CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 879

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	879	A879S		nonsyn	Gcg	Tcg	9451	9440	0.998836	24197-24199
S	879	A879S		nonsyn	GcG	TcA	9451	8	0.000846471	24197-24199
S	879	A879S		nonsyn	GcG	TcT	9451	3	0.000317427	24197-24199
S	879	A879A		syn	gcG	gcA	6612	4924	0.744707	24197-24199
S	879	A879A		syn	gcG	gcT	6612	1642	0.248336	24197-24199
S	879	A879A		syn	gcG	gcC	6612	46	0.00695705	24197-24199
S	879	A879V		nonsyn	gCg	gTg	2075	2074	0.999518	24197-24199
S	879	A879V		nonsyn	gCG	gTA	2075	1	0.000481928	24197-24199
S	879	A879T		nonsyn	Gcg	Acg	568	565	0.994718	24197-24199
S	879	A879T		nonsyn	GcG	AcA	568	2	0.00352113	24197-24199
S	879	A879T		nonsyn	GcG	AcC	568	1	0.00176056	24197-24199
S	879	A879del		del	GCG	---	128	128	1	24197-24199
S	879	A879G		nonsyn	gCg	gGg	27	26	0.962963	24197-24199
S	879	A879G		nonsyn	gCG	gGA	27	1	0.037037	24197-24199
S	879	A879P		nonsyn	Gcg	Ccg	18	15	0.833333	24197-24199
S	879	A879P		nonsyn	GcG	CcA	18	3	0.166667	24197-24199
S	879	A879del1		del	gcG	gc-	10	7	0.7	24197-24199
S	879	A879del1		del	Gcg	-cg	10	3	0.3	24197-24199
S	879	A879E		nonsyn	gCg	gAg	9	9	1	24197-24199
S	879	A879del2		del	GCg	--g	6	6	1	24197-24199
S	879	A879K		nonsyn	GCG	AAA	4	3	0.75	24197-24199
S	879	A879K		nonsyn	GCg	AAg	4	1	0.25	24197-24199
S	879	A879I		nonsyn	GCG	ATA	2	2	1	24197-24199
S	879	A879L		nonsyn	GCg	CTg	2	1	0.5	24197-24199
S	879	A879L		nonsyn	GCg	TTg	2	1	0.5	24197-24199
S	879	A879D		nonsyn	gCG	gAT	1	1	1	24197-24199
S	879	A879M		nonsyn	GCg	ATg	1	1	1	24197-24199

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	879	A879S	Gcg	Tcg	9440	9451	All	0.001806
S	879	A879S	GcG	TcA	8	9451	All	0.000002
S	879	A879S	GcG	TcT	3	9451	All	0.000001
S	879	A879A	gcG	gcA	4924	6612	All	0.000942
S	879	A879A	gcG	gcT	1642	6612	All	0.000314
S	879	A879A	gcG	gcC	46	6612	All	0.000009
S	879	A879S	Gcg	Tcg	2953	2959	B.1.617.2	0.011119
S	879	A879S	GcG	TcA	6	2959	B.1.617.2	0.000023
S	879	A879A	gcG	gcA	2728	2840	B.1.617.2	0.010272
S	879	A879A	gcG	gcT	111	2840	B.1.617.2	0.000418
S	879	A879A	gcG	gcC	1	2840	B.1.617.2	0.000004
S	879	A879V	gCg	gTg	2074	2075	All	0.000397
S	879	A879V	gCG	gTA	1	2075	All	0
S	879	A879S	Gcg	Tcg	1243	1243	AY.43	0.005507
S	879	A879V	gCg	gTg	1054	1054	B.1.1.7	0.000944
S	879	A879S	Gcg	Tcg	721	721	AY.4	0.001122
S	879	A879A	gcG	gcA	337	626	B.1.1.7	0.000302
S	879	A879A	gcG	gcT	288	626	B.1.1.7	0.000258
S	879	A879A	gcG	gcC	1	626	B.1.1.7	0.000001
S	879	A879S	Gcg	Tcg	570	570	B.1.1.7	0.00051
S	879	A879T	Gcg	Acg	565	568	All	0.000108
S	879	A879T	GcG	AcA	2	568	All	0
S	879	A879T	GcG	AcC	1	568	All	0
S	879	A879A	gcG	gcA	517	537	AY.102	0.013708
S	879	A879A	gcG	gcT	20	537	AY.102	0.00053
S	879	A879A	gcG	gcT	198	353	AY.4	0.000308
S	879	A879A	gcG	gcA	130	353	AY.4	0.000202
S	879	A879A	gcG	gcC	25	353	AY.4	0.000039
S	879	A879S	Gcg	Tcg	334	334	B.1.351	0.009929
S	879	A879S	Gcg	Tcg	262	263	B.1.465	0.996198
S	879	A879S	GcG	TcA	1	263	B.1.465	0.003802
S	879	A879A	gcG	gcA	190	195	AY.20	0.007384
S	879	A879A	gcG	gcT	5	195	AY.20	0.000194
S	879	A879V	gCg	gTg	186	186	AY.4	0.000289
S	879	A879S	Gcg	Tcg	184	184	B.1.1.348	0.146497
S	879	A879S	Gcg	Tcg	175	175	AY.44	0.001065
S	879	A879S	Gcg	Tcg	174	174	AY.23	0.012136
S	879	A879A	gcG	gcT	165	171	AY.117	0.013945
S	879	A879A	gcG	gcA	6	171	AY.117	0.000507
S	879	A879S	Gcg	Tcg	164	164	AY.3	0.001631
S	879	A879S	Gcg	Tcg	160	160	AY.39	0.003954
S	879	A879A	gcG	gcT	160	160	B.1.139	0.117302
S	879	A879A	gcG	gcA	144	144	AY.93	0.039323
S	879	A879S	Gcg	Tcg	137	137	B.1.243	0.009533
S	879	A879A	gcG	gcA	94	133	AY.43	0.000416
S	879	A879A	gcG	gcT	39	133	AY.43	0.000173
S	879	A879del	GCG	---	128	128	All	0.000024
S	879	A879S	Gcg	Tcg	104	104	B.1	0.000953
S	879	A879A	gcG	gcA	67	101	AY.44	0.000408
S	879	A879A	gcG	gcT	34	101	AY.44	0.000207
S	879	A879S	Gcg	Tcg	98	98	AY.102	0.002598
S	879	A879A	gcG	gcT	56	98	AY.103	0.000348
S	879	A879A	gcG	gcA	42	98	AY.103	0.000261
S	879	A879S	Gcg	Tcg	98	98	B.1.177	0.00129
S	879	A879S	Gcg	Tcg	93	93	B.1.1	0.001687
S	879	A879T	Gcg	Acg	85	85	B.1.429	0.002
S	879	A879S	Gcg	Tcg	83	83	AY.103	0.000515
S	879	A879S	Gcg	Tcg	80	80	B.1.1.461	0.963855
S	879	A879S	Gcg	Tcg	77	77	B.1.619	0.067073
S	879	A879A	gcG	gcA	71	75	AY.39	0.001755
S	879	A879A	gcG	gcT	4	75	AY.39	0.000099
S	879	A879V	gCg	gTg	74	74	B.1.177.60	0.016164
S	879	A879A	gcG	gcT	58	73	B.1.2	0.000511
S	879	A879A	gcG	gcA	13	73	B.1.2	0.000114
S	879	A879A	gcG	gcC	2	73	B.1.2	0.000018
S	879	A879S	Gcg	Tcg	71	71	B.1.2	0.000625
S	879	A879A	gcG	gcA	67	68	AY.34.1	0.034166
S	879	A879A	gcG	gcT	1	68	AY.34.1	0.00051
S	879	A879S	Gcg	Tcg	68	68	P.1	0.001071
S	879	A879V	gCg	gTg	63	64	B.1.617.2	0.000237
S	879	A879V	gCG	gTA	1	64	B.1.617.2	0.000004
S	879	A879T	Gcg	Acg	58	58	AY.9.2	0.00213
S	879	A879A	gcG	gcT	29	58	B.1	0.000266
S	879	A879A	gcG	gcA	29	58	B.1	0.000266
S	879	A879S	Gcg	Tcg	56	56	AY.26	0.001585
S	879	A879S	Gcg	Tcg	54	54	B.1.429	0.001271
S	879	A879S	Gcg	Tcg	54	54	C.37	0.006267
S	879	A879T	Gcg	Acg	52	53	B.1.1.7	0.000047
S	879	A879T	GcG	AcC	1	53	B.1.1.7	0.000001
S	879	A879del	GCG	---	52	52	B.1.1.7	0.000047
S	879	A879S	Gcg	Tcg	51	51	AY.25	0.000307
S	879	A879A	gcG	gcT	39	51	P.1	0.000614
S	879	A879A	gcG	gcA	10	51	P.1	0.000158
S	879	A879A	gcG	gcC	2	51	P.1	0.000032
S	879	A879S	Gcg	Tcg	48	48	AY.120.1	0.015409
S	879	A879A	gcG	gcT	27	46	AY.25	0.000162
S	879	A879A	gcG	gcA	19	46	AY.25	0.000114
S	879	A879V	gCg	gTg	45	45	B.1.2	0.000396
S	879	A879A	gcG	gcA	40	44	AY.120	0.001487
S	879	A879A	gcG	gcT	4	44	AY.120	0.000149
S	879	A879S	Gcg	Tcg	44	44	B.1.1.418	1
S	879	A879V	gCg	gTg	43	43	AY.33	0.002871
S	879	A879S	Gcg	Tcg	42	42	B.1.1.218	0.323077
S	879	A879S	Gcg	Tcg	40	40	AY.119	0.001412
S	879	A879V	gCg	gTg	34	34	AY.29	0.000536
S	879	A879S	Gcg	Tcg	31	32	AY.117	0.00262
S	879	A879S	GcG	TcA	1	32	AY.117	0.000085
S	879	A879S	Gcg	Tcg	32	32	AY.98.1	0.00155
S	879	A879V	gCg	gTg	32	32	B.1.429	0.000753
S	879	A879S	Gcg	Tcg	31	31	AY.113	0.004414
S	879	A879V	gCg	gTg	30	30	AY.25	0.00018
S	879	A879A	gcG	gcT	29	30	AY.74	0.003354
S	879	A879A	gcG	gcA	1	30	AY.74	0.000116
S	879	A879A	gcG	gcT	30	30	Q.1	0.00379
S	879	A879T	Gcg	Acg	29	29	AY.3	0.000288
S	879	A879S	Gcg	Tcg	29	29	B.1.1.284	0.003115
S	879	A879S	Gcg	Tcg	28	28	AY.20	0.001088
S	879	A879V	gCg	gTg	28	28	AY.44	0.00017
S	879	A879S	Gcg	Tcg	28	28	B.1.128	0.017789
S	879	A879T	Gcg	Acg	28	28	C.1.2	0.119149
S	879	A879G	gCg	gGg	26	27	All	0.000005
S	879	A879G	gCG	gGA	1	27	All	0
S	879	A879S	Gcg	Tcg	27	27	AY.45	0.003285
S	879	A879S	Gcg	Tcg	27	27	AY.46	0.00281
S	879	A879T	Gcg	Acg	27	27	B.1.160.24	0.119469
S	879	A879V	gCg	gTg	27	27	B.1.177	0.000356
S	879	A879S	Gcg	Tcg	26	26	AY.9.1	0.002177
S	879	A879A	gcG	gcT	25	26	P.2	0.004666
S	879	A879A	gcG	gcA	1	26	P.2	0.000187
S	879	A879V	gCg	gTg	25	25	AY.103	0.000155
S	879	A879S	Gcg	Tcg	25	25	AY.118	0.001566
S	879	A879S	Gcg	Tcg	24	24	AY.114	0.005547
S	879	A879S	Gcg	Tcg	24	24	AY.120	0.000892
S	879	A879S	Gcg	Tcg	24	24	AY.33	0.001603
S	879	A879V	gCg	gTg	24	24	AY.43	0.000106
S	879	A879S	Gcg	Tcg	24	24	B.1.36.29	0.012416
S	879	A879T	Gcg	Acg	23	23	B.1.2	0.000203
S	879	A879T	Gcg	Acg	23	23	B.1.617.2	0.000087
S	879	A879S	Gcg	Tcg	22	22	AY.5	0.000454
S	879	A879S	Gcg	Tcg	22	22	B.1.1.10	0.024526
S	879	A879A	gcG	gcA	22	22	B.1.177.81	0.004165
S	879	A879V	gCg	gTg	21	21	B.1	0.000192
S	879	A879A	gcG	gcA	20	20	AY.46	0.002082
S	879	A879S	Gcg	Tcg	20	20	AY.9.2	0.000735
S	879	A879T	Gcg	Acg	20	20	B.1.157	0.059701
S	879	A879A	gcG	gcT	15	20	B.1.177	0.000198
S	879	A879A	gcG	gcA	5	20	B.1.177	0.000066
S	879	A879S	Gcg	Tcg	20	20	B.1.526	0.00047
S	879	A879A	gcG	gcT	16	19	AY.29	0.000252
S	879	A879A	gcG	gcA	3	19	AY.29	0.000047
S	879	A879V	gCg	gTg	19	19	AY.3	0.000189
S	879	A879T	Gcg	Acg	19	19	AY.4	0.00003
S	879	A879S	Gcg	Tcg	19	19	B.1.398	0.056548
S	879	A879A	gcG	gcA	17	19	B.1.637	0.001242
S	879	A879A	gcG	gcT	2	19	B.1.637	0.000146
S	879	A879P	Gcg	Ccg	15	18	All	0.000003
S	879	A879P	GcG	CcA	3	18	All	0.000001
S	879	A879S	Gcg	Tcg	18	18	AY.100	0.000828
S	879	A879V	gCg	gTg	18	18	AY.102	0.000477
S	879	A879T	Gcg	Acg	18	18	AY.35	0.004195
S	879	A879S	Gcg	Tcg	18	18	B.1.240	0.00388
S	879	A879S	Gcg	Tcg	17	17	AY.5.4	0.004704
S	879	A879A	gcG	gcT	10	17	B.1.1	0.000181
S	879	A879A	gcG	gcA	7	17	B.1.1	0.000127
S	879	A879S	Gcg	Tcg	16	16	AY.121	0.002165
S	879	A879A	gcG	gcT	11	16	B.1.429	0.000259
S	879	A879A	gcG	gcA	4	16	B.1.429	0.000094
S	879	A879A	gcG	gcC	1	16	B.1.429	0.000024
S	879	A879S	Gcg	Tcg	16	16	B.1.433	0.051118
S	879	A879S	Gcg	Tcg	16	16	N.5	0.028269
S	879	A879V	gCg	gTg	16	16	P.1	0.000252
S	879	A879V	gCg	gTg	15	15	B.1.214.2	0.008993
S	879	A879A	gcG	gcT	11	15	B.1.351	0.000327
S	879	A879A	gcG	gcA	4	15	B.1.351	0.000119
S	879	A879S	Gcg	Tcg	14	14	AY.110	0.001578
S	879	A879T	Gcg	Acg	14	14	AY.42	0.000563
S	879	A879A	gcG	gcT	10	14	AY.42	0.000402
S	879	A879A	gcG	gcA	4	14	AY.42	0.000161
S	879	A879S	Gcg	Tcg	14	14	AY.47	0.000435
S	879	A879A	gcG	gcA	14	14	AY.91	0.010226
S	879	A879V	gCg	gTg	14	14	AY.98	0.001106
S	879	A879S	Gcg	Tcg	14	14	B.1.36.24	0.08642
S	879	A879A	gcG	gcT	14	14	B.1.400	0.006006
S	879	A879S	Gcg	Tcg	13	13	AY.106	0.004354
S	879	A879A	gcG	gcA	13	13	B.1.177.60	0.00284
S	879	A879A	gcG	gcA	12	12	AY.118	0.000752
S	879	A879V	gCg	gTg	12	12	AY.39	0.000297
S	879	A879A	gcG	gcA	10	12	AY.46.4	0.001645
S	879	A879A	gcG	gcC	1	12	AY.46.4	0.000165
S	879	A879A	gcG	gcT	1	12	AY.46.4	0.000165
S	879	A879A	gcG	gcA	10	12	AY.5.4	0.002767
S	879	A879A	gcG	gcT	2	12	AY.5.4	0.000553
S	879	A879S	Gcg	Tcg	12	12	AY.99	0.012592
S	879	A879V	gCg	gTg	12	12	B.1.1	0.000218
S	879	A879G	gCg	gGg	12	12	B.1.351	0.000357
S	879	A879A	gcG	gcA	9	11	AY.119	0.000318
S	879	A879A	gcG	gcT	2	11	AY.119	0.000071
S	879	A879A	gcG	gcA	6	11	AY.3	0.00006
S	879	A879A	gcG	gcT	5	11	AY.3	0.00005
S	879	A879A	gcG	gcA	10	11	AY.5.3	0.003374
S	879	A879A	gcG	gcT	1	11	AY.5.3	0.000337
S	879	A879S	Gcg	Tcg	11	11	AY.71	0.005226
S	879	A879A	gcG	gcA	7	11	AY.75	0.000392
S	879	A879A	gcG	gcT	4	11	AY.75	0.000224
S	879	A879A	gcG	gcA	9	11	AY.98	0.000711
S	879	A879A	gcG	gcT	2	11	AY.98	0.000158
S	879	A879T	Gcg	Acg	11	11	B.1	0.000101
S	879	A879S	Gcg	Tcg	11	11	B.1.1.50	0.007468
S	879	A879V	gCg	gTg	11	11	B.1.160	0.000343
S	879	A879A	gcG	gcT	11	11	B.1.36.18	0.004622
S	879	A879S	Gcg	Tcg	11	11	B.1.525	0.001245
S	879	A879S	Gcg	Tcg	11	11	B.1.539	0.192982
S	879	A879del1	gcG	gc-	7	10	All	0.000001
S	879	A879del1	Gcg	-cg	3	10	All	0.000001
S	879	A879A	gcG	gcT	9	10	AY.113	0.001282
S	879	A879A	gcG	gcA	1	10	AY.113	0.000142
S	879	A879V	gCg	gTg	10	10	AY.26	0.000283
S	879	A879T	Gcg	Acg	10	10	AY.43	0.000044
S	879	A879T	Gcg	Acg	10	10	AY.44	0.000061
S	879	A879V	gCg	gTg	10	10	AY.5	0.000206
S	879	A879A	gcG	gcA	9	10	AY.5	0.000186
S	879	A879A	gcG	gcC	1	10	AY.5	0.000021
S	879	A879A	gcG	gcT	8	10	AY.9.2	0.000294
S	879	A879A	gcG	gcA	2	10	AY.9.2	0.000073
S	879	A879S	Gcg	Tcg	10	10	B.1.1.232	0.018149
S	879	A879A	gcG	gcT	10	10	B.1.177.86	0.001835
S	879	A879S	Gcg	Tcg	10	10	B.1.221	0.00071
S	879	A879S	Gcg	Tcg	10	10	B.1.575	0.003034
S	879	A879S	Gcg	Tcg	10	10	P.1.14	0.000478
S	879	A879E	gCg	gAg	9	9	All	0.000002
S	879	A879A	gcG	gcT	6	9	AY.100	0.000276
S	879	A879A	gcG	gcA	3	9	AY.100	0.000138
S	879	A879A	gcG	gcA	7	9	AY.111	0.001282
S	879	A879A	gcG	gcT	2	9	AY.111	0.000366
S	879	A879A	gcG	gcA	6	9	AY.33	0.000401
S	879	A879A	gcG	gcT	3	9	AY.33	0.0002
S	879	A879S	Gcg	Tcg	9	9	AY.84	0.003937
S	879	A879S	Gcg	Tcg	9	9	AY.92	0.002585
S	879	A879A	gcG	gcT	9	9	B.1.1.218	0.069231
S	879	A879S	Gcg	Tcg	9	9	B.1.36	0.001313
S	879	A879V	gCg	gTg	9	9	B.1.582	0.004416
S	879	A879S	Gcg	Tcg	9	9	C.36.3	0.005105
S	879	A879V	gCg	gTg	8	8	AA.1	0.057971
S	879	A879S	Gcg	Tcg	8	8	AY.111	0.001465
S	879	A879S	Gcg	Tcg	8	8	AY.3.1	0.000682
S	879	A879S	Gcg	Tcg	8	8	AY.4.2	0.000174
S	879	A879V	gCg	gTg	8	8	AY.4.2	0.000174
S	879	A879V	gCg	gTg	8	8	AY.41	0.002352
S	879	A879V	gCg	gTg	8	8	AY.75	0.000448
S	879	A879T	Gcg	Acg	8	8	AY.98.1	0.000387
S	879	A879S	Gcg	Tcg	8	8	B.1.160	0.00025
S	879	A879S	Gcg	Tcg	8	8	B.1.637	0.000585
S	879	A879S	Gcg	Tcg	8	8	P.1.17.1	0.006999
S	879	A879V	gCg	gTg	8	8	Q.1	0.001011
S	879	A879A	gcG	gcA	8	8	R.1	0.00072
S	879	A879S	Gcg	Tcg	7	7	AY.116	0.002007
S	879	A879A	gcG	gcA	6	7	AY.116	0.001721
S	879	A879A	gcG	gcT	1	7	AY.116	0.000287
S	879	A879A	gcG	gcA	7	7	AY.19	0.007982
S	879	A879V	gCg	gTg	7	7	AY.46.4	0.001152
S	879	A879A	gcG	gcA	7	7	AY.77	0.007892
S	879	A879A	gcG	gcA	4	7	AY.92	0.001149
S	879	A879A	gcG	gcT	3	7	AY.92	0.000862
S	879	A879S	Gcg	Tcg	7	7	B.1.1.214	0.000388
S	879	A879A	gcG	gcT	7	7	B.1.1.216	0.006233
S	879	A879A	gcG	gcT	7	7	B.1.1.519	0.000278
S	879	A879A	gcG	gcA	7	7	B.1.36.1	0.007982
S	879	A879S	Gcg	Tcg	7	7	B.1.389	0.007014
S	879	A879T	Gcg	Acg	7	7	P.1.14	0.000335
S	879	A879V	gCg	gTg	6	6	A	0.002322
S	879	A879del2	GCg	--g	6	6	All	0.000001
S	879	A879T	Gcg	Acg	6	6	AY.102	0.000159
S	879	A879A	gcG	gcA	6	6	AY.23	0.000418
S	879	A879del	GCG	---	6	6	AY.4	0.000009
S	879	A879A	gcG	gcT	6	6	AY.4.4	0.002455
S	879	A879S	Gcg	Tcg	6	6	AY.42	0.000241
S	879	A879A	gcG	gcA	5	6	AY.45	0.000608
S	879	A879A	gcG	gcT	1	6	AY.45	0.000122
S	879	A879V	gCg	gTg	6	6	AY.47	0.000187
S	879	A879A	gcG	gcA	5	6	AY.47	0.000156
S	879	A879A	gcG	gcT	1	6	AY.47	0.000031
S	879	A879A	gcG	gcA	5	6	AY.54	0.000477
S	879	A879A	gcG	gcT	1	6	AY.54	0.000095
S	879	A879S	Gcg	Tcg	6	6	AY.56	0.009631
S	879	A879A	gcG	gcT	5	6	AY.6	0.000206
S	879	A879A	gcG	gcA	1	6	AY.6	0.000041
S	879	A879A	gcG	gcA	6	6	AY.71	0.00285
S	879	A879S	Gcg	Tcg	6	6	AY.75.1	0.001082
S	879	A879A	gcG	gcA	6	6	AY.75.1	0.001082
S	879	A879V	gCg	gTg	6	6	AY.9.2	0.00022
S	879	A879S	Gcg	Tcg	6	6	AY.98	0.000474
S	879	A879V	gCg	gTg	6	6	B.1.1.214	0.000333
S	879	A879S	Gcg	Tcg	6	6	B.1.1.372	0.004132
S	879	A879del	GCG	---	6	6	B.1.177	0.000079
S	879	A879A	gcG	gcA	6	6	B.1.409	0.004687
S	879	A879A	gcG	gcT	4	6	B.1.427	0.000202
S	879	A879A	gcG	gcA	2	6	B.1.427	0.000101
S	879	A879A	gcG	gcA	4	6	C.36	0.003643
S	879	A879A	gcG	gcT	2	6	C.36	0.001821
S	879	A879S	Gcg	Tcg	6	6	Q.8	0.000989
S	879	A879T	Gcg	Acg	5	5	AY.103	0.000031
S	879	A879T	Gcg	Acg	5	5	AY.120	0.000186
S	879	A879S	Gcg	Tcg	5	5	AY.14	0.00044
S	879	A879S	Gcg	Tcg	5	5	AY.2	0.001781
S	879	A879A	gcG	gcA	5	5	AY.26	0.000142
S	879	A879S	Gcg	Tcg	5	5	AY.29	0.000079
S	879	A879S	Gcg	Tcg	5	5	AY.34	0.000485
S	879	A879A	gcG	gcA	5	5	AY.99.2	0.000461
S	879	A879A	gcG	gcT	4	5	B.1.1.214	0.000222
S	879	A879A	gcG	gcA	1	5	B.1.1.214	0.000055
S	879	A879S	Gcg	Tcg	5	5	B.1.1.222	0.00102
S	879	A879A	gcG	gcT	5	5	B.1.13	0.011876
S	879	A879A	gcG	gcT	3	5	B.1.189	0.012876
S	879	A879A	gcG	gcA	2	5	B.1.189	0.008584
S	879	A879S	Gcg	Tcg	5	5	B.1.396	0.003529
S	879	A879S	Gcg	Tcg	5	5	B.1.427	0.000252
S	879	A879S	Gcg	Tcg	5	5	B.1.470	0.007022
S	879	A879A	gcG	gcA	5	5	B.1.628	0.001762
S	879	A879V	gCg	gTg	5	5	B.1.637	0.000365
S	879	A879S	Gcg	Tcg	5	5	P.1.10	0.001347
S	879	A879K	GCG	AAA	3	4	All	0.000001
S	879	A879K	GCg	AAg	1	4	All	0
S	879	A879S	Gcg	Tcg	4	4	AY.105	0.002572
S	879	A879A	gcG	gcA	4	4	AY.110	0.000451
S	879	A879T	Gcg	Acg	4	4	AY.119	0.000141
S	879	A879S	Gcg	Tcg	4	4	AY.12	0.001264
S	879	A879V	gCg	gTg	4	4	AY.120	0.000149
S	879	A879A	gcG	gcT	4	4	AY.120.2.1	0.001993
S	879	A879S	Gcg	Tcg	4	4	AY.16	0.001519
S	879	A879V	gCg	gTg	4	4	AY.20	0.000155
S	879	A879S	Gcg	Tcg	4	4	AY.24	0.001724
S	879	A879A	gcG	gcA	4	4	AY.32	0.00213
S	879	A879S	Gcg	Tcg	4	4	AY.4.4	0.001637
S	879	A879del	GCG	---	4	4	AY.4.5	0.00043
S	879	A879V	gCg	gTg	4	4	AY.5.3	0.00135
S	879	A879S	Gcg	Tcg	4	4	AY.53	0.00115
S	879	A879V	gCg	gTg	4	4	AY.61	0.000419
S	879	A879A	gcG	gcT	2	4	AY.62	0.000871
S	879	A879A	gcG	gcA	2	4	AY.62	0.000871
S	879	A879S	Gcg	Tcg	4	4	AY.7.1	0.000451
S	879	A879A	gcG	gcA	4	4	AY.8	0.002424
S	879	A879S	Gcg	Tcg	4	4	AY.89	0.019608
S	879	A879S	Gcg	Tcg	4	4	AY.99.2	0.000369
S	879	A879S	Gcg	Tcg	4	4	B.1.1.243	0.016327
S	879	A879S	Gcg	Tcg	4	4	B.1.1.306	0.001754
S	879	A879A	gcG	gcT	4	4	B.1.1.318	0.001207
S	879	A879S	Gcg	Tcg	4	4	B.1.1.464	0.005891
S	879	A879A	gcG	gcT	4	4	B.1.117	0.05
S	879	A879S	Gcg	Tcg	4	4	B.1.146	0.016949
S	879	A879A	gcG	gcT	3	4	B.1.177.4	0.000633
S	879	A879A	gcG	gcA	1	4	B.1.177.4	0.000211
S	879	A879del	GCG	---	4	4	B.1.2	0.000035
S	879	A879A	gcG	gcT	4	4	B.1.221	0.000284
S	879	A879T	Gcg	Acg	4	4	B.1.234	0.000528
S	879	A879V	gCg	gTg	4	4	B.1.243	0.000278
S	879	A879S	Gcg	Tcg	4	4	B.1.258	0.000266
S	879	A879G	gCg	gGg	4	4	B.1.596	0.000349
S	879	A879del	GCG	---	4	4	B.1.617.2	0.000015
S	879	A879A	gcG	gcT	3	4	B.1.621	0.000266
S	879	A879A	gcG	gcA	1	4	B.1.621	0.000089
S	879	A879T	Gcg	Acg	4	4	C.36.3.1	0.01087
S	879	A879S	Gcg	Tcg	4	4	P.2	0.000747
S	879	A879S	Gcg	Tcg	4	4	Q.1	0.000505
S	879	A879A	gcG	gcT	3	3	A.2.5	0.001497
S	879	A879T	Gcg	Acg	3	3	AS.2	0.046875
S	879	A879V	gCg	gTg	3	3	AY.106	0.001005
S	879	A879V	gCg	gTg	3	3	AY.119	0.000106
S	879	A879S	Gcg	Tcg	3	3	AY.16.1	0.00141
S	879	A879T	Gcg	Acg	3	3	AY.3.1	0.000256
S	879	A879A	gcG	gcT	1	3	AY.36	0.000148
S	879	A879A	gcG	gcC	1	3	AY.36	0.000148
S	879	A879A	gcG	gcA	1	3	AY.36	0.000148
S	879	A879del	GCG	---	3	3	AY.43	0.000013
S	879	A879S	Gcg	Tcg	3	3	AY.46.6	0.000217
S	879	A879S	Gcg	Tcg	3	3	AY.58	0.002722
S	879	A879S	Gcg	Tcg	3	3	AY.61	0.000314
S	879	A879A	gcG	gcT	3	3	AY.61	0.000314
S	879	A879S	Gcg	Tcg	3	3	AY.64	0.001786
S	879	A879S	Gcg	Tcg	3	3	AY.68	0.000821
S	879	A879S	Gcg	Tcg	3	3	AY.70	0.000626
S	879	A879V	gCg	gTg	3	3	AY.74	0.000347
S	879	A879A	gcG	gcA	3	3	AY.84	0.001312
S	879	A879A	gcG	gcA	3	3	AY.88	0.002653
S	879	A879S	Gcg	Tcg	3	3	AY.95	0.002283
S	879	A879T	Gcg	Acg	3	3	AY.95	0.002283
S	879	A879S	Gcg	Tcg	3	3	B	0.000383
S	879	A879A	gcG	gcT	3	3	B.1.1.222	0.000612
S	879	A879A	gcG	gcT	3	3	B.1.1.269	0.00406
S	879	A879S	GcG	TcT	2	3	B.1.1.28	0.000622
S	879	A879S	Gcg	Tcg	1	3	B.1.1.28	0.000311
S	879	A879V	gCg	gTg	3	3	B.1.1.306	0.001315
S	879	A879S	Gcg	Tcg	3	3	B.1.1.409	0.008499
S	879	A879A	gcG	gcA	3	3	B.1.1.50	0.002037
S	879	A879S	Gcg	Tcg	3	3	B.1.1.519	0.000119
S	879	A879G	gCg	gGg	3	3	B.1.1.7	0.000003
S	879	A879A	gcG	gcT	3	3	B.1.147	0.002268
S	879	A879T	Gcg	Acg	3	3	B.1.177.65	0.001996
S	879	A879A	gcG	gcT	3	3	B.1.177.7	0.000495
S	879	A879P	Gcg	Ccg	3	3	B.1.2	0.000026
S	879	A879T	Gcg	Acg	3	3	B.1.214.2	0.001799
S	879	A879V	gCg	gTg	3	3	B.1.221	0.000213
S	879	A879S	Gcg	Tcg	3	3	B.1.221.3	0.0025
S	879	A879A	gcG	gcA	2	3	B.1.243	0.000139
S	879	A879A	gcG	gcT	1	3	B.1.243	0.00007
S	879	A879S	Gcg	Tcg	3	3	B.1.311	0.000824
S	879	A879T	Gcg	Acg	3	3	B.1.351	0.000089
S	879	A879A	gcG	gcT	3	3	B.1.36	0.000438
S	879	A879A	gcG	gcA	2	3	B.1.36.29	0.001035
S	879	A879A	gcG	gcT	1	3	B.1.36.29	0.000517
S	879	A879A	gcG	gcA	2	3	B.1.396	0.001411
S	879	A879A	gcG	gcT	1	3	B.1.396	0.000706
S	879	A879V	gCg	gTg	3	3	B.1.526	0.000071
S	879	A879A	gcG	gcA	3	3	B.1.561	0.001191
S	879	A879S	Gcg	Tcg	3	3	B.1.596	0.000261
S	879	A879A	gcG	gcA	2	3	B.1.617.1	0.000258
S	879	A879A	gcG	gcT	1	3	B.1.617.1	0.000129
S	879	A879V	gCg	gTg	3	3	B.1.621	0.000266
S	879	A879T	Gcg	Acg	3	3	B.1.637	0.000219
S	879	A879T	Gcg	Acg	3	3	B.3	0.002492
S	879	A879A	gcG	gcA	3	3	C.36.3	0.001702
S	879	A879A	gcG	gcT	2	3	C.37	0.000232
S	879	A879A	gcG	gcA	1	3	C.37	0.000116
S	879	A879A	gcG	gcA	3	3	P.1.14	0.000143
S	879	A879V	gCg	gTg	3	3	P.1.15	0.000697
S	879	A879S	Gcg	Tcg	3	3	P.1.16	0.001122
S	879	A879S	Gcg	Tcg	3	3	R.1	0.00027
S	879	A879K	GCG	AAA	2	2		0.111111
S	879	A879T	GcG	AcA	2	2		0.111111
S	879	A879del	GCG	---	2	2		0.111111
S	879	A879P	GcG	CcA	2	2		0.111111
S	879	A879I	GCG	ATA	2	2		0.111111
S	879	A879T	Gcg	Acg	2	2	A	0.000774
S	879	A879A	gcG	gcT	2	2	A	0.000774
S	879	A879A	gcG	gcC	2	2	A.1	0.000564
S	879	A879V	gCg	gTg	2	2	A.2.2	0.003378
S	879	A879I	GCG	ATA	2	2	All	0
S	879	A879L	GCg	CTg	1	2	All	0
S	879	A879L	GCg	TTg	1	2	All	0
S	879	A879S	Gcg	Tcg	2	2	AY.1	0.000791
S	879	A879S	Gcg	Tcg	2	2	AY.10	0.00106
S	879	A879A	gcG	gcT	1	2	AY.106	0.000335
S	879	A879A	gcG	gcA	1	2	AY.106	0.000335
S	879	A879T	Gcg	Acg	2	2	AY.114	0.000462
S	879	A879A	gcG	gcC	2	2	AY.116.1	0.000623
S	879	A879E	gCg	gAg	2	2	AY.117	0.000169
S	879	A879V	gCg	gTg	2	2	AY.118	0.000125
S	879	A879del	GCG	---	2	2	AY.120	0.000074
S	879	A879A	gcG	gcT	1	2	AY.121	0.000135
S	879	A879A	gcG	gcA	1	2	AY.121	0.000135
S	879	A879S	Gcg	Tcg	2	2	AY.13	0.000322
S	879	A879V	gCg	gTg	2	2	AY.14	0.000176
S	879	A879S	Gcg	Tcg	2	2	AY.21	0.003795
S	879	A879V	gCg	gTg	2	2	AY.23	0.000139
S	879	A879T	Gcg	Acg	2	2	AY.23	0.000139
S	879	A879V	gCg	gTg	2	2	AY.27	0.000129
S	879	A879T	Gcg	Acg	2	2	AY.29	0.000032
S	879	A879S	Gcg	Tcg	2	2	AY.34.1	0.00102
S	879	A879S	Gcg	Tcg	2	2	AY.37	0.000632
S	879	A879V	gCg	gTg	2	2	AY.38	0.000999
S	879	A879A	gcG	gcA	2	2	AY.39.1	0.000079
S	879	A879G	gCg	gGg	2	2	AY.4	0.000003
S	879	A879del1	Gcg	-cg	2	2	AY.4	0.000003
S	879	A879A	gcG	gcA	2	2	AY.4.2	0.000043
S	879	A879V	gCg	gTg	2	2	AY.4.5	0.000215
S	879	A879S	Gcg	Tcg	2	2	AY.41	0.000588
S	879	A879V	gCg	gTg	2	2	AY.42	0.00008
S	879	A879E	gCg	gAg	2	2	AY.43	0.000009
S	879	A879V	gCg	gTg	2	2	AY.46	0.000208
S	879	A879S	Gcg	Tcg	2	2	AY.46.4	0.000329
S	879	A879V	gCg	gTg	2	2	AY.46.6	0.000144
S	879	A879T	Gcg	Acg	2	2	AY.5	0.000041
S	879	A879del	GCG	---	2	2	AY.5	0.000041
S	879	A879T	Gcg	Acg	2	2	AY.5.4	0.000553
S	879	A879S	Gcg	Tcg	2	2	AY.54	0.000191
S	879	A879V	gCg	gTg	2	2	AY.54	0.000191
S	879	A879T	Gcg	Acg	2	2	AY.54	0.000191
S	879	A879T	Gcg	Acg	2	2	AY.6	0.000082
S	879	A879S	Gcg	Tcg	2	2	AY.6	0.000082
S	879	A879T	Gcg	Acg	2	2	AY.61	0.00021
S	879	A879A	gcG	gcT	1	2	AY.65	0.000533
S	879	A879A	gcG	gcA	1	2	AY.65	0.000533
S	879	A879S	Gcg	Tcg	2	2	AY.67	0.000929
S	879	A879V	gCg	gTg	2	2	AY.70	0.000417
S	879	A879T	Gcg	Acg	2	2	AY.73	0.001331
S	879	A879S	Gcg	Tcg	2	2	AY.87	0.001665
S	879	A879A	gcG	gcT	1	2	AY.9	0.000068
S	879	A879A	gcG	gcA	1	2	AY.9	0.000068
S	879	A879A	gcG	gcA	2	2	AY.95	0.001522
S	879	A879A	gcG	gcA	2	2	AY.96	0.004149
S	879	A879S	Gcg	Tcg	2	2	AY.97	0.003401
S	879	A879A	gcG	gcT	1	2	AY.98.1	0.000048
S	879	A879A	gcG	gcA	1	2	AY.98.1	0.000048
S	879	A879A	gcG	gcA	2	2	AY.99	0.002099
S	879	A879del	GCG	---	2	2	B.1	0.000018
S	879	A879A	gcG	gcA	2	2	B.1.1.1	0.000653
S	879	A879V	gCg	gTg	2	2	B.1.1.1	0.000653
S	879	A879S	Gcg	Tcg	2	2	B.1.1.186	0.006873
S	879	A879S	Gcg	Tcg	2	2	B.1.1.216	0.001781
S	879	A879V	gCg	gTg	2	2	B.1.1.222	0.000408
S	879	A879S	Gcg	Tcg	2	2	B.1.1.241	0.004141
S	879	A879T	Gcg	Acg	2	2	B.1.1.28	0.000622
S	879	A879S	Gcg	Tcg	2	2	B.1.1.328	0.033898
S	879	A879S	Gcg	Tcg	2	2	B.1.1.33	0.000842
S	879	A879V	gCg	gTg	2	2	B.1.1.33	0.000842
S	879	A879A	gcG	gcT	1	2	B.1.1.33	0.000421
S	879	A879A	gcG	gcA	1	2	B.1.1.33	0.000421
S	879	A879A	gcG	gcA	2	2	B.1.1.37	0.000386
S	879	A879S	Gcg	Tcg	2	2	B.1.1.37	0.000386
S	879	A879A	gcG	gcT	2	2	B.1.1.39	0.001019
S	879	A879S	Gcg	Tcg	2	2	B.1.1.434	0.000697
S	879	A879T	Gcg	Acg	2	2	B.1.1.434	0.000697
S	879	A879P	Gcg	Ccg	1	2	B.1.1.7	0.000001
S	879	A879P	GcG	CcA	1	2	B.1.1.7	0.000001
S	879	A879A	gcG	gcC	2	2	B.1.116	0.023256
S	879	A879V	gCg	gTg	2	2	B.1.128	0.001271
S	879	A879A	gcG	gcT	1	2	B.1.160	0.000031
S	879	A879A	gcG	gcA	1	2	B.1.160	0.000031
S	879	A879E	gCg	gAg	2	2	B.1.160.17	0.003401
S	879	A879V	gCg	gTg	2	2	B.1.160.28	0.005848
S	879	A879A	gcG	gcT	2	2	B.1.177.15	0.001262
S	879	A879S	Gcg	Tcg	2	2	B.1.177.16	0.001329
S	879	A879V	gCg	gTg	2	2	B.1.177.21	0.000153
S	879	A879P	Gcg	Ccg	2	2	B.1.177.7	0.00033
S	879	A879V	gCg	gTg	2	2	B.1.232	0.001075
S	879	A879T	Gcg	Acg	2	2	B.1.243	0.000139
S	879	A879V	gCg	gTg	2	2	B.1.258	0.000133
S	879	A879S	Gcg	Tcg	2	2	B.1.258.17	0.000208
S	879	A879V	gCg	gTg	2	2	B.1.338	0.017241
S	879	A879V	gCg	gTg	2	2	B.1.351	0.000059
S	879	A879del	GCG	---	2	2	B.1.36	0.000292
S	879	A879S	Gcg	Tcg	2	2	B.1.36.18	0.00084
S	879	A879A	gcG	gcT	2	2	B.1.36.22	0.002415
S	879	A879A	gcG	gcC	2	2	B.1.36.38	0.003284
S	879	A879S	Gcg	Tcg	2	2	B.1.367	0.001585
S	879	A879A	gcG	gcT	2	2	B.1.367	0.001585
S	879	A879V	gCg	gTg	2	2	B.1.369	0.00057
S	879	A879S	Gcg	Tcg	2	2	B.1.391	0.002255
S	879	A879T	Gcg	Acg	2	2	B.1.427	0.000101
S	879	A879S	Gcg	Tcg	2	2	B.1.471	0.005464
S	879	A879A	gcG	gcA	2	2	B.1.497	0.00063
S	879	A879A	gcG	gcA	1	2	B.1.525	0.000113
S	879	A879A	gcG	gcT	1	2	B.1.525	0.000113
S	879	A879del	GCG	---	2	2	B.1.526	0.000047
S	879	A879A	gcG	gcA	1	2	B.1.526	0.000024
S	879	A879A	gcG	gcT	1	2	B.1.526	0.000024
S	879	A879S	Gcg	Tcg	2	2	B.1.532	0.012422
S	879	A879A	gcG	gcT	2	2	B.1.580	0.00813
S	879	A879S	Gcg	Tcg	2	2	B.1.595	0.000522
S	879	A879V	gCg	gTg	2	2	B.1.595	0.000522
S	879	A879S	Gcg	Tcg	2	2	B.1.609	0.000959
S	879	A879S	Gcg	Tcg	2	2	B.1.616	0.04878
S	879	A879T	Gcg	Acg	2	2	B.1.617.1	0.000258
S	879	A879S	Gcg	Tcg	2	2	B.1.617.1	0.000258
S	879	A879S	Gcg	Tcg	2	2	B.1.621	0.000177
S	879	A879V	gCg	gTg	2	2	B.1.621.1	0.001012
S	879	A879T	Gcg	Acg	2	2	B.1.625	0.004706
S	879	A879del1	gcG	gc-	2	2	B.1.627	0.00404
S	879	A879S	Gcg	Tcg	2	2	B.3	0.001661
S	879	A879S	Gcg	Tcg	2	2	D.2	0.00015
S	879	A879P	Gcg	Ccg	2	2	D.2	0.00015
S	879	A879V	gCg	gTg	2	2	P.1.1	0.000635
S	879	A879S	Gcg	Tcg	2	2	P.1.12	0.000968
S	879	A879T	Gcg	Acg	2	2	P.1.12	0.000968
S	879	A879A	gcG	gcA	1	2	P.1.12	0.000484
S	879	A879A	gcG	gcT	1	2	P.1.12	0.000484
S	879	A879S	Gcg	Tcg	2	2	P.1.7	0.000639
S	879	A879A	gcG	gcT	2	2	Q.4	0.00091
S	879	A879del	GCG	---	1	1	A	0.000387
S	879	A879T	Gcg	Acg	1	1	A.2.5	0.000499
S	879	A879S	Gcg	Tcg	1	1	A.21	0.00277
S	879	A879V	gCg	gTg	1	1	A.23	0.010526
S	879	A879A	gcG	gcA	1	1	A.27	0.001656
S	879	A879V	gCg	gTg	1	1	A.30	0.142857
S	879	A879S	Gcg	Tcg	1	1	AD.2	0.000219
S	879	A879V	gCg	gTg	1	1	AE.8	0.000489
S	879	A879del	GCG	---	1	1	AH.3	0.003802
S	879	A879M	GCg	ATg	1	1	All	0
S	879	A879D	gCG	gAT	1	1	All	0
S	879	A879T	Gcg	Acg	1	1	AY.105	0.000643
S	879	A879T	Gcg	Acg	1	1	AY.108	0.001103
S	879	A879S	Gcg	Tcg	1	1	AY.108	0.001103
S	879	A879V	gCg	gTg	1	1	AY.110	0.000113
S	879	A879del	GCG	---	1	1	AY.111	0.000183
S	879	A879T	Gcg	Acg	1	1	AY.113	0.000142
S	879	A879V	gCg	gTg	1	1	AY.114	0.000231
S	879	A879A	gcG	gcT	1	1	AY.114	0.000231
S	879	A879T	Gcg	Acg	1	1	AY.117	0.000085
S	879	A879V	gCg	gTg	1	1	AY.121	0.000135
S	879	A879T	Gcg	Acg	1	1	AY.121	0.000135
S	879	A879A	gcG	gcT	1	1	AY.13	0.000161
S	879	A879A	gcG	gcA	1	1	AY.14	0.000088
S	879	A879V	gCg	gTg	1	1	AY.16	0.00038
S	879	A879T	Gcg	Acg	1	1	AY.16.1	0.00047
S	879	A879A	gcG	gcA	1	1	AY.16.1	0.00047
S	879	A879S	Gcg	Tcg	1	1	AY.19	0.00114
S	879	A879del	GCG	---	1	1	AY.19	0.00114
S	879	A879T	Gcg	Acg	1	1	AY.20	0.000039
S	879	A879V	gCg	gTg	1	1	AY.22	0.002092
S	879	A879del1	gcG	gc-	1	1	AY.23	0.00007
S	879	A879A	gcG	gcA	1	1	AY.23.1	0.000417
S	879	A879del	GCG	---	1	1	AY.25	0.000006
S	879	A879T	Gcg	Acg	1	1	AY.25	0.000006
S	879	A879A	gcG	gcA	1	1	AY.27	0.000065
S	879	A879S	Gcg	Tcg	1	1	AY.27	0.000065
S	879	A879A	gcG	gcA	1	1	AY.28	0.00189
S	879	A879V	gCg	gTg	1	1	AY.3.1	0.000085
S	879	A879S	Gcg	Tcg	1	1	AY.30	0.000396
S	879	A879S	Gcg	Tcg	1	1	AY.32	0.000532
S	879	A879V	gCg	gTg	1	1	AY.34	0.000097
S	879	A879T	Gcg	Acg	1	1	AY.34	0.000097
S	879	A879A	gcG	gcT	1	1	AY.35	0.000233
S	879	A879S	Gcg	Tcg	1	1	AY.36	0.000148
S	879	A879del	GCG	---	1	1	AY.36	0.000148
S	879	A879V	gCg	gTg	1	1	AY.4.1	0.000737
S	879	A879T	Gcg	Acg	1	1	AY.4.2	0.000022
S	879	A879T	Gcg	Acg	1	1	AY.4.2.1	0.000149
S	879	A879del2	GCg	--g	1	1	AY.4.5	0.000107
S	879	A879S	Gcg	Tcg	1	1	AY.4.5	0.000107
S	879	A879A	gcG	gcT	1	1	AY.4.5	0.000107
S	879	A879del1	Gcg	-cg	1	1	AY.4.5	0.000107
S	879	A879A	gcG	gcT	1	1	AY.41	0.000294
S	879	A879K	GCg	AAg	1	1	AY.43	0.000004
S	879	A879del2	GCg	--g	1	1	AY.43	0.000004
S	879	A879K	GCG	AAA	1	1	AY.44	0.000006
S	879	A879del	GCG	---	1	1	AY.44	0.000006
S	879	A879T	Gcg	Acg	1	1	AY.45	0.000122
S	879	A879V	gCg	gTg	1	1	AY.45	0.000122
S	879	A879del	GCG	---	1	1	AY.46	0.000104
S	879	A879S	Gcg	Tcg	1	1	AY.46.2	0.000635
S	879	A879del	GCG	---	1	1	AY.46.2	0.000635
S	879	A879S	Gcg	Tcg	1	1	AY.46.3	0.000934
S	879	A879A	gcG	gcA	1	1	AY.46.6	0.000072
S	879	A879A	gcG	gcT	1	1	AY.48	0.000465
S	879	A879S	Gcg	Tcg	1	1	AY.5.1	0.003759
S	879	A879S	Gcg	Tcg	1	1	AY.50	0.000799
S	879	A879del	GCG	---	1	1	AY.52	0.000814
S	879	A879S	Gcg	Tcg	1	1	AY.52	0.000814
S	879	A879A	gcG	gcA	1	1	AY.55	0.000917
S	879	A879V	gCg	gTg	1	1	AY.55	0.000917
S	879	A879S	Gcg	Tcg	1	1	AY.55	0.000917
S	879	A879S	Gcg	Tcg	1	1	AY.57	0.000656
S	879	A879A	gcG	gcC	1	1	AY.57	0.000656
S	879	A879A	gcG	gcA	1	1	AY.59	0.00053
S	879	A879S	Gcg	Tcg	1	1	AY.59	0.00053
S	879	A879V	gCg	gTg	1	1	AY.60	0.000938
S	879	A879V	gCg	gTg	1	1	AY.62	0.000436
S	879	A879S	Gcg	Tcg	1	1	AY.62	0.000436
S	879	A879V	gCg	gTg	1	1	AY.63	0.000387
S	879	A879S	Gcg	Tcg	1	1	AY.65	0.000533
S	879	A879V	gCg	gTg	1	1	AY.67	0.000464
S	879	A879del	GCG	---	1	1	AY.67	0.000464
S	879	A879A	gcG	gcA	1	1	AY.68	0.000274
S	879	A879S	Gcg	Tcg	1	1	AY.69	0.000187
S	879	A879A	gcG	gcA	1	1	AY.69	0.000187
S	879	A879S	Gcg	Tcg	1	1	AY.7	0.000196
S	879	A879V	gCg	gTg	1	1	AY.7	0.000196
S	879	A879V	gCg	gTg	1	1	AY.7.1	0.000113
S	879	A879T	Gcg	Acg	1	1	AY.7.1	0.000113
S	879	A879A	gcG	gcA	1	1	AY.70	0.000209
S	879	A879V	gCg	gTg	1	1	AY.72	0.001361
S	879	A879del	GCG	---	1	1	AY.72	0.001361
S	879	A879S	Gcg	Tcg	1	1	AY.72	0.001361
S	879	A879A	gcG	gcA	1	1	AY.73	0.000665
S	879	A879S	Gcg	Tcg	1	1	AY.75	0.000056
S	879	A879T	Gcg	Acg	1	1	AY.75	0.000056
S	879	A879A	gcG	gcT	1	1	AY.79	0.001211
S	879	A879del	GCG	---	1	1	AY.81	0.001992
S	879	A879A	gcG	gcT	1	1	AY.82	0.001357
S	879	A879S	Gcg	Tcg	1	1	AY.85	0.000427
S	879	A879A	gcG	gcT	1	1	AY.85	0.000427
S	879	A879A	gcG	gcA	1	1	AY.86	0.00083
S	879	A879S	Gcg	Tcg	1	1	AY.88	0.000884
S	879	A879A	gcG	gcA	1	1	AY.89	0.004902
S	879	A879S	Gcg	Tcg	1	1	AY.9	0.000068
S	879	A879V	gCg	gTg	1	1	AY.9	0.000068
S	879	A879T	Gcg	Acg	1	1	AY.9.1	0.000084
S	879	A879V	gCg	gTg	1	1	AY.9.1	0.000084
S	879	A879A	gcG	gcT	1	1	AY.9.1	0.000084
S	879	A879G	gCg	gGg	1	1	AY.9.2	0.000037
S	879	A879A	gcG	gcA	1	1	AY.90	0.000684
S	879	A879S	Gcg	Tcg	1	1	AY.90	0.000684
S	879	A879T	Gcg	Acg	1	1	AY.91	0.00073
S	879	A879T	Gcg	Acg	1	1	AY.98	0.000079
S	879	A879P	Gcg	Ccg	1	1	AY.98	0.000079
S	879	A879G	gCg	gGg	1	1	AY.98.1	0.000048
S	879	A879del	GCG	---	1	1	AY.99	0.001049
S	879	A879A	gcG	gcA	1	1	AY.99.1	0.001553
S	879	A879S	Gcg	Tcg	1	1	AY.99.1	0.001553
S	879	A879del	GCG	---	1	1	AY.99.1	0.001553
S	879	A879V	gCg	gTg	1	1	B	0.000128
S	879	A879P	Gcg	Ccg	1	1	B.1	0.000009
S	879	A879del1	gcG	gc-	1	1	B.1	0.000009
S	879	A879T	Gcg	Acg	1	1	B.1.1	0.000018
S	879	A879del	GCG	---	1	1	B.1.1	0.000018
S	879	A879T	Gcg	Acg	1	1	B.1.1.1	0.000327
S	879	A879A	gcG	gcA	1	1	B.1.1.117	0.009709
S	879	A879S	Gcg	Tcg	1	1	B.1.1.128	0.007092
S	879	A879S	Gcg	Tcg	1	1	B.1.1.134	0.011364
S	879	A879V	gCg	gTg	1	1	B.1.1.141	0.002012
S	879	A879T	Gcg	Acg	1	1	B.1.1.141	0.002012
S	879	A879S	Gcg	Tcg	1	1	B.1.1.176	0.000439
S	879	A879V	gCg	gTg	1	1	B.1.1.176	0.000439
S	879	A879S	Gcg	Tcg	1	1	B.1.1.180	0.010753
S	879	A879A	gcG	gcA	1	1	B.1.1.189	0.001513
S	879	A879S	Gcg	Tcg	1	1	B.1.1.200	0.007463
S	879	A879A	gcG	gcT	1	1	B.1.1.220	0.001859
S	879	A879G	gCg	gGg	1	1	B.1.1.222	0.000204
S	879	A879A	gcG	gcA	1	1	B.1.1.228	0.003049
S	879	A879del	GCG	---	1	1	B.1.1.236	0.006897
S	879	A879S	Gcg	Tcg	1	1	B.1.1.25	0.000569
S	879	A879S	Gcg	Tcg	1	1	B.1.1.254	0.011236
S	879	A879V	gCg	gTg	1	1	B.1.1.255	0.00303
S	879	A879E	gCg	gAg	1	1	B.1.1.271	0.055556
S	879	A879S	Gcg	Tcg	1	1	B.1.1.279	0.001121
S	879	A879V	gCg	gTg	1	1	B.1.1.284	0.000107
S	879	A879S	Gcg	Tcg	1	1	B.1.1.288	0.001916
S	879	A879S	Gcg	Tcg	1	1	B.1.1.294	0.001266
S	879	A879A	gcG	gcA	1	1	B.1.1.298	0.000862
S	879	A879T	Gcg	Acg	1	1	B.1.1.306	0.000438
S	879	A879A	gcG	gcA	1	1	B.1.1.306	0.000438
S	879	A879S	Gcg	Tcg	1	1	B.1.1.307	0.002532
S	879	A879del	GCG	---	1	1	B.1.1.311	0.000358
S	879	A879del	GCG	---	1	1	B.1.1.312	0.001912
S	879	A879S	Gcg	Tcg	1	1	B.1.1.316	0.000925
S	879	A879A	gcG	gcC	1	1	B.1.1.316	0.000925
S	879	A879V	gCg	gTg	1	1	B.1.1.316	0.000925
S	879	A879S	Gcg	Tcg	1	1	B.1.1.317	0.000412
S	879	A879V	gCg	gTg	1	1	B.1.1.318	0.000302
S	879	A879S	Gcg	Tcg	1	1	B.1.1.318	0.000302
S	879	A879A	gcG	gcT	1	1	B.1.1.344	0.010753
S	879	A879S	Gcg	Tcg	1	1	B.1.1.365	0.005587
S	879	A879V	gCg	gTg	1	1	B.1.1.369	0.000446
S	879	A879A	gcG	gcA	1	1	B.1.1.374	0.002375
S	879	A879S	Gcg	Tcg	1	1	B.1.1.39	0.00051
S	879	A879A	gcG	gcA	1	1	B.1.1.397	0.002252
S	879	A879S	Gcg	Tcg	1	1	B.1.1.398	0.003226
S	879	A879S	Gcg	Tcg	1	1	B.1.1.417	0.002703
S	879	A879V	gCg	gTg	1	1	B.1.1.434	0.000349
S	879	A879S	Gcg	Tcg	1	1	B.1.1.442	0.018519
S	879	A879A	gcG	gcA	1	1	B.1.1.464	0.001473
S	879	A879S	Gcg	Tcg	1	1	B.1.1.47	0.005348
S	879	A879S	Gcg	Tcg	1	1	B.1.1.51	0.001718
S	879	A879T	Gcg	Acg	1	1	B.1.1.519	0.00004
S	879	A879V	gCg	gTg	1	1	B.1.1.519	0.00004
S	879	A879V	gCg	gTg	1	1	B.1.1.61	0.008772
S	879	A879S	Gcg	Tcg	1	1	B.1.1.63	0.000386
S	879	A879del1	gcG	gc-	1	1	B.1.1.7	0.000001
S	879	A879del2	GCg	--g	1	1	B.1.1.7	0.000001
S	879	A879E	gCg	gAg	1	1	B.1.1.7	0.000001
S	879	A879L	GCg	CTg	1	1	B.1.1.7	0.000001
S	879	A879D	gCG	gAT	1	1	B.1.1.7	0.000001
S	879	A879V	gCg	gTg	1	1	B.1.1.70	0.000341
S	879	A879P	Gcg	Ccg	1	1	B.1.1.71	0.006061
S	879	A879V	gCg	gTg	1	1	B.1.1.89	0.006061
S	879	A879V	gCg	gTg	1	1	B.1.110.3	0.000718
S	879	A879S	Gcg	Tcg	1	1	B.1.12	0.008
S	879	A879T	Gcg	Acg	1	1	B.1.128	0.000635
S	879	A879P	Gcg	Ccg	1	1	B.1.147	0.000756
S	879	A879V	gCg	gTg	1	1	B.1.147	0.000756
S	879	A879G	gCg	gGg	1	1	B.1.160	0.000031
S	879	A879T	Gcg	Acg	1	1	B.1.160	0.000031
S	879	A879S	Gcg	Tcg	1	1	B.1.160.16	0.000929
S	879	A879del2	GCg	--g	1	1	B.1.177	0.000013
S	879	A879T	Gcg	Acg	1	1	B.1.177	0.000013
S	879	A879del1	gcG	gc-	1	1	B.1.177	0.000013
S	879	A879del	GCG	---	1	1	B.1.177.10	0.000878
S	879	A879V	gCg	gTg	1	1	B.1.177.11	0.001698
S	879	A879S	Gcg	Tcg	1	1	B.1.177.12	0.000152
S	879	A879S	Gcg	Tcg	1	1	B.1.177.17	0.000821
S	879	A879del	GCG	---	1	1	B.1.177.17	0.000821
S	879	A879del	GCG	---	1	1	B.1.177.21	0.000076
S	879	A879P	Gcg	Ccg	1	1	B.1.177.21	0.000076
S	879	A879A	gcG	gcT	1	1	B.1.177.33	0.001645
S	879	A879S	Gcg	Tcg	1	1	B.1.177.35	0.000691
S	879	A879P	Gcg	Ccg	1	1	B.1.177.4	0.000211
S	879	A879T	Gcg	Acg	1	1	B.1.177.4	0.000211
S	879	A879del	GCG	---	1	1	B.1.177.48	0.003125
S	879	A879V	gCg	gTg	1	1	B.1.177.51	0.004566
S	879	A879del	GCG	---	1	1	B.1.177.54	0.000606
S	879	A879S	Gcg	Tcg	1	1	B.1.177.56	0.000668
S	879	A879del	GCG	---	1	1	B.1.177.56	0.000668
S	879	A879S	Gcg	Tcg	1	1	B.1.177.57	0.000281
S	879	A879S	Gcg	Tcg	1	1	B.1.177.60	0.000218
S	879	A879del	GCG	---	1	1	B.1.177.60	0.000218
S	879	A879S	Gcg	Tcg	1	1	B.1.177.62	0.001192
S	879	A879del2	GCg	--g	1	1	B.1.177.63	0.002703
S	879	A879del	GCG	---	1	1	B.1.177.63	0.002703
S	879	A879S	Gcg	Tcg	1	1	B.1.177.73	0.000566
S	879	A879S	Gcg	Tcg	1	1	B.1.177.77	0.000726
S	879	A879V	gCg	gTg	1	1	B.1.177.77	0.000726
S	879	A879S	Gcg	Tcg	1	1	B.1.177.83	0.001481
S	879	A879V	gCg	gTg	1	1	B.1.177.86	0.000183
S	879	A879del	GCG	---	1	1	B.1.177.87	0.000728
S	879	A879del	GCG	---	1	1	B.1.179	0.003759
S	879	A879S	Gcg	Tcg	1	1	B.1.192	0.009259
S	879	A879A	gcG	gcT	1	1	B.1.195	0.005025
S	879	A879S	Gcg	Tcg	1	1	B.1.199	0.004132
S	879	A879del1	gcG	gc-	1	1	B.1.2	0.000009
S	879	A879E	gCg	gAg	1	1	B.1.2	0.000009
S	879	A879V	gCg	gTg	1	1	B.1.206	0.000816
S	879	A879del	GCG	---	1	1	B.1.221	0.000071
S	879	A879S	Gcg	Tcg	1	1	B.1.221.1	0.002907
S	879	A879S	Gcg	Tcg	1	1	B.1.232	0.000537
S	879	A879V	gCg	gTg	1	1	B.1.234	0.000132
S	879	A879A	gcG	gcT	1	1	B.1.234	0.000132
S	879	A879S	Gcg	Tcg	1	1	B.1.234	0.000132
S	879	A879S	Gcg	Tcg	1	1	B.1.235	0.002519
S	879	A879T	Gcg	Acg	1	1	B.1.236	0.002053
S	879	A879T	Gcg	Acg	1	1	B.1.237	0.004975
S	879	A879A	gcG	gcT	1	1	B.1.241	0.000812
S	879	A879S	Gcg	Tcg	1	1	B.1.247	0.014925
S	879	A879del	GCG	---	1	1	B.1.258	0.000067
S	879	A879S	Gcg	Tcg	1	1	B.1.258.11	0.000396
S	879	A879V	gCg	gTg	1	1	B.1.258.5	0.008772
S	879	A879S	Gcg	Tcg	1	1	B.1.267	0.018519
S	879	A879S	Gcg	Tcg	1	1	B.1.273	0.012987
S	879	A879S	Gcg	Tcg	1	1	B.1.279	0.000514
S	879	A879S	Gcg	Tcg	1	1	B.1.298	0.002114
S	879	A879A	gcG	gcT	1	1	B.1.336	0.002439
S	879	A879S	Gcg	Tcg	1	1	B.1.340	0.004292
S	879	A879S	Gcg	Tcg	1	1	B.1.351.3	0.000876
S	879	A879T	Gcg	Acg	1	1	B.1.36.1	0.00114
S	879	A879del2	GCg	--g	1	1	B.1.36.17	0.000494
S	879	A879del	GCG	---	1	1	B.1.36.17	0.000494
S	879	A879A	gcG	gcA	1	1	B.1.36.17	0.000494
S	879	A879del	GCG	---	1	1	B.1.36.18	0.00042
S	879	A879S	Gcg	Tcg	1	1	B.1.36.36	0.000602
S	879	A879A	gcG	gcA	1	1	B.1.361	0.001289
S	879	A879L	GCg	TTg	1	1	B.1.367	0.000792
S	879	A879V	gCg	gTg	1	1	B.1.375	0.00082
S	879	A879A	gcG	gcT	1	1	B.1.375	0.00082
S	879	A879A	gcG	gcT	1	1	B.1.378	0.006849
S	879	A879S	GcG	TcT	1	1	B.1.400	0.000429
S	879	A879V	gCg	gTg	1	1	B.1.400	0.000429
S	879	A879V	gCg	gTg	1	1	B.1.404	0.001302
S	879	A879A	gcG	gcT	1	1	B.1.404	0.001302
S	879	A879S	Gcg	Tcg	1	1	B.1.409	0.000781
S	879	A879T	Gcg	Acg	1	1	B.1.411	0.003704
S	879	A879S	Gcg	Tcg	1	1	B.1.416	0.001269
S	879	A879S	Gcg	Tcg	1	1	B.1.416.1	0.001563
S	879	A879S	Gcg	Tcg	1	1	B.1.426	0.001009
S	879	A879M	GCg	ATg	1	1	B.1.427	0.00005
S	879	A879V	gCg	gTg	1	1	B.1.427	0.00005
S	879	A879S	Gcg	Tcg	1	1	B.1.437	0.020833
S	879	A879G	gCg	gGg	1	1	B.1.438.1	0.000107
S	879	A879S	Gcg	Tcg	1	1	B.1.439	0.005917
S	879	A879S	Gcg	Tcg	1	1	B.1.451	0.008197
S	879	A879V	gCg	gTg	1	1	B.1.452	0.013699
S	879	A879S	Gcg	Tcg	1	1	B.1.466.2	0.000391
S	879	A879A	gcG	gcT	1	1	B.1.467	0.04
S	879	A879S	Gcg	Tcg	1	1	B.1.517	0.000427
S	879	A879A	gcG	gcT	1	1	B.1.517	0.000427
S	879	A879A	gcG	gcT	1	1	B.1.521	0.004975
S	879	A879P	Gcg	Ccg	1	1	B.1.526	0.000024
S	879	A879S	Gcg	Tcg	1	1	B.1.531	0.083333
S	879	A879V	gCg	gTg	1	1	B.1.551	0.00129
S	879	A879S	Gcg	Tcg	1	1	B.1.561	0.000397
S	879	A879V	gCg	gTg	1	1	B.1.564	0.000426
S	879	A879V	gCg	gTg	1	1	B.1.568	0.001111
S	879	A879T	Gcg	Acg	1	1	B.1.571	0.009709
S	879	A879V	gCg	gTg	1	1	B.1.575	0.000303
S	879	A879del	GCG	---	1	1	B.1.577	0.000687
S	879	A879S	Gcg	Tcg	1	1	B.1.582	0.000491
S	879	A879A	gcG	gcA	1	1	B.1.587	0.001898
S	879	A879V	gCg	gTg	1	1	B.1.590	0.004545
S	879	A879A	gcG	gcT	1	1	B.1.596	0.000087
S	879	A879V	gCg	gTg	1	1	B.1.596	0.000087
S	879	A879S	Gcg	Tcg	1	1	B.1.600	0.005848
S	879	A879A	gcG	gcT	1	1	B.1.601	0.030303
S	879	A879T	Gcg	Acg	1	1	B.1.609	0.000479
S	879	A879V	gCg	gTg	1	1	B.1.609	0.000479
S	879	A879V	gCg	gTg	1	1	B.1.612	0.002653
S	879	A879A	gcG	gcT	1	1	B.1.614	0.125
S	879	A879V	gCg	gTg	1	1	B.1.617.1	0.000129
S	879	A879G	gCG	gGA	1	1	B.1.617.2	0.000004
S	879	A879A	gcG	gcC	1	1	B.1.619.1	0.000641
S	879	A879V	gCg	gTg	1	1	B.1.627	0.00202
S	879	A879S	Gcg	Tcg	1	1	B.1.628	0.000352
S	879	A879A	gcG	gcA	1	1	B.1.9.5	0.005682
S	879	A879V	gCg	gTg	1	1	B.3.1	0.001658
S	879	A879S	Gcg	Tcg	1	1	B.31	0.003731
S	879	A879V	gCg	gTg	1	1	B.40	0.000364
S	879	A879T	Gcg	Acg	1	1	B.40	0.000364
S	879	A879V	gCg	gTg	1	1	B.55	0.00295
S	879	A879A	gcG	gcT	1	1	B.6	0.00091
S	879	A879V	gCg	gTg	1	1	B.6.6	0.000889
S	879	A879A	gcG	gcT	1	1	C.35	0.000774
S	879	A879V	gCg	gTg	1	1	C.36.3	0.000567
S	879	A879T	Gcg	Acg	1	1	C.37	0.000116
S	879	A879S	Gcg	Tcg	1	1	C.6	0.037037
S	879	A879V	gCg	gTg	1	1	D.2	0.000075
S	879	A879V	gCg	gTg	1	1	N.1	0.016949
S	879	A879T	Gcg	Acg	1	1	P.1	0.000016
S	879	A879V	gCg	gTg	1	1	P.1.12	0.000484
S	879	A879S	Gcg	Tcg	1	1	P.1.13	0.000898
S	879	A879del	GCG	---	1	1	P.1.13	0.000898
S	879	A879V	gCg	gTg	1	1	P.1.14	0.000048
S	879	A879S	Gcg	Tcg	1	1	P.1.15	0.000232
S	879	A879A	gcG	gcT	1	1	P.1.17	0.000162
S	879	A879A	gcG	gcA	1	1	P.7	0.004367
S	879	A879del	GCG	---	1	1	Q.1	0.000126
S	879	A879V	gCg	gTg	1	1	Q.3	0.000145
S	879	A879A	gcG	gcA	1	1	Q.3	0.000145
S	879	A879V	gCg	gTg	1	1	R.1	0.00009
S	879	A879T	Gcg	Acg	1	1	R.1	0.00009
S	879	A879del	GCG	---	1	1	U.3	0.003861
S	879	A879S	Gcg	Tcg	1	1	W.1	0.008696
S	879	A879A	gcG	gcT	1	1	W.4	0.001351

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.