CTt	1	2	AY.23	0.00007
N	3	D3L	GAt	CTt	1	2	AY.34	0.000097
N	3	D3L	GAt	CTt	1	2	AY.40	0.000964
N	3	D3L	GAt	CTt	1	2	AY.75	0.000056
N	3	D3L	GAt	CTt	1	2	AY.9.2	0.000037
N	3	D3L	GAt	CTt	1	2	AY.95	0.000761
N	3	D3L	GAt	CTt	1	2	B.1.1.171	0.003676
N	3	D3L	GAt	CTt	1	2	B.1.1.216	0.00089
N	3	D3L	GAt	CTt	1	2	B.1.1.236	0.006897
N	3	D3L	GAt	CTt	1	2	B.1.1.374	0.002375
N	3	D3L	GAt	CTt	1	2	B.1.1.389	0.006061
N	3	D3L	GAt	CTt	1	2	B.1.1.464	0.001473
N	3	D3L	GAt	CTt	1	2	B.1.177.52	0.001757
N	3	D3L	GAt	CTt	1	2	B.1.177.67	0.007634
N	3	D3L	GAt	CTt	1	2	B.1.206	0.000816
N	3	D3L	GAt	CTt	1	2	B.1.301	0.005917
N	3	D3L	GAt	CTt	1	2	B.1.399	0.001934
N	3	D3L	GAt	CTt	1	2	B.1.432	0.011236
N	3	D3L	GAt	CTt	1	2	B.1.433	0.003195
N	3	D3L	GAt	CTt	1	2	B.1.564	0.000426
N	3	D3L	GAt	CTt	1	2	B.1.627	0.00202
N	3	D3L	GAt	CTt	1	2	B.1.634	0.003425
N	3	D3L	GAt	CTt	1	2	B.1.636	0.006711
N	3	D3L	GAt	CTt	1	1	B.1.606	0.006024

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.