CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 1162

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	1162	P1162S		nonsyn	Cca	Tca	11439	11439	1	25046-25048
S	1162	P1162L		nonsyn	cCa	cTa	5179	5164	0.997104	25046-25048
S	1162	P1162L		nonsyn	CCa	TTa	5179	14	0.00270322	25046-25048
S	1162	P1162L		nonsyn	cCA	cTT	5179	1	0.000193087	25046-25048
S	1162	P1162A		nonsyn	Cca	Gca	2077	2076	0.999519	25046-25048
S	1162	P1162A		nonsyn	CcA	GcT	2077	1	0.000481464	25046-25048
S	1162	P1162P		syn	ccA	ccG	1145	920	0.803493	25046-25048
S	1162	P1162P		syn	ccA	ccT	1145	144	0.125764	25046-25048
S	1162	P1162P		syn	ccA	ccC	1145	81	0.0707424	25046-25048
S	1162	P1162R		nonsyn	cCa	cGa	778	778	1	25046-25048
S	1162	P1162del		del	CCA	---	106	106	1	25046-25048
S	1162	P1162Q		nonsyn	cCa	cAa	100	100	1	25046-25048
S	1162	P1162T		nonsyn	Cca	Aca	100	100	1	25046-25048
S	1162	P1162del1		del	ccA	cc-	7	4	0.571429	25046-25048
S	1162	P1162del1		del	Cca	-ca	7	3	0.428571	25046-25048
S	1162	P1162V		nonsyn	CCa	GTa	2	1	0.5	25046-25048
S	1162	P1162V		nonsyn	CCA	GTT	2	1	0.5	25046-25048
S	1162	P1162K		nonsyn	CCa	AAa	1	1	1	25046-25048

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	1162	P1162S	Cca	Tca	11439	11439	All	0.002188
S	1162	P1162L	cCa	cTa	5164	5179	All	0.000988
S	1162	P1162L	CCa	TTa	14	5179	All	0.000003
S	1162	P1162L	cCA	cTT	1	5179	All	0
S	1162	P1162S	Cca	Tca	5159	5159	AY.4	0.00803
S	1162	P1162A	Cca	Gca	2076	2077	All	0.000397
S	1162	P1162A	CcA	GcT	1	2077	All	0
S	1162	P1162A	Cca	Gca	1948	1948	AY.39.1	0.077167
S	1162	P1162S	Cca	Tca	1708	1708	B.1.1.7	0.001529
S	1162	P1162P	ccA	ccG	920	1145	All	0.000176
S	1162	P1162P	ccA	ccT	144	1145	All	0.000028
S	1162	P1162P	ccA	ccC	81	1145	All	0.000015
S	1162	P1162L	cCa	cTa	909	909	B.1.1.7	0.000814
S	1162	P1162R	cCa	cGa	778	778	All	0.000149
S	1162	P1162L	cCa	cTa	645	647	AY.4	0.001004
S	1162	P1162L	CCa	TTa	2	647	AY.4	0.000003
S	1162	P1162R	cCa	cGa	559	559	B.1.177.52	0.982425
S	1162	P1162P	ccA	ccG	393	397	AY.25	0.002364
S	1162	P1162P	ccA	ccT	4	397	AY.25	0.000024
S	1162	P1162S	Cca	Tca	397	397	B.1.177.41	0.9925
S	1162	P1162L	cCa	cTa	379	379	AY.103	0.002353
S	1162	P1162S	Cca	Tca	312	312	B.1.617.2	0.001175
S	1162	P1162P	ccA	ccG	289	289	P.1.14	0.013815
S	1162	P1162L	cCa	cTa	288	288	AY.25	0.001732
S	1162	P1162L	cCa	cTa	275	276	B.1.617.2	0.001035
S	1162	P1162L	CCa	TTa	1	276	B.1.617.2	0.000004
S	1162	P1162S	Cca	Tca	263	263	AY.9.1	0.022019
S	1162	P1162S	Cca	Tca	244	244	B.1	0.002235
S	1162	P1162S	Cca	Tca	237	237	AY.39	0.005857
S	1162	P1162L	cCa	cTa	207	207	AY.120.1	0.066453
S	1162	P1162S	Cca	Tca	193	193	AY.9	0.013046
S	1162	P1162S	Cca	Tca	144	144	B.1.2	0.001268
S	1162	P1162S	Cca	Tca	138	138	AY.44	0.00084
S	1162	P1162L	cCa	cTa	137	137	AY.3	0.001363
S	1162	P1162S	Cca	Tca	136	136	AY.4.2	0.00295
S	1162	P1162L	cCa	cTa	130	130	AY.14	0.011442
S	1162	P1162S	Cca	Tca	128	128	AY.43	0.000567
S	1162	P1162L	cCa	cTa	126	126	AY.44	0.000767
S	1162	P1162S	Cca	Tca	126	126	AY.5	0.002602
S	1162	P1162L	cCa	cTa	112	117	AY.43	0.000496
S	1162	P1162L	CCa	TTa	5	117	AY.43	0.000022
S	1162	P1162del	CCA	---	106	106	All	0.00002
S	1162	P1162L	cCa	cTa	105	105	B.1.2	0.000925
S	1162	P1162Q	cCa	cAa	100	100	All	0.000019
S	1162	P1162T	Cca	Aca	100	100	All	0.000019
S	1162	P1162L	cCa	cTa	100	100	AY.116	0.028678
S	1162	P1162S	Cca	Tca	99	99	B.1.36.18	0.041597
S	1162	P1162L	cCa	cTa	93	93	C.36.3	0.052751
S	1162	P1162P	ccA	ccC	43	92	B.1.1.7	0.000038
S	1162	P1162P	ccA	ccG	28	92	B.1.1.7	0.000025
S	1162	P1162P	ccA	ccT	21	92	B.1.1.7	0.000019
S	1162	P1162S	Cca	Tca	86	86	B.1.1	0.00156
S	1162	P1162L	cCa	cTa	85	85	AY.5	0.001755
S	1162	P1162L	cCa	cTa	83	83	B.1	0.00076
S	1162	P1162L	cCa	cTa	81	81	B.1.1	0.001469
S	1162	P1162S	Cca	Tca	78	78	AY.25	0.000469
S	1162	P1162R	cCa	cGa	78	78	Y.1	1
S	1162	P1162S	Cca	Tca	75	75	AY.103	0.000466
S	1162	P1162S	Cca	Tca	73	73	AY.92	0.020971
S	1162	P1162P	ccA	ccG	69	69	R.2	1
S	1162	P1162S	Cca	Tca	68	68	AY.74	0.007864
S	1162	P1162L	cCa	cTa	67	67	B.1.177	0.000882
S	1162	P1162S	Cca	Tca	65	65	AY.3	0.000647
S	1162	P1162L	cCa	cTa	62	62	AY.33	0.00414
S	1162	P1162S	Cca	Tca	61	61	P.1	0.000961
S	1162	P1162S	Cca	Tca	57	57	AY.102	0.001511
S	1162	P1162S	Cca	Tca	56	56	B.1.177	0.000737
S	1162	P1162S	Cca	Tca	54	54	B.1.526	0.001269
S	1162	P1162del	CCA	---	50	50	B.1.1.7	0.000045
S	1162	P1162S	Cca	Tca	49	49	B.1.258.17	0.005095
S	1162	P1162S	Cca	Tca	48	48	B.1.1.318	0.014484
S	1162	P1162Q	cCa	cAa	48	48	B.1.1.7	0.000043
S	1162	P1162L	cCa	cTa	47	47	B.1.427	0.002373
S	1162	P1162A	Cca	Gca	44	44	AY.13	0.007083
S	1162	P1162S	Cca	Tca	43	43	B.1.596	0.003747
S	1162	P1162S	Cca	Tca	42	42	B.1.160	0.00131
S	1162	P1162L	cCa	cTa	41	41	B.1.429	0.000965
S	1162	P1162P	ccA	ccT	39	39	B.1.413	0.165957
S	1162	P1162L	cCa	cTa	39	39	P.1	0.000614
S	1162	P1162L	cCa	cTa	36	37	B.1.1.297	0.080537
S	1162	P1162L	CCa	TTa	1	37	B.1.1.297	0.002237
S	1162	P1162S	Cca	Tca	36	36	AY.29	0.000568
S	1162	P1162L	cCa	cTa	36	36	AY.6	0.001481
S	1162	P1162S	Cca	Tca	35	35	B.1.1.519	0.00139
S	1162	P1162L	cCa	cTa	35	35	B.1.526	0.000823
S	1162	P1162T	Cca	Aca	32	32	AY.25	0.000192
S	1162	P1162S	Cca	Tca	32	32	B.1.36.36	0.019266
S	1162	P1162P	ccA	ccG	19	32	B.1.617.2	0.000072
S	1162	P1162P	ccA	ccT	7	32	B.1.617.2	0.000026
S	1162	P1162P	ccA	ccC	6	32	B.1.617.2	0.000023
S	1162	P1162S	Cca	Tca	31	31	AY.121	0.004195
S	1162	P1162L	cCa	cTa	31	31	AY.7	0.006076
S	1162	P1162L	cCa	cTa	31	31	B.1.525	0.003508
S	1162	P1162S	Cca	Tca	30	30	B.1.351.2	0.009077
S	1162	P1162R	cCa	cGa	28	28	AY.103	0.000174
S	1162	P1162S	Cca	Tca	28	28	B.1.1.198	0.041116
S	1162	P1162L	cCa	cTa	27	27	AY.100	0.001242
S	1162	P1162S	Cca	Tca	27	27	AY.119	0.000953
S	1162	P1162L	cCa	cTa	26	26	AY.20	0.00101
S	1162	P1162L	cCa	cTa	26	26	B.1.575	0.007888
S	1162	P1162L	cCa	cTa	24	25	AY.26	0.000679
S	1162	P1162L	CCa	TTa	1	25	AY.26	0.000028
S	1162	P1162S	Cca	Tca	25	25	B.1.1.222	0.0051
S	1162	P1162L	cCa	cTa	24	24	B.1.351	0.000713
S	1162	P1162L	cCa	cTa	23	23	B.1.160	0.000717
S	1162	P1162S	Cca	Tca	23	23	B.1.351	0.000684
S	1162	P1162S	Cca	Tca	23	23	P.1.14	0.001099
S	1162	P1162L	cCa	cTa	22	22	B.1.499	0.023109
S	1162	P1162S	Cca	Tca	21	21	AY.98	0.001659
S	1162	P1162R	cCa	cGa	21	21	B.1.1.7	0.000019
S	1162	P1162S	Cca	Tca	20	20	AY.100	0.00092
S	1162	P1162S	Cca	Tca	20	20	AY.26	0.000566
S	1162	P1162L	cCa	cTa	20	20	AY.29	0.000315
S	1162	P1162S	Cca	Tca	20	20	B.1.369	0.005705
S	1162	P1162R	cCa	cGa	20	20	B.1.466.2	0.007825
S	1162	P1162L	cCa	cTa	19	19	AY.118	0.00119
S	1162	P1162L	cCa	cTa	19	19	AY.39	0.00047
S	1162	P1162S	Cca	Tca	19	19	B.1.1.258	0.061889
S	1162	P1162L	cCa	cTa	19	19	B.1.1.28	0.005913
S	1162	P1162A	Cca	Gca	19	19	B.1.2	0.000167
S	1162	P1162S	Cca	Tca	19	19	B.1.637	0.001388
S	1162	P1162S	Cca	Tca	19	19	P.1.10	0.00512
S	1162	P1162L	cCa	cTa	18	18	AY.102	0.000477
S	1162	P1162R	cCa	cGa	18	18	AY.4	0.000028
S	1162	P1162S	Cca	Tca	18	18	AY.4.2.1	0.002682
S	1162	P1162S	Cca	Tca	18	18	AY.47	0.00056
S	1162	P1162P	ccA	ccC	17	18	B.1.177	0.000224
S	1162	P1162P	ccA	ccG	1	18	B.1.177	0.000013
S	1162	P1162S	Cca	Tca	18	18	B.1.429	0.000424
S	1162	P1162S	Cca	Tca	18	18	Q.1	0.002274
S	1162	P1162S	Cca	Tca	17	17	C.16	0.018028
S	1162	P1162L	cCa	cTa	16	16	AY.47	0.000498
S	1162	P1162S	Cca	Tca	16	16	AY.93	0.004369
S	1162	P1162S	Cca	Tca	16	16	B.1.1.37	0.003086
S	1162	P1162S	Cca	Tca	16	16	B.1.243	0.001113
S	1162	P1162S	Cca	Tca	16	16	B.1.621	0.001416
S	1162	P1162L	cCa	cTa	16	16	P.1.15	0.003717
S	1162	P1162P	ccA	ccT	8	15	B.1	0.000073
S	1162	P1162P	ccA	ccG	7	15	B.1	0.000064
S	1162	P1162L	cCa	cTa	15	15	P.1.14	0.000717
S	1162	P1162S	Cca	Tca	14	14	AY.117	0.001183
S	1162	P1162S	Cca	Tca	14	14	AY.33	0.000935
S	1162	P1162L	cCa	cTa	14	14	AY.61	0.001467
S	1162	P1162L	cCa	cTa	14	14	B	0.001789
S	1162	P1162A	Cca	Gca	14	14	B.1.1.214	0.000776
S	1162	P1162L	cCa	cTa	14	14	B.1.1.519	0.000556
S	1162	P1162S	Cca	Tca	14	14	B.1.595	0.003653
S	1162	P1162L	cCa	cTa	13	13	AY.3.1	0.001108
S	1162	P1162S	Cca	Tca	13	13	AY.61	0.001362
S	1162	P1162S	Cca	Tca	12	12	AY.120.1	0.003852
S	1162	P1162Q	cCa	cAa	12	12	AY.3	0.000119
S	1162	P1162L	cCa	cTa	12	12	AY.4.2.1	0.001788
S	1162	P1162S	Cca	Tca	12	12	AY.42	0.000483
S	1162	P1162P	ccA	ccG	7	12	AY.44	0.000043
S	1162	P1162P	ccA	ccC	4	12	AY.44	0.000024
S	1162	P1162P	ccA	ccT	1	12	AY.44	0.000006
S	1162	P1162L	cCa	cTa	12	12	AY.46.5	0.002381
S	1162	P1162P	ccA	ccG	12	12	B.1.160	0.000374
S	1162	P1162S	Cca	Tca	12	12	B.1.531	1
S	1162	P1162L	cCa	cTa	11	11	AY.119	0.000388
S	1162	P1162S	Cca	Tca	11	11	AY.23.1	0.004591
S	1162	P1162S	Cca	Tca	11	11	AY.30	0.004353
S	1162	P1162S	Cca	Tca	11	11	AY.99.2	0.001014
S	1162	P1162L	cCa	cTa	11	11	B.1.1.398	0.035484
S	1162	P1162S	Cca	Tca	10	10	AY.46.6	0.000722
S	1162	P1162L	cCa	cTa	10	10	AY.99.2	0.000922
S	1162	P1162S	Cca	Tca	10	10	B.1.1.214	0.000555
S	1162	P1162S	Cca	Tca	10	10	B.1.1.33	0.004209
S	1162	P1162T	Cca	Aca	10	10	B.1.1.7	0.000009
S	1162	P1162del	CCA	---	10	10	B.1.177	0.000132
S	1162	P1162L	cCa	cTa	10	10	B.1.177.60	0.002184
S	1162	P1162L	cCa	cTa	10	10	B.1.243	0.000696
S	1162	P1162S	Cca	Tca	10	10	C.37	0.001161
S	1162	P1162S	Cca	Tca	10	10	R.1	0.0009
S	1162	P1162S	Cca	Tca	9	9	AY.114	0.00208
S	1162	P1162S	Cca	Tca	9	9	AY.120	0.000335
S	1162	P1162P	ccA	ccT	6	9	AY.20	0.000233
S	1162	P1162P	ccA	ccC	2	9	AY.20	0.000078
S	1162	P1162P	ccA	ccG	1	9	AY.20	0.000039
S	1162	P1162L	cCa	cTa	9	9	AY.23	0.000628
S	1162	P1162S	Cca	Tca	9	9	AY.35	0.002097
S	1162	P1162T	Cca	Aca	9	9	AY.4	0.000014
S	1162	P1162P	ccA	ccT	6	9	AY.4	0.000009
S	1162	P1162P	ccA	ccG	3	9	AY.4	0.000005
S	1162	P1162S	Cca	Tca	9	9	AY.4.5	0.000967
S	1162	P1162L	cCa	cTa	9	9	AY.84	0.003937
S	1162	P1162S	Cca	Tca	9	9	AY.9.2	0.000331
S	1162	P1162S	Cca	Tca	9	9	AY.98.1	0.000436
S	1162	P1162S	Cca	Tca	9	9	B.1.221	0.000639
S	1162	P1162S	Cca	Tca	9	9	B.1.466.2	0.003521
S	1162	P1162P	ccA	ccT	9	9	B.40	0.003279
S	1162	P1162S	Cca	Tca	9	9	Q.3	0.001305
S	1162	P1162L	cCa	cTa	8	8	AY.24	0.003448
S	1162	P1162L	cCa	cTa	8	8	AY.27	0.000518
S	1162	P1162P	ccA	ccG	7	8	AY.43	0.000031
S	1162	P1162P	ccA	ccT	1	8	AY.43	0.000004
S	1162	P1162S	Cca	Tca	8	8	AY.45	0.000973
S	1162	P1162L	cCa	cTa	8	8	B.1.1.222	0.001632
S	1162	P1162R	cCa	cGa	8	8	B.1.177	0.000105
S	1162	P1162L	cCa	cTa	8	8	B.1.258	0.000532
S	1162	P1162S	Cca	Tca	8	8	B.1.427	0.000404
S	1162	P1162T	Cca	Aca	8	8	B.1.637	0.000585
S	1162	P1162L	cCa	cTa	8	8	C.37	0.000929
S	1162	P1162del1	ccA	cc-	4	7	All	0.000001
S	1162	P1162del1	Cca	-ca	3	7	All	0.000001
S	1162	P1162S	Cca	Tca	7	7	AY.118	0.000439
S	1162	P1162S	Cca	Tca	7	7	AY.20	0.000272
S	1162	P1162S	Cca	Tca	7	7	AY.23	0.000488
S	1162	P1162A	Cca	Gca	7	7	AY.25	0.000042
S	1162	P1162L	cCa	cTa	7	7	AY.42	0.000282
S	1162	P1162L	cCa	cTa	7	7	AY.45	0.000852
S	1162	P1162L	cCa	cTa	7	7	AY.48	0.003256
S	1162	P1162L	cCa	cTa	7	7	B.1.1.277	0.005311
S	1162	P1162S	Cca	Tca	7	7	B.1.1.385	0.03125
S	1162	P1162L	cCa	cTa	7	7	B.1.177.4	0.001477
S	1162	P1162L	cCa	cTa	7	7	B.1.177.52	0.012302
S	1162	P1162L	cCa	cTa	7	7	B.1.596	0.00061
S	1162	P1162S	Cca	Tca	7	7	B.1.612	0.018568
S	1162	P1162L	cCa	cTa	7	7	B.1.617.1	0.000903
S	1162	P1162S	Cca	Tca	7	7	B.1.628	0.002467
S	1162	P1162L	cCa	cTa	7	7	P.2	0.001306
S	1162	P1162S	Cca	Tca	7	7	Q.4	0.003183
S	1162	P1162T	Cca	Aca	6	6	A.19	0.056604
S	1162	P1162L	cCa	cTa	6	6	AY.120.2	0.007712
S	1162	P1162L	cCa	cTa	6	6	AY.121	0.000812
S	1162	P1162P	ccA	ccG	3	6	AY.3	0.00003
S	1162	P1162P	ccA	ccT	3	6	AY.3	0.00003
S	1162	P1162L	cCa	cTa	6	6	AY.34	0.000582
S	1162	P1162L	cCa	cTa	6	6	AY.35	0.001398
S	1162	P1162S	Cca	Tca	6	6	AY.37	0.001896
S	1162	P1162Q	cCa	cAa	6	6	AY.4	0.000009
S	1162	P1162L	cCa	cTa	6	6	AY.4.2	0.00013
S	1162	P1162L	cCa	cTa	6	6	AY.46	0.000624
S	1162	P1162S	Cca	Tca	6	6	AY.5.4	0.00166
S	1162	P1162R	cCa	cGa	6	6	B.1	0.000055
S	1162	P1162S	Cca	Tca	6	6	B.1.1.368	0.018519
S	1162	P1162L	cCa	cTa	6	6	B.1.1.39	0.003058
S	1162	P1162A	Cca	Gca	6	6	B.1.1.7	0.000005
S	1162	P1162P	ccA	ccG	6	6	B.1.2	0.000053
S	1162	P1162S	Cca	Tca	6	6	B.1.221.3	0.005
S	1162	P1162L	cCa	cTa	6	6	B.1.234	0.000792
S	1162	P1162S	Cca	Tca	6	6	B.1.239	0.007326
S	1162	P1162L	cCa	cTa	6	6	B.1.400	0.002574
S	1162	P1162P	ccA	ccG	6	6	B.1.526	0.000141
S	1162	P1162L	cCa	cTa	6	6	B.40	0.002186
S	1162	P1162S	Cca	Tca	6	6	C.1	0.014354
S	1162	P1162S	Cca	Tca	6	6	C.36.3	0.003403
S	1162	P1162S	Cca	Tca	6	6	D.2	0.00045
S	1162	P1162L	cCa	cTa	6	6	D.2	0.00045
S	1162	P1162L	cCa	cTa	6	6	Q.8	0.000989
S	1162	P1162S	Cca	Tca	5	5	AY.13	0.000805
S	1162	P1162L	cCa	cTa	5	5	AY.16	0.001898
S	1162	P1162S	Cca	Tca	5	5	AY.3.1	0.000426
S	1162	P1162Q	cCa	cAa	5	5	AY.3.1	0.000426
S	1162	P1162P	ccA	ccT	5	5	AY.33	0.000334
S	1162	P1162A	Cca	Gca	5	5	AY.4	0.000008
S	1162	P1162del	CCA	---	5	5	AY.4	0.000008
S	1162	P1162del	CCA	---	5	5	AY.4.5	0.000537
S	1162	P1162S	Cca	Tca	5	5	AY.41	0.00147
S	1162	P1162S	Cca	Tca	5	5	AY.46.4	0.000823
S	1162	P1162S	Cca	Tca	5	5	AY.53	0.001438
S	1162	P1162S	Cca	Tca	5	5	AY.94	0.002213
S	1162	P1162T	Cca	Aca	5	5	AY.99.2	0.000461
S	1162	P1162A	Cca	Gca	5	5	B.1	0.000046
S	1162	P1162Q	cCa	cAa	5	5	B.1	0.000046
S	1162	P1162P	ccA	ccG	4	5	B.1.1	0.000073
S	1162	P1162P	ccA	ccT	1	5	B.1.1	0.000018
S	1162	P1162L	cCa	cTa	5	5	B.1.1.214	0.000277
S	1162	P1162S	Cca	Tca	5	5	B.1.1.28	0.001556
S	1162	P1162L	cCa	cTa	5	5	B.1.1.63	0.001929
S	1162	P1162S	Cca	Tca	5	5	B.1.177.21	0.000382
S	1162	P1162L	cCa	cTa	5	5	B.1.340	0.021459
S	1162	P1162S	Cca	Tca	5	5	B.1.36	0.00073
S	1162	P1162S	Cca	Tca	5	5	B.1.36.10	0.023923
S	1162	P1162S	Cca	Tca	5	5	B.1.617.1	0.000645
S	1162	P1162L	cCa	cTa	5	5	N.5	0.008834
S	1162	P1162S	Cca	Tca	5	5	P.2	0.000933
S	1162	P1162S	Cca	Tca	5	5	W.4	0.006757
S	1162	P1162P	ccA	ccG	2	4	AY.103	0.000012
S	1162	P1162P	ccA	ccT	2	4	AY.103	0.000012
S	1162	P1162L	cCa	cTa	4	4	AY.116.1	0.001246
S	1162	P1162S	Cca	Tca	4	4	AY.38	0.001997
S	1162	P1162A	Cca	Gca	4	4	AY.39	0.000099
S	1162	P1162R	cCa	cGa	4	4	AY.43	0.000018
S	1162	P1162R	cCa	cGa	4	4	AY.44	0.000024
S	1162	P1162L	cCa	cTa	4	4	AY.46.6	0.000289
S	1162	P1162S	Cca	Tca	4	4	AY.5.3	0.00135
S	1162	P1162L	cCa	cTa	4	4	AY.54	0.000381
S	1162	P1162P	ccA	ccT	4	4	AY.61	0.000419
S	1162	P1162L	cCa	cTa	4	4	AY.75.1	0.000721
S	1162	P1162S	Cca	Tca	4	4	AY.87	0.003331
S	1162	P1162L	cCa	cTa	4	4	AY.9	0.00027
S	1162	P1162L	cCa	cTa	4	4	AY.9.1	0.000335
S	1162	P1162L	cCa	cTa	4	4	AY.92	0.001149
S	1162	P1162L	cCa	cTa	4	4	AY.93	0.001092
S	1162	P1162L	cCa	cTa	4	4	AY.98.1	0.000194
S	1162	P1162S	Cca	Tca	4	4	B.1.1.153	0.004381
S	1162	P1162L	cCa	cTa	4	4	B.1.1.207	0.004728
S	1162	P1162S	Cca	Tca	4	4	B.1.1.216	0.003562
S	1162	P1162L	cCa	cTa	4	4	B.1.221	0.000284
S	1162	P1162P	ccA	ccG	4	4	B.1.221	0.000284
S	1162	P1162S	Cca	Tca	4	4	B.1.234	0.000528
S	1162	P1162P	ccA	ccG	4	4	B.1.351	0.000119
S	1162	P1162L	cCa	cTa	4	4	B.1.36.29	0.002069
S	1162	P1162L	cCa	cTa	4	4	B.1.369	0.001141
S	1162	P1162S	Cca	Tca	4	4	B.1.501	0.029412
S	1162	P1162S	Cca	Tca	4	4	B.1.523	0.009804
S	1162	P1162A	Cca	Gca	4	4	B.1.617.2	0.000015
S	1162	P1162T	Cca	Aca	4	4	P.1	0.000063
S	1162	P1162P	ccA	ccC	2	4	P.1	0.000032
S	1162	P1162P	ccA	ccG	1	4	P.1	0.000016
S	1162	P1162P	ccA	ccT	1	4	P.1	0.000016
S	1162	P1162L	cCa	cTa	4	4	Q.1	0.000505
S	1162	P1162L	cCa	cTa	2	3		0.111111
S	1162	P1162L	cCA	cTT	1	3		0.055556
S	1162	P1162L	cCa	cTa	3	3	AY.1	0.001187
S	1162	P1162L	cCa	cTa	3	3	AY.110	0.000338
S	1162	P1162S	Cca	Tca	3	3	AY.110	0.000338
S	1162	P1162L	cCa	cTa	3	3	AY.111	0.000549
S	1162	P1162L	cCa	cTa	3	3	AY.113	0.000427
S	1162	P1162S	Cca	Tca	3	3	AY.113	0.000427
S	1162	P1162L	cCa	cTa	3	3	AY.114	0.000693
S	1162	P1162A	Cca	Gca	3	3	AY.115	0.015625
S	1162	P1162L	cCa	cTa	3	3	AY.117	0.000254
S	1162	P1162P	ccA	ccG	2	3	AY.119	0.000071
S	1162	P1162P	ccA	ccT	1	3	AY.119	0.000035
S	1162	P1162L	cCa	cTa	3	3	AY.13	0.000483
S	1162	P1162P	ccA	ccG	3	3	AY.16	0.001139
S	1162	P1162Q	cCa	cAa	3	3	AY.25	0.000018
S	1162	P1162P	ccA	ccC	2	3	AY.26	0.000057
S	1162	P1162P	ccA	ccG	1	3	AY.26	0.000028
S	1162	P1162L	cCa	cTa	3	3	AY.34.1	0.00153
S	1162	P1162S	Cca	Tca	3	3	AY.36	0.000445
S	1162	P1162S	Cca	Tca	3	3	AY.39.1	0.000119
S	1162	P1162L	cCa	cTa	3	3	AY.40	0.002893
S	1162	P1162T	Cca	Aca	3	3	AY.43	0.000013
S	1162	P1162S	Cca	Tca	3	3	AY.46	0.000312
S	1162	P1162S	Cca	Tca	3	3	AY.46.2	0.001906
S	1162	P1162L	cCa	cTa	3	3	AY.5.4	0.00083
S	1162	P1162S	Cca	Tca	3	3	AY.54	0.000286
S	1162	P1162S	Cca	Tca	3	3	AY.68	0.000821
S	1162	P1162L	cCa	cTa	3	3	AY.74	0.000347
S	1162	P1162S	Cca	Tca	3	3	AY.75	0.000168
S	1162	P1162T	Cca	Aca	3	3	AY.75	0.000168
S	1162	P1162L	cCa	cTa	3	3	AY.77	0.003382
S	1162	P1162S	Cca	Tca	3	3	AY.84	0.001312
S	1162	P1162P	ccA	ccC	3	3	AY.98.1	0.000145
S	1162	P1162S	Cca	Tca	3	3	AY.99	0.003148
S	1162	P1162S	Cca	Tca	3	3	AZ.2	0.002463
S	1162	P1162L	cCa	cTa	3	3	B.1.1.10	0.003344
S	1162	P1162S	Cca	Tca	3	3	B.1.1.263	0.004673
S	1162	P1162P	ccA	ccG	3	3	B.1.1.277	0.002276
S	1162	P1162S	Cca	Tca	3	3	B.1.1.306	0.001315
S	1162	P1162P	ccA	ccG	3	3	B.1.1.316	0.002775
S	1162	P1162L	cCa	cTa	3	3	B.1.1.317	0.001235
S	1162	P1162P	ccA	ccG	3	3	B.1.1.339	0.031579
S	1162	P1162S	Cca	Tca	3	3	B.1.1.523	0.004687
S	1162	P1162S	Cca	Tca	3	3	B.1.1.63	0.001157
S	1162	P1162L	cCa	cTa	3	3	B.1.1.70	0.001023
S	1162	P1162S	Cca	Tca	3	3	B.1.1.70	0.001023
S	1162	P1162S	Cca	Tca	3	3	B.1.110.3	0.002155
S	1162	P1162S	Cca	Tca	3	3	B.1.157	0.008955
S	1162	P1162L	cCa	cTa	3	3	B.1.177.10	0.002634
S	1162	P1162L	cCa	cTa	3	3	B.1.177.44	0.001557
S	1162	P1162L	cCa	cTa	3	3	B.1.177.50	0.014085
S	1162	P1162L	cCa	cTa	3	3	B.1.177.56	0.002003
S	1162	P1162S	Cca	Tca	3	3	B.1.177.56	0.002003
S	1162	P1162S	Cca	Tca	3	3	B.1.240	0.000647
S	1162	P1162S	Cca	Tca	3	3	B.1.258	0.0002
S	1162	P1162L	cCa	cTa	3	3	B.1.36	0.000438
S	1162	P1162S	Cca	Tca	3	3	B.1.36.1	0.003421
S	1162	P1162L	cCa	cTa	3	3	B.1.396	0.002117
S	1162	P1162P	ccA	ccG	3	3	B.1.429.1	0.036145
S	1162	P1162L	CCa	TTa	3	3	B.1.538	0.024194
S	1162	P1162S	Cca	Tca	3	3	B.1.564	0.001278
S	1162	P1162L	cCa	cTa	3	3	B.1.582	0.001472
S	1162	P1162L	cCa	cTa	3	3	B.1.595	0.000783
S	1162	P1162R	cCa	cGa	3	3	B.1.617.2	0.000011
S	1162	P1162L	cCa	cTa	3	3	B.1.621	0.000266
S	1162	P1162S	Cca	Tca	3	3	B.1.623	0.001609
S	1162	P1162L	cCa	cTa	3	3	C.4	0.03
S	1162	P1162R	cCa	cGa	3	3	P.1	0.000047
S	1162	P1162S	Cca	Tca	3	3	P.1.15	0.000697
S	1162	P1162V	CCA	GTT	1	2		0.055556
S	1162	P1162V	CCa	GTa	1	2		0.055556
S	1162	P1162A	Cca	Gca	1	2		0.055556
S	1162	P1162A	CcA	GcT	1	2		0.055556
S	1162	P1162S	Cca	Tca	2	2	A	0.000774
S	1162	P1162S	Cca	Tca	2	2	A.1	0.000564
S	1162	P1162S	Cca	Tca	2	2	A.29	0.010638
S	1162	P1162P	ccA	ccT	2	2	A.29	0.010638
S	1162	P1162L	cCa	cTa	2	2	AD.2	0.000438
S	1162	P1162L	cCa	cTa	2	2	AE.8	0.000978
S	1162	P1162V	CCa	GTa	1	2	All	0
S	1162	P1162V	CCA	GTT	1	2	All	0
S	1162	P1162P	ccA	ccG	2	2	AY.100	0.000092
S	1162	P1162A	Cca	Gca	2	2	AY.102	0.000053
S	1162	P1162S	Cca	Tca	2	2	AY.106	0.00067
S	1162	P1162L	cCa	cTa	2	2	AY.106	0.00067
S	1162	P1162S	Cca	Tca	2	2	AY.109	0.001479
S	1162	P1162del	CCA	---	2	2	AY.111	0.000366
S	1162	P1162L	cCa	cTa	2	2	AY.115	0.010417
S	1162	P1162del	CCA	---	2	2	AY.120	0.000074
S	1162	P1162L	cCa	cTa	2	2	AY.120	0.000074
S	1162	P1162L	cCa	cTa	2	2	AY.120.2.1	0.000997
S	1162	P1162S	Cca	Tca	2	2	AY.14	0.000176
S	1162	P1162L	cCa	cTa	2	2	AY.16.1	0.00094
S	1162	P1162del	CCA	---	2	2	AY.19	0.002281
S	1162	P1162T	Cca	Aca	2	2	AY.26	0.000057
S	1162	P1162S	Cca	Tca	2	2	AY.27	0.000129
S	1162	P1162P	ccA	ccG	1	2	AY.29	0.000016
S	1162	P1162P	ccA	ccT	1	2	AY.29	0.000016
S	1162	P1162R	cCa	cGa	2	2	AY.3	0.00002
S	1162	P1162L	cCa	cTa	2	2	AY.30	0.000791
S	1162	P1162S	Cca	Tca	2	2	AY.32	0.001065
S	1162	P1162L	cCa	cTa	2	2	AY.36	0.000296
S	1162	P1162L	cCa	cTa	2	2	AY.37	0.000632
S	1162	P1162L	cCa	cTa	2	2	AY.38	0.000999
S	1162	P1162L	cCa	cTa	2	2	AY.4.5	0.000215
S	1162	P1162T	Cca	Aca	2	2	AY.41	0.000588
S	1162	P1162del	CCA	---	2	2	AY.43	0.000009
S	1162	P1162L	cCa	cTa	2	2	AY.51	0.001818
S	1162	P1162S	Cca	Tca	2	2	AY.52	0.001629
S	1162	P1162S	Cca	Tca	2	2	AY.55	0.001835
S	1162	P1162P	ccA	ccT	2	2	AY.6	0.000082
S	1162	P1162S	Cca	Tca	2	2	AY.62	0.000871
S	1162	P1162L	cCa	cTa	2	2	AY.63	0.000774
S	1162	P1162S	Cca	Tca	2	2	AY.7	0.000392
S	1162	P1162S	Cca	Tca	2	2	AY.72	0.002721
S	1162	P1162L	cCa	cTa	2	2	AY.75	0.000112
S	1162	P1162S	Cca	Tca	2	2	AY.75.1	0.000361
S	1162	P1162S	Cca	Tca	2	2	AY.89	0.009804
S	1162	P1162P	ccA	ccT	2	2	AY.9	0.000135
S	1162	P1162T	Cca	Aca	2	2	AY.93	0.000546
S	1162	P1162S	Cca	Tca	2	2	AY.95	0.001522
S	1162	P1162L	cCa	cTa	2	2	AY.98	0.000158
S	1162	P1162S	Cca	Tca	2	2	B	0.000256
S	1162	P1162S	Cca	Tca	2	2	B.1.1.1	0.000653
S	1162	P1162L	cCa	cTa	2	2	B.1.1.118	0.020408
S	1162	P1162L	cCa	cTa	2	2	B.1.1.133	0.016949
S	1162	P1162S	Cca	Tca	2	2	B.1.1.189	0.003026
S	1162	P1162L	cCa	cTa	2	2	B.1.1.189	0.003026
S	1162	P1162L	cCa	cTa	2	2	B.1.1.220	0.003717
S	1162	P1162S	Cca	Tca	2	2	B.1.1.279	0.002242
S	1162	P1162L	cCa	cTa	2	2	B.1.1.318	0.000604
S	1162	P1162S	Cca	Tca	2	2	B.1.1.34	0.026316
S	1162	P1162P	ccA	ccG	2	2	B.1.1.348	0.001592
S	1162	P1162L	cCa	cTa	2	2	B.1.1.448	0.004065
S	1162	P1162L	cCa	cTa	2	2	B.1.1.486	0.003155
S	1162	P1162S	Cca	Tca	2	2	B.1.1.50	0.001358
S	1162	P1162S	Cca	Tca	2	2	B.1.1.52	0.02439
S	1162	P1162P	ccA	ccT	2	2	B.1.1.528	0.009615
S	1162	P1162P	ccA	ccG	2	2	B.1.1.63	0.000772
S	1162	P1162L	cCa	cTa	2	2	B.1.108	0.011628
S	1162	P1162L	cCa	cTa	2	2	B.1.157	0.00597
S	1162	P1162R	cCa	cGa	2	2	B.1.160	0.000062
S	1162	P1162S	Cca	Tca	2	2	B.1.160.26	0.004843
S	1162	P1162S	Cca	Tca	2	2	B.1.177.12	0.000303
S	1162	P1162S	Cca	Tca	2	2	B.1.177.17	0.001642
S	1162	P1162S	Cca	Tca	2	2	B.1.177.7	0.00033
S	1162	P1162S	Cca	Tca	2	2	B.1.177.73	0.001133
S	1162	P1162L	cCa	cTa	2	2	B.1.177.81	0.000379
S	1162	P1162Q	cCa	cAa	2	2	B.1.221	0.000142
S	1162	P1162L	cCa	cTa	2	2	B.1.232	0.001075
S	1162	P1162L	cCa	cTa	2	2	B.1.240	0.000431
S	1162	P1162P	ccA	ccG	2	2	B.1.243	0.000139
S	1162	P1162S	Cca	Tca	2	2	B.1.311	0.000549
S	1162	P1162Q	cCa	cAa	2	2	B.1.320	0.002491
S	1162	P1162P	ccA	ccG	2	2	B.1.36	0.000292
S	1162	P1162P	ccA	ccG	2	2	B.1.378	0.013699
S	1162	P1162L	cCa	cTa	2	2	B.1.389	0.002004
S	1162	P1162L	cCa	cTa	2	2	B.1.409	0.001563
S	1162	P1162P	ccA	ccT	2	2	B.1.466.2	0.000782
S	1162	P1162S	Cca	Tca	2	2	B.1.471	0.005464
S	1162	P1162A	Cca	Gca	2	2	B.1.526	0.000047
S	1162	P1162S	Cca	Tca	2	2	B.1.544	0.012048
S	1162	P1162L	cCa	cTa	2	2	B.1.560	0.009259
S	1162	P1162L	cCa	cTa	2	2	B.1.568	0.002222
S	1162	P1162S	Cca	Tca	2	2	B.1.575	0.000607
S	1162	P1162L	cCa	cTa	2	2	B.1.577	0.001375
S	1162	P1162R	cCa	cGa	2	2	B.1.595	0.000522
S	1162	P1162T	Cca	Aca	2	2	B.1.617.2	0.000008
S	1162	P1162P	ccA	ccG	2	2	B.1.621	0.000177
S	1162	P1162S	Cca	Tca	2	2	B.1.627	0.00404
S	1162	P1162L	cCa	cTa	2	2	B.1.628	0.000705
S	1162	P1162S	Cca	Tca	2	2	B.1.631	0.006734
S	1162	P1162L	cCa	cTa	2	2	B.47	0.040816
S	1162	P1162S	Cca	Tca	2	2	C.35	0.001548
S	1162	P1162L	cCa	cTa	2	2	N.9	0.011905
S	1162	P1162L	cCa	cTa	2	2	P.1.10	0.000539
S	1162	P1162L	cCa	cTa	2	2	P.1.12	0.000968
S	1162	P1162L	cCa	cTa	2	2	P.1.17	0.000324
S	1162	P1162S	Cca	Tca	2	2	P.1.7	0.000639
S	1162	P1162L	cCa	cTa	2	2	P.1.7	0.000639
S	1162	P1162S	Cca	Tca	2	2	P.3	0.00319
S	1162	P1162L	cCa	cTa	2	2	P.5	0.027397
S	1162	P1162S	Cca	Tca	2	2	P.7	0.008734
S	1162	P1162Q	cCa	cAa	2	2	R.1	0.00018
S	1162	P1162L	cCa	cTa	2	2	R.1	0.00018
S	1162	P1162P	ccA	ccT	1	1		0.055556
S	1162	P1162P	ccA	ccT	1	1	A.1	0.000282
S	1162	P1162L	cCa	cTa	1	1	A.18	0.05
S	1162	P1162L	cCa	cTa	1	1	A.2.2	0.001689
S	1162	P1162S	Cca	Tca	1	1	A.2.5.1	0.004808
S	1162	P1162P	ccA	ccC	1	1	A.28	0.002646
S	1162	P1162L	cCa	cTa	1	1	A.6	0.005128
S	1162	P1162S	Cca	Tca	1	1	AE.8	0.000489
S	1162	P1162S	Cca	Tca	1	1	AH.3	0.003802
S	1162	P1162K	CCa	AAa	1	1	All	0
S	1162	P1162S	Cca	Tca	1	1	AS.1	0.009524
S	1162	P1162P	ccA	ccG	1	1	AY.1	0.000396
S	1162	P1162L	cCa	cTa	1	1	AY.10	0.00053
S	1162	P1162R	cCa	cGa	1	1	AY.100	0.000046
S	1162	P1162S	Cca	Tca	1	1	AY.101	0.00049
S	1162	P1162P	ccA	ccT	1	1	AY.101	0.00049
S	1162	P1162L	cCa	cTa	1	1	AY.101	0.00049
S	1162	P1162Q	cCa	cAa	1	1	AY.102	0.000027
S	1162	P1162S	Cca	Tca	1	1	AY.104	0.001984
S	1162	P1162L	cCa	cTa	1	1	AY.105	0.000643
S	1162	P1162S	Cca	Tca	1	1	AY.107	0.000466
S	1162	P1162P	ccA	ccG	1	1	AY.108	0.001103
S	1162	P1162L	cCa	cTa	1	1	AY.108	0.001103
S	1162	P1162L	cCa	cTa	1	1	AY.109	0.00074
S	1162	P1162A	Cca	Gca	1	1	AY.110	0.000113
S	1162	P1162S	Cca	Tca	1	1	AY.111	0.000183
S	1162	P1162P	ccA	ccG	1	1	AY.111	0.000183
S	1162	P1162P	ccA	ccG	1	1	AY.117	0.000085
S	1162	P1162R	cCa	cGa	1	1	AY.117	0.000085
S	1162	P1162del	CCA	---	1	1	AY.118	0.000063
S	1162	P1162L	cCa	cTa	1	1	AY.12	0.000316
S	1162	P1162S	Cca	Tca	1	1	AY.12	0.000316
S	1162	P1162P	ccA	ccG	1	1	AY.120	0.000037
S	1162	P1162R	cCa	cGa	1	1	AY.120	0.000037
S	1162	P1162A	Cca	Gca	1	1	AY.120	0.000037
S	1162	P1162R	cCa	cGa	1	1	AY.14	0.000088
S	1162	P1162S	Cca	Tca	1	1	AY.16	0.00038
S	1162	P1162S	Cca	Tca	1	1	AY.16.1	0.00047
S	1162	P1162L	cCa	cTa	1	1	AY.19	0.00114
S	1162	P1162A	Cca	Gca	1	1	AY.20	0.000039
S	1162	P1162L	cCa	cTa	1	1	AY.21	0.001898
S	1162	P1162L	cCa	cTa	1	1	AY.23.1	0.000417
S	1162	P1162A	Cca	Gca	1	1	AY.23.1	0.000417
S	1162	P1162R	cCa	cGa	1	1	AY.25	0.000006
S	1162	P1162del1	ccA	cc-	1	1	AY.26	0.000028
S	1162	P1162Q	cCa	cAa	1	1	AY.26	0.000028
S	1162	P1162T	Cca	Aca	1	1	AY.27	0.000065
S	1162	P1162T	Cca	Aca	1	1	AY.29	0.000016
S	1162	P1162S	Cca	Tca	1	1	AY.29.1	0.000221
S	1162	P1162T	Cca	Aca	1	1	AY.3.1	0.000085
S	1162	P1162del	CCA	---	1	1	AY.30	0.000396
S	1162	P1162S	Cca	Tca	1	1	AY.31	0.018519
S	1162	P1162L	cCa	cTa	1	1	AY.32	0.000532
S	1162	P1162Q	cCa	cAa	1	1	AY.34	0.000097
S	1162	P1162S	Cca	Tca	1	1	AY.34	0.000097
S	1162	P1162P	ccA	ccG	1	1	AY.38	0.000499
S	1162	P1162L	cCa	cTa	1	1	AY.39.1	0.00004
S	1162	P1162S	Cca	Tca	1	1	AY.39.2	0.001541
S	1162	P1162L	cCa	cTa	1	1	AY.4.1	0.000737
S	1162	P1162Q	cCa	cAa	1	1	AY.4.2	0.000022
S	1162	P1162P	ccA	ccC	1	1	AY.4.2	0.000022
S	1162	P1162del1	ccA	cc-	1	1	AY.4.2.1	0.000149
S	1162	P1162P	ccA	ccT	1	1	AY.4.2.1	0.000149
S	1162	P1162P	ccA	ccT	1	1	AY.4.5	0.000107
S	1162	P1162P	ccA	ccG	1	1	AY.42	0.00004
S	1162	P1162Q	cCa	cAa	1	1	AY.43	0.000004
S	1162	P1162A	Cca	Gca	1	1	AY.44	0.000006
S	1162	P1162P	ccA	ccT	1	1	AY.45	0.000122
S	1162	P1162T	Cca	Aca	1	1	AY.45	0.000122
S	1162	P1162S	Cca	Tca	1	1	AY.46.1	0.001027
S	1162	P1162L	cCa	cTa	1	1	AY.46.2	0.000635
S	1162	P1162Q	cCa	cAa	1	1	AY.46.4	0.000165
S	1162	P1162L	cCa	cTa	1	1	AY.46.4	0.000165
S	1162	P1162S	Cca	Tca	1	1	AY.46.5	0.000198
S	1162	P1162T	Cca	Aca	1	1	AY.47	0.000031
S	1162	P1162del	CCA	---	1	1	AY.5	0.000021
S	1162	P1162Q	cCa	cAa	1	1	AY.5	0.000021
S	1162	P1162S	Cca	Tca	1	1	AY.5.2	0.002463
S	1162	P1162P	ccA	ccG	1	1	AY.50	0.000799
S	1162	P1162L	cCa	cTa	1	1	AY.56	0.001605
S	1162	P1162R	cCa	cGa	1	1	AY.57	0.000656
S	1162	P1162S	Cca	Tca	1	1	AY.57	0.000656
S	1162	P1162L	cCa	cTa	1	1	AY.58	0.000907
S	1162	P1162S	Cca	Tca	1	1	AY.58	0.000907
S	1162	P1162A	Cca	Gca	1	1	AY.58	0.000907
S	1162	P1162T	Cca	Aca	1	1	AY.6	0.000041
S	1162	P1162S	Cca	Tca	1	1	AY.6	0.000041
S	1162	P1162del	CCA	---	1	1	AY.6	0.000041
S	1162	P1162del	CCA	---	1	1	AY.60	0.000938
S	1162	P1162S	Cca	Tca	1	1	AY.60	0.000938
S	1162	P1162L	cCa	cTa	1	1	AY.65	0.000533
S	1162	P1162P	ccA	ccG	1	1	AY.66	0.00107
S	1162	P1162A	Cca	Gca	1	1	AY.67	0.000464
S	1162	P1162P	ccA	ccG	1	1	AY.7	0.000196
S	1162	P1162Q	cCa	cAa	1	1	AY.7	0.000196
S	1162	P1162S	Cca	Tca	1	1	AY.70	0.000209
S	1162	P1162L	cCa	cTa	1	1	AY.72	0.001361
S	1162	P1162L	cCa	cTa	1	1	AY.73	0.000665
S	1162	P1162P	ccA	ccT	1	1	AY.73	0.000665
S	1162	P1162R	cCa	cGa	1	1	AY.74	0.000116
S	1162	P1162P	ccA	ccT	1	1	AY.75	0.000056
S	1162	P1162A	Cca	Gca	1	1	AY.75.1	0.00018
S	1162	P1162L	cCa	cTa	1	1	AY.8	0.000606
S	1162	P1162L	cCa	cTa	1	1	AY.80	0.001129
S	1162	P1162del	CCA	---	1	1	AY.81	0.001992
S	1162	P1162P	ccA	ccG	1	1	AY.85	0.000427
S	1162	P1162del	CCA	---	1	1	AY.85	0.000427
S	1162	P1162R	cCa	cGa	1	1	AY.85	0.000427
S	1162	P1162L	cCa	cTa	1	1	AY.85	0.000427
S	1162	P1162S	Cca	Tca	1	1	AY.88	0.000884
S	1162	P1162del	CCA	---	1	1	AY.9	0.000068
S	1162	P1162A	Cca	Gca	1	1	AY.9.1	0.000084
S	1162	P1162L	cCa	cTa	1	1	AY.9.2	0.000037
S	1162	P1162del	CCA	---	1	1	AY.9.2	0.000037
S	1162	P1162L	cCa	cTa	1	1	AY.90	0.000684
S	1162	P1162S	Cca	Tca	1	1	AY.90	0.000684
S	1162	P1162S	Cca	Tca	1	1	AY.91	0.00073
S	1162	P1162P	ccA	ccT	1	1	AY.99.2	0.000092
S	1162	P1162S	Cca	Tca	1	1	AZ.3	0.00152
S	1162	P1162P	ccA	ccT	1	1	B	0.000128
S	1162	P1162R	cCa	cGa	1	1	B	0.000128
S	1162	P1162T	Cca	Aca	1	1	B	0.000128
S	1162	P1162del	CCA	---	1	1	B.1	0.000009
S	1162	P1162T	Cca	Aca	1	1	B.1	0.000009
S	1162	P1162K	CCa	AAa	1	1	B.1	0.000009
S	1162	P1162del1	Cca	-ca	1	1	B.1	0.000009
S	1162	P1162R	cCa	cGa	1	1	B.1.1	0.000018
S	1162	P1162del1	ccA	cc-	1	1	B.1.1	0.000018
S	1162	P1162A	Cca	Gca	1	1	B.1.1	0.000018
S	1162	P1162L	cCa	cTa	1	1	B.1.1.1	0.000327
S	1162	P1162S	Cca	Tca	1	1	B.1.1.129	0.009174
S	1162	P1162del	CCA	---	1	1	B.1.1.159	0.004673
S	1162	P1162S	Cca	Tca	1	1	B.1.1.161	0.003534
S	1162	P1162S	Cca	Tca	1	1	B.1.1.171	0.003676
S	1162	P1162P	ccA	ccG	1	1	B.1.1.191	0.004762
S	1162	P1162S	Cca	Tca	1	1	B.1.1.207	0.001182
S	1162	P1162del	CCA	---	1	1	B.1.1.236	0.006897
S	1162	P1162Q	cCa	cAa	1	1	B.1.1.25	0.000569
S	1162	P1162S	Cca	Tca	1	1	B.1.1.253	0.002506
S	1162	P1162L	cCa	cTa	1	1	B.1.1.27	0.00565
S	1162	P1162S	Cca	Tca	1	1	B.1.1.284	0.000107
S	1162	P1162L	cCa	cTa	1	1	B.1.1.294	0.001266
S	1162	P1162L	cCa	cTa	1	1	B.1.1.300	0.010753
S	1162	P1162L	cCa	cTa	1	1	B.1.1.302	0.002075
S	1162	P1162L	cCa	cTa	1	1	B.1.1.306	0.000438
S	1162	P1162L	cCa	cTa	1	1	B.1.1.311	0.000358
S	1162	P1162S	Cca	Tca	1	1	B.1.1.317	0.000412
S	1162	P1162S	Cca	Tca	1	1	B.1.1.325	0.025641
S	1162	P1162L	cCa	cTa	1	1	B.1.1.329	0.003846
S	1162	P1162L	cCa	cTa	1	1	B.1.1.33	0.000421
S	1162	P1162S	Cca	Tca	1	1	B.1.1.333	0.001076
S	1162	P1162S	Cca	Tca	1	1	B.1.1.338	0.017241
S	1162	P1162L	cCa	cTa	1	1	B.1.1.37	0.000193
S	1162	P1162L	cCa	cTa	1	1	B.1.1.372	0.000689
S	1162	P1162S	Cca	Tca	1	1	B.1.1.372	0.000689
S	1162	P1162L	cCa	cTa	1	1	B.1.1.389	0.006061
S	1162	P1162P	ccA	ccG	1	1	B.1.1.39	0.00051
S	1162	P1162L	cCa	cTa	1	1	B.1.1.396	0.045455
S	1162	P1162L	cCa	cTa	1	1	B.1.1.397	0.002252
S	1162	P1162L	cCa	cTa	1	1	B.1.1.417	0.002703
S	1162	P1162S	Cca	Tca	1	1	B.1.1.420	0.001006
S	1162	P1162R	cCa	cGa	1	1	B.1.1.432	0.001266
S	1162	P1162S	Cca	Tca	1	1	B.1.1.433	0.001425
S	1162	P1162S	Cca	Tca	1	1	B.1.1.434	0.000349
S	1162	P1162S	Cca	Tca	1	1	B.1.1.435	0.034483
S	1162	P1162S	Cca	Tca	1	1	B.1.1.51	0.001718
S	1162	P1162P	ccA	ccG	1	1	B.1.1.518	0.006329
S	1162	P1162Q	cCa	cAa	1	1	B.1.1.519	0.00004
S	1162	P1162L	cCa	cTa	1	1	B.1.1.526	0.003546
S	1162	P1162S	Cca	Tca	1	1	B.1.1.58	0.005376
S	1162	P1162del1	Cca	-ca	1	1	B.1.1.7	0.000001
S	1162	P1162S	Cca	Tca	1	1	B.1.1.8	0.003584
S	1162	P1162L	cCa	cTa	1	1	B.1.1.98	0.018519
S	1162	P1162S	Cca	Tca	1	1	B.1.111	0.001175
S	1162	P1162L	cCa	cTa	1	1	B.1.112	0.005181
S	1162	P1162L	cCa	cTa	1	1	B.1.118	0.006711
S	1162	P1162S	Cca	Tca	1	1	B.1.139	0.000733
S	1162	P1162L	cCa	cTa	1	1	B.1.160.22	0.006757
S	1162	P1162del	CCA	---	1	1	B.1.160.23	0.004831
S	1162	P1162S	Cca	Tca	1	1	B.1.160.32	0.004292
S	1162	P1162L	cCa	cTa	1	1	B.1.160.8	0.001289
S	1162	P1162L	cCa	cTa	1	1	B.1.166	0.008475
S	1162	P1162del1	Cca	-ca	1	1	B.1.177	0.000013
S	1162	P1162Q	cCa	cAa	1	1	B.1.177	0.000013
S	1162	P1162L	cCa	cTa	1	1	B.1.177.15	0.000631
S	1162	P1162S	Cca	Tca	1	1	B.1.177.16	0.000664
S	1162	P1162del	CCA	---	1	1	B.1.177.17	0.000821
S	1162	P1162R	cCa	cGa	1	1	B.1.177.21	0.000076
S	1162	P1162del	CCA	---	1	1	B.1.177.21	0.000076
S	1162	P1162S	Cca	Tca	1	1	B.1.177.23	0.003236
S	1162	P1162del	CCA	---	1	1	B.1.177.4	0.000211
S	1162	P1162S	Cca	Tca	1	1	B.1.177.4	0.000211
S	1162	P1162R	cCa	cGa	1	1	B.1.177.44	0.000519
S	1162	P1162S	Cca	Tca	1	1	B.1.177.45	0.000381
S	1162	P1162del	CCA	---	1	1	B.1.177.48	0.003125
S	1162	P1162T	Cca	Aca	1	1	B.1.177.5	0.001242
S	1162	P1162S	Cca	Tca	1	1	B.1.177.53	0.002392
S	1162	P1162del	CCA	---	1	1	B.1.177.54	0.000606
S	1162	P1162L	cCa	cTa	1	1	B.1.177.57	0.000281
S	1162	P1162S	Cca	Tca	1	1	B.1.177.57	0.000281
S	1162	P1162R	cCa	cGa	1	1	B.1.177.6	0.000977
S	1162	P1162S	Cca	Tca	1	1	B.1.177.60	0.000218
S	1162	P1162del	CCA	---	1	1	B.1.177.60	0.000218
S	1162	P1162L	cCa	cTa	1	1	B.1.177.65	0.000665
S	1162	P1162del	CCA	---	1	1	B.1.177.69	0.001484
S	1162	P1162L	CCa	TTa	1	1	B.1.177.7	0.000165
S	1162	P1162L	cCa	cTa	1	1	B.1.177.75	0.001041
S	1162	P1162L	cCa	cTa	1	1	B.1.177.79	0.002342
S	1162	P1162L	cCa	cTa	1	1	B.1.177.8	0.000752
S	1162	P1162S	Cca	Tca	1	1	B.1.177.81	0.000189
S	1162	P1162L	cCa	cTa	1	1	B.1.177.82	0.000477
S	1162	P1162S	Cca	Tca	1	1	B.1.177.87	0.000728
S	1162	P1162del	CCA	---	1	1	B.1.177.9	0.001332
S	1162	P1162L	cCa	cTa	1	1	B.1.181	0.019608
S	1162	P1162S	Cca	Tca	1	1	B.1.192	0.009259
S	1162	P1162S	Cca	Tca	1	1	B.1.195	0.005025
S	1162	P1162del1	ccA	cc-	1	1	B.1.2	0.000009
S	1162	P1162T	Cca	Aca	1	1	B.1.2	0.000009
S	1162	P1162Q	cCa	cAa	1	1	B.1.2	0.000009
S	1162	P1162S	Cca	Tca	1	1	B.1.214.2	0.0006
S	1162	P1162S	Cca	Tca	1	1	B.1.221.1	0.002907
S	1162	P1162del	CCA	---	1	1	B.1.221.1	0.002907
S	1162	P1162S	Cca	Tca	1	1	B.1.241	0.000812
S	1162	P1162P	ccA	ccG	1	1	B.1.258.11	0.000396
S	1162	P1162L	cCa	cTa	1	1	B.1.258.17	0.000104
S	1162	P1162S	Cca	Tca	1	1	B.1.265	0.001271
S	1162	P1162L	cCa	cTa	1	1	B.1.279	0.000514
S	1162	P1162L	cCa	cTa	1	1	B.1.3	0.002618
S	1162	P1162S	Cca	Tca	1	1	B.1.3	0.002618
S	1162	P1162L	cCa	cTa	1	1	B.1.311	0.000275
S	1162	P1162L	cCa	cTa	1	1	B.1.319	0.003049
S	1162	P1162L	cCa	cTa	1	1	B.1.324	0.001605
S	1162	P1162L	cCa	cTa	1	1	B.1.332	0.003497
S	1162	P1162L	cCa	cTa	1	1	B.1.336	0.002439
S	1162	P1162L	cCa	cTa	1	1	B.1.349	0.000715
S	1162	P1162S	Cca	Tca	1	1	B.1.351.3	0.000876
S	1162	P1162L	cCa	cTa	1	1	B.1.351.3	0.000876
S	1162	P1162S	Cca	Tca	1	1	B.1.356	0.001727
S	1162	P1162L	cCa	cTa	1	1	B.1.36.1	0.00114
S	1162	P1162S	Cca	Tca	1	1	B.1.36.16	0.001425
S	1162	P1162S	Cca	Tca	1	1	B.1.36.17	0.000494
S	1162	P1162L	cCa	cTa	1	1	B.1.36.18	0.00042
S	1162	P1162L	cCa	cTa	1	1	B.1.36.21	0.00216
S	1162	P1162L	cCa	cTa	1	1	B.1.36.22	0.001208
S	1162	P1162L	cCa	cTa	1	1	B.1.36.27	0.000763
S	1162	P1162S	Cca	Tca	1	1	B.1.36.29	0.000517
S	1162	P1162S	Cca	Tca	1	1	B.1.36.35	0.002604
S	1162	P1162L	cCa	cTa	1	1	B.1.36.38	0.001642
S	1162	P1162S	Cca	Tca	1	1	B.1.36.8	0.001
S	1162	P1162L	cCa	cTa	1	1	B.1.36.8	0.001
S	1162	P1162L	cCa	cTa	1	1	B.1.361	0.001289
S	1162	P1162S	Cca	Tca	1	1	B.1.362	0.001541
S	1162	P1162L	cCa	cTa	1	1	B.1.367	0.000792
S	1162	P1162P	ccA	ccT	1	1	B.1.369	0.000285
S	1162	P1162S	Cca	Tca	1	1	B.1.371	0.001122
S	1162	P1162L	cCa	cTa	1	1	B.1.375	0.00082
S	1162	P1162L	cCa	cTa	1	1	B.1.377	0.004566
S	1162	P1162P	ccA	ccG	1	1	B.1.381	0.007812
S	1162	P1162S	Cca	Tca	1	1	B.1.391	0.001127
S	1162	P1162T	Cca	Aca	1	1	B.1.391	0.001127
S	1162	P1162L	cCa	cTa	1	1	B.1.397	0.004854
S	1162	P1162S	Cca	Tca	1	1	B.1.400	0.000429
S	1162	P1162S	Cca	Tca	1	1	B.1.408	0.00369
S	1162	P1162S	Cca	Tca	1	1	B.1.409	0.000781
S	1162	P1162S	Cca	Tca	1	1	B.1.416.1	0.001563
S	1162	P1162S	Cca	Tca	1	1	B.1.428.2	0.033333
S	1162	P1162P	ccA	ccT	1	1	B.1.429	0.000024
S	1162	P1162S	Cca	Tca	1	1	B.1.429.1	0.012048
S	1162	P1162S	Cca	Tca	1	1	B.1.438.1	0.000107
S	1162	P1162L	cCa	cTa	1	1	B.1.453	0.003236
S	1162	P1162L	cCa	cTa	1	1	B.1.469	0.00361
S	1162	P1162L	cCa	cTa	1	1	B.1.474	0.001901
S	1162	P1162L	cCa	cTa	1	1	B.1.497	0.000315
S	1162	P1162S	Cca	Tca	1	1	B.1.497	0.000315
S	1162	P1162L	cCa	cTa	1	1	B.1.503	0.002488
S	1162	P1162L	cCa	cTa	1	1	B.1.511	0.034483
S	1162	P1162P	ccA	ccT	1	1	B.1.517	0.000427
S	1162	P1162S	Cca	Tca	1	1	B.1.525	0.000113
S	1162	P1162P	ccA	ccG	1	1	B.1.525	0.000113
S	1162	P1162T	Cca	Aca	1	1	B.1.526	0.000024
S	1162	P1162L	cCa	cTa	1	1	B.1.537	0.02
S	1162	P1162S	Cca	Tca	1	1	B.1.537	0.02
S	1162	P1162L	cCa	cTa	1	1	B.1.544	0.006024
S	1162	P1162L	cCa	cTa	1	1	B.1.545	0.014493
S	1162	P1162L	cCa	cTa	1	1	B.1.551	0.00129
S	1162	P1162L	cCa	cTa	1	1	B.1.558	0.004566
S	1162	P1162S	Cca	Tca	1	1	B.1.560	0.00463
S	1162	P1162S	Cca	Tca	1	1	B.1.561	0.000397
S	1162	P1162L	cCa	cTa	1	1	B.1.564	0.000426
S	1162	P1162S	Cca	Tca	1	1	B.1.570	0.002941
S	1162	P1162S	Cca	Tca	1	1	B.1.574	0.002151
S	1162	P1162S	Cca	Tca	1	1	B.1.582	0.000491
S	1162	P1162L	cCa	cTa	1	1	B.1.588	0.00091
S	1162	P1162L	cCa	cTa	1	1	B.1.609	0.000479
S	1162	P1162del	CCA	---	1	1	B.1.617.2	0.000004
S	1162	P1162Q	cCa	cAa	1	1	B.1.617.2	0.000004
S	1162	P1162A	Cca	Gca	1	1	B.1.621.1	0.000506
S	1162	P1162L	cCa	cTa	1	1	B.1.623	0.000536
S	1162	P1162A	Cca	Gca	1	1	B.1.626	0.005714
S	1162	P1162P	ccA	ccG	1	1	B.1.637	0.000073
S	1162	P1162L	cCa	cTa	1	1	B.1.637	0.000073
S	1162	P1162R	cCa	cGa	1	1	B.1.637	0.000073
S	1162	P1162S	Cca	Tca	1	1	B.1.84	0.020833
S	1162	P1162R	cCa	cGa	1	1	B.1.9	0.006173
S	1162	P1162L	cCa	cTa	1	1	B.1.93	0.000934
S	1162	P1162S	Cca	Tca	1	1	B.3	0.000831
S	1162	P1162L	cCa	cTa	1	1	B.3.1	0.001658
S	1162	P1162Q	cCa	cAa	1	1	B.3.1	0.001658
S	1162	P1162R	cCa	cGa	1	1	B.4.5	0.011905
S	1162	P1162S	Cca	Tca	1	1	B.40	0.000364
S	1162	P1162R	cCa	cGa	1	1	B.6.6	0.000889
S	1162	P1162S	Cca	Tca	1	1	B.6.6	0.000889
S	1162	P1162L	cCa	cTa	1	1	B.6.6	0.000889
S	1162	P1162P	ccA	ccG	1	1	C.1.2	0.004255
S	1162	P1162del	CCA	---	1	1	C.17	0.055556
S	1162	P1162P	ccA	ccT	1	1	C.3	0.007634
S	1162	P1162L	cCa	cTa	1	1	C.35	0.000774
S	1162	P1162R	cCa	cGa	1	1	C.35	0.000774
S	1162	P1162R	cCa	cGa	1	1	C.37	0.000116
S	1162	P1162del	CCA	---	1	1	C.37	0.000116
S	1162	P1162L	cCa	cTa	1	1	C.8	0.004464
S	1162	P1162P	ccA	ccG	1	1	D.2	0.000075
S	1162	P1162Q	cCa	cAa	1	1	P.1	0.000016
S	1162	P1162del	CCA	---	1	1	P.1	0.000016
S	1162	P1162S	Cca	Tca	1	1	P.1.1	0.000318
S	1162	P1162S	Cca	Tca	1	1	P.1.12	0.000484
S	1162	P1162del	CCA	---	1	1	P.1.15	0.000232
S	1162	P1162S	Cca	Tca	1	1	P.1.16	0.000374
S	1162	P1162S	Cca	Tca	1	1	P.1.17	0.000162
S	1162	P1162L	cCa	cTa	1	1	P.1.4	0.000977
S	1162	P1162S	Cca	Tca	1	1	P.1.4	0.000977
S	1162	P1162L	cCa	cTa	1	1	P.1.6	0.001946
S	1162	P1162S	Cca	Tca	1	1	P.1.8	0.004785
S	1162	P1162L	cCa	cTa	1	1	P.3	0.001595
S	1162	P1162P	ccA	ccG	1	1	Q.1	0.000126
S	1162	P1162L	cCa	cTa	1	1	Q.2	0.000613
S	1162	P1162S	Cca	Tca	1	1	Q.8	0.000165
S	1162	P1162del	CCA	---	1	1	U.3	0.003861

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.