CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 924

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	924	A924A		syn	gcC	gcT	27014	26525	0.981898	24332-24334
S	924	A924A		syn	gcC	gcG	27014	322	0.0119197	24332-24334
S	924	A924A		syn	gcC	gcA	27014	167	0.00618198	24332-24334
S	924	A924S		nonsyn	Gcc	Tcc	943	920	0.97561	24332-24334
S	924	A924S		nonsyn	GcC	TcT	943	22	0.0233298	24332-24334
S	924	A924S		nonsyn	GcC	TcA	943	1	0.00106045	24332-24334
S	924	A924V		nonsyn	gCc	gTc	308	298	0.967532	24332-24334
S	924	A924V		nonsyn	gCC	gTT	308	9	0.0292208	24332-24334
S	924	A924V		nonsyn	gCC	gTA	308	1	0.00324675	24332-24334
S	924	A924del		del	GCC	---	105	105	1	24332-24334
S	924	A924T		nonsyn	Gcc	Acc	90	89	0.988889	24332-24334
S	924	A924T		nonsyn	GcC	AcA	90	1	0.0111111	24332-24334
S	924	A924F		nonsyn	GCc	TTc	11	11	1	24332-24334
S	924	A924G		nonsyn	gCc	gGc	10	10	1	24332-24334
S	924	A924D		nonsyn	gCc	gAc	10	9	0.9	24332-24334
S	924	A924D		nonsyn	gCC	gAT	10	1	0.1	24332-24334
S	924	A924del2		del	gCC	g--	9	9	1	24332-24334
S	924	A924P		nonsyn	Gcc	Ccc	5	5	1	24332-24334
S	924	A924del1		del	gcC	gc-	3	2	0.666667	24332-24334
S	924	A924del1		del	gCC	g-T	3	1	0.333333	24332-24334
S	924	A924K		nonsyn	GCC	AAA	1	1	1	24332-24334
S	924	A924C		nonsyn	GCc	TGc	1	1	1	24332-24334
S	924	A924Y		nonsyn	GCc	TAc	1	1	1	24332-24334
S	924	A924N		nonsyn	GCc	AAc	1	1	1	24332-24334

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	924	A924A	gcC	gcT	26525	27014	All	0.005073
S	924	A924A	gcC	gcG	322	27014	All	0.000062
S	924	A924A	gcC	gcA	167	27014	All	0.000032
S	924	A924A	gcC	gcT	22947	22947	B.1.177	0.302157
S	924	A924A	gcC	gcT	1239	1239	B.1.351.5	0.742806
S	924	A924S	Gcc	Tcc	920	943	All	0.000176
S	924	A924S	GcC	TcT	22	943	All	0.000004
S	924	A924S	GcC	TcA	1	943	All	0
S	924	A924A	gcC	gcT	837	849	B.1.1.7	0.000749
S	924	A924A	gcC	gcA	12	849	B.1.1.7	0.000011
S	924	A924A	gcC	gcT	357	357	B.1.177.63	0.964865
S	924	A924A	gcC	gcG	307	337	AY.44	0.001869
S	924	A924A	gcC	gcT	27	337	AY.44	0.000164
S	924	A924A	gcC	gcA	3	337	AY.44	0.000018
S	924	A924V	gCc	gTc	298	308	All	0.000057
S	924	A924V	gCC	gTT	9	308	All	0.000002
S	924	A924V	gCC	gTA	1	308	All	0
S	924	A924A	gcC	gcT	225	236	AY.4	0.00035
S	924	A924A	gcC	gcA	7	236	AY.4	0.000011
S	924	A924A	gcC	gcG	4	236	AY.4	0.000006
S	924	A924S	Gcc	Tcc	167	167	B.1.617.2	0.000629
S	924	A924A	gcC	gcT	151	154	B.1	0.001383
S	924	A924A	gcC	gcA	3	154	B.1	0.000027
S	924	A924del	GCC	---	105	105	All	0.00002
S	924	A924S	Gcc	Tcc	104	104	AY.43	0.000461
S	924	A924T	Gcc	Acc	89	90	All	0.000017
S	924	A924T	GcC	AcA	1	90	All	0
S	924	A924A	gcC	gcA	80	80	C.11	0.851064
S	924	A924S	Gcc	Tcc	76	77	AY.4	0.000118
S	924	A924S	GcC	TcT	1	77	AY.4	0.000002
S	924	A924S	Gcc	Tcc	73	73	AY.4.2	0.001583
S	924	A924A	gcC	gcT	66	66	B.1.177.68	1
S	924	A924A	gcC	gcT	64	64	AY.43	0.000284
S	924	A924A	gcC	gcT	42	53	B.1.617.2	0.000158
S	924	A924A	gcC	gcG	8	53	B.1.617.2	0.00003
S	924	A924A	gcC	gcA	3	53	B.1.617.2	0.000011
S	924	A924V	gCc	gTc	52	52	AY.4	0.000081
S	924	A924S	Gcc	Tcc	46	46	AY.36	0.006818
S	924	A924S	Gcc	Tcc	46	46	AY.39.1	0.001822
S	924	A924del	GCC	---	43	43	B.1.1.7	0.000038
S	924	A924S	Gcc	Tcc	41	41	AY.103	0.000255
S	924	A924A	gcC	gcT	32	41	AY.25	0.000192
S	924	A924A	gcC	gcA	8	41	AY.25	0.000048
S	924	A924A	gcC	gcG	1	41	AY.25	0.000006
S	924	A924A	gcC	gcT	40	40	AY.91	0.029218
S	924	A924S	Gcc	Tcc	38	38	AY.5	0.000785
S	924	A924A	gcC	gcT	33	33	AY.6	0.001357
S	924	A924S	Gcc	Tcc	32	32	AY.44	0.000195
S	924	A924V	gCc	gTc	31	31	AY.44	0.000189
S	924	A924T	Gcc	Acc	30	30	AY.4	0.000047
S	924	A924S	Gcc	Tcc	29	29	B.1.1.7	0.000026
S	924	A924A	gcC	gcT	27	27	AY.102	0.000716
S	924	A924A	gcC	gcT	26	26	R.1	0.00234
S	924	A924S	Gcc	Tcc	23	23	AY.100	0.001058
S	924	A924A	gcC	gcT	22	23	B.1.1	0.000399
S	924	A924A	gcC	gcA	1	23	B.1.1	0.000018
S	924	A924V	gCc	gTc	23	23	B.1.1.7	0.000021
S	924	A924S	GcC	TcT	21	23	B.1.177	0.000277
S	924	A924S	Gcc	Tcc	2	23	B.1.177	0.000026
S	924	A924V	gCc	gTc	22	22	B.1.617.2	0.000083
S	924	A924A	gcC	gcT	19	19	AY.42	0.000764
S	924	A924A	gcC	gcA	10	19	B.1.2	0.000088
S	924	A924A	gcC	gcT	9	19	B.1.2	0.000079
S	924	A924A	gcC	gcT	18	18	B.1.351	0.000535
S	924	A924A	gcC	gcT	10	17	AY.20	0.000389
S	924	A924A	gcC	gcA	7	17	AY.20	0.000272
S	924	A924A	gcC	gcT	15	16	AY.103	0.000093
S	924	A924A	gcC	gcG	1	16	AY.103	0.000006
S	924	A924V	gCc	gTc	16	16	B.1	0.000147
S	924	A924A	gcC	gcT	14	15	AY.33	0.000935
S	924	A924A	gcC	gcA	1	15	AY.33	0.000067
S	924	A924V	gCc	gTc	15	15	AY.43	0.000066
S	924	A924A	gcC	gcT	14	15	P.1	0.000221
S	924	A924A	gcC	gcA	1	15	P.1	0.000016
S	924	A924V	gCc	gTc	14	14	AY.103	0.000087
S	924	A924A	gcC	gcT	13	13	B.1.177.9	0.01731
S	924	A924S	Gcc	Tcc	12	12	AY.121	0.001624
S	924	A924T	Gcc	Acc	11	12	AY.43	0.000049
S	924	A924T	GcC	AcA	1	12	AY.43	0.000004
S	924	A924F	GCc	TTc	11	11	All	0.000002
S	924	A924A	gcC	gcT	11	11	B.1.177.64	1
S	924	A924A	gcC	gcT	11	11	B.1.575	0.003337
S	924	A924G	gCc	gGc	10	10	All	0.000002
S	924	A924D	gCc	gAc	9	10	All	0.000002
S	924	A924D	gCC	gAT	1	10	All	0
S	924	A924A	gcC	gcT	9	10	AY.119	0.000318
S	924	A924A	gcC	gcG	1	10	AY.119	0.000035
S	924	A924A	gcC	gcT	10	10	AY.3	0.000099
S	924	A924del	GCC	---	10	10	AY.4	0.000016
S	924	A924S	Gcc	Tcc	10	10	B.1	0.000092
S	924	A924V	gCC	gTT	9	10	B.1.177	0.000119
S	924	A924V	gCc	gTc	1	10	B.1.177	0.000013
S	924	A924del2	gCC	g--	9	9	All	0.000002
S	924	A924S	Gcc	Tcc	9	9	AY.119	0.000318
S	924	A924S	Gcc	Tcc	9	9	AY.29	0.000142
S	924	A924A	gcC	gcT	9	9	AY.5	0.000186
S	924	A924S	Gcc	Tcc	9	9	B.1.2	0.000079
S	924	A924V	gCc	gTc	9	9	B.1.234	0.001187
S	924	A924S	Gcc	Tcc	9	9	B.1.596	0.000784
S	924	A924A	gcC	gcA	9	9	P.1.14	0.00043
S	924	A924V	gCc	gTc	8	8	AY.102	0.000212
S	924	A924A	gcC	gcT	8	8	AY.26	0.000226
S	924	A924A	gcC	gcT	7	8	AY.39	0.000173
S	924	A924A	gcC	gcA	1	8	AY.39	0.000025
S	924	A924A	gcC	gcT	8	8	AY.5.3	0.002699
S	924	A924A	gcC	gcT	8	8	AY.99.2	0.000737
S	924	A924S	Gcc	Tcc	8	8	B.1.1.284	0.000859
S	924	A924T	Gcc	Acc	8	8	B.1.1.7	0.000007
S	924	A924S	Gcc	Tcc	8	8	B.1.561	0.003176
S	924	A924S	Gcc	Tcc	7	7	AY.116	0.002007
S	924	A924V	gCc	gTc	7	7	AY.117	0.000592
S	924	A924S	Gcc	Tcc	7	7	AY.20	0.000272
S	924	A924A	gcC	gcT	6	7	AY.23	0.000418
S	924	A924A	gcC	gcA	1	7	AY.23	0.00007
S	924	A924S	Gcc	Tcc	7	7	AY.25	0.000042
S	924	A924S	Gcc	Tcc	7	7	AY.3.1	0.000597
S	924	A924V	gCc	gTc	7	7	B.1.177.87	0.005095
S	924	A924A	gcC	gcT	7	7	B.1.243	0.000487
S	924	A924V	gCc	gTc	7	7	B.1.351	0.000208
S	924	A924F	GCc	TTc	6	6		0.333333
S	924	A924S	Gcc	Tcc	6	6	AY.102	0.000159
S	924	A924S	Gcc	Tcc	6	6	AY.117	0.000507
S	924	A924V	gCc	gTc	6	6	AY.25	0.000036
S	924	A924A	gcC	gcA	5	6	AY.36	0.000741
S	924	A924A	gcC	gcT	1	6	AY.36	0.000148
S	924	A924S	Gcc	Tcc	6	6	AY.39	0.000148
S	924	A924T	Gcc	Acc	6	6	AY.9.2	0.00022
S	924	A924A	gcC	gcT	6	6	B.1.1.519	0.000238
S	924	A924A	gcC	gcT	6	6	B.1.177.6	0.005859
S	924	A924S	Gcc	Tcc	6	6	B.1.427	0.000303
S	924	A924P	Gcc	Ccc	5	5	All	0.000001
S	924	A924A	gcC	gcT	5	5	AY.100	0.00023
S	924	A924A	gcC	gcT	5	5	AY.14	0.00044
S	924	A924S	Gcc	Tcc	5	5	AY.23	0.000349
S	924	A924A	gcC	gcT	5	5	AY.29	0.000079
S	924	A924A	gcC	gcT	3	5	AY.61	0.000314
S	924	A924A	gcC	gcA	2	5	AY.61	0.00021
S	924	A924S	Gcc	Tcc	5	5	AY.74	0.000578
S	924	A924A	gcC	gcT	5	5	B.1.1.216	0.004452
S	924	A924S	Gcc	Tcc	5	5	B.1.160	0.000156
S	924	A924del	GCC	---	5	5	B.1.177	0.000066
S	924	A924A	gcC	gcT	5	5	B.1.258	0.000333
S	924	A924S	Gcc	Tcc	5	5	B.1.351	0.000149
S	924	A924S	Gcc	Tcc	5	5	B.1.617.1	0.000645
S	924	A924A	gcC	gcT	3	5	C.37	0.000348
S	924	A924A	gcC	gcA	2	5	C.37	0.000232
S	924	A924S	Gcc	Tcc	4	4	AY.120	0.000149
S	924	A924V	gCc	gTc	4	4	AY.4.2	0.000087
S	924	A924del	GCC	---	4	4	AY.4.5	0.00043
S	924	A924A	gcC	gcT	4	4	AY.47	0.000124
S	924	A924V	gCc	gTc	4	4	AY.5	0.000083
S	924	A924T	Gcc	Acc	4	4	AY.80	0.004515
S	924	A924S	Gcc	Tcc	4	4	AY.9.2	0.000147
S	924	A924D	gCc	gAc	4	4	B.1	0.000037
S	924	A924S	Gcc	Tcc	4	4	B.1.1	0.000073
S	924	A924S	Gcc	Tcc	4	4	B.1.1.298	0.003448
S	924	A924S	Gcc	Tcc	4	4	B.1.1.347	0.072727
S	924	A924del2	gCC	g--	4	4	B.1.1.7	0.000004
S	924	A924T	Gcc	Acc	4	4	B.1.351	0.000119
S	924	A924A	gcC	gcT	4	4	B.1.36.22	0.004831
S	924	A924S	Gcc	Tcc	2	3		0.111111
S	924	A924S	GcC	TcA	1	3		0.055556
S	924	A924A	gcC	gcT	3	3	A.2.5.2	0.004717
S	924	A924del1	gcC	gc-	2	3	All	0
S	924	A924del1	gCC	g-T	1	3	All	0
S	924	A924V	gCc	gTc	3	3	AY.100	0.000138
S	924	A924A	gcC	gcT	3	3	AY.111	0.000549
S	924	A924A	gcC	gcT	3	3	AY.113	0.000427
S	924	A924V	gCc	gTc	3	3	AY.120	0.000112
S	924	A924V	gCc	gTc	3	3	AY.3	0.00003
S	924	A924A	gcC	gcT	3	3	AY.4.2	0.000065
S	924	A924A	gcC	gcT	3	3	AY.46	0.000312
S	924	A924V	gCc	gTc	3	3	AY.46.6	0.000217
S	924	A924V	gCc	gTc	3	3	AY.9.1	0.000251
S	924	A924S	Gcc	Tcc	3	3	AY.98.1	0.000145
S	924	A924T	Gcc	Acc	3	3	B	0.000383
S	924	A924A	gcC	gcT	3	3	B.1.1.420	0.003018
S	924	A924F	GCc	TTc	3	3	B.1.1.7	0.000003
S	924	A924A	gcC	gcT	3	3	B.1.160	0.000094
S	924	A924del	GCC	---	3	3	B.1.2	0.000026
S	924	A924A	gcC	gcT	3	3	B.1.400	0.001287
S	924	A924T	Gcc	Acc	3	3	B.1.617.2	0.000011
S	924	A924del	GCC	---	3	3	B.1.617.2	0.000011
S	924	A924S	Gcc	Tcc	3	3	C.39	0.056604
S	924	A924A	gcC	gcT	3	3	P.1.12	0.001452
S	924	A924del	GCC	---	2	2		0.111111
S	924	A924A	gcC	gcT	2	2	A.1	0.000564
S	924	A924A	gcC	gcT	2	2	AY.106	0.00067
S	924	A924V	gCc	gTc	2	2	AY.119	0.000071
S	924	A924del	GCC	---	2	2	AY.120	0.000074
S	924	A924G	gCc	gGc	2	2	AY.19	0.002281
S	924	A924A	gcC	gcT	2	2	AY.2	0.000712
S	924	A924T	Gcc	Acc	2	2	AY.29	0.000032
S	924	A924A	gcC	gcT	2	2	AY.3.1	0.000171
S	924	A924S	Gcc	Tcc	2	2	AY.34	0.000194
S	924	A924V	gCc	gTc	2	2	AY.36	0.000296
S	924	A924S	Gcc	Tcc	2	2	AY.37	0.000632
S	924	A924T	Gcc	Acc	2	2	AY.38	0.000999
S	924	A924D	gCc	gAc	2	2	AY.44	0.000012
S	924	A924T	Gcc	Acc	2	2	AY.44	0.000012
S	924	A924S	Gcc	Tcc	2	2	AY.46.6	0.000144
S	924	A924S	Gcc	Tcc	2	2	AY.47	0.000062
S	924	A924A	gcC	gcT	2	2	AY.5.1	0.007519
S	924	A924A	gcC	gcT	2	2	AY.53	0.000575
S	924	A924T	Gcc	Acc	2	2	AY.55	0.001835
S	924	A924A	gcC	gcT	2	2	AY.75	0.000112
S	924	A924V	gCc	gTc	2	2	AY.9.2	0.000073
S	924	A924A	gcC	gcT	2	2	AY.9.2	0.000073
S	924	A924A	gcC	gcT	2	2	AY.98	0.000158
S	924	A924V	gCc	gTc	2	2	AY.98	0.000158
S	924	A924S	Gcc	Tcc	2	2	AY.99	0.002099
S	924	A924A	gcC	gcT	2	2	B	0.000256
S	924	A924G	gCc	gGc	2	2	B.1	0.000018
S	924	A924V	gCc	gTc	2	2	B.1.1	0.000036
S	924	A924T	Gcc	Acc	2	2	B.1.1	0.000036
S	924	A924V	gCc	gTc	2	2	B.1.1.153	0.002191
S	924	A924A	gcC	gcT	2	2	B.1.1.284	0.000215
S	924	A924A	gcC	gcT	2	2	B.1.1.315	0.016949
S	924	A924A	gcC	gcT	2	2	B.1.1.318	0.000604
S	924	A924A	gcC	gcT	2	2	B.1.1.33	0.000842
S	924	A924S	Gcc	Tcc	2	2	B.1.1.519	0.000079
S	924	A924P	Gcc	Ccc	2	2	B.1.1.7	0.000002
S	924	A924A	gcC	gcT	2	2	B.1.177.5	0.002484
S	924	A924A	gcC	gcT	2	2	B.1.177.57	0.000562
S	924	A924A	gcC	gcT	2	2	B.1.221	0.000142
S	924	A924S	Gcc	Tcc	2	2	B.1.258	0.000133
S	924	A924V	gCc	gTc	2	2	B.1.258.17	0.000208
S	924	A924S	Gcc	Tcc	2	2	B.1.320	0.002491
S	924	A924A	gcC	gcT	2	2	B.1.36	0.000292
S	924	A924A	gcC	gcT	2	2	B.1.36.17	0.000988
S	924	A924S	Gcc	Tcc	2	2	B.1.36.17	0.000988
S	924	A924S	Gcc	Tcc	2	2	B.1.429	0.000047
S	924	A924V	gCc	gTc	2	2	B.1.429	0.000047
S	924	A924A	gcC	gcA	1	2	B.1.429	0.000024
S	924	A924A	gcC	gcT	1	2	B.1.429	0.000024
S	924	A924A	gcC	gcT	1	2	B.1.525	0.000113
S	924	A924A	gcC	gcA	1	2	B.1.525	0.000113
S	924	A924del	GCC	---	2	2	B.1.526	0.000047
S	924	A924A	gcC	gcT	2	2	B.12	0.012821
S	924	A924A	gcC	gcT	2	2	B.6	0.00182
S	924	A924A	gcC	gcT	2	2	B.6.6	0.001778
S	924	A924A	gcC	gcA	1	1		0.055556
S	924	A924D	gCc	gAc	1	1		0.055556
S	924	A924Y	GCc	TAc	1	1		0.055556
S	924	A924del	GCC	---	1	1	A	0.000387
S	924	A924A	gcC	gcT	1	1	A.23.1	0.000704
S	924	A924G	gCc	gGc	1	1	A.23.1	0.000704
S	924	A924A	gcC	gcT	1	1	AA.5	0.016129
S	924	A924del	GCC	---	1	1	AD.2	0.000219
S	924	A924A	gcC	gcT	1	1	AD.2	0.000219
S	924	A924V	gCc	gTc	1	1	AE.8	0.000489
S	924	A924A	gcC	gcT	1	1	AH.3	0.003802
S	924	A924C	GCc	TGc	1	1	All	0
S	924	A924Y	GCc	TAc	1	1	All	0
S	924	A924K	GCC	AAA	1	1	All	0
S	924	A924N	GCc	AAc	1	1	All	0
S	924	A924G	gCc	gGc	1	1	AY.100	0.000046
S	924	A924V	gCc	gTc	1	1	AY.101	0.00049
S	924	A924T	Gcc	Acc	1	1	AY.103	0.000006
S	924	A924A	gcC	gcT	1	1	AY.108	0.001103
S	924	A924S	Gcc	Tcc	1	1	AY.111	0.000183
S	924	A924V	gCc	gTc	1	1	AY.113	0.000142
S	924	A924S	Gcc	Tcc	1	1	AY.114	0.000231
S	924	A924S	Gcc	Tcc	1	1	AY.116.1	0.000311
S	924	A924T	Gcc	Acc	1	1	AY.117	0.000085
S	924	A924A	gcC	gcT	1	1	AY.117	0.000085
S	924	A924V	gCc	gTc	1	1	AY.13	0.000161
S	924	A924A	gcC	gcT	1	1	AY.16.1	0.00047
S	924	A924S	Gcc	Tcc	1	1	AY.2	0.000356
S	924	A924V	gCc	gTc	1	1	AY.23.1	0.000417
S	924	A924V	gCc	gTc	1	1	AY.24	0.000431
S	924	A924T	Gcc	Acc	1	1	AY.25	0.000006
S	924	A924S	Gcc	Tcc	1	1	AY.26	0.000028
S	924	A924A	gcC	gcA	1	1	AY.28	0.00189
S	924	A924V	gCc	gTc	1	1	AY.29	0.000016
S	924	A924S	Gcc	Tcc	1	1	AY.3	0.00001
S	924	A924V	gCc	gTc	1	1	AY.3.1	0.000085
S	924	A924A	gcC	gcT	1	1	AY.30	0.000396
S	924	A924T	Gcc	Acc	1	1	AY.30	0.000396
S	924	A924del	GCC	---	1	1	AY.33	0.000067
S	924	A924S	Gcc	Tcc	1	1	AY.33	0.000067
S	924	A924A	gcC	gcT	1	1	AY.38	0.000499
S	924	A924V	gCc	gTc	1	1	AY.39	0.000025
S	924	A924A	gcC	gcT	1	1	AY.39.1	0.00004
S	924	A924V	gCc	gTc	1	1	AY.39.1	0.00004
S	924	A924del1	gcC	gc-	1	1	AY.4	0.000002
S	924	A924T	Gcc	Acc	1	1	AY.4.1	0.000737
S	924	A924S	Gcc	Tcc	1	1	AY.4.2.1	0.000149
S	924	A924del1	gcC	gc-	1	1	AY.4.5	0.000107
S	924	A924S	Gcc	Tcc	1	1	AY.4.5	0.000107
S	924	A924V	gCc	gTc	1	1	AY.42	0.00004
S	924	A924del2	gCC	g--	1	1	AY.43	0.000004
S	924	A924del	GCC	---	1	1	AY.43	0.000004
S	924	A924D	gCc	gAc	1	1	AY.43	0.000004
S	924	A924del	GCC	---	1	1	AY.44	0.000006
S	924	A924A	gcC	gcT	1	1	AY.45	0.000122
S	924	A924A	gcC	gcT	1	1	AY.46.1	0.001027
S	924	A924del	GCC	---	1	1	AY.46.2	0.000635
S	924	A924S	Gcc	Tcc	1	1	AY.46.4	0.000165
S	924	A924S	Gcc	Tcc	1	1	AY.46.5	0.000198
S	924	A924A	gcC	gcT	1	1	AY.46.6	0.000072
S	924	A924V	gCc	gTc	1	1	AY.47	0.000031
S	924	A924T	Gcc	Acc	1	1	AY.47	0.000031
S	924	A924del	GCC	---	1	1	AY.5	0.000021
S	924	A924V	gCc	gTc	1	1	AY.5.3	0.000337
S	924	A924S	Gcc	Tcc	1	1	AY.53	0.000288
S	924	A924T	Gcc	Acc	1	1	AY.53	0.000288
S	924	A924A	gcC	gcT	1	1	AY.54	0.000095
S	924	A924V	gCc	gTc	1	1	AY.55	0.000917
S	924	A924S	Gcc	Tcc	1	1	AY.56	0.001605
S	924	A924A	gcC	gcT	1	1	AY.59	0.00053
S	924	A924S	Gcc	Tcc	1	1	AY.6	0.000041
S	924	A924del	GCC	---	1	1	AY.6	0.000041
S	924	A924V	gCc	gTc	1	1	AY.6	0.000041
S	924	A924A	gcC	gcT	1	1	AY.62	0.000436
S	924	A924V	gCc	gTc	1	1	AY.66	0.00107
S	924	A924del	GCC	---	1	1	AY.67	0.000464
S	924	A924A	gcC	gcA	1	1	AY.69	0.000187
S	924	A924S	Gcc	Tcc	1	1	AY.7	0.000196
S	924	A924A	gcC	gcT	1	1	AY.73	0.000665
S	924	A924V	gCc	gTc	1	1	AY.74	0.000116
S	924	A924T	Gcc	Acc	1	1	AY.75	0.000056
S	924	A924A	gcC	gcT	1	1	AY.75.1	0.00018
S	924	A924A	gcC	gcA	1	1	AY.81	0.001992
S	924	A924S	Gcc	Tcc	1	1	AY.83	0.001724
S	924	A924S	Gcc	Tcc	1	1	AY.87	0.000833
S	924	A924A	gcC	gcT	1	1	AY.9	0.000068
S	924	A924S	Gcc	Tcc	1	1	AY.9	0.000068
S	924	A924V	gCc	gTc	1	1	AY.9	0.000068
S	924	A924S	Gcc	Tcc	1	1	AY.92	0.000287
S	924	A924V	gCc	gTc	1	1	AY.95	0.000761
S	924	A924S	Gcc	Tcc	1	1	AY.96	0.002075
S	924	A924A	gcC	gcT	1	1	AY.97	0.001701
S	924	A924V	gCc	gTc	1	1	AY.97	0.001701
S	924	A924S	Gcc	Tcc	1	1	AY.98	0.000079
S	924	A924del	GCC	---	1	1	AY.99	0.001049
S	924	A924A	gcC	gcT	1	1	AZ.1	0.000867
S	924	A924del	GCC	---	1	1	B.1	0.000009
S	924	A924P	Gcc	Ccc	1	1	B.1	0.000009
S	924	A924C	GCc	TGc	1	1	B.1	0.000009
S	924	A924F	GCc	TTc	1	1	B.1	0.000009
S	924	A924N	GCc	AAc	1	1	B.1	0.000009
S	924	A924F	GCc	TTc	1	1	B.1.1	0.000018
S	924	A924del	GCC	---	1	1	B.1.1	0.000018
S	924	A924A	gcC	gcA	1	1	B.1.1.1	0.000327
S	924	A924A	gcC	gcT	1	1	B.1.1.10	0.001115
S	924	A924A	gcC	gcT	1	1	B.1.1.127	0.0625
S	924	A924A	gcC	gcT	1	1	B.1.1.163	0.007634
S	924	A924A	gcC	gcT	1	1	B.1.1.170	0.001247
S	924	A924V	gCc	gTc	1	1	B.1.1.171	0.003676
S	924	A924S	Gcc	Tcc	1	1	B.1.1.216	0.00089
S	924	A924D	gCC	gAT	1	1	B.1.1.216	0.00089
S	924	A924V	gCc	gTc	1	1	B.1.1.222	0.000204
S	924	A924A	gcC	gcT	1	1	B.1.1.222	0.000204
S	924	A924del	GCC	---	1	1	B.1.1.236	0.006897
S	924	A924A	gcC	gcT	1	1	B.1.1.25	0.000569
S	924	A924G	gCc	gGc	1	1	B.1.1.25	0.000569
S	924	A924V	gCc	gTc	1	1	B.1.1.301	0.001179
S	924	A924A	gcC	gcT	1	1	B.1.1.311	0.000358
S	924	A924del	GCC	---	1	1	B.1.1.311	0.000358
S	924	A924S	Gcc	Tcc	1	1	B.1.1.312	0.001912
S	924	A924S	Gcc	Tcc	1	1	B.1.1.317	0.000412
S	924	A924A	gcC	gcT	1	1	B.1.1.317	0.000412
S	924	A924A	gcC	gcT	1	1	B.1.1.324	0.052632
S	924	A924A	gcC	gcT	1	1	B.1.1.377	0.001381
S	924	A924A	gcC	gcT	1	1	B.1.1.389	0.006061
S	924	A924del	GCC	---	1	1	B.1.1.39	0.00051
S	924	A924A	gcC	gcT	1	1	B.1.1.416	0.000905
S	924	A924S	Gcc	Tcc	1	1	B.1.1.432	0.001266
S	924	A924A	gcC	gcT	1	1	B.1.1.447	0.035714
S	924	A924S	Gcc	Tcc	1	1	B.1.1.5	0.008333
S	924	A924A	gcC	gcT	1	1	B.1.1.50	0.000679
S	924	A924V	gCc	gTc	1	1	B.1.1.519	0.00004
S	924	A924T	Gcc	Acc	1	1	B.1.1.52	0.012195
S	924	A924V	gCc	gTc	1	1	B.1.1.54	0.003021
S	924	A924A	gcC	gcT	1	1	B.1.1.62	0.027027
S	924	A924A	gcC	gcT	1	1	B.1.1.63	0.000386
S	924	A924G	gCc	gGc	1	1	B.1.1.7	0.000001
S	924	A924S	Gcc	Tcc	1	1	B.1.1.70	0.000341
S	924	A924A	gcC	gcT	1	1	B.1.14	0.017544
S	924	A924V	gCc	gTc	1	1	B.1.160	0.000031
S	924	A924G	gCc	gGc	1	1	B.1.160	0.000031
S	924	A924A	gcC	gcT	1	1	B.1.160.7	0.002079
S	924	A924del2	gCC	g--	1	1	B.1.177	0.000013
S	924	A924del	GCC	---	1	1	B.1.177.10	0.000878
S	924	A924del	GCC	---	1	1	B.1.177.11	0.001698
S	924	A924A	gcC	gcT	1	1	B.1.177.11	0.001698
S	924	A924del	GCC	---	1	1	B.1.177.15	0.000631
S	924	A924del	GCC	---	1	1	B.1.177.16	0.000664
S	924	A924del	GCC	---	1	1	B.1.177.17	0.000821
S	924	A924A	gcC	gcT	1	1	B.1.177.17	0.000821
S	924	A924V	gCc	gTc	1	1	B.1.177.21	0.000076
S	924	A924del	GCC	---	1	1	B.1.177.21	0.000076
S	924	A924A	gcC	gcA	1	1	B.1.177.35	0.000691
S	924	A924del	GCC	---	1	1	B.1.177.4	0.000211
S	924	A924A	gcC	gcT	1	1	B.1.177.43	0.001477
S	924	A924del	GCC	---	1	1	B.1.177.54	0.000606
S	924	A924del	GCC	---	1	1	B.1.177.56	0.000668
S	924	A924del	GCC	---	1	1	B.1.177.60	0.000218
S	924	A924A	gcC	gcT	1	1	B.1.177.62	0.001192
S	924	A924A	gcC	gcT	1	1	B.1.177.65	0.000665
S	924	A924V	gCc	gTc	1	1	B.1.177.65	0.000665
S	924	A924S	Gcc	Tcc	1	1	B.1.177.77	0.000726
S	924	A924del	GCC	---	1	1	B.1.177.81	0.000189
S	924	A924V	gCc	gTc	1	1	B.1.189	0.004292
S	924	A924S	Gcc	Tcc	1	1	B.1.195	0.005025
S	924	A924D	gCc	gAc	1	1	B.1.2	0.000009
S	924	A924S	Gcc	Tcc	1	1	B.1.218	0.005155
S	924	A924S	Gcc	Tcc	1	1	B.1.221.1	0.002907
S	924	A924A	gcC	gcT	1	1	B.1.234	0.000132
S	924	A924A	gcC	gcT	1	1	B.1.236	0.002053
S	924	A924S	Gcc	Tcc	1	1	B.1.240	0.000216
S	924	A924A	gcC	gcT	1	1	B.1.242	0.018868
S	924	A924del	GCC	---	1	1	B.1.258	0.000067
S	924	A924V	gCc	gTc	1	1	B.1.258.7	0.001912
S	924	A924V	gCc	gTc	1	1	B.1.265	0.001271
S	924	A924V	gCc	gTc	1	1	B.1.320	0.001245
S	924	A924G	gCc	gGc	1	1	B.1.351	0.00003
S	924	A924S	Gcc	Tcc	1	1	B.1.36	0.000146
S	924	A924del	GCC	---	1	1	B.1.36	0.000146
S	924	A924del2	gCC	g--	1	1	B.1.36.17	0.000494
S	924	A924S	Gcc	Tcc	1	1	B.1.36.29	0.000517
S	924	A924A	gcC	gcT	1	1	B.1.36.39	0.002217
S	924	A924V	gCc	gTc	1	1	B.1.369	0.000285
S	924	A924A	gcC	gcT	1	1	B.1.375	0.00082
S	924	A924A	gcC	gcT	1	1	B.1.389	0.001002
S	924	A924A	gcC	gcT	1	1	B.1.427	0.00005
S	924	A924V	gCc	gTc	1	1	B.1.427	0.00005
S	924	A924V	gCc	gTc	1	1	B.1.438.1	0.000107
S	924	A924A	gcC	gcT	1	1	B.1.438.1	0.000107
S	924	A924A	gcC	gcT	1	1	B.1.510	0.026316
S	924	A924S	Gcc	Tcc	1	1	B.1.525	0.000113
S	924	A924S	Gcc	Tcc	1	1	B.1.526	0.000024
S	924	A924V	gCc	gTc	1	1	B.1.526	0.000024
S	924	A924A	gcC	gcT	1	1	B.1.526	0.000024
S	924	A924P	Gcc	Ccc	1	1	B.1.526	0.000024
S	924	A924V	gCc	gTc	1	1	B.1.575	0.000303
S	924	A924S	Gcc	Tcc	1	1	B.1.575	0.000303
S	924	A924del	GCC	---	1	1	B.1.577	0.000687
S	924	A924A	gcC	gcT	1	1	B.1.580	0.004065
S	924	A924S	Gcc	Tcc	1	1	B.1.582	0.000491
S	924	A924S	Gcc	Tcc	1	1	B.1.588	0.00091
S	924	A924A	gcC	gcA	1	1	B.1.595	0.000261
S	924	A924A	gcC	gcT	1	1	B.1.596	0.000087
S	924	A924del2	gCC	g--	1	1	B.1.596	0.000087
S	924	A924V	gCc	gTc	1	1	B.1.617.1	0.000129
S	924	A924del2	gCC	g--	1	1	B.1.617.2	0.000004
S	924	A924P	Gcc	Ccc	1	1	B.1.617.2	0.000004
S	924	A924del1	gCC	g-T	1	1	B.1.617.2	0.000004
S	924	A924K	GCC	AAA	1	1	B.1.617.3	0.002985
S	924	A924V	gCc	gTc	1	1	B.1.621	0.000089
S	924	A924del	GCC	---	1	1	B.1.630	0.005236
S	924	A924V	gCc	gTc	1	1	B.29	0.003509
S	924	A924S	Gcc	Tcc	1	1	B.3	0.000831
S	924	A924V	gCC	gTA	1	1	C.11	0.010638
S	924	A924A	gcC	gcT	1	1	C.18	0.002591
S	924	A924A	gcC	gcA	1	1	C.35	0.000774
S	924	A924T	Gcc	Acc	1	1	C.37	0.000116
S	924	A924S	Gcc	Tcc	1	1	D.2	0.000075
S	924	A924V	gCc	gTc	1	1	D.2	0.000075
S	924	A924A	gcC	gcT	1	1	D.2	0.000075
S	924	A924S	Gcc	Tcc	1	1	P.1	0.000016
S	924	A924del	GCC	---	1	1	P.1.13	0.000898
S	924	A924A	gcC	gcA	1	1	P.1.15	0.000232
S	924	A924S	Gcc	Tcc	1	1	P.1.9	0.004808
S	924	A924A	gcC	gcT	1	1	P.2	0.000187
S	924	A924S	Gcc	Tcc	1	1	Q.1	0.000126

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.