CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 822

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	822	L822F		nonsyn	Ctt	Ttt	2349	2349	1	24026-24028
S	822	L822L		syn	ctT	ctC	183	155	0.846995	24026-24028
S	822	L822L		syn	ctT	ctA	183	21	0.114754	24026-24028
S	822	L822L		syn	ctT	ctG	183	7	0.0382514	24026-24028
S	822	L822del		del	CTT	---	152	152	1	24026-24028
S	822	L822I		nonsyn	Ctt	Att	100	99	0.99	24026-24028
S	822	L822I		nonsyn	CtT	AtC	100	1	0.01	24026-24028
S	822	L822P		nonsyn	cTt	cCt	55	55	1	24026-24028
S	822	L822V		nonsyn	Ctt	Gtt	17	17	1	24026-24028
S	822	L822del1		del	cTt	c-t	13	8	0.615385	24026-24028
S	822	L822del1		del	Ctt	-tt	13	5	0.384615	24026-24028
S	822	L822del2		del	CTt	--t	10	6	0.6	24026-24028
S	822	L822del2		del	CTT	T--	10	2	0.2	24026-24028
S	822	L822del2		del	cTT	c--	10	2	0.2	24026-24028
S	822	L822R		nonsyn	cTt	cGt	2	1	0.5	24026-24028
S	822	L822R		nonsyn	cTT	cGC	2	1	0.5	24026-24028

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
S	822	L822F	Ctt	Ttt	2349	2349	All	0.000449
S	822	L822F	Ctt	Ttt	1063	1063	B.1.1.7	0.000952
S	822	L822F	Ctt	Ttt	241	241	B.1.546	0.892593
S	822	L822L	ctT	ctC	155	183	All	0.00003
S	822	L822L	ctT	ctA	21	183	All	0.000004
S	822	L822L	ctT	ctG	7	183	All	0.000001
S	822	L822F	Ctt	Ttt	156	156	AY.4	0.000243
S	822	L822del	CTT	---	152	152	All	0.000029
S	822	L822I	Ctt	Att	99	100	All	0.000019
S	822	L822I	CtT	AtC	1	100	All	0
S	822	L822F	Ctt	Ttt	77	77	B.1.351	0.002289
S	822	L822I	Ctt	Att	61	61	AY.43	0.00027
S	822	L822F	Ctt	Ttt	58	58	B.1	0.000531
S	822	L822P	cTt	cCt	55	55	All	0.000011
S	822	L822F	Ctt	Ttt	52	52	B.1.223	0.144444
S	822	L822F	Ctt	Ttt	41	41	D.2	0.003077
S	822	L822F	Ctt	Ttt	40	40	B.1.2	0.000352
S	822	L822F	Ctt	Ttt	37	37	AY.29	0.000584
S	822	L822F	Ctt	Ttt	37	37	B.1.160	0.001154
S	822	L822F	Ctt	Ttt	33	33	B.1.1	0.000599
S	822	L822del	CTT	---	27	27	B.1.1.7	0.000024
S	822	L822F	Ctt	Ttt	27	27	Q.1	0.003411
S	822	L822F	Ctt	Ttt	26	26	B.1.617.2	0.000098
S	822	L822L	ctT	ctC	25	25	AY.43	0.000111
S	822	L822F	Ctt	Ttt	20	20	AY.25	0.00012
S	822	L822F	Ctt	Ttt	19	19	B.1.177	0.00025
S	822	L822V	Ctt	Gtt	17	17	All	0.000003
S	822	L822F	Ctt	Ttt	17	17	AY.4.2	0.000369
S	822	L822L	ctT	ctC	17	17	P.1.14	0.000813
S	822	L822F	Ctt	Ttt	16	16	AY.98.1	0.000775
S	822	L822I	Ctt	Att	16	16	B.1.1.7	0.000014
S	822	L822L	ctT	ctA	15	16	B.1.177	0.000198
S	822	L822L	ctT	ctC	1	16	B.1.177	0.000013
S	822	L822F	Ctt	Ttt	16	16	B.1.206	0.013051
S	822	L822L	ctT	ctC	13	15	B.1.1.7	0.000012
S	822	L822L	ctT	ctG	2	15	B.1.1.7	0.000002
S	822	L822F	Ctt	Ttt	14	14	B.1.1.519	0.000556
S	822	L822del1	cTt	c-t	8	13	All	0.000002
S	822	L822del1	Ctt	-tt	5	13	All	0.000001
S	822	L822L	ctT	ctC	13	13	AY.103	0.000081
S	822	L822F	Ctt	Ttt	13	13	P.1	0.000205
S	822	L822F	Ctt	Ttt	11	11	AY.43	0.000049
S	822	L822L	ctT	ctC	11	11	B.1.427	0.000555
S	822	L822del2	CTt	--t	6	10	All	0.000001
S	822	L822del2	cTT	c--	2	10	All	0
S	822	L822del2	CTT	T--	2	10	All	0
S	822	L822F	Ctt	Ttt	10	10	AY.33	0.000668
S	822	L822L	ctT	ctC	9	10	AY.4	0.000014
S	822	L822L	ctT	ctG	1	10	AY.4	0.000002
S	822	L822I	Ctt	Att	10	10	AY.42	0.000402
S	822	L822F	Ctt	Ttt	10	10	AY.44	0.000061
S	822	L822del	CTT	---	10	10	B.1	0.000092
S	822	L822L	ctT	ctC	10	10	B.1	0.000092
S	822	L822F	Ctt	Ttt	10	10	B.1.429	0.000235
S	822	L822F	Ctt	Ttt	9	9	AY.3	0.00009
S	822	L822P	cTt	cCt	9	9	B.1	0.000082
S	822	L822F	Ctt	Ttt	9	9	B.1.438.1	0.000965
S	822	L822F	Ctt	Ttt	9	9	B.1.526	0.000212
S	822	L822del	CTT	---	8	8	AY.43	0.000035
S	822	L822F	Ctt	Ttt	8	8	AY.47	0.000249
S	822	L822F	Ctt	Ttt	8	8	P.1.14	0.000382
S	822	L822V	Ctt	Gtt	7	7	B.1.1.7	0.000006
S	822	L822F	Ctt	Ttt	7	7	B.1.177.4	0.001477
S	822	L822F	Ctt	Ttt	7	7	B.1.221	0.000497
S	822	L822del	CTT	---	7	7	B.1.621	0.00062
S	822	L822P	cTt	cCt	6	6	AY.4	0.000009
S	822	L822L	ctT	ctA	6	6	AY.75	0.000336
S	822	L822L	ctT	ctC	6	6	B.1.2	0.000053
S	822	L822L	ctT	ctC	6	6	B.1.22.1	0.1875
S	822	L822F	Ctt	Ttt	5	5	AY.100	0.00023
S	822	L822F	Ctt	Ttt	5	5	AY.103	0.000031
S	822	L822del	CTT	---	5	5	AY.103	0.000031
S	822	L822F	Ctt	Ttt	5	5	AY.119	0.000177
S	822	L822del	CTT	---	5	5	AY.25	0.00003
S	822	L822L	ctT	ctC	4	5	AY.3	0.00004
S	822	L822L	ctT	ctG	1	5	AY.3	0.00001
S	822	L822del	CTT	---	5	5	B.1.1	0.000091
S	822	L822del	CTT	---	5	5	B.1.2	0.000044
S	822	L822F	Ctt	Ttt	5	5	B.1.36.22	0.006039
S	822	L822L	ctT	ctC	5	5	C.18	0.012953
S	822	L822del	CTT	---	5	5	P.1	0.000079
S	822	L822del	CTT	---	5	5	P.1.15	0.001162
S	822	L822F	Ctt	Ttt	4	4	AY.120	0.000149
S	822	L822F	Ctt	Ttt	4	4	AY.3.1	0.000341
S	822	L822F	Ctt	Ttt	4	4	AY.39	0.000099
S	822	L822del	CTT	---	4	4	AY.4.5	0.00043
S	822	L822F	Ctt	Ttt	4	4	AY.41	0.001176
S	822	L822F	Ctt	Ttt	4	4	AY.87	0.003331
S	822	L822L	ctT	ctC	4	4	B.1.1	0.000073
S	822	L822F	Ctt	Ttt	4	4	B.1.234	0.000528
S	822	L822L	ctT	ctC	4	4	B.1.351	0.000119
S	822	L822F	Ctt	Ttt	4	4	B.1.351.2	0.00121
S	822	L822F	Ctt	Ttt	4	4	B.1.36.36	0.002408
S	822	L822F	Ctt	Ttt	4	4	B.1.525	0.000453
S	822	L822L	ctT	ctC	4	4	B.1.617.2	0.000015
S	822	L822F	Ctt	Ttt	3	3	A.1	0.000846
S	822	L822F	Ctt	Ttt	3	3	AY.102	0.00008
S	822	L822F	Ctt	Ttt	3	3	AY.113	0.000427
S	822	L822F	Ctt	Ttt	3	3	AY.116.1	0.000934
S	822	L822F	Ctt	Ttt	3	3	AY.117	0.000254
S	822	L822F	Ctt	Ttt	3	3	AY.26	0.000085
S	822	L822F	Ctt	Ttt	3	3	AY.37	0.000948
S	822	L822del	CTT	---	3	3	AY.4	0.000005
S	822	L822P	cTt	cCt	3	3	AY.43	0.000013
S	822	L822del	CTT	---	3	3	AY.44	0.000018
S	822	L822F	Ctt	Ttt	3	3	AY.46	0.000312
S	822	L822F	Ctt	Ttt	3	3	AY.46.6	0.000217
S	822	L822F	Ctt	Ttt	3	3	AY.5	0.000062
S	822	L822L	ctT	ctC	3	3	B.1.1.189	0.004539
S	822	L822F	Ctt	Ttt	3	3	B.1.1.214	0.000166
S	822	L822P	cTt	cCt	3	3	B.1.1.7	0.000003
S	822	L822del1	Ctt	-tt	2	3	B.1.1.7	0.000002
S	822	L822del1	cTt	c-t	1	3	B.1.1.7	0.000001
S	822	L822del	CTT	---	3	3	B.1.177	0.00004
S	822	L822P	cTt	cCt	3	3	B.1.177	0.00004
S	822	L822F	Ctt	Ttt	3	3	B.1.177.86	0.00055
S	822	L822F	Ctt	Ttt	3	3	B.1.258	0.0002
S	822	L822F	Ctt	Ttt	3	3	B.1.258.17	0.000312
S	822	L822F	Ctt	Ttt	3	3	B.1.36	0.000438
S	822	L822F	Ctt	Ttt	3	3	B.1.369	0.000856
S	822	L822F	Ctt	Ttt	3	3	B.1.470	0.004213
S	822	L822F	Ctt	Ttt	3	3	B.1.497	0.000944
S	822	L822del	CTT	---	3	3	B.1.596	0.000261
S	822	L822del2	CTT	T--	2	2		0.111111
S	822	L822R	cTT	cGC	1	2	All	0
S	822	L822R	cTt	cGt	1	2	All	0
S	822	L822L	ctT	ctC	2	2	AY.102	0.000053
S	822	L822I	Ctt	Att	2	2	AY.103	0.000012
S	822	L822del	CTT	---	2	2	AY.117	0.000169
S	822	L822F	Ctt	Ttt	2	2	AY.118	0.000125
S	822	L822del	CTT	---	2	2	AY.14	0.000176
S	822	L822F	Ctt	Ttt	2	2	AY.16	0.000759
S	822	L822V	Ctt	Gtt	2	2	AY.25	0.000012
S	822	L822P	cTt	cCt	2	2	AY.25	0.000012
S	822	L822F	Ctt	Ttt	2	2	AY.27	0.000129
S	822	L822del	CTT	---	2	2	AY.39	0.000049
S	822	L822F	Ctt	Ttt	2	2	AY.39.1	0.000079
S	822	L822L	ctT	ctC	2	2	AY.4.2	0.000043
S	822	L822V	Ctt	Gtt	2	2	AY.43	0.000009
S	822	L822F	Ctt	Ttt	2	2	AY.6	0.000082
S	822	L822del	CTT	---	2	2	AY.9.2	0.000073
S	822	L822I	Ctt	Att	2	2	B	0.000256
S	822	L822P	cTt	cCt	2	2	B.1.1	0.000036
S	822	L822del2	cTT	c--	1	2	B.1.1	0.000018
S	822	L822del2	CTt	--t	1	2	B.1.1	0.000018
S	822	L822F	Ctt	Ttt	2	2	B.1.1.222	0.000408
S	822	L822del	CTT	---	2	2	B.1.1.236	0.013793
S	822	L822F	Ctt	Ttt	2	2	B.1.1.333	0.002153
S	822	L822F	Ctt	Ttt	2	2	B.1.1.37	0.000386
S	822	L822F	Ctt	Ttt	2	2	B.1.177.56	0.001335
S	822	L822F	Ctt	Ttt	2	2	B.1.177.60	0.000437
S	822	L822del	CTT	---	2	2	B.1.177.63	0.005405
S	822	L822F	Ctt	Ttt	2	2	B.1.177.69	0.002967
S	822	L822F	Ctt	Ttt	2	2	B.1.177.73	0.001133
S	822	L822F	Ctt	Ttt	2	2	B.1.177.75	0.002081
S	822	L822P	cTt	cCt	2	2	B.1.2	0.000018
S	822	L822del1	Ctt	-tt	1	2	B.1.2	0.000009
S	822	L822del1	cTt	c-t	1	2	B.1.2	0.000009
S	822	L822F	Ctt	Ttt	2	2	B.1.311	0.000549
S	822	L822F	Ctt	Ttt	2	2	B.1.349	0.00143
S	822	L822P	cTt	cCt	2	2	B.1.396	0.001411
S	822	L822F	Ctt	Ttt	2	2	B.1.427	0.000101
S	822	L822del	CTT	---	2	2	B.1.466.2	0.000782
S	822	L822F	Ctt	Ttt	2	2	B.1.574	0.004301
S	822	L822F	Ctt	Ttt	2	2	B.1.582	0.000981
S	822	L822F	Ctt	Ttt	2	2	B.1.617.1	0.000258
S	822	L822P	cTt	cCt	2	2	B.1.617.2	0.000008
S	822	L822del1	cTt	c-t	2	2	B.1.617.2	0.000008
S	822	L822del	CTT	---	2	2	B.1.617.2	0.000008
S	822	L822F	Ctt	Ttt	2	2	B.1.637	0.000146
S	822	L822L	ctT	ctC	2	2	P.1	0.000032
S	822	L822L	ctT	ctC	2	2	P.1.7	0.000639
S	822	L822F	Ctt	Ttt	2	2	P.2	0.000373
S	822	L822F	Ctt	Ttt	2	2	R.1	0.00018
S	822	L822del	CTT	---	1	1	A	0.000387
S	822	L822P	cTt	cCt	1	1	A.1	0.000282
S	822	L822F	Ctt	Ttt	1	1	A.2.5	0.000499
S	822	L822F	Ctt	Ttt	1	1	A.3	0.002096
S	822	L822F	Ctt	Ttt	1	1	AC.1	0.037037
S	822	L822F	Ctt	Ttt	1	1	AD.2	0.000219
S	822	L822F	Ctt	Ttt	1	1	AE.8	0.000489
S	822	L822F	Ctt	Ttt	1	1	AP.1	0.001502
S	822	L822del	CTT	---	1	1	AY.10	0.00053
S	822	L822del	CTT	---	1	1	AY.100	0.000046
S	822	L822V	Ctt	Gtt	1	1	AY.102	0.000027
S	822	L822P	cTt	cCt	1	1	AY.103	0.000006
S	822	L822F	Ctt	Ttt	1	1	AY.111	0.000183
S	822	L822del	CTT	---	1	1	AY.12	0.000316
S	822	L822del	CTT	---	1	1	AY.120	0.000037
S	822	L822F	Ctt	Ttt	1	1	AY.121	0.000135
S	822	L822F	Ctt	Ttt	1	1	AY.14	0.000088
S	822	L822P	cTt	cCt	1	1	AY.2	0.000356
S	822	L822F	Ctt	Ttt	1	1	AY.20	0.000039
S	822	L822I	Ctt	Att	1	1	AY.20	0.000039
S	822	L822P	cTt	cCt	1	1	AY.20	0.000039
S	822	L822F	Ctt	Ttt	1	1	AY.23	0.00007
S	822	L822L	ctT	ctG	1	1	AY.23	0.00007
S	822	L822del	CTT	---	1	1	AY.24	0.000431
S	822	L822L	ctT	ctC	1	1	AY.25	0.000006
S	822	L822del	CTT	---	1	1	AY.26	0.000028
S	822	L822P	cTt	cCt	1	1	AY.27	0.000065
S	822	L822V	Ctt	Gtt	1	1	AY.27	0.000065
S	822	L822I	Ctt	Att	1	1	AY.3	0.00001
S	822	L822L	ctT	ctG	1	1	AY.33	0.000067
S	822	L822F	Ctt	Ttt	1	1	AY.34.1	0.00051
S	822	L822F	Ctt	Ttt	1	1	AY.35	0.000233
S	822	L822del	CTT	---	1	1	AY.36	0.000148
S	822	L822I	Ctt	Att	1	1	AY.4	0.000002
S	822	L822P	cTt	cCt	1	1	AY.4.2	0.000022
S	822	L822F	Ctt	Ttt	1	1	AY.42	0.00004
S	822	L822L	ctT	ctC	1	1	AY.42	0.00004
S	822	L822del1	cTt	c-t	1	1	AY.43	0.000004
S	822	L822P	cTt	cCt	1	1	AY.44	0.000006
S	822	L822V	Ctt	Gtt	1	1	AY.44	0.000006
S	822	L822del	CTT	---	1	1	AY.46.2	0.000635
S	822	L822F	Ctt	Ttt	1	1	AY.46.3	0.000934
S	822	L822F	Ctt	Ttt	1	1	AY.46.4	0.000165
S	822	L822I	Ctt	Att	1	1	AY.47	0.000031
S	822	L822L	ctT	ctC	1	1	AY.47	0.000031
S	822	L822P	cTt	cCt	1	1	AY.47	0.000031
S	822	L822del	CTT	---	1	1	AY.47	0.000031
S	822	L822del	CTT	---	1	1	AY.5	0.000021
S	822	L822F	Ctt	Ttt	1	1	AY.5.4	0.000277
S	822	L822P	cTt	cCt	1	1	AY.55	0.000917
S	822	L822F	Ctt	Ttt	1	1	AY.56	0.001605
S	822	L822L	ctT	ctC	1	1	AY.6	0.000041
S	822	L822P	cTt	cCt	1	1	AY.61	0.000105
S	822	L822del1	Ctt	-tt	1	1	AY.61	0.000105
S	822	L822F	Ctt	Ttt	1	1	AY.61	0.000105
S	822	L822I	Ctt	Att	1	1	AY.62	0.000436
S	822	L822del	CTT	---	1	1	AY.68	0.000274
S	822	L822F	Ctt	Ttt	1	1	AY.69	0.000187
S	822	L822F	Ctt	Ttt	1	1	AY.7	0.000196
S	822	L822L	ctT	ctC	1	1	AY.71	0.000475
S	822	L822I	CtT	AtC	1	1	AY.71	0.000475
S	822	L822F	Ctt	Ttt	1	1	AY.74	0.000116
S	822	L822del	CTT	---	1	1	AY.75	0.000056
S	822	L822F	Ctt	Ttt	1	1	AY.75	0.000056
S	822	L822F	Ctt	Ttt	1	1	AY.8	0.000606
S	822	L822L	ctT	ctC	1	1	AY.9	0.000068
S	822	L822F	Ctt	Ttt	1	1	AY.9.1	0.000084
S	822	L822P	cTt	cCt	1	1	AY.9.2	0.000037
S	822	L822F	Ctt	Ttt	1	1	AY.92	0.000287
S	822	L822del2	CTt	--t	1	1	AY.98.1	0.000048
S	822	L822del	CTT	---	1	1	AY.99.2	0.000092
S	822	L822del1	Ctt	-tt	1	1	AY.99.2	0.000092
S	822	L822del1	cTt	c-t	1	1	B.1	0.000009
S	822	L822del2	cTT	c--	1	1	B.1	0.000009
S	822	L822F	Ctt	Ttt	1	1	B.1.1.10	0.001115
S	822	L822F	Ctt	Ttt	1	1	B.1.1.113	0.006993
S	822	L822F	Ctt	Ttt	1	1	B.1.1.138	0.006061
S	822	L822F	Ctt	Ttt	1	1	B.1.1.157	0.000913
S	822	L822del	CTT	---	1	1	B.1.1.158	0.012195
S	822	L822del	CTT	---	1	1	B.1.1.161	0.003534
S	822	L822F	Ctt	Ttt	1	1	B.1.1.174	0.003378
S	822	L822F	Ctt	Ttt	1	1	B.1.1.189	0.001513
S	822	L822F	Ctt	Ttt	1	1	B.1.1.241	0.00207
S	822	L822F	Ctt	Ttt	1	1	B.1.1.268	0.014925
S	822	L822F	Ctt	Ttt	1	1	B.1.1.28	0.000311
S	822	L822P	cTt	cCt	1	1	B.1.1.311	0.000358
S	822	L822del	CTT	---	1	1	B.1.1.315	0.008475
S	822	L822F	Ctt	Ttt	1	1	B.1.1.316	0.000925
S	822	L822F	Ctt	Ttt	1	1	B.1.1.318	0.000302
S	822	L822F	Ctt	Ttt	1	1	B.1.1.359	0.027778
S	822	L822F	Ctt	Ttt	1	1	B.1.1.372	0.000689
S	822	L822F	Ctt	Ttt	1	1	B.1.1.39	0.00051
S	822	L822del	CTT	---	1	1	B.1.1.409	0.002833
S	822	L822P	cTt	cCt	1	1	B.1.1.44	0.00241
S	822	L822F	Ctt	Ttt	1	1	B.1.1.440	0.011765
S	822	L822F	Ctt	Ttt	1	1	B.1.1.449	0.022727
S	822	L822F	Ctt	Ttt	1	1	B.1.1.464	0.001473
S	822	L822F	Ctt	Ttt	1	1	B.1.1.47	0.005348
S	822	L822F	Ctt	Ttt	1	1	B.1.1.50	0.000679
S	822	L822del	CTT	---	1	1	B.1.1.519	0.00004
S	822	L822L	ctT	ctC	1	1	B.1.1.526	0.003546
S	822	L822F	Ctt	Ttt	1	1	B.1.1.67	0.004566
S	822	L822R	cTt	cGt	1	1	B.1.1.7	0.000001
S	822	L822del2	CTt	--t	1	1	B.1.1.7	0.000001
S	822	L822F	Ctt	Ttt	1	1	B.1.1.8	0.003584
S	822	L822del	CTT	---	1	1	B.1.160	0.000031
S	822	L822F	Ctt	Ttt	1	1	B.1.160.14	0.002119
S	822	L822del	CTT	---	1	1	B.1.160.30	0.002976
S	822	L822F	Ctt	Ttt	1	1	B.1.177.10	0.000878
S	822	L822L	ctT	ctC	1	1	B.1.177.12	0.000152
S	822	L822del	CTT	---	1	1	B.1.177.12	0.000152
S	822	L822del	CTT	---	1	1	B.1.177.17	0.000821
S	822	L822F	Ctt	Ttt	1	1	B.1.177.21	0.000076
S	822	L822F	Ctt	Ttt	1	1	B.1.177.38	0.010417
S	822	L822F	Ctt	Ttt	1	1	B.1.177.44	0.000519
S	822	L822del2	CTt	--t	1	1	B.1.177.44	0.000519
S	822	L822del	CTT	---	1	1	B.1.177.51	0.004566
S	822	L822F	Ctt	Ttt	1	1	B.1.177.7	0.000165
S	822	L822del2	CTt	--t	1	1	B.1.2	0.000009
S	822	L822I	Ctt	Att	1	1	B.1.2	0.000009
S	822	L822V	Ctt	Gtt	1	1	B.1.2	0.000009
S	822	L822del1	cTt	c-t	1	1	B.1.214.2	0.0006
S	822	L822del1	cTt	c-t	1	1	B.1.221	0.000071
S	822	L822F	Ctt	Ttt	1	1	B.1.23	0.006061
S	822	L822P	cTt	cCt	1	1	B.1.232	0.000537
S	822	L822F	Ctt	Ttt	1	1	B.1.232	0.000537
S	822	L822del	CTT	---	1	1	B.1.234	0.000132
S	822	L822P	cTt	cCt	1	1	B.1.236	0.002053
S	822	L822P	cTt	cCt	1	1	B.1.238	0.014925
S	822	L822F	Ctt	Ttt	1	1	B.1.239	0.001221
S	822	L822F	Ctt	Ttt	1	1	B.1.243	0.00007
S	822	L822F	Ctt	Ttt	1	1	B.1.247	0.014925
S	822	L822del	CTT	---	1	1	B.1.258	0.000067
S	822	L822F	Ctt	Ttt	1	1	B.1.258.2	0.004505
S	822	L822F	Ctt	Ttt	1	1	B.1.265	0.001271
S	822	L822del	CTT	---	1	1	B.1.311	0.000275
S	822	L822F	Ctt	Ttt	1	1	B.1.325	0.006897
S	822	L822F	Ctt	Ttt	1	1	B.1.336	0.002439
S	822	L822F	Ctt	Ttt	1	1	B.1.346	0.001311
S	822	L822del	CTT	---	1	1	B.1.351.3	0.000876
S	822	L822F	Ctt	Ttt	1	1	B.1.351.3	0.000876
S	822	L822del	CTT	---	1	1	B.1.351.5	0.0006
S	822	L822F	Ctt	Ttt	1	1	B.1.36.17	0.000494
S	822	L822F	Ctt	Ttt	1	1	B.1.36.29	0.000517
S	822	L822F	Ctt	Ttt	1	1	B.1.36.39	0.002217
S	822	L822F	Ctt	Ttt	1	1	B.1.36.8	0.001
S	822	L822del2	CTt	--t	1	1	B.1.369	0.000285
S	822	L822F	Ctt	Ttt	1	1	B.1.391	0.001127
S	822	L822F	Ctt	Ttt	1	1	B.1.399	0.001934
S	822	L822P	cTt	cCt	1	1	B.1.399	0.001934
S	822	L822F	Ctt	Ttt	1	1	B.1.400	0.000429
S	822	L822F	Ctt	Ttt	1	1	B.1.404	0.001302
S	822	L822I	Ctt	Att	1	1	B.1.404	0.001302
S	822	L822P	cTt	cCt	1	1	B.1.409	0.000781
S	822	L822L	ctT	ctC	1	1	B.1.429	0.000024
S	822	L822P	cTt	cCt	1	1	B.1.429	0.000024
S	822	L822F	Ctt	Ttt	1	1	B.1.438	0.006536
S	822	L822F	Ctt	Ttt	1	1	B.1.456	0.003268
S	822	L822L	ctT	ctC	1	1	B.1.466.2	0.000391
S	822	L822del	CTT	---	1	1	B.1.526	0.000024
S	822	L822F	Ctt	Ttt	1	1	B.1.551	0.00129
S	822	L822F	Ctt	Ttt	1	1	B.1.561	0.000397
S	822	L822L	ctT	ctC	1	1	B.1.564	0.000426
S	822	L822F	Ctt	Ttt	1	1	B.1.564	0.000426
S	822	L822F	Ctt	Ttt	1	1	B.1.567	0.003333
S	822	L822F	Ctt	Ttt	1	1	B.1.577	0.000687
S	822	L822del	CTT	---	1	1	B.1.582	0.000491
S	822	L822F	Ctt	Ttt	1	1	B.1.588	0.00091
S	822	L822P	cTt	cCt	1	1	B.1.595	0.000261
S	822	L822F	Ctt	Ttt	1	1	B.1.596	0.000087
S	822	L822L	ctT	ctG	1	1	B.1.596	0.000087
S	822	L822del	CTT	---	1	1	B.1.606	0.006024
S	822	L822F	Ctt	Ttt	1	1	B.1.609	0.000479
S	822	L822del	CTT	---	1	1	B.1.609	0.000479
S	822	L822R	cTT	cGC	1	1	B.1.617.2	0.000004
S	822	L822V	Ctt	Gtt	1	1	B.1.617.2	0.000004
S	822	L822F	Ctt	Ttt	1	1	B.1.619	0.000871
S	822	L822F	Ctt	Ttt	1	1	B.1.621	0.000089
S	822	L822del	CTT	---	1	1	B.1.638	0.052632
S	822	L822del	CTT	---	1	1	B.3	0.000831
S	822	L822F	Ctt	Ttt	1	1	B.3.1	0.001658
S	822	L822F	Ctt	Ttt	1	1	B.30	0.014706
S	822	L822F	Ctt	Ttt	1	1	B.40	0.000364
S	822	L822P	cTt	cCt	1	1	B.45	0.003831
S	822	L822F	Ctt	Ttt	1	1	B.55	0.00295
S	822	L822F	Ctt	Ttt	1	1	B.56	0.028571
S	822	L822F	Ctt	Ttt	1	1	B.61	0.005747
S	822	L822del	CTT	---	1	1	C.37	0.000116
S	822	L822F	Ctt	Ttt	1	1	C.37	0.000116
S	822	L822I	Ctt	Att	1	1	D.2	0.000075
S	822	L822L	ctT	ctC	1	1	D.2	0.000075
S	822	L822V	Ctt	Gtt	1	1	D.2	0.000075
S	822	L822del	CTT	---	1	1	P.1.13	0.000898
S	822	L822F	Ctt	Ttt	1	1	P.1.15	0.000232
S	822	L822F	Ctt	Ttt	1	1	P.1.17	0.000162
S	822	L822del	CTT	---	1	1	P.1.7	0.000319
S	822	L822F	Ctt	Ttt	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.