CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : CodonNum = 47 & Codon = Tat

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	47	H47Y		nonsyn	Cat	Tat	5223	5214	0.998277	27532-27534

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	47	H47Y	Cat	Tat	5214	5223	All	0.000997
ORF7a	47	H47Y	Cat	Tat	1544	1546	B.1.1.7	0.001382
ORF7a	47	H47Y	Cat	Tat	360	360	AY.4	0.00056
ORF7a	47	H47Y	Cat	Tat	243	243	B.1.2	0.00214
ORF7a	47	H47Y	Cat	Tat	181	181	B.1.177	0.002383
ORF7a	47	H47Y	Cat	Tat	175	175	AY.103	0.001087
ORF7a	47	H47Y	Cat	Tat	169	169	AY.26	0.004784
ORF7a	47	H47Y	Cat	Tat	166	168	B.1.617.2	0.000625
ORF7a	47	H47Y	Cat	Tat	167	167	AY.43	0.00074
ORF7a	47	H47Y	Cat	Tat	148	148	B.1.429	0.003482
ORF7a	47	H47Y	Cat	Tat	137	141	AY.25	0.000824
ORF7a	47	H47Y	Cat	Tat	114	114	R.1	0.010261
ORF7a	47	H47Y	Cat	Tat	95	95	AY.44	0.000578
ORF7a	47	H47Y	Cat	Tat	94	94	AY.3	0.000935
ORF7a	47	H47Y	Cat	Tat	74	74	C.37	0.008589
ORF7a	47	H47Y	Cat	Tat	71	71	B.1.1	0.001288
ORF7a	47	H47Y	Cat	Tat	70	70	AY.47	0.002177
ORF7a	47	H47Y	Cat	Tat	65	65	B.1.1.170	0.081047
ORF7a	47	H47Y	Cat	Tat	61	61	B.1	0.000559
ORF7a	47	H47Y	Cat	Tat	57	57	B.1.160	0.001778
ORF7a	47	H47Y	Cat	Tat	54	54	P.1	0.000851
ORF7a	47	H47Y	Cat	Tat	50	50	B.1.1.266	0.609756
ORF7a	47	H47Y	Cat	Tat	42	42	B.1.160.18	0.306569
ORF7a	47	H47Y	Cat	Tat	35	35	AY.39	0.000865
ORF7a	47	H47Y	Cat	Tat	34	34	AY.5	0.000702
ORF7a	47	H47Y	Cat	Tat	34	34	B.1.349	0.024303
ORF7a	47	H47Y	Cat	Tat	32	32	B.1.1.214	0.001775
ORF7a	47	H47Y	Cat	Tat	28	28	AY.42	0.001126
ORF7a	47	H47Y	Cat	Tat	28	28	B.1.36.18	0.011765
ORF7a	47	H47Y	Cat	Tat	25	25	B.1.407	0.892857
ORF7a	47	H47Y	Cat	Tat	24	24	B.1.234	0.003167
ORF7a	47	H47Y	Cat	Tat	23	23	AY.102	0.00061
ORF7a	47	H47Y	Cat	Tat	22	22	B.1.232	0.011822
ORF7a	47	H47Y	Cat	Tat	21	21	B.1.36.24	0.12963
ORF7a	47	H47Y	Cat	Tat	20	20	AY.120	0.000744
ORF7a	47	H47Y	Cat	Tat	20	20	AY.24	0.008621
ORF7a	47	H47Y	Cat	Tat	20	20	P.1.15	0.004647
ORF7a	47	H47Y	Cat	Tat	18	18	AY.20	0.0007
ORF7a	47	H47Y	Cat	Tat	17	17	AY.100	0.000782
ORF7a	47	H47Y	Cat	Tat	17	17	AY.4.2	0.000369
ORF7a	47	H47Y	Cat	Tat	17	17	AY.85	0.007262
ORF7a	47	H47Y	Cat	Tat	16	16	P.1.14	0.000765
ORF7a	47	H47Y	Cat	Tat	15	15	B.1.351	0.000446
ORF7a	47	H47Y	Cat	Tat	15	15	B.1.427	0.000757
ORF7a	47	H47Y	Cat	Tat	14	14	B.1.1.519	0.000556
ORF7a	47	H47Y	Cat	Tat	13	13	AY.119	0.000459
ORF7a	47	H47Y	Cat	Tat	13	13	B.1.243	0.000905
ORF7a	47	H47Y	Cat	Tat	12	12	B.1.177.35	0.008293
ORF7a	47	H47Y	Cat	Tat	12	12	B.1.596	0.001046
ORF7a	47	H47Y	Cat	Tat	11	11	B.1.258	0.000732
ORF7a	47	H47Y	Cat	Tat	11	11	B.1.311	0.00302
ORF7a	47	H47Y	Cat	Tat	10	10	AY.51	0.009091
ORF7a	47	H47Y	Cat	Tat	10	10	AY.6	0.000411
ORF7a	47	H47Y	Cat	Tat	10	10	B.1.36.29	0.005173
ORF7a	47	H47Y	Cat	Tat	10	10	B.1.526	0.000235
ORF7a	47	H47Y	Cat	Tat	9	9	AY.29	0.000142
ORF7a	47	H47Y	Cat	Tat	8	8	AY.3.1	0.000682
ORF7a	47	H47Y	Cat	Tat	8	8	AY.99.2	0.000737
ORF7a	47	H47Y	Cat	Tat	8	8	B.1.93	0.00747
ORF7a	47	H47Y	Cat	Tat	7	7	AY.116.1	0.00218
ORF7a	47	H47Y	Cat	Tat	7	7	AY.61	0.000733
ORF7a	47	H47Y	Cat	Tat	7	7	B.1.162	0.035176
ORF7a	47	H47Y	Cat	Tat	7	7	B.1.221	0.000497
ORF7a	47	H47Y	Cat	Tat	7	7	B.1.438.1	0.000751
ORF7a	47	H47Y	Cat	Tat	7	7	B.1.634	0.023973
ORF7a	47	H47Y	Cat	Tat	6	6	AY.117	0.000507
ORF7a	47	H47Y	Cat	Tat	6	6	AY.118	0.000376
ORF7a	47	H47Y	Cat	Tat	6	6	AY.36	0.000889
ORF7a	47	H47Y	Cat	Tat	6	6	AY.4.5	0.000645
ORF7a	47	H47Y	Cat	Tat	6	6	AY.46.6	0.000433
ORF7a	47	H47Y	Cat	Tat	6	6	AY.54	0.000572
ORF7a	47	H47Y	Cat	Tat	6	6	AY.98	0.000474
ORF7a	47	H47Y	Cat	Tat	6	6	AY.98.1	0.000291
ORF7a	47	H47Y	Cat	Tat	6	6	B.1.160.29	0.025316
ORF7a	47	H47Y	Cat	Tat	6	6	B.1.36.8	0.006
ORF7a	47	H47Y	Cat	Tat	6	6	B.1.563	0.101695
ORF7a	47	H47Y	Cat	Tat	6	6	B.1.621	0.000531
ORF7a	47	H47Y	Cat	Tat	6	6	Q.1	0.000758
ORF7a	47	H47Y	Cat	Tat	5	5	AY.120.1	0.001605
ORF7a	47	H47Y	Cat	Tat	5	5	AY.23	0.000349
ORF7a	47	H47Y	Cat	Tat	5	5	AY.33	0.000334
ORF7a	47	H47Y	Cat	Tat	5	5	B.1.1.189	0.007564
ORF7a	47	H47Y	Cat	Tat	5	5	B.1.258.21	0.03876
ORF7a	47	H47Y	Cat	Tat	5	5	B.1.525	0.000566
ORF7a	47	H47Y	Cat	Tat	5	5	B.1.587	0.009488
ORF7a	47	H47Y	Cat	Tat	5	5	B.1.617.1	0.000645
ORF7a	47	H47Y	Cat	Tat	5	5	B.1.628	0.001762
ORF7a	47	H47Y	Cat	Tat	4	4	AY.114	0.000924
ORF7a	47	H47Y	Cat	Tat	4	4	AY.39.1	0.000158
ORF7a	47	H47Y	Cat	Tat	4	4	AY.45	0.000487
ORF7a	47	H47Y	Cat	Tat	4	4	AY.7	0.000784
ORF7a	47	H47Y	Cat	Tat	4	4	AY.75	0.000224
ORF7a	47	H47Y	Cat	Tat	4	4	B	0.000511
ORF7a	47	H47Y	Cat	Tat	4	4	B.1.1.70	0.001364
ORF7a	47	H47Y	Cat	Tat	4	4	B.1.177.52	0.00703
ORF7a	47	H47Y	Cat	Tat	4	4	B.1.258.17	0.000416
ORF7a	47	H47Y	Cat	Tat	4	4	B.1.36	0.000584
ORF7a	47	H47Y	Cat	Tat	4	4	B.1.362	0.006163
ORF7a	47	H47Y	Cat	Tat	4	4	B.1.459	0.016327
ORF7a	47	H47Y	Cat	Tat	4	4	B.1.595	0.001044
ORF7a	47	H47Y	Cat	Tat	4	4	P.1.2	0.004624
ORF7a	47	H47Y	Cat	Tat	4	4	P.1.7	0.001277
ORF7a	47	H47Y	Cat	Tat	4	4	Q.8	0.00066
ORF7a	47	H47Y	Cat	Tat	3	3	AE.7	0.25
ORF7a	47	H47Y	Cat	Tat	3	3	AY.111	0.000549
ORF7a	47	H47Y	Cat	Tat	3	3	AY.113	0.000427
ORF7a	47	H47Y	Cat	Tat	3	3	AY.2	0.001068
ORF7a	47	H47Y	Cat	Tat	3	3	AY.34	0.000291
ORF7a	47	H47Y	Cat	Tat	3	3	AY.46	0.000312
ORF7a	47	H47Y	Cat	Tat	3	3	AY.46.5	0.000595
ORF7a	47	H47Y	Cat	Tat	3	3	AY.68	0.000821
ORF7a	47	H47Y	Cat	Tat	3	3	AY.9.2	0.00011
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.1.216	0.002671
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.1.232	0.005445
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.1.306	0.001315
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.1.464	0.004418
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.1.487	0.01676
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.177.21	0.000229
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.177.86	0.00055
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.466.2	0.001174
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.576	0.00272
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.577	0.002062
ORF7a	47	H47Y	Cat	Tat	3	3	B.1.637	0.000219
ORF7a	47	H47Y	Cat	Tat	3	3	D.2	0.000225
ORF7a	47	H47Y	Cat	Tat	3	3	P.1.1	0.000953
ORF7a	47	H47Y	Cat	Tat	3	3	P.2	0.00056
ORF7a	47	H47Y	Cat	Tat	3	3	Q.3	0.000435
ORF7a	47	H47Y	Cat	Tat	2	2		0.111111
ORF7a	47	H47Y	Cat	Tat	2	2	AY.121	0.000271
ORF7a	47	H47Y	Cat	Tat	2	2	AY.14	0.000176
ORF7a	47	H47Y	Cat	Tat	2	2	AY.16	0.000759
ORF7a	47	H47Y	Cat	Tat	2	2	AY.27	0.000129
ORF7a	47	H47Y	Cat	Tat	2	2	AY.32	0.001065
ORF7a	47	H47Y	Cat	Tat	2	2	AY.4.4	0.000818
ORF7a	47	H47Y	Cat	Tat	2	2	AY.41	0.000588
ORF7a	47	H47Y	Cat	Tat	2	2	AY.46.4	0.000329
ORF7a	47	H47Y	Cat	Tat	2	2	AY.56	0.00321
ORF7a	47	H47Y	Cat	Tat	2	2	AY.63	0.000774
ORF7a	47	H47Y	Cat	Tat	2	2	AY.75.1	0.000361
ORF7a	47	H47Y	Cat	Tat	2	2	AY.88	0.001768
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.1.1	0.000653
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.1.133	0.016949
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.1.236	0.013793
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.1.294	0.002532
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.1.318	0.000604
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.1.402	0.022222
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.177.4	0.000422
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.177.44	0.001038
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.177.7	0.00033
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.177.81	0.000379
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.239	0.002442
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.240	0.000431
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.468	0.011429
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.524	0.002813
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.619	0.001742
ORF7a	47	H47Y	Cat	Tat	2	2	B.1.621.1	0.001012
ORF7a	47	H47Y	Cat	Tat	2	2	P.1.4	0.001953
ORF7a	47	H47Y	Cat	Tat	1	1	A.2.5	0.000499
ORF7a	47	H47Y	Cat	Tat	1	1	A.2.5.3	0.010309
ORF7a	47	H47Y	Cat	Tat	1	1	A.23.1	0.000704
ORF7a	47	H47Y	Cat	Tat	1	1	AE.3	0.032258
ORF7a	47	H47Y	Cat	Tat	1	1	AE.8	0.000489
ORF7a	47	H47Y	Cat	Tat	1	1	AY.105	0.000643
ORF7a	47	H47Y	Cat	Tat	1	1	AY.106	0.000335
ORF7a	47	H47Y	Cat	Tat	1	1	AY.35	0.000233
ORF7a	47	H47Y	Cat	Tat	1	1	AY.40	0.000964
ORF7a	47	H47Y	Cat	Tat	1	1	AY.53	0.000288
ORF7a	47	H47Y	Cat	Tat	1	1	AY.59	0.00053
ORF7a	47	H47Y	Cat	Tat	1	1	AY.62	0.000436
ORF7a	47	H47Y	Cat	Tat	1	1	AY.67	0.000464
ORF7a	47	H47Y	Cat	Tat	1	1	AY.69	0.000187
ORF7a	47	H47Y	Cat	Tat	1	1	AY.70	0.000209
ORF7a	47	H47Y	Cat	Tat	1	1	AY.71	0.000475
ORF7a	47	H47Y	Cat	Tat	1	1	AY.73	0.000665
ORF7a	47	H47Y	Cat	Tat	1	1	AY.74	0.000116
ORF7a	47	H47Y	Cat	Tat	1	1	AY.79	0.001211
ORF7a	47	H47Y	Cat	Tat	1	1	AY.91	0.00073
ORF7a	47	H47Y	Cat	Tat	1	1	AY.93	0.000273
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.152	0.04
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.176	0.000439
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.25	0.000569
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.255	0.00303
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.28	0.000311
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.284	0.000107
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.302	0.002075
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.304	0.002809
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.309	0.005848
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.368	0.003086
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.486	0.001577
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.523	0.001563
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.1.63	0.000386
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.105	0.009615
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.110.3	0.000718
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.160.16	0.000929
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.160.22	0.006757
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.160.28	0.002924
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.160.32	0.004292
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.160.8	0.001289
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.12	0.000152
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.20	0.001517
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.40	0.005155
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.43	0.001477
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.51	0.004566
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.73	0.000566
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.77	0.000726
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.8	0.000752
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.177.83	0.001481
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.223	0.002778
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.241	0.000812
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.258.12	0.007874
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.338	0.008621
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.351.3	0.000876
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.36.16	0.001425
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.361	0.001289
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.369	0.000285
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.375	0.00082
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.406	0.006061
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.469	0.00361
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.565	0.00081
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.575.1	0.002439
ORF7a	47	H47Y	Cat	Tat	1	1	B.1.635	0.017544
ORF7a	47	H47Y	Cat	Tat	1	1	B.3	0.000831
ORF7a	47	H47Y	Cat	Tat	1	1	B.4	0.002208
ORF7a	47	H47Y	Cat	Tat	1	1	B.40	0.000364
ORF7a	47	H47Y	Cat	Tat	1	1	C.35	0.000774
ORF7a	47	H47Y	Cat	Tat	1	1	C.36	0.000911
ORF7a	47	H47Y	Cat	Tat	1	1	C.37.1	0.002618
ORF7a	47	H47Y	Cat	Tat	1	1	P.1.11	0.010204
ORF7a	47	H47Y	Cat	Tat	1	1	P.1.12	0.000484
ORF7a	47	H47Y	Cat	Tat	1	1	P.1.17	0.000162
ORF7a	47	H47Y	Cat	Tat	1	1	P.4	0.003802
ORF7a	47	H47Y	Cat	Tat	1	1	P.7	0.004367
ORF7a	47	H47Y	Cat	Tat	1	1	Z.1	0.00289

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.