CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = A138A

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	138	A138A		syn	gcC	gcT	2713	2239	0.825286	28685-28687
N	138	A138A		syn	gcC	gcA	2713	472	0.173977	28685-28687
N	138	A138A		syn	gcC	gcG	2713	2	0.000737191	28685-28687

Details of the mutation A138A 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	138	A138A	gcC	gcT	2239	2713	All	0.000428
N	138	A138A	gcC	gcA	472	2713	All	0.00009
N	138	A138A	gcC	gcG	2	2713	All	0
N	138	A138A	gcC	gcT	965	1003	B.1.1.7	0.000864
N	138	A138A	gcC	gcA	38	1003	B.1.1.7	0.000034
N	138	A138A	gcC	gcT	646	647	AY.4	0.001005
N	138	A138A	gcC	gcA	1	647	AY.4	0.000002
N	138	A138A	gcC	gcA	218	238	B.1.429	0.005129
N	138	A138A	gcC	gcT	20	238	B.1.429	0.000471
N	138	A138A	gcC	gcA	124	130	AY.26	0.00351
N	138	A138A	gcC	gcT	6	130	AY.26	0.00017
N	138	A138A	gcC	gcT	57	74	AY.43	0.000253
N	138	A138A	gcC	gcA	17	74	AY.43	0.000075
N	138	A138A	gcC	gcT	65	67	AY.25	0.000391
N	138	A138A	gcC	gcA	2	67	AY.25	0.000012
N	138	A138A	gcC	gcT	46	50	B.1.617.2	0.000173
N	138	A138A	gcC	gcA	4	50	B.1.617.2	0.000015
N	138	A138A	gcC	gcT	48	48	AY.103	0.000298
N	138	A138A	gcC	gcT	44	45	B.1.2	0.000387
N	138	A138A	gcC	gcA	1	45	B.1.2	0.000009
N	138	A138A	gcC	gcT	31	32	B.1.177	0.000408
N	138	A138A	gcC	gcA	1	32	B.1.177	0.000013
N	138	A138A	gcC	gcT	27	28	P.1.7	0.008621
N	138	A138A	gcC	gcA	1	28	P.1.7	0.000319
N	138	A138A	gcC	gcT	24	24	AY.44	0.000146
N	138	A138A	gcC	gcA	22	22	AJ.1	1
N	138	A138A	gcC	gcT	22	22	AY.63	0.008511
N	138	A138A	gcC	gcT	10	20	B.1	0.000092
N	138	A138A	gcC	gcA	10	20	B.1	0.000092
N	138	A138A	gcC	gcT	17	17	P.1	0.000268
N	138	A138A	gcC	gcT	16	16	B.1.1.369	0.00714
N	138	A138A	gcC	gcA	14	14	B.1.1.220	0.026022
N	138	A138A	gcC	gcT	12	12	AY.27	0.000777
N	138	A138A	gcC	gcT	12	12	B.1.177.75	0.012487
N	138	A138A	gcC	gcT	11	11	AY.3	0.000109
N	138	A138A	gcC	gcT	10	11	AY.39	0.000247
N	138	A138A	gcC	gcA	1	11	AY.39	0.000025
N	138	A138A	gcC	gcT	7	10	AY.20	0.000272
N	138	A138A	gcC	gcA	3	10	AY.20	0.000117
N	138	A138A	gcC	gcT	10	10	AY.39.1	0.000396
N	138	A138A	gcC	gcT	7	8	AY.46	0.000729
N	138	A138A	gcC	gcA	1	8	AY.46	0.000104
N	138	A138A	gcC	gcT	7	8	B.1.1	0.000127
N	138	A138A	gcC	gcA	1	8	B.1.1	0.000018
N	138	A138A	gcC	gcT	7	8	B.1.596	0.00061
N	138	A138A	gcC	gcA	1	8	B.1.596	0.000087
N	138	A138A	gcC	gcT	5	5	AY.4.4	0.002046
N	138	A138A	gcC	gcT	5	5	AY.61	0.000524
N	138	A138A	gcC	gcT	5	5	B.1.221	0.000355
N	138	A138A	gcC	gcT	4	5	C.37	0.000464
N	138	A138A	gcC	gcA	1	5	C.37	0.000116
N	138	A138A	gcC	gcT	4	4	AY.4.2.1	0.000596
N	138	A138A	gcC	gcT	3	4	AY.5	0.000062
N	138	A138A	gcC	gcA	1	4	AY.5	0.000021
N	138	A138A	gcC	gcT	4	4	AY.75	0.000224
N	138	A138A	gcC	gcT	4	4	B.1.575	0.001214
N	138	A138A	gcC	gcT	3	3	AY.108	0.003308
N	138	A138A	gcC	gcT	2	3	AY.119	0.000071
N	138	A138A	gcC	gcG	1	3	AY.119	0.000035
N	138	A138A	gcC	gcT	3	3	AY.42	0.000121
N	138	A138A	gcC	gcT	3	3	B.1.1.384	0.071429
N	138	A138A	gcC	gcT	3	3	B.1.177.44	0.001557
N	138	A138A	gcC	gcT	3	3	C.1	0.007177
N	138	A138A	gcC	gcA	2	2	AY.23	0.000139
N	138	A138A	gcC	gcT	2	2	AY.29	0.000032
N	138	A138A	gcC	gcT	2	2	AY.33	0.000134
N	138	A138A	gcC	gcT	1	2	AY.53	0.000288
N	138	A138A	gcC	gcA	1	2	AY.53	0.000288
N	138	A138A	gcC	gcT	2	2	AY.57	0.001312
N	138	A138A	gcC	gcT	2	2	B.1.1.25	0.001137
N	138	A138A	gcC	gcT	2	2	B.1.1.284	0.000215
N	138	A138A	gcC	gcT	2	2	B.1.147	0.001512
N	138	A138A	gcC	gcT	2	2	B.1.160	0.000062
N	138	A138A	gcC	gcT	1	2	B.1.427	0.00005
N	138	A138A	gcC	gcA	1	2	B.1.427	0.00005
N	138	A138A	gcC	gcT	1	2	B.1.438.1	0.000107
N	138	A138A	gcC	gcA	1	2	B.1.438.1	0.000107
N	138	A138A	gcC	gcT	2	2	B.4.6	0.033333
N	138	A138A	gcC	gcT	2	2	P.1.15	0.000465
N	138	A138A	gcC	gcG	1	1		0.055556
N	138	A138A	gcC	gcT	1	1	A.2.5	0.000499
N	138	A138A	gcC	gcT	1	1	A.23.1	0.000704
N	138	A138A	gcC	gcT	1	1	AW.1	0.003049
N	138	A138A	gcC	gcT	1	1	AY.100	0.000046
N	138	A138A	gcC	gcT	1	1	AY.102	0.000027
N	138	A138A	gcC	gcA	1	1	AY.113	0.000142
N	138	A138A	gcC	gcT	1	1	AY.14	0.000088
N	138	A138A	gcC	gcT	1	1	AY.34	0.000097
N	138	A138A	gcC	gcA	1	1	AY.45	0.000122
N	138	A138A	gcC	gcT	1	1	AY.46.4	0.000165
N	138	A138A	gcC	gcA	1	1	AY.46.6	0.000072
N	138	A138A	gcC	gcT	1	1	AY.48	0.000465
N	138	A138A	gcC	gcA	1	1	AY.59	0.00053
N	138	A138A	gcC	gcT	1	1	AY.9.1	0.000084
N	138	A138A	gcC	gcT	1	1	AY.93	0.000273
N	138	A138A	gcC	gcT	1	1	AY.96	0.002075
N	138	A138A	gcC	gcT	1	1	AY.98	0.000079
N	138	A138A	gcC	gcT	1	1	AY.98.1	0.000048
N	138	A138A	gcC	gcT	1	1	AY.99	0.001049
N	138	A138A	gcC	gcT	1	1	AY.99.2	0.000092
N	138	A138A	gcC	gcT	1	1	B	0.000128
N	138	A138A	gcC	gcT	1	1	B.1.1.263	0.001558
N	138	A138A	gcC	gcT	1	1	B.1.1.279	0.001121
N	138	A138A	gcC	gcT	1	1	B.1.1.318	0.000302
N	138	A138A	gcC	gcT	1	1	B.1.1.376	0.005952
N	138	A138A	gcC	gcT	1	1	B.1.1.409	0.002833
N	138	A138A	gcC	gcT	1	1	B.1.1.519	0.00004
N	138	A138A	gcC	gcT	1	1	B.1.227	0.047619
N	138	A138A	gcC	gcT	1	1	B.1.234	0.000132
N	138	A138A	gcC	gcT	1	1	B.1.340	0.004292
N	138	A138A	gcC	gcT	1	1	B.1.351	0.00003
N	138	A138A	gcC	gcT	1	1	B.1.351.2	0.000303
N	138	A138A	gcC	gcA	1	1	B.1.369	0.000285
N	138	A138A	gcC	gcT	1	1	B.1.428	0.00102
N	138	A138A	gcC	gcT	1	1	B.1.466.2	0.000391
N	138	A138A	gcC	gcT	1	1	B.1.525	0.000113
N	138	A138A	gcC	gcT	1	1	B.1.576	0.000907
N	138	A138A	gcC	gcT	1	1	B.1.621	0.000089
N	138	A138A	gcC	gcT	1	1	B.1.627	0.00202
N	138	A138A	gcC	gcT	1	1	B.1.93	0.000934
N	138	A138A	gcC	gcT	1	1	C.36.1	0.004149
N	138	A138A	gcC	gcT	1	1	D.2	0.000075
N	138	A138A	gcC	gcT	1	1	P.1.1	0.000318
N	138	A138A	gcC	gcT	1	1	P.1.14	0.000048
N	138	A138A	gcC	gcT	1	1	P.1.2	0.001156

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.