CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : CodonNum = 37 & Codon = ---

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
ORF7a	37	S37del		del	TCT	---	1690	1690	1	27502-27504

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
ORF7a	37	S37del	TCT	---	1690	1690	All	0.000323
ORF7a	37	S37del	TCT	---	335	335	AY.4	0.000521
ORF7a	37	S37del	TCT	---	311	311	B.1.1.7	0.000278
ORF7a	37	S37del	TCT	---	199	199	B.1.617.2	0.000749
ORF7a	37	S37del	TCT	---	179	179	B.1.177.21	0.013688
ORF7a	37	S37del	TCT	---	126	126	AY.25	0.000758
ORF7a	37	S37del	TCT	---	57	57	AY.103	0.000354
ORF7a	37	S37del	TCT	---	45	45	AY.3	0.000448
ORF7a	37	S37del	TCT	---	43	43	AY.29	0.000678
ORF7a	37	S37del	TCT	---	39	39	AY.44	0.000237
ORF7a	37	S37del	TCT	---	21	21	AY.43	0.000093
ORF7a	37	S37del	TCT	---	21	21	B.1.1.214	0.001165
ORF7a	37	S37del	TCT	---	21	21	U.1	0.269231
ORF7a	37	S37del	TCT	---	17	17	AY.7.2	0.009508
ORF7a	37	S37del	TCT	---	16	16	AY.3.1	0.001364
ORF7a	37	S37del	TCT	---	14	14	C.37	0.001625
ORF7a	37	S37del	TCT	---	13	13	AY.39	0.000321
ORF7a	37	S37del	TCT	---	11	11	B.1	0.000101
ORF7a	37	S37del	TCT	---	10	10	B.1.2	0.000088
ORF7a	37	S37del	TCT	---	9	9	B.1.1.284	0.000967
ORF7a	37	S37del	TCT	---	9	9	P.1	0.000142
ORF7a	37	S37del	TCT	---	8	8	AY.23	0.000558
ORF7a	37	S37del	TCT	---	8	8	AY.47	0.000249
ORF7a	37	S37del	TCT	---	7	7	AY.20	0.000272
ORF7a	37	S37del	TCT	---	6	6	AY.100	0.000276
ORF7a	37	S37del	TCT	---	6	6	AY.26	0.00017
ORF7a	37	S37del	TCT	---	6	6	B.1.177	0.000079
ORF7a	37	S37del	TCT	---	6	6	B.1.177.44	0.003114
ORF7a	37	S37del	TCT	---	5	5	B.1.1.56	0.089286
ORF7a	37	S37del	TCT	---	5	5	B.1.429	0.000118
ORF7a	37	S37del	TCT	---	5	5	B.1.526	0.000118
ORF7a	37	S37del	TCT	---	5	5	B.1.637	0.000365
ORF7a	37	S37del	TCT	---	4	4	AY.121	0.000541
ORF7a	37	S37del	TCT	---	4	4	AY.4.2	0.000087
ORF7a	37	S37del	TCT	---	4	4	AY.98.1	0.000194
ORF7a	37	S37del	TCT	---	3	3	AY.106	0.001005
ORF7a	37	S37del	TCT	---	3	3	AY.118	0.000188
ORF7a	37	S37del	TCT	---	3	3	AY.4.5	0.000322
ORF7a	37	S37del	TCT	---	3	3	AY.42	0.000121
ORF7a	37	S37del	TCT	---	3	3	B.1.1.25	0.001706
ORF7a	37	S37del	TCT	---	3	3	B.1.234	0.000396
ORF7a	37	S37del	TCT	---	3	3	B.1.351	0.000089
ORF7a	37	S37del	TCT	---	3	3	B.1.626	0.017143
ORF7a	37	S37del	TCT	---	3	3	Q.8	0.000495
ORF7a	37	S37del	TCT	---	2	2	A.28	0.005291
ORF7a	37	S37del	TCT	---	2	2	AY.119	0.000071
ORF7a	37	S37del	TCT	---	2	2	AY.120	0.000074
ORF7a	37	S37del	TCT	---	2	2	AY.29.1	0.000441
ORF7a	37	S37del	TCT	---	2	2	AY.33	0.000134
ORF7a	37	S37del	TCT	---	2	2	AY.34	0.000194
ORF7a	37	S37del	TCT	---	2	2	AY.5	0.000041
ORF7a	37	S37del	TCT	---	2	2	AY.5.3	0.000675
ORF7a	37	S37del	TCT	---	2	2	AY.75	0.000112
ORF7a	37	S37del	TCT	---	2	2	AY.9	0.000135
ORF7a	37	S37del	TCT	---	2	2	B.1.1	0.000036
ORF7a	37	S37del	TCT	---	2	2	B.1.160	0.000062
ORF7a	37	S37del	TCT	---	2	2	B.1.177.43	0.002954
ORF7a	37	S37del	TCT	---	2	2	B.1.177.86	0.000367
ORF7a	37	S37del	TCT	---	2	2	B.1.258	0.000133
ORF7a	37	S37del	TCT	---	2	2	B.1.258.11	0.000793
ORF7a	37	S37del	TCT	---	2	2	B.1.36	0.000292
ORF7a	37	S37del	TCT	---	2	2	B.1.596	0.000174
ORF7a	37	S37del	TCT	---	2	2	C.36.3	0.001134
ORF7a	37	S37del	TCT	---	1	1	A	0.000387
ORF7a	37	S37del	TCT	---	1	1	A.1	0.000282
ORF7a	37	S37del	TCT	---	1	1	AY.102	0.000027
ORF7a	37	S37del	TCT	---	1	1	AY.108	0.001103
ORF7a	37	S37del	TCT	---	1	1	AY.110	0.000113
ORF7a	37	S37del	TCT	---	1	1	AY.113	0.000142
ORF7a	37	S37del	TCT	---	1	1	AY.116.1	0.000311
ORF7a	37	S37del	TCT	---	1	1	AY.12	0.000316
ORF7a	37	S37del	TCT	---	1	1	AY.120.1	0.000321
ORF7a	37	S37del	TCT	---	1	1	AY.16.1	0.00047
ORF7a	37	S37del	TCT	---	1	1	AY.34.1	0.00051
ORF7a	37	S37del	TCT	---	1	1	AY.39.1	0.00004
ORF7a	37	S37del	TCT	---	1	1	AY.45	0.000122
ORF7a	37	S37del	TCT	---	1	1	AY.5.4	0.000277
ORF7a	37	S37del	TCT	---	1	1	AY.51	0.000909
ORF7a	37	S37del	TCT	---	1	1	AY.54	0.000095
ORF7a	37	S37del	TCT	---	1	1	AY.6	0.000041
ORF7a	37	S37del	TCT	---	1	1	AY.61	0.000105
ORF7a	37	S37del	TCT	---	1	1	AY.66	0.00107
ORF7a	37	S37del	TCT	---	1	1	AY.76	0.004831
ORF7a	37	S37del	TCT	---	1	1	AY.79	0.001211
ORF7a	37	S37del	TCT	---	1	1	AY.9.1	0.000084
ORF7a	37	S37del	TCT	---	1	1	AY.9.2	0.000037
ORF7a	37	S37del	TCT	---	1	1	AY.92	0.000287
ORF7a	37	S37del	TCT	---	1	1	AY.94	0.000443
ORF7a	37	S37del	TCT	---	1	1	AY.98	0.000079
ORF7a	37	S37del	TCT	---	1	1	AY.99.2	0.000092
ORF7a	37	S37del	TCT	---	1	1	B.1.1.207	0.001182
ORF7a	37	S37del	TCT	---	1	1	B.1.1.222	0.000204
ORF7a	37	S37del	TCT	---	1	1	B.1.1.318	0.000302
ORF7a	37	S37del	TCT	---	1	1	B.1.1.519	0.00004
ORF7a	37	S37del	TCT	---	1	1	B.1.1.522	0.017241
ORF7a	37	S37del	TCT	---	1	1	B.1.115	0.021739
ORF7a	37	S37del	TCT	---	1	1	B.1.177.80	0.001912
ORF7a	37	S37del	TCT	---	1	1	B.1.177.81	0.000189
ORF7a	37	S37del	TCT	---	1	1	B.1.177.83	0.001481
ORF7a	37	S37del	TCT	---	1	1	B.1.221	0.000071
ORF7a	37	S37del	TCT	---	1	1	B.1.240	0.000216
ORF7a	37	S37del	TCT	---	1	1	B.1.258.17	0.000104
ORF7a	37	S37del	TCT	---	1	1	B.1.427	0.00005
ORF7a	37	S37del	TCT	---	1	1	B.1.438.1	0.000107
ORF7a	37	S37del	TCT	---	1	1	B.1.459	0.004082
ORF7a	37	S37del	TCT	---	1	1	B.1.466.2	0.000391
ORF7a	37	S37del	TCT	---	1	1	B.1.468	0.005714
ORF7a	37	S37del	TCT	---	1	1	B.1.470	0.001404
ORF7a	37	S37del	TCT	---	1	1	B.1.617.3	0.002985
ORF7a	37	S37del	TCT	---	1	1	B.1.620	0.000946
ORF7a	37	S37del	TCT	---	1	1	B.1.630	0.005236
ORF7a	37	S37del	TCT	---	1	1	B.1.636	0.006711
ORF7a	37	S37del	TCT	---	1	1	R.1	0.00009

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.