CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = A182A

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	182	A182A		syn	gcC	gcT	871	436	0.500574	28817-28819
N	182	A182A		syn	gcC	gcA	871	414	0.475316	28817-28819
N	182	A182A		syn	gcC	gcG	871	21	0.0241102	28817-28819

Details of the mutation A182A 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	182	A182A	gcC	gcT	436	871	All	0.000083
N	182	A182A	gcC	gcA	414	871	All	0.000079
N	182	A182A	gcC	gcG	21	871	All	0.000004
N	182	A182A	gcC	gcA	138	195	B.1.1.7	0.000124
N	182	A182A	gcC	gcT	55	195	B.1.1.7	0.000049
N	182	A182A	gcC	gcG	2	195	B.1.1.7	0.000002
N	182	A182A	gcC	gcA	95	103	AY.25	0.000571
N	182	A182A	gcC	gcT	8	103	AY.25	0.000048
N	182	A182A	gcC	gcA	59	73	AY.103	0.000366
N	182	A182A	gcC	gcT	14	73	AY.103	0.000087
N	182	A182A	gcC	gcT	16	31	AY.43	0.000071
N	182	A182A	gcC	gcA	15	31	AY.43	0.000066
N	182	A182A	gcC	gcT	17	31	B.1.2	0.00015
N	182	A182A	gcC	gcA	14	31	B.1.2	0.000123
N	182	A182A	gcC	gcT	30	30	B.1.36	0.004377
N	182	A182A	gcC	gcT	14	29	B.1.617.2	0.000053
N	182	A182A	gcC	gcA	8	29	B.1.617.2	0.00003
N	182	A182A	gcC	gcG	7	29	B.1.617.2	0.000026
N	182	A182A	gcC	gcT	15	26	AY.4	0.000023
N	182	A182A	gcC	gcA	11	26	AY.4	0.000017
N	182	A182A	gcC	gcT	14	25	B.1	0.000128
N	182	A182A	gcC	gcG	6	25	B.1	0.000055
N	182	A182A	gcC	gcA	5	25	B.1	0.000046
N	182	A182A	gcC	gcT	17	24	AY.5	0.000351
N	182	A182A	gcC	gcA	7	24	AY.5	0.000145
N	182	A182A	gcC	gcT	23	23	B.1.177.61	1
N	182	A182A	gcC	gcT	21	21	B.1.551	0.027097
N	182	A182A	gcC	gcA	10	19	AY.44	0.000061
N	182	A182A	gcC	gcG	5	19	AY.44	0.00003
N	182	A182A	gcC	gcT	4	19	AY.44	0.000024
N	182	A182A	gcC	gcT	13	15	B.1.258	0.000865
N	182	A182A	gcC	gcA	2	15	B.1.258	0.000133
N	182	A182A	gcC	gcT	15	15	B.1.631	0.050505
N	182	A182A	gcC	gcT	13	13	AY.82	0.017639
N	182	A182A	gcC	gcT	9	9	AY.118	0.000564
N	182	A182A	gcC	gcT	8	8	AY.34.1	0.00408
N	182	A182A	gcC	gcT	7	7	AY.119	0.000247
N	182	A182A	gcC	gcT	7	7	B.1.1.267	0.070707
N	182	A182A	gcC	gcT	7	7	B.1.177.4	0.001477
N	182	A182A	gcC	gcA	6	6	AY.120.1	0.001926
N	182	A182A	gcC	gcT	5	5	AY.13	0.000805
N	182	A182A	gcC	gcT	5	5	AY.9	0.000338
N	182	A182A	gcC	gcT	5	5	AY.97	0.008503
N	182	A182A	gcC	gcT	5	5	B.1.177.75	0.005203
N	182	A182A	gcC	gcT	5	5	B.1.36.10	0.023923
N	182	A182A	gcC	gcT	4	5	P.1	0.000063
N	182	A182A	gcC	gcA	1	5	P.1	0.000016
N	182	A182A	gcC	gcT	2	4		0.111111
N	182	A182A	gcC	gcA	1	4		0.055556
N	182	A182A	gcC	gcG	1	4		0.055556
N	182	A182A	gcC	gcA	3	4	AY.20	0.000117
N	182	A182A	gcC	gcT	1	4	AY.20	0.000039
N	182	A182A	gcC	gcT	4	4	AY.23	0.000279
N	182	A182A	gcC	gcT	4	4	AY.29	0.000063
N	182	A182A	gcC	gcT	4	4	AY.3	0.00004
N	182	A182A	gcC	gcT	3	4	AY.4.2	0.000065
N	182	A182A	gcC	gcA	1	4	AY.4.2	0.000022
N	182	A182A	gcC	gcT	2	4	B.1.596	0.000174
N	182	A182A	gcC	gcA	2	4	B.1.596	0.000174
N	182	A182A	gcC	gcA	2	3	AY.114	0.000462
N	182	A182A	gcC	gcT	1	3	AY.114	0.000231
N	182	A182A	gcC	gcT	3	3	AY.26	0.000085
N	182	A182A	gcC	gcT	3	3	B.1.1.317	0.001235
N	182	A182A	gcC	gcA	3	3	B.1.177.54	0.001819
N	182	A182A	gcC	gcT	3	3	B.1.221	0.000213
N	182	A182A	gcC	gcT	2	3	B.1.232	0.001075
N	182	A182A	gcC	gcA	1	3	B.1.232	0.000537
N	182	A182A	gcC	gcA	3	3	B.1.427	0.000151
N	182	A182A	gcC	gcT	3	3	B.1.577	0.002062
N	182	A182A	gcC	gcT	2	2	AY.100	0.000092
N	182	A182A	gcC	gcT	2	2	AY.102	0.000053
N	182	A182A	gcC	gcT	2	2	AY.33	0.000134
N	182	A182A	gcC	gcT	2	2	AY.4.3	0.001684
N	182	A182A	gcC	gcT	1	2	B.1.1	0.000018
N	182	A182A	gcC	gcA	1	2	B.1.1	0.000018
N	182	A182A	gcC	gcT	2	2	B.1.1.161	0.007067
N	182	A182A	gcC	gcT	2	2	B.1.1.222	0.000408
N	182	A182A	gcC	gcT	2	2	B.1.1.297	0.004474
N	182	A182A	gcC	gcT	2	2	B.1.177.60	0.000437
N	182	A182A	gcC	gcA	2	2	B.1.243	0.000139
N	182	A182A	gcC	gcT	1	2	B.1.429	0.000024
N	182	A182A	gcC	gcA	1	2	B.1.429	0.000024
N	182	A182A	gcC	gcT	2	2	B.1.637	0.000146
N	182	A182A	gcC	gcA	1	2	P.1.7	0.000319
N	182	A182A	gcC	gcT	1	2	P.1.7	0.000319
N	182	A182A	gcC	gcT	2	2	R.1	0.00018
N	182	A182A	gcC	gcA	1	1	AY.106	0.000335
N	182	A182A	gcC	gcA	1	1	AY.113	0.000142
N	182	A182A	gcC	gcA	1	1	AY.121	0.000135
N	182	A182A	gcC	gcT	1	1	AY.16	0.00038
N	182	A182A	gcC	gcA	1	1	AY.2	0.000356
N	182	A182A	gcC	gcA	1	1	AY.27	0.000065
N	182	A182A	gcC	gcT	1	1	AY.36	0.000148
N	182	A182A	gcC	gcA	1	1	AY.39	0.000025
N	182	A182A	gcC	gcA	1	1	AY.39.1	0.00004
N	182	A182A	gcC	gcA	1	1	AY.4.5	0.000107
N	182	A182A	gcC	gcA	1	1	AY.46	0.000104
N	182	A182A	gcC	gcA	1	1	AY.46.2	0.000635
N	182	A182A	gcC	gcA	1	1	AY.5.4	0.000277
N	182	A182A	gcC	gcT	1	1	AY.61	0.000105
N	182	A182A	gcC	gcA	1	1	AY.84	0.000437
N	182	A182A	gcC	gcT	1	1	AY.98	0.000079
N	182	A182A	gcC	gcT	1	1	AY.98.1	0.000048
N	182	A182A	gcC	gcT	1	1	B	0.000128
N	182	A182A	gcC	gcT	1	1	B.1.1.277	0.000759
N	182	A182A	gcC	gcT	1	1	B.1.1.301	0.001179
N	182	A182A	gcC	gcA	1	1	B.1.1.306	0.000438
N	182	A182A	gcC	gcA	1	1	B.1.1.326	0.001761
N	182	A182A	gcC	gcA	1	1	B.1.1.434	0.000349
N	182	A182A	gcC	gcT	1	1	B.1.1.519	0.00004
N	182	A182A	gcC	gcA	1	1	B.1.1.70	0.000341
N	182	A182A	gcC	gcT	1	1	B.1.160.16	0.000929
N	182	A182A	gcC	gcT	1	1	B.1.177	0.000013
N	182	A182A	gcC	gcT	1	1	B.1.177.86	0.000183
N	182	A182A	gcC	gcT	1	1	B.1.260	0.003344
N	182	A182A	gcC	gcT	1	1	B.1.311	0.000275
N	182	A182A	gcC	gcT	1	1	B.1.324	0.001605
N	182	A182A	gcC	gcA	1	1	B.1.369	0.000285
N	182	A182A	gcC	gcT	1	1	B.1.509	0.000866
N	182	A182A	gcC	gcA	1	1	B.1.525	0.000113
N	182	A182A	gcC	gcT	1	1	B.1.533	0.009615
N	182	A182A	gcC	gcA	1	1	B.1.617.1	0.000129
N	182	A182A	gcC	gcT	1	1	B.1.621	0.000089
N	182	A182A	gcC	gcT	1	1	B.1.623	0.000536
N	182	A182A	gcC	gcA	1	1	B.1.625	0.002353
N	182	A182A	gcC	gcT	1	1	B.1.628	0.000352
N	182	A182A	gcC	gcA	1	1	B.12	0.00641
N	182	A182A	gcC	gcT	1	1	B.61	0.005747
N	182	A182A	gcC	gcT	1	1	P.1.14	0.000048
N	182	A182A	gcC	gcA	1	1	Q.8	0.000165

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.