CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : Mut = P34S

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	34	P34S		nonsyn	Cct	Tct	10644	10644	1	27493-27495

Details of the mutation P34S 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	34	P34S	Cct	Tct	10644	10644	All	0.002036
ORF7a	34	P34S	Cct	Tct	4171	4171	B.1.1.7	0.003734
ORF7a	34	P34S	Cct	Tct	1259	1259	AY.103	0.007817
ORF7a	34	P34S	Cct	Tct	646	646	AY.4	0.001005
ORF7a	34	P34S	Cct	Tct	500	500	B.1.617.2	0.001883
ORF7a	34	P34S	Cct	Tct	484	484	AY.43	0.002144
ORF7a	34	P34S	Cct	Tct	348	348	AY.46	0.03622
ORF7a	34	P34S	Cct	Tct	265	265	B.1.637	0.019364
ORF7a	34	P34S	Cct	Tct	213	213	AY.25	0.001281
ORF7a	34	P34S	Cct	Tct	202	202	AY.5	0.004171
ORF7a	34	P34S	Cct	Tct	189	189	AY.29	0.002981
ORF7a	34	P34S	Cct	Tct	171	171	B.1.618	0.689516
ORF7a	34	P34S	Cct	Tct	156	156	AY.44	0.00095
ORF7a	34	P34S	Cct	Tct	113	113	B.1.438.1	0.012121
ORF7a	34	P34S	Cct	Tct	97	97	P.1	0.001528
ORF7a	34	P34S	Cct	Tct	93	93	B.1.177	0.001225
ORF7a	34	P34S	Cct	Tct	87	87	AY.3	0.000865
ORF7a	34	P34S	Cct	Tct	82	82	B.1.2	0.000722
ORF7a	34	P34S	Cct	Tct	65	65	AY.33	0.004341
ORF7a	34	P34S	Cct	Tct	59	59	C.37	0.006848
ORF7a	34	P34S	Cct	Tct	55	55	B.1	0.000504
ORF7a	34	P34S	Cct	Tct	55	55	B.1.429	0.001294
ORF7a	34	P34S	Cct	Tct	54	54	AY.36	0.008004
ORF7a	34	P34S	Cct	Tct	48	48	AY.39	0.001186
ORF7a	34	P34S	Cct	Tct	45	45	AY.6	0.001851
ORF7a	34	P34S	Cct	Tct	45	45	B.1.177.21	0.003441
ORF7a	34	P34S	Cct	Tct	40	40	B.1.351	0.001189
ORF7a	34	P34S	Cct	Tct	34	34	AY.75	0.001905
ORF7a	34	P34S	Cct	Tct	32	32	AY.98	0.002528
ORF7a	34	P34S	Cct	Tct	31	31	C.36.3	0.017584
ORF7a	34	P34S	Cct	Tct	29	29	AY.119	0.001024
ORF7a	34	P34S	Cct	Tct	28	28	AY.4.2	0.000607
ORF7a	34	P34S	Cct	Tct	27	27	AY.102	0.000716
ORF7a	34	P34S	Cct	Tct	27	27	B.1.596	0.002353
ORF7a	34	P34S	Cct	Tct	23	23	B.1.1	0.000417
ORF7a	34	P34S	Cct	Tct	22	22	AY.111	0.004029
ORF7a	34	P34S	Cct	Tct	20	20	B.1.160	0.000624
ORF7a	34	P34S	Cct	Tct	19	19	P.1.14	0.000908
ORF7a	34	P34S	Cct	Tct	18	18	AY.3.1	0.001535
ORF7a	34	P34S	Cct	Tct	18	18	AY.46.6	0.0013
ORF7a	34	P34S	Cct	Tct	18	18	B.1.346	0.023591
ORF7a	34	P34S	Cct	Tct	16	16	AY.118	0.001002
ORF7a	34	P34S	Cct	Tct	16	16	B.1.1.519	0.000635
ORF7a	34	P34S	Cct	Tct	16	16	B.1.177.60	0.003495
ORF7a	34	P34S	Cct	Tct	16	16	B.1.526	0.000376
ORF7a	34	P34S	Cct	Tct	15	15	B.1.240	0.003233
ORF7a	34	P34S	Cct	Tct	15	15	B.1.561	0.005955
ORF7a	34	P34S	Cct	Tct	14	14	B.1.177.57	0.003934
ORF7a	34	P34S	Cct	Tct	14	14	B.1.234	0.001847
ORF7a	34	P34S	Cct	Tct	13	13	AY.12	0.004109
ORF7a	34	P34S	Cct	Tct	13	13	B.1.1.265	0.041009
ORF7a	34	P34S	Cct	Tct	12	12	AY.47	0.000373
ORF7a	34	P34S	Cct	Tct	12	12	B.1.177.65	0.007984
ORF7a	34	P34S	Cct	Tct	12	12	B.1.427	0.000606
ORF7a	34	P34S	Cct	Tct	11	11	AY.23	0.000767
ORF7a	34	P34S	Cct	Tct	11	11	AY.85	0.004699
ORF7a	34	P34S	Cct	Tct	11	11	AY.9	0.000744
ORF7a	34	P34S	Cct	Tct	11	11	B.1.619	0.009582
ORF7a	34	P34S	Cct	Tct	11	11	B.1.621	0.000974
ORF7a	34	P34S	Cct	Tct	10	10	AY.117	0.000845
ORF7a	34	P34S	Cct	Tct	10	10	B.1.367	0.007924
ORF7a	34	P34S	Cct	Tct	9	9	AY.106	0.003014
ORF7a	34	P34S	Cct	Tct	9	9	AY.20	0.00035
ORF7a	34	P34S	Cct	Tct	9	9	AY.42	0.000362
ORF7a	34	P34S	Cct	Tct	9	9	B.1.258	0.000599
ORF7a	34	P34S	Cct	Tct	9	9	Q.3	0.001305
ORF7a	34	P34S	Cct	Tct	9	9	Q.8	0.001484
ORF7a	34	P34S	Cct	Tct	8	8	AY.39.1	0.000317
ORF7a	34	P34S	Cct	Tct	8	8	AY.63	0.003095
ORF7a	34	P34S	Cct	Tct	8	8	AY.98.1	0.000387
ORF7a	34	P34S	Cct	Tct	7	7	AY.116.1	0.00218
ORF7a	34	P34S	Cct	Tct	7	7	AY.120	0.00026
ORF7a	34	P34S	Cct	Tct	7	7	AY.39.2	0.010786
ORF7a	34	P34S	Cct	Tct	7	7	AY.59	0.003708
ORF7a	34	P34S	Cct	Tct	7	7	B	0.000895
ORF7a	34	P34S	Cct	Tct	7	7	B.1.160.16	0.006506
ORF7a	34	P34S	Cct	Tct	7	7	B.1.177.32	0.009447
ORF7a	34	P34S	Cct	Tct	7	7	B.1.177.4	0.001477
ORF7a	34	P34S	Cct	Tct	7	7	P.1.17	0.001132
ORF7a	34	P34S	Cct	Tct	6	6	AY.120.1	0.001926
ORF7a	34	P34S	Cct	Tct	6	6	AY.26	0.00017
ORF7a	34	P34S	Cct	Tct	6	6	B.1.214.2	0.003597
ORF7a	34	P34S	Cct	Tct	6	6	B.1.221	0.000426
ORF7a	34	P34S	Cct	Tct	6	6	D.2	0.00045
ORF7a	34	P34S	Cct	Tct	6	6	Q.1	0.000758
ORF7a	34	P34S	Cct	Tct	5	5	AY.27	0.000324
ORF7a	34	P34S	Cct	Tct	5	5	AY.62	0.002179
ORF7a	34	P34S	Cct	Tct	5	5	AY.9.2	0.000184
ORF7a	34	P34S	Cct	Tct	5	5	B.1.1.214	0.000277
ORF7a	34	P34S	Cct	Tct	5	5	B.1.499	0.005252
ORF7a	34	P34S	Cct	Tct	5	5	B.1.595	0.001305
ORF7a	34	P34S	Cct	Tct	4	4	AY.100	0.000184
ORF7a	34	P34S	Cct	Tct	4	4	AY.13	0.000644
ORF7a	34	P34S	Cct	Tct	4	4	AY.29.1	0.000882
ORF7a	34	P34S	Cct	Tct	4	4	AY.35	0.000932
ORF7a	34	P34S	Cct	Tct	4	4	AY.48	0.00186
ORF7a	34	P34S	Cct	Tct	4	4	AY.5.3	0.00135
ORF7a	34	P34S	Cct	Tct	4	4	B.1.1.433	0.005698
ORF7a	34	P34S	Cct	Tct	4	4	B.1.351.3	0.003506
ORF7a	34	P34S	Cct	Tct	4	4	P.2	0.000747
ORF7a	34	P34S	Cct	Tct	3	3	AD.2	0.000657
ORF7a	34	P34S	Cct	Tct	3	3	AY.1	0.001187
ORF7a	34	P34S	Cct	Tct	3	3	AY.109	0.002219
ORF7a	34	P34S	Cct	Tct	3	3	AY.14	0.000264
ORF7a	34	P34S	Cct	Tct	3	3	AY.37	0.000948
ORF7a	34	P34S	Cct	Tct	3	3	AY.4.2.1	0.000447
ORF7a	34	P34S	Cct	Tct	3	3	AY.45	0.000365
ORF7a	34	P34S	Cct	Tct	3	3	AY.5.4	0.00083
ORF7a	34	P34S	Cct	Tct	3	3	AY.53	0.000863
ORF7a	34	P34S	Cct	Tct	3	3	AY.9.1	0.000251
ORF7a	34	P34S	Cct	Tct	3	3	AY.91	0.002191
ORF7a	34	P34S	Cct	Tct	3	3	AY.92	0.000862
ORF7a	34	P34S	Cct	Tct	3	3	AY.99.2	0.000276
ORF7a	34	P34S	Cct	Tct	3	3	B.1.1.284	0.000322
ORF7a	34	P34S	Cct	Tct	3	3	B.1.1.434	0.001046
ORF7a	34	P34S	Cct	Tct	3	3	B.1.177.44	0.001557
ORF7a	34	P34S	Cct	Tct	3	3	B.1.177.53	0.007177
ORF7a	34	P34S	Cct	Tct	3	3	B.1.177.58	0.003995
ORF7a	34	P34S	Cct	Tct	3	3	B.1.177.81	0.000568
ORF7a	34	P34S	Cct	Tct	3	3	B.1.258.17	0.000312
ORF7a	34	P34S	Cct	Tct	3	3	B.1.351.2	0.000908
ORF7a	34	P34S	Cct	Tct	3	3	B.1.525	0.000339
ORF7a	34	P34S	Cct	Tct	3	3	B.1.582	0.001472
ORF7a	34	P34S	Cct	Tct	3	3	B.1.595.1	0.017544
ORF7a	34	P34S	Cct	Tct	3	3	B.1.628	0.001057
ORF7a	34	P34S	Cct	Tct	3	3	N.4	0.012766
ORF7a	34	P34S	Cct	Tct	3	3	P.1.10	0.000808
ORF7a	34	P34S	Cct	Tct	3	3	P.1.15	0.000697
ORF7a	34	P34S	Cct	Tct	3	3	P.1.16	0.001122
ORF7a	34	P34S	Cct	Tct	3	3	R.1	0.00027
ORF7a	34	P34S	Cct	Tct	2	2	A	0.000774
ORF7a	34	P34S	Cct	Tct	2	2	AY.110	0.000225
ORF7a	34	P34S	Cct	Tct	2	2	AY.16	0.000759
ORF7a	34	P34S	Cct	Tct	2	2	AY.30	0.000791
ORF7a	34	P34S	Cct	Tct	2	2	AY.34.1	0.00102
ORF7a	34	P34S	Cct	Tct	2	2	AY.4.5	0.000215
ORF7a	34	P34S	Cct	Tct	2	2	AY.46.4	0.000329
ORF7a	34	P34S	Cct	Tct	2	2	AY.7	0.000392
ORF7a	34	P34S	Cct	Tct	2	2	AY.7.1	0.000225
ORF7a	34	P34S	Cct	Tct	2	2	AY.75.1	0.000361
ORF7a	34	P34S	Cct	Tct	2	2	AY.77	0.002255
ORF7a	34	P34S	Cct	Tct	2	2	AY.99	0.002099
ORF7a	34	P34S	Cct	Tct	2	2	B.1.1.222	0.000408
ORF7a	34	P34S	Cct	Tct	2	2	B.1.1.33	0.000842
ORF7a	34	P34S	Cct	Tct	2	2	B.1.1.37	0.000386
ORF7a	34	P34S	Cct	Tct	2	2	B.1.1.416	0.00181
ORF7a	34	P34S	Cct	Tct	2	2	B.1.1.420	0.002012
ORF7a	34	P34S	Cct	Tct	2	2	B.1.1.432	0.002532
ORF7a	34	P34S	Cct	Tct	2	2	B.1.1.50	0.001358
ORF7a	34	P34S	Cct	Tct	2	2	B.1.177.15	0.001262
ORF7a	34	P34S	Cct	Tct	2	2	B.1.177.48	0.00625
ORF7a	34	P34S	Cct	Tct	2	2	B.1.177.69	0.002967
ORF7a	34	P34S	Cct	Tct	2	2	B.1.206	0.001631
ORF7a	34	P34S	Cct	Tct	2	2	B.1.22	0.002635
ORF7a	34	P34S	Cct	Tct	2	2	B.1.223	0.005556
ORF7a	34	P34S	Cct	Tct	2	2	B.1.298	0.004228
ORF7a	34	P34S	Cct	Tct	2	2	B.1.36.18	0.00084
ORF7a	34	P34S	Cct	Tct	2	2	B.1.575	0.000607
ORF7a	34	P34S	Cct	Tct	2	2	B.1.576	0.001813
ORF7a	34	P34S	Cct	Tct	2	2	B.1.617.1	0.000258
ORF7a	34	P34S	Cct	Tct	2	2	C.16	0.002121
ORF7a	34	P34S	Cct	Tct	2	2	P.1.12	0.000968
ORF7a	34	P34S	Cct	Tct	2	2	P.1.7	0.000639
ORF7a	34	P34S	Cct	Tct	1	1	A.1	0.000282
ORF7a	34	P34S	Cct	Tct	1	1	AY.108	0.001103
ORF7a	34	P34S	Cct	Tct	1	1	AY.120.2.1	0.000498
ORF7a	34	P34S	Cct	Tct	1	1	AY.23.1	0.000417
ORF7a	34	P34S	Cct	Tct	1	1	AY.32	0.000532
ORF7a	34	P34S	Cct	Tct	1	1	AY.46.5	0.000198
ORF7a	34	P34S	Cct	Tct	1	1	AY.54	0.000095
ORF7a	34	P34S	Cct	Tct	1	1	AY.55	0.000917
ORF7a	34	P34S	Cct	Tct	1	1	AY.61	0.000105
ORF7a	34	P34S	Cct	Tct	1	1	AY.69	0.000187
ORF7a	34	P34S	Cct	Tct	1	1	AY.7.2	0.000559
ORF7a	34	P34S	Cct	Tct	1	1	AY.73	0.000665
ORF7a	34	P34S	Cct	Tct	1	1	AY.79	0.001211
ORF7a	34	P34S	Cct	Tct	1	1	AY.8	0.000606
ORF7a	34	P34S	Cct	Tct	1	1	AY.84	0.000437
ORF7a	34	P34S	Cct	Tct	1	1	AY.93	0.000273
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.1	0.000327
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.157	0.000913
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.194	0.00495
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.196	0.005714
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.207	0.001182
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.25	0.000569
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.294	0.001266
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.307	0.002532
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.311	0.000358
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.317	0.000412
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.397	0.002252
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.4	0.002976
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.429	0.004608
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.448	0.002033
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.464	0.001473
ORF7a	34	P34S	Cct	Tct	1	1	B.1.1.528	0.004808
ORF7a	34	P34S	Cct	Tct	1	1	B.1.104	0.00369
ORF7a	34	P34S	Cct	Tct	1	1	B.1.110.3	0.000718
ORF7a	34	P34S	Cct	Tct	1	1	B.1.111	0.001175
ORF7a	34	P34S	Cct	Tct	1	1	B.1.124	0.007812
ORF7a	34	P34S	Cct	Tct	1	1	B.1.160.30	0.002976
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.10	0.000878
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.12	0.000152
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.16	0.000664
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.18	0.00116
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.24	0.001295
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.35	0.000691
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.40	0.005155
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.46	0.000918
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.52	0.001757
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.56	0.000668
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.7	0.000165
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.73	0.000566
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.77	0.000726
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.8	0.000752
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.82	0.000477
ORF7a	34	P34S	Cct	Tct	1	1	B.1.177.86	0.000183
ORF7a	34	P34S	Cct	Tct	1	1	B.1.195	0.005025
ORF7a	34	P34S	Cct	Tct	1	1	B.1.210	0.002132
ORF7a	34	P34S	Cct	Tct	1	1	B.1.232	0.000537
ORF7a	34	P34S	Cct	Tct	1	1	B.1.239	0.001221
ORF7a	34	P34S	Cct	Tct	1	1	B.1.252	0.006623
ORF7a	34	P34S	Cct	Tct	1	1	B.1.284	0.013158
ORF7a	34	P34S	Cct	Tct	1	1	B.1.306	0.005714
ORF7a	34	P34S	Cct	Tct	1	1	B.1.311	0.000275
ORF7a	34	P34S	Cct	Tct	1	1	B.1.349	0.000715
ORF7a	34	P34S	Cct	Tct	1	1	B.1.36.1	0.00114
ORF7a	34	P34S	Cct	Tct	1	1	B.1.36.27	0.000763
ORF7a	34	P34S	Cct	Tct	1	1	B.1.36.39	0.002217
ORF7a	34	P34S	Cct	Tct	1	1	B.1.361	0.001289
ORF7a	34	P34S	Cct	Tct	1	1	B.1.369	0.000285
ORF7a	34	P34S	Cct	Tct	1	1	B.1.371	0.001122
ORF7a	34	P34S	Cct	Tct	1	1	B.1.375	0.00082
ORF7a	34	P34S	Cct	Tct	1	1	B.1.389	0.001002
ORF7a	34	P34S	Cct	Tct	1	1	B.1.398	0.002976
ORF7a	34	P34S	Cct	Tct	1	1	B.1.466.2	0.000391
ORF7a	34	P34S	Cct	Tct	1	1	B.1.471	0.002732
ORF7a	34	P34S	Cct	Tct	1	1	B.1.479	0.038462
ORF7a	34	P34S	Cct	Tct	1	1	B.1.509	0.000866
ORF7a	34	P34S	Cct	Tct	1	1	B.1.517	0.000427
ORF7a	34	P34S	Cct	Tct	1	1	B.1.540	0.009709
ORF7a	34	P34S	Cct	Tct	1	1	B.1.544	0.006024
ORF7a	34	P34S	Cct	Tct	1	1	B.1.546	0.003704
ORF7a	34	P34S	Cct	Tct	1	1	B.1.556	0.007519
ORF7a	34	P34S	Cct	Tct	1	1	B.1.565	0.00081
ORF7a	34	P34S	Cct	Tct	1	1	B.1.577	0.000687
ORF7a	34	P34S	Cct	Tct	1	1	B.1.609	0.000479
ORF7a	34	P34S	Cct	Tct	1	1	B.1.619.1	0.000641
ORF7a	34	P34S	Cct	Tct	1	1	B.1.8	0.001972
ORF7a	34	P34S	Cct	Tct	1	1	B.1.91	0.002075
ORF7a	34	P34S	Cct	Tct	1	1	B.1.93	0.000934
ORF7a	34	P34S	Cct	Tct	1	1	B.18	0.043478
ORF7a	34	P34S	Cct	Tct	1	1	B.38	0.02381
ORF7a	34	P34S	Cct	Tct	1	1	B.40	0.000364
ORF7a	34	P34S	Cct	Tct	1	1	B.55	0.00295
ORF7a	34	P34S	Cct	Tct	1	1	B.6.6	0.000889
ORF7a	34	P34S	Cct	Tct	1	1	C.35	0.000774
ORF7a	34	P34S	Cct	Tct	1	1	N.9	0.005952
ORF7a	34	P34S	Cct	Tct	1	1	P.1.1	0.000318
ORF7a	34	P34S	Cct	Tct	1	1	P.1.2	0.001156
ORF7a	34	P34S	Cct	Tct	1	1	Q.7	0.001111
ORF7a	34	P34S	Cct	Tct	1	1	Y.1	0.012821

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.