CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = A892S

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
S	892	A892S		nonsyn	Gct	Tct	1400	1400	1	24236-24238

Details of the mutation A892S 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
S	892	A892S	Gct	Tct	1400	1400	All	0.000268
S	892	A892S	Gct	Tct	310	310	AY.4	0.000482
S	892	A892S	Gct	Tct	207	207	B.1.1.7	0.000185
S	892	A892S	Gct	Tct	59	59	B.1.617.2	0.000222
S	892	A892S	Gct	Tct	55	55	B.1.177	0.000724
S	892	A892S	Gct	Tct	48	48	AY.44	0.000292
S	892	A892S	Gct	Tct	41	41	B.1	0.000376
S	892	A892S	Gct	Tct	41	41	B.1.351	0.001219
S	892	A892S	Gct	Tct	41	41	B.1.36.22	0.049517
S	892	A892S	Gct	Tct	39	39	AY.43	0.000173
S	892	A892S	Gct	Tct	37	37	B.1.350	0.108504
S	892	A892S	Gct	Tct	25	25	AY.103	0.000155
S	892	A892S	Gct	Tct	23	23	AY.39.1	0.000911
S	892	A892S	Gct	Tct	22	22	AY.25	0.000132
S	892	A892S	Gct	Tct	19	19	AY.3	0.000189
S	892	A892S	Gct	Tct	18	18	B.1.1.16	1
S	892	A892S	Gct	Tct	18	18	B.1.429	0.000424
S	892	A892S	Gct	Tct	18	18	B.1.565	0.014587
S	892	A892S	Gct	Tct	15	15	B.1.160	0.000468
S	892	A892S	Gct	Tct	14	14	AY.102	0.000371
S	892	A892S	Gct	Tct	13	13	AY.5	0.000268
S	892	A892S	Gct	Tct	13	13	B.1.1.214	0.000721
S	892	A892S	Gct	Tct	11	11	B.1.1	0.0002
S	892	A892S	Gct	Tct	11	11	B.1.177.82	0.005251
S	892	A892S	Gct	Tct	10	10	B.1.2	0.000088
S	892	A892S	Gct	Tct	10	10	P.1.7	0.003193
S	892	A892S	Gct	Tct	9	9	B.1.469	0.032491
S	892	A892S	Gct	Tct	9	9	B.1.617.1	0.001161
S	892	A892S	Gct	Tct	8	8	B.1.1.270	0.082474
S	892	A892S	Gct	Tct	8	8	B.1.526	0.000188
S	892	A892S	Gct	Tct	8	8	D.2	0.0006
S	892	A892S	Gct	Tct	7	7	AU.3	0.014768
S	892	A892S	Gct	Tct	7	7	AY.34	0.000679
S	892	A892S	Gct	Tct	7	7	AY.53	0.002013
S	892	A892S	Gct	Tct	7	7	B.1.36.1	0.007982
S	892	A892S	Gct	Tct	6	6	AY.98.1	0.000291
S	892	A892S	Gct	Tct	6	6	B	0.000767
S	892	A892S	Gct	Tct	6	6	B.1.1.230	0.055046
S	892	A892S	Gct	Tct	6	6	P.1	0.000095
S	892	A892S	Gct	Tct	5	5	AY.29	0.000079
S	892	A892S	Gct	Tct	5	5	AY.39	0.000124
S	892	A892S	Gct	Tct	5	5	AY.84	0.002187
S	892	A892S	Gct	Tct	5	5	B.1.1.284	0.000537
S	892	A892S	Gct	Tct	5	5	B.1.36	0.00073
S	892	A892S	Gct	Tct	4	4	B.1.1.348	0.003185
S	892	A892S	Gct	Tct	4	4	B.1.110.3	0.002874
S	892	A892S	Gct	Tct	4	4	B.1.160.10	0.032258
S	892	A892S	Gct	Tct	4	4	P.1.15	0.000929
S	892	A892S	Gct	Tct	3	3	AD.2	0.000657
S	892	A892S	Gct	Tct	3	3	AY.20	0.000117
S	892	A892S	Gct	Tct	3	3	AY.4.2	0.000065
S	892	A892S	Gct	Tct	3	3	B.1.139	0.002199
S	892	A892S	Gct	Tct	3	3	B.1.149	0.010274
S	892	A892S	Gct	Tct	3	3	B.1.586	0.032967
S	892	A892S	Gct	Tct	3	3	N.5	0.0053
S	892	A892S	Gct	Tct	3	3	P.4	0.011407
S	892	A892S	Gct	Tct	2	2	A.3	0.004193
S	892	A892S	Gct	Tct	2	2	AY.105	0.001286
S	892	A892S	Gct	Tct	2	2	AY.111	0.000366
S	892	A892S	Gct	Tct	2	2	AY.120	0.000074
S	892	A892S	Gct	Tct	2	2	AY.14	0.000176
S	892	A892S	Gct	Tct	2	2	AY.33	0.000134
S	892	A892S	Gct	Tct	2	2	AY.4.4	0.000818
S	892	A892S	Gct	Tct	2	2	AY.46.6	0.000144
S	892	A892S	Gct	Tct	2	2	AY.48	0.00093
S	892	A892S	Gct	Tct	2	2	AY.9.1	0.000167
S	892	A892S	Gct	Tct	2	2	B.1.1.204	0.006079
S	892	A892S	Gct	Tct	2	2	B.1.1.306	0.000877
S	892	A892S	Gct	Tct	2	2	B.1.1.326	0.003521
S	892	A892S	Gct	Tct	2	2	B.1.160.14	0.004237
S	892	A892S	Gct	Tct	2	2	B.1.240	0.000431
S	892	A892S	Gct	Tct	2	2	B.1.243	0.000139
S	892	A892S	Gct	Tct	2	2	B.1.258.17	0.000208
S	892	A892S	Gct	Tct	2	2	B.1.36.29	0.001035
S	892	A892S	Gct	Tct	2	2	B.1.36.7	0.008
S	892	A892S	Gct	Tct	2	2	B.1.375	0.001639
S	892	A892S	Gct	Tct	2	2	B.1.417	0.057143
S	892	A892S	Gct	Tct	2	2	B.1.428	0.002041
S	892	A892S	Gct	Tct	2	2	B.1.479	0.076923
S	892	A892S	Gct	Tct	2	2	B.1.525	0.000226
S	892	A892S	Gct	Tct	2	2	B.1.595	0.000522
S	892	A892S	Gct	Tct	2	2	B.1.596	0.000174
S	892	A892S	Gct	Tct	2	2	B.1.600	0.011696
S	892	A892S	Gct	Tct	2	2	B.1.621	0.000177
S	892	A892S	Gct	Tct	2	2	C.36.3	0.001134
S	892	A892S	Gct	Tct	2	2	P.2	0.000373
S	892	A892S	Gct	Tct	2	2	Q.1	0.000253
S	892	A892S	Gct	Tct	1	1	A.1	0.000282
S	892	A892S	Gct	Tct	1	1	A.2	0.000662
S	892	A892S	Gct	Tct	1	1	AH.3	0.003802
S	892	A892S	Gct	Tct	1	1	AY.100	0.000046
S	892	A892S	Gct	Tct	1	1	AY.101	0.00049
S	892	A892S	Gct	Tct	1	1	AY.106	0.000335
S	892	A892S	Gct	Tct	1	1	AY.108	0.001103
S	892	A892S	Gct	Tct	1	1	AY.114	0.000231
S	892	A892S	Gct	Tct	1	1	AY.118	0.000063
S	892	A892S	Gct	Tct	1	1	AY.119	0.000035
S	892	A892S	Gct	Tct	1	1	AY.120.2	0.001285
S	892	A892S	Gct	Tct	1	1	AY.120.2.1	0.000498
S	892	A892S	Gct	Tct	1	1	AY.13	0.000161
S	892	A892S	Gct	Tct	1	1	AY.23	0.00007
S	892	A892S	Gct	Tct	1	1	AY.26	0.000028
S	892	A892S	Gct	Tct	1	1	AY.28	0.00189
S	892	A892S	Gct	Tct	1	1	AY.38	0.000499
S	892	A892S	Gct	Tct	1	1	AY.4.2.1	0.000149
S	892	A892S	Gct	Tct	1	1	AY.40	0.000964
S	892	A892S	Gct	Tct	1	1	AY.45	0.000122
S	892	A892S	Gct	Tct	1	1	AY.46	0.000104
S	892	A892S	Gct	Tct	1	1	AY.47	0.000031
S	892	A892S	Gct	Tct	1	1	AY.75.1	0.00018
S	892	A892S	Gct	Tct	1	1	AY.9.2	0.000037
S	892	A892S	Gct	Tct	1	1	AY.98	0.000079
S	892	A892S	Gct	Tct	1	1	AY.99.1	0.001553
S	892	A892S	Gct	Tct	1	1	B.1.1.1	0.000327
S	892	A892S	Gct	Tct	1	1	B.1.1.161	0.003534
S	892	A892S	Gct	Tct	1	1	B.1.1.222	0.000204
S	892	A892S	Gct	Tct	1	1	B.1.1.225	0.007194
S	892	A892S	Gct	Tct	1	1	B.1.1.311	0.000358
S	892	A892S	Gct	Tct	1	1	B.1.1.329	0.003846
S	892	A892S	Gct	Tct	1	1	B.1.1.367	0.055556
S	892	A892S	Gct	Tct	1	1	B.1.1.409	0.002833
S	892	A892S	Gct	Tct	1	1	B.1.128	0.000635
S	892	A892S	Gct	Tct	1	1	B.1.177.33	0.001645
S	892	A892S	Gct	Tct	1	1	B.1.177.56	0.000668
S	892	A892S	Gct	Tct	1	1	B.1.177.8	0.000752
S	892	A892S	Gct	Tct	1	1	B.1.177.81	0.000189
S	892	A892S	Gct	Tct	1	1	B.1.206	0.000816
S	892	A892S	Gct	Tct	1	1	B.1.210	0.002132
S	892	A892S	Gct	Tct	1	1	B.1.221	0.000071
S	892	A892S	Gct	Tct	1	1	B.1.222	0.001692
S	892	A892S	Gct	Tct	1	1	B.1.265	0.001271
S	892	A892S	Gct	Tct	1	1	B.1.311	0.000275
S	892	A892S	Gct	Tct	1	1	B.1.35	0.008475
S	892	A892S	Gct	Tct	1	1	B.1.383	0.009009
S	892	A892S	Gct	Tct	1	1	B.1.400	0.000429
S	892	A892S	Gct	Tct	1	1	B.1.409	0.000781
S	892	A892S	Gct	Tct	1	1	B.1.427	0.00005
S	892	A892S	Gct	Tct	1	1	B.1.438.1	0.000107
S	892	A892S	Gct	Tct	1	1	B.1.500	0.052632
S	892	A892S	Gct	Tct	1	1	B.1.528	0.047619
S	892	A892S	Gct	Tct	1	1	B.1.570	0.002941
S	892	A892S	Gct	Tct	1	1	B.1.582	0.000491
S	892	A892S	Gct	Tct	1	1	B.1.597	0.00463
S	892	A892S	Gct	Tct	1	1	B.1.9	0.006173
S	892	A892S	Gct	Tct	1	1	C.2	0.016129
S	892	A892S	Gct	Tct	1	1	C.37	0.000116
S	892	A892S	Gct	Tct	1	1	P.1.10	0.000269
S	892	A892S	Gct	Tct	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.