CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 416

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	416	S416L		nonsyn	tCa	tTa	2543	2539	0.998427	29519-29521
N	416	S416L		nonsyn	TCA	CTT	2543	1	0.000393236	29519-29521
N	416	S416L		nonsyn	TCa	CTa	2543	1	0.000393236	29519-29521
N	416	S416L		nonsyn	tCA	tTG	2543	1	0.000393236	29519-29521
N	416	S416L		nonsyn	TCA	CTC	2543	1	0.000393236	29519-29521
N	416	S416S		syn	tcA	tcT	1305	718	0.550192	29519-29521
N	416	S416S		syn	tcA	tcG	1305	568	0.435249	29519-29521
N	416	S416S		syn	tcA	tcC	1305	19	0.0145594	29519-29521
N	416	S416P		nonsyn	Tca	Cca	65	63	0.969231	29519-29521
N	416	S416P		nonsyn	TcA	CcT	65	2	0.0307692	29519-29521
N	416	S416A		nonsyn	Tca	Gca	43	42	0.976744	29519-29521
N	416	S416A		nonsyn	TcA	GcC	43	1	0.0232558	29519-29521
N	416	S416del		del	TCA	---	37	37	1	29519-29521
N	416	S416T		nonsyn	Tca	Aca	34	34	1	29519-29521
N	416	S416X		nonsyn	tCa	tGa	28	14	0.5	29519-29521
N	416	S416X		nonsyn	tCa	tAa	28	13	0.464286	29519-29521
N	416	S416X		nonsyn	tCA	tAG	28	1	0.0357143	29519-29521
N	416	S416del1		del	tCa	t-a	3	2	0.666667	29519-29521
N	416	S416del1		del	Tca	-ca	3	1	0.333333	29519-29521
N	416	S416del2		del	tCA	t--	2	2	1	29519-29521
N	416	S416F		nonsyn	tCA	tTT	2	1	0.5	29519-29521
N	416	S416F		nonsyn	tCA	tTC	2	1	0.5	29519-29521
N	416	S416G		nonsyn	TCA	GGG	1	1	1	29519-29521
N	416	S416H		nonsyn	TCA	CAT	1	1	1	29519-29521

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
N	416	S416L	tCa	tTa	2539	2543	All	0.000486
N	416	S416L	tCA	tTG	1	2543	All	0
N	416	S416L	TCA	CTC	1	2543	All	0
N	416	S416L	TCA	CTT	1	2543	All	0
N	416	S416L	TCa	CTa	1	2543	All	0
N	416	S416S	tcA	tcT	718	1305	All	0.000137
N	416	S416S	tcA	tcG	568	1305	All	0.000109
N	416	S416S	tcA	tcC	19	1305	All	0.000004
N	416	S416S	tcA	tcG	411	423	AY.4	0.00064
N	416	S416S	tcA	tcT	9	423	AY.4	0.000014
N	416	S416S	tcA	tcC	3	423	AY.4	0.000005
N	416	S416L	tCa	tTa	415	415	AY.4	0.000646
N	416	S416L	tCa	tTa	406	407	B.1.1.7	0.000363
N	416	S416L	TCA	CTT	1	407	B.1.1.7	0.000001
N	416	S416S	tcA	tcT	223	225	AY.39	0.005511
N	416	S416S	tcA	tcG	2	225	AY.39	0.000049
N	416	S416S	tcA	tcT	213	213	B.1.1.240	1
N	416	S416L	tCa	tTa	187	188	B.1.617.2	0.000704
N	416	S416L	TCA	CTC	1	188	B.1.617.2	0.000004
N	416	S416L	tCa	tTa	116	116	B.1.2	0.001021
N	416	S416L	tCa	tTa	115	115	AY.103	0.000714
N	416	S416S	tcA	tcG	60	100	B.1.1.7	0.000054
N	416	S416S	tcA	tcT	38	100	B.1.1.7	0.000034
N	416	S416S	tcA	tcC	2	100	B.1.1.7	0.000002
N	416	S416L	tCa	tTa	84	84	AY.44	0.000511
N	416	S416L	tCa	tTa	80	80	AY.43	0.000354
N	416	S416L	tCa	tTa	77	77	AY.25	0.000463
N	416	S416L	tCa	tTa	74	74	AY.3	0.000736
N	416	S416P	Tca	Cca	63	65	All	0.000012
N	416	S416P	TcA	CcT	2	65	All	0
N	416	S416L	tCa	tTa	49	49	AY.119	0.00173
N	416	S416L	tCa	tTa	49	49	B.1.177.21	0.003747
N	416	S416A	Tca	Gca	42	43	All	0.000008
N	416	S416A	TcA	GcC	1	43	All	0
N	416	S416L	tCa	tTa	43	43	B.1.526	0.001011
N	416	S416L	tCa	tTa	40	40	B.1.177	0.000527
N	416	S416del	TCA	---	37	37	All	0.000007
N	416	S416L	tCa	tTa	37	37	B.1.429	0.000871
N	416	S416S	tcA	tcT	35	36	B.1.526	0.000823
N	416	S416S	tcA	tcG	1	36	B.1.526	0.000024
N	416	S416T	Tca	Aca	34	34	All	0.000007
N	416	S416S	tcA	tcT	24	34	B.1	0.00022
N	416	S416S	tcA	tcG	10	34	B.1	0.000092
N	416	S416S	tcA	tcT	33	33	AY.71	0.015677
N	416	S416P	Tca	Cca	31	31	AY.4	0.000048
N	416	S416L	tCa	tTa	31	31	B.1	0.000284
N	416	S416L	tCa	tTa	30	30	AY.102	0.000795
N	416	S416S	tcA	tcT	16	29	B.1.617.2	0.00006
N	416	S416S	tcA	tcG	12	29	B.1.617.2	0.000045
N	416	S416S	tcA	tcC	1	29	B.1.617.2	0.000004
N	416	S416X	tCa	tGa	14	28	All	0.000003
N	416	S416X	tCa	tAa	13	28	All	0.000002
N	416	S416X	tCA	tAG	1	28	All	0
N	416	S416L	tCa	tTa	25	25	AY.39	0.000618
N	416	S416L	tCa	tTa	24	24	B.1.351	0.000713
N	416	S416L	tCa	tTa	24	24	P.1	0.000378
N	416	S416S	tcA	tcT	22	22	AJ.1	1
N	416	S416L	tCa	tTa	22	22	R.1	0.00198
N	416	S416L	tCa	tTa	20	20	B.1.575	0.006068
N	416	S416L	tCa	tTa	17	17	AY.7	0.003332
N	416	S416L	tCa	tTa	15	15	B.1.1	0.000272
N	416	S416L	tCa	tTa	15	15	B.1.427	0.000757
N	416	S416L	tCa	tTa	14	14	AY.46.4	0.002303
N	416	S416L	tCa	tTa	14	14	AY.5	0.000289
N	416	S416A	Tca	Gca	13	13	AY.13	0.002093
N	416	S416L	tCa	tTa	13	13	B.1.324	0.020867
N	416	S416L	tCa	tTa	12	12	AY.26	0.00034
N	416	S416L	tCa	tTa	12	12	B.1.1.213	0.26087
N	416	S416S	tcA	tcG	8	11	AY.103	0.00005
N	416	S416S	tcA	tcT	3	11	AY.103	0.000019
N	416	S416L	tCa	tTa	11	11	AY.118	0.000689
N	416	S416S	tcA	tcG	6	11	AY.25	0.000036
N	416	S416S	tcA	tcT	5	11	AY.25	0.00003
N	416	S416L	tCa	tTa	11	11	AY.75	0.000616
N	416	S416L	tCa	tTa	11	11	B.1.36	0.001605
N	416	S416L	tCa	tTa	11	11	B.1.409	0.008594
N	416	S416L	tCa	tTa	11	11	B.1.525	0.001245
N	416	S416L	tCa	tTa	10	10	AY.29	0.000158
N	416	S416L	tCa	tTa	10	10	AY.4.2	0.000217
N	416	S416S	tcA	tcG	5	10	B.1.1	0.000091
N	416	S416S	tcA	tcT	5	10	B.1.1	0.000091
N	416	S416L	tCa	tTa	10	10	Q.1	0.001263
N	416	S416L	tCa	tTa	9	9	B.1.160	0.000281
N	416	S416L	tCa	tTa	8	8	A.23.1	0.005634
N	416	S416L	tCa	tTa	8	8	AY.114	0.001849
N	416	S416L	tCa	tTa	8	8	AY.20	0.000311
N	416	S416S	tcA	tcG	6	8	AY.43	0.000027
N	416	S416S	tcA	tcT	2	8	AY.43	0.000009
N	416	S416S	tcA	tcT	5	8	AY.44	0.00003
N	416	S416S	tcA	tcG	3	8	AY.44	0.000018
N	416	S416L	tCa	tTa	8	8	AY.98	0.000632
N	416	S416L	tCa	tTa	8	8	B.1.1.519	0.000318
N	416	S416S	tcA	tcT	8	8	B.1.596	0.000697
N	416	S416L	tCa	tTa	8	8	P.1.6	0.015564
N	416	S416L	tCa	tTa	7	7	AY.42	0.000282
N	416	S416A	Tca	Gca	7	7	AY.44	0.000043
N	416	S416S	tcA	tcG	7	7	AY.46	0.000729
N	416	S416S	tcA	tcC	7	7	B.1.362	0.010786
N	416	S416L	tCa	tTa	7	7	B.1.621	0.00062
N	416	S416L	tCa	tTa	6	6	AY.100	0.000276
N	416	S416L	tCa	tTa	6	6	AY.116.1	0.001869
N	416	S416S	tcA	tcT	4	6	AY.3	0.00004
N	416	S416S	tcA	tcG	2	6	AY.3	0.00002
N	416	S416del	TCA	---	6	6	B.1.1.7	0.000005
N	416	S416S	tcA	tcT	5	6	B.1.2	0.000044
N	416	S416S	tcA	tcC	1	6	B.1.2	0.000009
N	416	S416L	tCa	tTa	6	6	B.1.596	0.000523
N	416	S416L	tCa	tTa	6	6	P.1.14	0.000287
N	416	S416L	tCa	tTa	5	5	AY.106	0.001674
N	416	S416L	tCa	tTa	5	5	AY.13	0.000805
N	416	S416A	Tca	Gca	5	5	AY.21	0.009488
N	416	S416P	Tca	Cca	5	5	AY.3	0.00005
N	416	S416L	tCa	tTa	5	5	AY.6	0.000206
N	416	S416T	Tca	Aca	5	5	AY.98.1	0.000242
N	416	S416L	tCa	tTa	5	5	AY.99.2	0.000461
N	416	S416A	Tca	Gca	5	5	B.1.1.7	0.000004
N	416	S416S	tcA	tcG	4	5	B.1.351	0.000119
N	416	S416S	tcA	tcT	1	5	B.1.351	0.00003
N	416	S416L	tCa	tTa	5	5	B.1.637	0.000365
N	416	S416L	tCa	tTa	5	5	D.2	0.000375
N	416	S416S	tcA	tcT	3	4	AY.16	0.001139
N	416	S416S	tcA	tcG	1	4	AY.16	0.00038
N	416	S416L	tCa	tTa	4	4	AY.2	0.001425
N	416	S416L	tCa	tTa	4	4	AY.21	0.00759
N	416	S416L	tCa	tTa	4	4	AY.23	0.000279
N	416	S416S	tcA	tcT	4	4	AY.34	0.000388
N	416	S416T	Tca	Aca	4	4	AY.4	0.000006
N	416	S416L	tCa	tTa	4	4	AY.45	0.000487
N	416	S416L	tCa	tTa	4	4	AY.47	0.000124
N	416	S416P	Tca	Cca	4	4	AY.5	0.000083
N	416	S416S	tcA	tcT	3	4	AY.5	0.000062
N	416	S416S	tcA	tcG	1	4	AY.5	0.000021
N	416	S416L	tCa	tTa	4	4	AY.70	0.000834
N	416	S416L	tCa	tTa	4	4	AY.98.1	0.000194
N	416	S416L	tCa	tTa	4	4	B.1.1.1	0.001307
N	416	S416S	tcA	tcC	4	4	B.1.1.214	0.000222
N	416	S416X	tCa	tGa	4	4	B.1.1.7	0.000004
N	416	S416P	Tca	Cca	4	4	B.1.1.7	0.000004
N	416	S416L	tCa	tTa	4	4	B.1.243	0.000278
N	416	S416L	tCa	tTa	4	4	B.1.258.17	0.000416
N	416	S416S	tcA	tcG	3	4	B.1.427	0.000151
N	416	S416S	tcA	tcT	1	4	B.1.427	0.00005
N	416	S416X	tCa	tAa	3	4	B.1.617.2	0.000011
N	416	S416X	tCA	tAG	1	4	B.1.617.2	0.000004
N	416	S416del1	tCa	t-a	2	3	All	0
N	416	S416del1	Tca	-ca	1	3	All	0
N	416	S416L	tCa	tTa	3	3	AY.117	0.000254
N	416	S416S	tcA	tcT	3	3	AY.119	0.000106
N	416	S416L	tCa	tTa	3	3	AY.14	0.000264
N	416	S416S	tcA	tcT	2	3	AY.14	0.000176
N	416	S416S	tcA	tcG	1	3	AY.14	0.000088
N	416	S416S	tcA	tcT	3	3	AY.26	0.000085
N	416	S416L	tCa	tTa	3	3	AY.29.1	0.000662
N	416	S416L	tCa	tTa	3	3	AY.33	0.0002
N	416	S416L	tCa	tTa	3	3	AY.36	0.000445
N	416	S416T	Tca	Aca	3	3	AY.39.1	0.000119
N	416	S416S	tcA	tcT	2	3	AY.39.1	0.000079
N	416	S416S	tcA	tcG	1	3	AY.39.1	0.00004
N	416	S416S	tcA	tcT	3	3	AY.4.2	0.000065
N	416	S416L	tCa	tTa	3	3	AY.46	0.000312
N	416	S416L	tCa	tTa	3	3	AY.54	0.000286
N	416	S416L	tCa	tTa	3	3	AY.59	0.001589
N	416	S416L	tCa	tTa	3	3	AY.61	0.000314
N	416	S416L	tCa	tTa	3	3	AY.9.1	0.000251
N	416	S416L	tCa	tTa	3	3	B.1.1.318	0.000905
N	416	S416L	tCa	tTa	3	3	B.1.1.365	0.01676
N	416	S416L	tCa	tTa	3	3	B.1.127	0.006593
N	416	S416S	tcA	tcT	3	3	B.1.177	0.00004
N	416	S416L	tCa	tTa	3	3	B.1.214.2	0.001799
N	416	S416L	tCa	tTa	3	3	B.1.221	0.000213
N	416	S416T	Tca	Aca	3	3	B.1.36	0.000438
N	416	S416L	tCa	tTa	3	3	B.1.36.8	0.003
N	416	S416L	tCa	tTa	3	3	B.1.438.1	0.000322
N	416	S416S	tcA	tcG	3	3	B.1.497	0.000944
N	416	S416del	TCA	---	3	3	B.1.617.2	0.000011
N	416	S416L	tCa	tTa	3	3	C.37	0.000348
N	416	S416del	TCA	---	3	3	P.1	0.000047
N	416	S416S	tcA	tcG	2	3	P.1	0.000032
N	416	S416S	tcA	tcT	1	3	P.1	0.000016
N	416	S416S	tcA	tcT	3	3	Q.1	0.000379
N	416	S416del2	tCA	t--	2	2	All	0
N	416	S416F	tCA	tTC	1	2	All	0
N	416	S416F	tCA	tTT	1	2	All	0
N	416	S416L	tCa	tTa	2	2	AY.12	0.000632
N	416	S416T	Tca	Aca	2	2	AY.20	0.000078
N	416	S416A	Tca	Gca	2	2	AY.20	0.000078
N	416	S416P	Tca	Cca	2	2	AY.20	0.000078
N	416	S416S	tcA	tcT	2	2	AY.20	0.000078
N	416	S416del	TCA	---	2	2	AY.25	0.000012
N	416	S416A	Tca	Gca	2	2	AY.25	0.000012
N	416	S416L	tCa	tTa	2	2	AY.27	0.000129
N	416	S416S	tcA	tcT	2	2	AY.33	0.000134
N	416	S416L	tCa	tTa	2	2	AY.37	0.000632
N	416	S416del	TCA	---	2	2	AY.4	0.000003
N	416	S416L	tCa	tTa	2	2	AY.4.1	0.001475
N	416	S416T	Tca	Aca	2	2	AY.4.2	0.000043
N	416	S416L	tCa	tTa	2	2	AY.4.4	0.000818
N	416	S416S	tcA	tcT	2	2	AY.4.5	0.000215
N	416	S416L	tCa	tTa	2	2	AY.4.5	0.000215
N	416	S416L	tCa	tTa	1	2	AY.40	0.000964
N	416	S416L	tCA	tTG	1	2	AY.40	0.000964
N	416	S416S	tcA	tcT	1	2	AY.42	0.00004
N	416	S416S	tcA	tcG	1	2	AY.42	0.00004
N	416	S416P	Tca	Cca	2	2	AY.43	0.000009
N	416	S416T	Tca	Aca	2	2	AY.44	0.000012
N	416	S416L	tCa	tTa	2	2	AY.46.6	0.000144
N	416	S416L	tCa	tTa	2	2	AY.5.3	0.000675
N	416	S416S	tcA	tcG	2	2	AY.5.4	0.000553
N	416	S416L	tCa	tTa	2	2	AY.66	0.002139
N	416	S416L	tCa	tTa	2	2	AY.7.1	0.000225
N	416	S416L	tCa	tTa	2	2	AY.74	0.000231
N	416	S416L	tCa	tTa	2	2	AY.75.1	0.000361
N	416	S416L	tCa	tTa	2	2	AY.84	0.000875
N	416	S416L	tCa	tTa	2	2	AY.88	0.001768
N	416	S416L	tCa	tTa	2	2	AY.9.2	0.000073
N	416	S416L	tCa	tTa	2	2	AY.94	0.000885
N	416	S416L	tCa	tTa	2	2	AY.96	0.004149
N	416	S416S	tcA	tcT	2	2	AY.98	0.000158
N	416	S416L	tCa	tTa	2	2	AY.99.1	0.003106
N	416	S416del	TCA	---	2	2	B.1	0.000018
N	416	S416P	Tca	Cca	2	2	B.1	0.000018
N	416	S416X	tCa	tGa	1	2	B.1	0.000009
N	416	S416X	tCa	tAa	1	2	B.1	0.000009
N	416	S416del	TCA	---	2	2	B.1.1	0.000036
N	416	S416L	tCa	tTa	2	2	B.1.1.214	0.000111
N	416	S416L	tCa	tTa	2	2	B.1.1.280	0.006173
N	416	S416L	tCa	tTa	2	2	B.1.1.284	0.000215
N	416	S416S	tcA	tcT	1	2	B.1.1.33	0.000421
N	416	S416S	tcA	tcC	1	2	B.1.1.33	0.000421
N	416	S416L	tCa	tTa	2	2	B.1.1.333	0.002153
N	416	S416L	tCa	tTa	2	2	B.1.1.416	0.00181
N	416	S416L	tCa	tTa	2	2	B.1.1.434	0.000697
N	416	S416del2	tCA	t--	2	2	B.1.1.7	0.000002
N	416	S416L	tCa	tTa	2	2	B.1.1.70	0.000682
N	416	S416S	tcA	tcT	2	2	B.1.160.16	0.001859
N	416	S416L	tCa	tTa	2	2	B.1.177.10	0.001756
N	416	S416L	tCa	tTa	2	2	B.1.177.54	0.001213
N	416	S416L	tCa	tTa	2	2	B.1.177.57	0.000562
N	416	S416S	tcA	tcG	2	2	B.1.177.60	0.000437
N	416	S416L	tCa	tTa	2	2	B.1.177.86	0.000367
N	416	S416T	Tca	Aca	2	2	B.1.2	0.000018
N	416	S416S	tcA	tcT	2	2	B.1.221	0.000142
N	416	S416L	tCa	tTa	2	2	B.1.234	0.000264
N	416	S416L	tCa	tTa	2	2	B.1.258	0.000133
N	416	S416L	tCa	tTa	2	2	B.1.428	0.002041
N	416	S416L	tCa	tTa	2	2	B.1.469	0.00722
N	416	S416L	tCa	tTa	2	2	B.1.492	0.014085
N	416	S416L	tCa	tTa	2	2	B.1.509	0.001732
N	416	S416L	tCa	tTa	2	2	B.1.517	0.000854
N	416	S416L	tCa	tTa	2	2	B.1.617.1	0.000258
N	416	S416X	tCa	tAa	2	2	B.1.617.1	0.000258
N	416	S416L	tCa	tTa	2	2	B.1.628	0.000705
N	416	S416L	tCa	tTa	2	2	B.1.630	0.010471
N	416	S416T	Tca	Aca	2	2	B.1.637	0.000146
N	416	S416L	tCa	tTa	2	2	B.1.639	0.043478
N	416	S416A	Tca	Gca	2	2	N.5	0.003534
N	416	S416L	tCa	tTa	2	2	P.1.10	0.000539
N	416	S416L	tCa	tTa	2	2	P.1.7	0.000639
N	416	S416L	tCa	tTa	2	2	P.3	0.00319
N	416	S416L	tCa	tTa	2	2	Q.4	0.00091
N	416	S416L	tCa	tTa	2	2	Q.8	0.00033
N	416	S416X	tCa	tAa	1	1	A	0.000387
N	416	S416S	tcA	tcT	1	1	A	0.000387
N	416	S416L	tCa	tTa	1	1	A.1	0.000282
N	416	S416L	tCa	tTa	1	1	A.2	0.000662
N	416	S416S	tcA	tcG	1	1	A.29	0.005319
N	416	S416L	tCa	tTa	1	1	AE.8	0.000489
N	416	S416L	tCa	tTa	1	1	AH.2	0.012048
N	416	S416G	TCA	GGG	1	1	All	0
N	416	S416H	TCA	CAT	1	1	All	0
N	416	S416S	tcA	tcG	1	1	AY.100	0.000046
N	416	S416X	tCa	tGa	1	1	AY.103	0.000006
N	416	S416X	tCa	tGa	1	1	AY.104	0.001984
N	416	S416L	tCa	tTa	1	1	AY.105	0.000643
N	416	S416S	tcA	tcT	1	1	AY.106	0.000335
N	416	S416L	tCa	tTa	1	1	AY.108	0.001103
N	416	S416L	tCa	tTa	1	1	AY.110	0.000113
N	416	S416S	tcA	tcT	1	1	AY.113	0.000142
N	416	S416L	tCa	tTa	1	1	AY.113	0.000142
N	416	S416del	TCA	---	1	1	AY.114	0.000231
N	416	S416S	tcA	tcT	1	1	AY.116	0.000287
N	416	S416S	tcA	tcT	1	1	AY.117	0.000085
N	416	S416S	tcA	tcG	1	1	AY.12	0.000316
N	416	S416A	Tca	Gca	1	1	AY.12	0.000316
N	416	S416L	tCa	tTa	1	1	AY.120	0.000037
N	416	S416S	tcA	tcT	1	1	AY.120	0.000037
N	416	S416S	tcA	tcT	1	1	AY.121	0.000135
N	416	S416del	TCA	---	1	1	AY.13	0.000161
N	416	S416S	tcA	tcT	1	1	AY.13	0.000161
N	416	S416L	tCa	tTa	1	1	AY.16.1	0.00047
N	416	S416X	tCa	tAa	1	1	AY.23	0.00007
N	416	S416P	Tca	Cca	1	1	AY.23	0.00007
N	416	S416S	tcA	tcT	1	1	AY.24	0.000431
N	416	S416X	tCa	tGa	1	1	AY.25	0.000006
N	416	S416del	TCA	---	1	1	AY.26	0.000028
N	416	S416P	Tca	Cca	1	1	AY.27	0.000065
N	416	S416A	Tca	Gca	1	1	AY.27	0.000065
N	416	S416del	TCA	---	1	1	AY.27	0.000065
N	416	S416X	tCa	tGa	1	1	AY.29	0.000016
N	416	S416A	Tca	Gca	1	1	AY.29	0.000016
N	416	S416P	Tca	Cca	1	1	AY.3.1	0.000085
N	416	S416L	tCa	tTa	1	1	AY.3.1	0.000085
N	416	S416L	tCa	tTa	1	1	AY.34	0.000097
N	416	S416L	tCa	tTa	1	1	AY.39.1	0.00004
N	416	S416X	tCa	tAa	1	1	AY.4	0.000002
N	416	S416F	tCA	tTC	1	1	AY.4	0.000002
N	416	S416P	Tca	Cca	1	1	AY.4.2	0.000022
N	416	S416X	tCa	tAa	1	1	AY.43	0.000004
N	416	S416del	TCA	---	1	1	AY.43	0.000004
N	416	S416del	TCA	---	1	1	AY.44	0.000006
N	416	S416P	Tca	Cca	1	1	AY.44	0.000006
N	416	S416X	tCa	tGa	1	1	AY.46.1	0.001027
N	416	S416L	tCa	tTa	1	1	AY.46.1	0.001027
N	416	S416T	Tca	Aca	1	1	AY.46.2	0.000635
N	416	S416A	Tca	Gca	1	1	AY.46.6	0.000072
N	416	S416S	tcA	tcT	1	1	AY.46.6	0.000072
N	416	S416del	TCA	---	1	1	AY.47	0.000031
N	416	S416S	tcA	tcG	1	1	AY.47	0.000031
N	416	S416P	Tca	Cca	1	1	AY.47	0.000031
N	416	S416del1	tCa	t-a	1	1	AY.48	0.000465
N	416	S416T	Tca	Aca	1	1	AY.5	0.000021
N	416	S416del	TCA	---	1	1	AY.5	0.000021
N	416	S416A	TcA	GcC	1	1	AY.5	0.000021
N	416	S416T	Tca	Aca	1	1	AY.5.4	0.000277
N	416	S416L	tCa	tTa	1	1	AY.53	0.000288
N	416	S416L	tCa	tTa	1	1	AY.55	0.000917
N	416	S416X	tCa	tAa	1	1	AY.61	0.000105
N	416	S416del	TCA	---	1	1	AY.62	0.000436
N	416	S416L	tCa	tTa	1	1	AY.62	0.000436
N	416	S416L	tCa	tTa	1	1	AY.63	0.000387
N	416	S416L	tCa	tTa	1	1	AY.64	0.000595
N	416	S416L	tCa	tTa	1	1	AY.65	0.000533
N	416	S416L	tCa	tTa	1	1	AY.67	0.000464
N	416	S416L	tCa	tTa	1	1	AY.68	0.000274
N	416	S416L	tCa	tTa	1	1	AY.73	0.000665
N	416	S416S	tcA	tcT	1	1	AY.74	0.000116
N	416	S416S	tcA	tcT	1	1	AY.87	0.000833
N	416	S416del	TCA	---	1	1	AY.9.1	0.000084
N	416	S416S	tcA	tcG	1	1	AY.9.1	0.000084
N	416	S416L	tCa	tTa	1	1	AY.91	0.00073
N	416	S416L	tCa	tTa	1	1	AY.91.1	0.004065
N	416	S416L	tCa	tTa	1	1	AY.95	0.000761
N	416	S416L	tCa	tTa	1	1	AY.97	0.001701
N	416	S416S	tcA	tcT	1	1	AY.99.2	0.000092
N	416	S416P	Tca	Cca	1	1	AY.99.2	0.000092
N	416	S416L	TCa	CTa	1	1	B	0.000128
N	416	S416G	TCA	GGG	1	1	B.1	0.000009
N	416	S416T	Tca	Aca	1	1	B.1	0.000009
N	416	S416T	Tca	Aca	1	1	B.1.1	0.000018
N	416	S416X	tCa	tAa	1	1	B.1.1	0.000018
N	416	S416P	TcA	CcT	1	1	B.1.1	0.000018
N	416	S416S	tcA	tcG	1	1	B.1.1.1	0.000327
N	416	S416S	tcA	tcT	1	1	B.1.1.166	0.033333
N	416	S416L	tCa	tTa	1	1	B.1.1.174	0.003378
N	416	S416L	tCa	tTa	1	1	B.1.1.222	0.000204
N	416	S416L	tCa	tTa	1	1	B.1.1.241	0.00207
N	416	S416L	tCa	tTa	1	1	B.1.1.243	0.004082
N	416	S416L	tCa	tTa	1	1	B.1.1.25	0.000569
N	416	S416X	tCa	tGa	1	1	B.1.1.27	0.00565
N	416	S416S	tcA	tcT	1	1	B.1.1.270	0.010309
N	416	S416L	tCa	tTa	1	1	B.1.1.277	0.000759
N	416	S416L	tCa	tTa	1	1	B.1.1.28	0.000311
N	416	S416X	tCa	tGa	1	1	B.1.1.28	0.000311
N	416	S416L	tCa	tTa	1	1	B.1.1.291	0.000742
N	416	S416L	tCa	tTa	1	1	B.1.1.306	0.000438
N	416	S416S	tcA	tcT	1	1	B.1.1.307	0.002532
N	416	S416L	tCa	tTa	1	1	B.1.1.317	0.000412
N	416	S416L	tCa	tTa	1	1	B.1.1.348	0.000796
N	416	S416L	tCa	tTa	1	1	B.1.1.369	0.000446
N	416	S416del	TCA	---	1	1	B.1.1.37	0.000193
N	416	S416P	Tca	Cca	1	1	B.1.1.372	0.000689
N	416	S416S	tcA	tcT	1	1	B.1.1.416	0.000905
N	416	S416S	tcA	tcG	1	1	B.1.1.50	0.000679
N	416	S416T	Tca	Aca	1	1	B.1.1.519	0.00004
N	416	S416T	Tca	Aca	1	1	B.1.1.7	0.000001
N	416	S416P	Tca	Cca	1	1	B.1.1.70	0.000341
N	416	S416L	tCa	tTa	1	1	B.1.1.8	0.003584
N	416	S416S	tcA	tcT	1	1	B.1.160	0.000031
N	416	S416L	tCa	tTa	1	1	B.1.160.10	0.008065
N	416	S416P	Tca	Cca	1	1	B.1.177	0.000013
N	416	S416L	tCa	tTa	1	1	B.1.177.20	0.001517
N	416	S416L	tCa	tTa	1	1	B.1.177.43	0.001477
N	416	S416L	tCa	tTa	1	1	B.1.177.5	0.001242
N	416	S416L	tCa	tTa	1	1	B.1.177.58	0.001332
N	416	S416L	tCa	tTa	1	1	B.1.177.60	0.000218
N	416	S416F	tCA	tTT	1	1	B.1.177.63	0.002703
N	416	S416L	tCa	tTa	1	1	B.1.177.75	0.001041
N	416	S416L	tCa	tTa	1	1	B.1.177.82	0.000477
N	416	S416S	tcA	tcT	1	1	B.1.177.83	0.001481
N	416	S416L	tCa	tTa	1	1	B.1.177.9	0.001332
N	416	S416L	tCa	tTa	1	1	B.1.189	0.004292
N	416	S416del	TCA	---	1	1	B.1.2	0.000009
N	416	S416X	tCa	tAa	1	1	B.1.2	0.000009
N	416	S416P	Tca	Cca	1	1	B.1.212	0.016667
N	416	S416L	tCa	tTa	1	1	B.1.221.1	0.002907
N	416	S416L	tCa	tTa	1	1	B.1.232	0.000537
N	416	S416S	tcA	tcG	1	1	B.1.256	0.017241
N	416	S416S	tcA	tcT	1	1	B.1.258	0.000067
N	416	S416L	tCa	tTa	1	1	B.1.258.11	0.000396
N	416	S416del	TCA	---	1	1	B.1.258.16	0.001637
N	416	S416L	tCa	tTa	1	1	B.1.258.4	0.003448
N	416	S416L	tCa	tTa	1	1	B.1.265	0.001271
N	416	S416L	tCa	tTa	1	1	B.1.279	0.000514
N	416	S416L	tCa	tTa	1	1	B.1.298	0.002114
N	416	S416L	tCa	tTa	1	1	B.1.311	0.000275
N	416	S416L	tCa	tTa	1	1	B.1.320	0.001245
N	416	S416L	tCa	tTa	1	1	B.1.349	0.000715
N	416	S416X	tCa	tGa	1	1	B.1.351	0.00003
N	416	S416T	Tca	Aca	1	1	B.1.351	0.00003
N	416	S416H	TCA	CAT	1	1	B.1.351	0.00003
N	416	S416P	TcA	CcT	1	1	B.1.36.1	0.00114
N	416	S416L	tCa	tTa	1	1	B.1.36.17	0.000494
N	416	S416L	tCa	tTa	1	1	B.1.36.28	0.005747
N	416	S416L	tCa	tTa	1	1	B.1.36.29	0.000517
N	416	S416del1	tCa	t-a	1	1	B.1.36.29	0.000517
N	416	S416L	tCa	tTa	1	1	B.1.36.33	0.007576
N	416	S416L	tCa	tTa	1	1	B.1.361	0.001289
N	416	S416L	tCa	tTa	1	1	B.1.367	0.000792
N	416	S416L	tCa	tTa	1	1	B.1.396	0.000706
N	416	S416L	tCa	tTa	1	1	B.1.404	0.001302
N	416	S416del	TCA	---	1	1	B.1.415	0.014286
N	416	S416del	TCA	---	1	1	B.1.427	0.00005
N	416	S416P	Tca	Cca	1	1	B.1.429	0.000024
N	416	S416del	TCA	---	1	1	B.1.438.1	0.000107
N	416	S416L	tCa	tTa	1	1	B.1.441	0.009615
N	416	S416A	Tca	Gca	1	1	B.1.459	0.004082
N	416	S416L	tCa	tTa	1	1	B.1.465	0.003802
N	416	S416S	tcA	tcG	1	1	B.1.471	0.002732
N	416	S416L	tCa	tTa	1	1	B.1.497	0.000315
N	416	S416S	tcA	tcG	1	1	B.1.509	0.000866
N	416	S416L	tCa	tTa	1	1	B.1.561	0.000397
N	416	S416S	tcA	tcG	1	1	B.1.577	0.000687
N	416	S416L	tCa	tTa	1	1	B.1.595.4	0.007299
N	416	S416del	TCA	---	1	1	B.1.596	0.000087
N	416	S416L	tCa	tTa	1	1	B.1.609	0.000479
N	416	S416L	tCa	tTa	1	1	B.1.610	0.003546
N	416	S416S	tcA	tcG	1	1	B.1.617.1	0.000129
N	416	S416A	Tca	Gca	1	1	B.1.617.2	0.000004
N	416	S416T	Tca	Aca	1	1	B.1.617.2	0.000004
N	416	S416L	tCa	tTa	1	1	B.1.619.1	0.000641
N	416	S416L	tCa	tTa	1	1	B.1.620	0.000946
N	416	S416S	tcA	tcG	1	1	B.1.631	0.003367
N	416	S416L	tCa	tTa	1	1	B.1.8	0.001972
N	416	S416L	tCa	tTa	1	1	B.3.1	0.001658
N	416	S416L	tCa	tTa	1	1	B.40	0.000364
N	416	S416L	tCa	tTa	1	1	B.55	0.00295
N	416	S416P	Tca	Cca	1	1	B.6	0.00091
N	416	S416del1	Tca	-ca	1	1	P.1	0.000016
N	416	S416S	tcA	tcT	1	1	P.1.1	0.000318
N	416	S416S	tcA	tcT	1	1	P.1.11	0.010204
N	416	S416L	tCa	tTa	1	1	P.1.12	0.000484
N	416	S416L	tCa	tTa	1	1	P.2	0.000187
N	416	S416X	tCa	tGa	1	1	Q.1	0.000126
N	416	S416L	tCa	tTa	1	1	Q.3	0.000145
N	416	S416S	tcA	tcG	1	1	Q.8	0.000165

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.