CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 192

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
ORF1ab/nsp3	192	P192L	P1010L	nonsyn	cCt	cTt	3027	3025	0.999339	3293-3295
ORF1ab/nsp3	192	P192L	P1010L	nonsyn	cCT	cTC	3027	2	0.00066072	3293-3295
ORF1ab/nsp3	192	P192S	P1010S	nonsyn	Cct	Tct	1189	1189	1	3293-3295
ORF1ab/nsp3	192	P192P	P1010P	syn	ccT	ccC	316	235	0.743671	3293-3295
ORF1ab/nsp3	192	P192P	P1010P	syn	ccT	ccG	316	55	0.174051	3293-3295
ORF1ab/nsp3	192	P192P	P1010P	syn	ccT	ccA	316	26	0.0822785	3293-3295
ORF1ab/nsp3	192	P192H	P1010H	nonsyn	cCt	cAt	270	270	1	3293-3295
ORF1ab/nsp3	192	P192del	P1010del	del	CCT	---	251	251	1	3293-3295
ORF1ab/nsp3	192	P192T	P1010T	nonsyn	Cct	Act	92	92	1	3293-3295
ORF1ab/nsp3	192	P192del1	P1010del1	del	Cct	-ct	8	4	0.5	3293-3295
ORF1ab/nsp3	192	P192del1	P1010del1	del	ccT	cc-	8	2	0.25	3293-3295
ORF1ab/nsp3	192	P192del1	P1010del1	del	CCT	-NN	8	2	0.25	3293-3295
ORF1ab/nsp3	192	P192R	P1010R	nonsyn	cCt	cGt	6	6	1	3293-3295
ORF1ab/nsp3	192	P192A	P1010A	nonsyn	Cct	Gct	3	3	1	3293-3295
ORF1ab/nsp3	192	P192Q	P1010Q	nonsyn	cCT	cAA	1	1	1	3293-3295
ORF1ab/nsp3	192	P192del2	P1010del2	del	cCT	c--	1	1	1	3293-3295
ORF1ab/nsp3	192	P192C	P1010C	nonsyn	CCT	TGC	1	1	1	3293-3295

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
ORF1ab/nsp3	192	P192L	cCt	cTt	3025	3027	All	0.000579
ORF1ab/nsp3	192	P192L	cCT	cTC	2	3027	All	0
ORF1ab/nsp3	192	P192L	cCt	cTt	2774	2774	AY.68	0.759376
ORF1ab/nsp3	192	P192S	Cct	Tct	1189	1189	All	0.000227
ORF1ab/nsp3	192	P192P	ccT	ccC	235	316	All	0.000045
ORF1ab/nsp3	192	P192P	ccT	ccG	55	316	All	0.000011
ORF1ab/nsp3	192	P192P	ccT	ccA	26	316	All	0.000005
ORF1ab/nsp3	192	P192H	cCt	cAt	270	270	All	0.000052
ORF1ab/nsp3	192	P192del	CCT	---	251	251	All	0.000048
ORF1ab/nsp3	192	P192S	Cct	Tct	220	220	B.1.617.2	0.000828
ORF1ab/nsp3	192	P192S	Cct	Tct	148	148	AY.100	0.006809
ORF1ab/nsp3	192	P192S	Cct	Tct	136	136	B.1.1.7	0.000122
ORF1ab/nsp3	192	P192H	cCt	cAt	106	106	B.1.1.7	0.000095
ORF1ab/nsp3	192	P192P	ccT	ccC	84	106	B.1.1.7	0.000075
ORF1ab/nsp3	192	P192P	ccT	ccA	17	106	B.1.1.7	0.000015
ORF1ab/nsp3	192	P192P	ccT	ccG	5	106	B.1.1.7	0.000004
ORF1ab/nsp3	192	P192T	Cct	Act	92	92	All	0.000018
ORF1ab/nsp3	192	P192del	CCT	---	71	71	B.1.1.7	0.000064
ORF1ab/nsp3	192	P192S	Cct	Tct	60	60	B.1.177.81	0.011359
ORF1ab/nsp3	192	P192L	cCt	cTt	49	49	AY.4	0.000076
ORF1ab/nsp3	192	P192S	Cct	Tct	48	48	B.1.2	0.000423
ORF1ab/nsp3	192	P192del	CCT	---	40	40	AY.4	0.000062
ORF1ab/nsp3	192	P192H	cCt	cAt	37	37	AY.39	0.000914
ORF1ab/nsp3	192	P192S	Cct	Tct	37	37	B.1.258	0.002462
ORF1ab/nsp3	192	P192S	Cct	Tct	36	36	AY.44	0.000219
ORF1ab/nsp3	192	P192L	cCt	cTt	35	35	B.1.1.7	0.000031
ORF1ab/nsp3	192	P192T	Cct	Act	34	34	B.1.517	0.014518
ORF1ab/nsp3	192	P192S	Cct	Tct	33	33	P.1	0.00052
ORF1ab/nsp3	192	P192S	Cct	Tct	32	32	AY.4	0.00005
ORF1ab/nsp3	192	P192H	cCt	cAt	29	29	B.1.617.2	0.000109
ORF1ab/nsp3	192	P192S	Cct	Tct	28	28	B.1.243	0.001948
ORF1ab/nsp3	192	P192S	Cct	Tct	25	25	B.1.637	0.001827
ORF1ab/nsp3	192	P192P	ccT	ccC	24	24	AE.6	0.923077
ORF1ab/nsp3	192	P192P	ccT	ccC	24	24	B.1.427	0.001212
ORF1ab/nsp3	192	P192S	Cct	Tct	21	21	AY.25	0.000126
ORF1ab/nsp3	192	P192H	cCt	cAt	21	21	AY.29	0.000331
ORF1ab/nsp3	192	P192L	cCt	cTt	19	19	AY.43	0.000084
ORF1ab/nsp3	192	P192H	cCt	cAt	17	17	AY.4	0.000026
ORF1ab/nsp3	192	P192T	Cct	Act	17	17	AY.4	0.000026
ORF1ab/nsp3	192	P192S	Cct	Tct	17	17	B.1	0.000156
ORF1ab/nsp3	192	P192S	Cct	Tct	17	17	B.1.1	0.000308
ORF1ab/nsp3	192	P192S	Cct	Tct	15	15	AY.74	0.001735
ORF1ab/nsp3	192	P192H	cCt	cAt	15	15	B.1	0.000137
ORF1ab/nsp3	192	P192S	Cct	Tct	15	15	B.1.128	0.00953
ORF1ab/nsp3	192	P192P	ccT	ccG	14	14	AY.29	0.000221
ORF1ab/nsp3	192	P192S	Cct	Tct	14	14	AY.34	0.001358
ORF1ab/nsp3	192	P192S	Cct	Tct	14	14	AZ.1	0.012142
ORF1ab/nsp3	192	P192P	ccT	ccC	14	14	B.1.1.222	0.002856
ORF1ab/nsp3	192	P192L	cCt	cTt	14	14	B.1.617.2	0.000053
ORF1ab/nsp3	192	P192P	ccT	ccG	8	14	B.1.617.2	0.00003
ORF1ab/nsp3	192	P192P	ccT	ccC	5	14	B.1.617.2	0.000019
ORF1ab/nsp3	192	P192P	ccT	ccA	1	14	B.1.617.2	0.000004
ORF1ab/nsp3	192	P192P	ccT	ccC	14	14	B.1.621	0.001239
ORF1ab/nsp3	192	P192del	CCT	---	13	13	AY.25	0.000078
ORF1ab/nsp3	192	P192S	Cct	Tct	13	13	AY.5	0.000268
ORF1ab/nsp3	192	P192S	Cct	Tct	13	13	B.1.1.39	0.006626
ORF1ab/nsp3	192	P192L	cCt	cTt	13	13	B.1.617.1	0.001677
ORF1ab/nsp3	192	P192S	Cct	Tct	12	12	AY.102	0.000318
ORF1ab/nsp3	192	P192S	Cct	Tct	11	11	AY.103	0.000068
ORF1ab/nsp3	192	P192S	Cct	Tct	11	11	AY.3	0.000109
ORF1ab/nsp3	192	P192L	cCt	cTt	11	11	AY.4.2.1	0.001639
ORF1ab/nsp3	192	P192S	Cct	Tct	11	11	AY.43	0.000049
ORF1ab/nsp3	192	P192L	cCt	cTt	10	10	AY.75	0.00056
ORF1ab/nsp3	192	P192del	CCT	---	10	10	B.1.617.2	0.000038
ORF1ab/nsp3	192	P192S	Cct	Tct	10	10	B.6.6	0.008889
ORF1ab/nsp3	192	P192S	Cct	Tct	9	9	B.1.160	0.000281
ORF1ab/nsp3	192	P192S	Cct	Tct	9	9	B.1.351	0.000268
ORF1ab/nsp3	192	P192del	CCT	---	9	9	B.1.429	0.000212
ORF1ab/nsp3	192	P192del1	Cct	-ct	4	8	All	0.000001
ORF1ab/nsp3	192	P192del1	ccT	cc-	2	8	All	0
ORF1ab/nsp3	192	P192del1	CCT	-NN	2	8	All	0
ORF1ab/nsp3	192	P192L	cCt	cTt	8	8	AY.103	0.00005
ORF1ab/nsp3	192	P192S	Cct	Tct	8	8	AY.4.2	0.000174
ORF1ab/nsp3	192	P192P	ccT	ccC	7	8	AY.43	0.000031
ORF1ab/nsp3	192	P192P	ccT	ccG	1	8	AY.43	0.000004
ORF1ab/nsp3	192	P192P	ccT	ccC	7	8	AY.44	0.000043
ORF1ab/nsp3	192	P192P	ccT	ccG	1	8	AY.44	0.000006
ORF1ab/nsp3	192	P192L	cCt	cTt	8	8	B.1	0.000073
ORF1ab/nsp3	192	P192S	Cct	Tct	8	8	B.1.177	0.000105
ORF1ab/nsp3	192	P192H	cCt	cAt	8	8	B.1.466.2	0.00313
ORF1ab/nsp3	192	P192T	Cct	Act	8	8	B.1.617.2	0.00003
ORF1ab/nsp3	192	P192P	ccT	ccG	4	7	AY.4	0.000006
ORF1ab/nsp3	192	P192P	ccT	ccC	2	7	AY.4	0.000003
ORF1ab/nsp3	192	P192P	ccT	ccA	1	7	AY.4	0.000002
ORF1ab/nsp3	192	P192del	CCT	---	7	7	AY.44	0.000043
ORF1ab/nsp3	192	P192T	Cct	Act	7	7	AY.9	0.000473
ORF1ab/nsp3	192	P192del	CCT	---	7	7	B.1	0.000064
ORF1ab/nsp3	192	P192S	Cct	Tct	7	7	B.1.258.14	0.006863
ORF1ab/nsp3	192	P192del	CCT	---	7	7	B.1.351	0.000208
ORF1ab/nsp3	192	P192R	cCt	cGt	6	6	All	0.000001
ORF1ab/nsp3	192	P192del	CCT	---	6	6	AY.3	0.00006
ORF1ab/nsp3	192	P192P	ccT	ccG	5	6	AY.42	0.000201
ORF1ab/nsp3	192	P192P	ccT	ccC	1	6	AY.42	0.00004
ORF1ab/nsp3	192	P192S	Cct	Tct	6	6	AY.46.4	0.000987
ORF1ab/nsp3	192	P192P	ccT	ccC	6	6	B.1.1	0.000109
ORF1ab/nsp3	192	P192L	cCt	cTt	6	6	B.1.160	0.000187
ORF1ab/nsp3	192	P192L	cCt	cTt	6	6	B.1.177	0.000079
ORF1ab/nsp3	192	P192del	CCT	---	6	6	B.1.177	0.000079
ORF1ab/nsp3	192	P192P	ccT	ccC	5	6	B.1.2	0.000044
ORF1ab/nsp3	192	P192P	ccT	ccA	1	6	B.1.2	0.000009
ORF1ab/nsp3	192	P192S	Cct	Tct	6	6	B.1.36.18	0.002521
ORF1ab/nsp3	192	P192del	CCT	---	5	5	AY.103	0.000031
ORF1ab/nsp3	192	P192L	cCt	cTt	5	5	AY.25	0.00003
ORF1ab/nsp3	192	P192L	cCt	cTt	5	5	AY.44	0.00003
ORF1ab/nsp3	192	P192S	Cct	Tct	5	5	B.1.1.33	0.002104
ORF1ab/nsp3	192	P192H	cCt	cAt	5	5	B.1.311	0.001373
ORF1ab/nsp3	192	P192del	CCT	---	5	5	P.1	0.000079
ORF1ab/nsp3	192	P192del	CCT	---	4	4	AY.102	0.000106
ORF1ab/nsp3	192	P192S	Cct	Tct	4	4	AY.117	0.000338
ORF1ab/nsp3	192	P192T	Cct	Act	4	4	AY.20	0.000155
ORF1ab/nsp3	192	P192P	ccT	ccC	3	4	AY.25	0.000018
ORF1ab/nsp3	192	P192P	ccT	ccG	1	4	AY.25	0.000006
ORF1ab/nsp3	192	P192T	Cct	Act	4	4	AY.3	0.00004
ORF1ab/nsp3	192	P192H	cCt	cAt	4	4	AY.44	0.000024
ORF1ab/nsp3	192	P192S	Cct	Tct	4	4	AY.47	0.000124
ORF1ab/nsp3	192	P192del	CCT	---	4	4	AY.5	0.000083
ORF1ab/nsp3	192	P192S	Cct	Tct	4	4	B.1.1.389	0.024242
ORF1ab/nsp3	192	P192del	CCT	---	4	4	B.1.1.519	0.000159
ORF1ab/nsp3	192	P192del	CCT	---	4	4	B.1.2	0.000035
ORF1ab/nsp3	192	P192S	Cct	Tct	4	4	B.1.232	0.002149
ORF1ab/nsp3	192	P192S	Cct	Tct	4	4	B.1.596	0.000349
ORF1ab/nsp3	192	P192H	cCt	cAt	4	4	B.1.621	0.000354
ORF1ab/nsp3	192	P192L	cCt	cTt	4	4	C.35	0.003096
ORF1ab/nsp3	192	P192L	cCt	cTt	4	4	P.1.10	0.001078
ORF1ab/nsp3	192	P192S	Cct	Tct	4	4	P.1.14	0.000191
ORF1ab/nsp3	192	P192P	ccT	ccC	4	4	P.1.15	0.000929
ORF1ab/nsp3	192	P192A	Cct	Gct	3	3	All	0.000001
ORF1ab/nsp3	192	P192del	CCT	---	3	3	AY.100	0.000138
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	AY.113	0.000427
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	AY.120	0.000112
ORF1ab/nsp3	192	P192P	ccT	ccG	3	3	AY.121	0.000406
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	AY.2	0.001068
ORF1ab/nsp3	192	P192H	cCt	cAt	3	3	AY.25	0.000018
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	AY.26	0.000085
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	AY.29	0.000047
ORF1ab/nsp3	192	P192H	cCt	cAt	3	3	AY.3	0.00003
ORF1ab/nsp3	192	P192L	cCt	cTt	3	3	AY.34	0.000291
ORF1ab/nsp3	192	P192A	Cct	Gct	3	3	AY.4	0.000005
ORF1ab/nsp3	192	P192P	ccT	ccC	3	3	AY.4.2.1	0.000447
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	AY.98	0.000237
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	B	0.000383
ORF1ab/nsp3	192	P192P	ccT	ccG	1	3	B.1	0.000009
ORF1ab/nsp3	192	P192P	ccT	ccC	1	3	B.1	0.000009
ORF1ab/nsp3	192	P192P	ccT	ccA	1	3	B.1	0.000009
ORF1ab/nsp3	192	P192del	CCT	---	3	3	B.1.1	0.000054
ORF1ab/nsp3	192	P192del	CCT	---	3	3	B.1.1.33	0.001263
ORF1ab/nsp3	192	P192T	Cct	Act	3	3	B.1.1.7	0.000003
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	B.1.177.15	0.001893
ORF1ab/nsp3	192	P192L	cCt	cTt	3	3	B.1.2	0.000026
ORF1ab/nsp3	192	P192L	cCt	cTt	3	3	B.1.438.1	0.000322
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	B.1.526	0.000071
ORF1ab/nsp3	192	P192T	Cct	Act	3	3	B.1.526	0.000071
ORF1ab/nsp3	192	P192R	cCt	cGt	3	3	B.1.617.2	0.000011
ORF1ab/nsp3	192	P192S	Cct	Tct	3	3	B.1.628	0.001057
ORF1ab/nsp3	192	P192P	ccT	ccG	3	3	C.37	0.000348
ORF1ab/nsp3	192	P192P	ccT	ccA	2	3	P.1	0.000032
ORF1ab/nsp3	192	P192P	ccT	ccC	1	3	P.1	0.000016
ORF1ab/nsp3	192	P192P	ccT	ccG	2	3	Q.3	0.00029
ORF1ab/nsp3	192	P192P	ccT	ccC	1	3	Q.3	0.000145
ORF1ab/nsp3	192	P192del	CCT	---	2	2	AE.6	0.076923
ORF1ab/nsp3	192	P192H	cCt	cAt	2	2	AY.103	0.000012
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.111	0.000366
ORF1ab/nsp3	192	P192P	ccT	ccC	1	2	AY.117	0.000085
ORF1ab/nsp3	192	P192P	ccT	ccG	1	2	AY.117	0.000085
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.20	0.000078
ORF1ab/nsp3	192	P192P	ccT	ccC	2	2	AY.3	0.00002
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.3.1	0.000171
ORF1ab/nsp3	192	P192del	CCT	---	2	2	AY.39	0.000049
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.39	0.000049
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.39.1	0.000079
ORF1ab/nsp3	192	P192del1	CCT	-NN	2	2	AY.4	0.000003
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.4.4	0.000818
ORF1ab/nsp3	192	P192L	cCt	cTt	2	2	AY.42	0.00008
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.42	0.00008
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.45	0.000243
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.6	0.000082
ORF1ab/nsp3	192	P192L	cCt	cTt	2	2	AY.9.2	0.000073
ORF1ab/nsp3	192	P192P	ccT	ccG	2	2	AY.98	0.000158
ORF1ab/nsp3	192	P192P	ccT	ccC	2	2	AY.98.1	0.000097
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	AY.99.2	0.000184
ORF1ab/nsp3	192	P192T	Cct	Act	2	2	B.1	0.000018
ORF1ab/nsp3	192	P192L	cCt	cTt	2	2	B.1.1	0.000036
ORF1ab/nsp3	192	P192del	CCT	---	2	2	B.1.1.348	0.001592
ORF1ab/nsp3	192	P192L	cCt	cTt	2	2	B.1.177.60	0.000437
ORF1ab/nsp3	192	P192L	cCt	cTt	2	2	B.1.221	0.000142
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	B.1.240	0.000431
ORF1ab/nsp3	192	P192del	CCT	---	2	2	B.1.351.2	0.000605
ORF1ab/nsp3	192	P192L	cCt	cTt	2	2	B.1.351.3	0.001753
ORF1ab/nsp3	192	P192P	ccT	ccC	2	2	B.1.36	0.000292
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	B.1.36.38	0.003284
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	B.1.416	0.002538
ORF1ab/nsp3	192	P192P	ccT	ccC	2	2	B.1.429	0.000047
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	B.1.429	0.000047
ORF1ab/nsp3	192	P192del	CCT	---	2	2	B.1.466.2	0.000782
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	B.1.525	0.000226
ORF1ab/nsp3	192	P192del	CCT	---	2	2	B.1.525	0.000226
ORF1ab/nsp3	192	P192H	cCt	cAt	2	2	B.1.600	0.011696
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	B.1.617.1	0.000258
ORF1ab/nsp3	192	P192del1	Cct	-ct	2	2	B.1.617.2	0.000008
ORF1ab/nsp3	192	P192P	ccT	ccA	2	2	B.1.93	0.001867
ORF1ab/nsp3	192	P192L	cCT	cTC	1	2	B.29	0.003509
ORF1ab/nsp3	192	P192L	cCt	cTt	1	2	B.29	0.003509
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	C.37	0.000232
ORF1ab/nsp3	192	P192del	CCT	---	2	2	N.6	0.014184
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	P.1.12	0.000968
ORF1ab/nsp3	192	P192S	Cct	Tct	2	2	R.1	0.00018
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	A.2	0.000662
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	A.2.4	0.003367
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	A.2.5	0.000499
ORF1ab/nsp3	192	P192Q	cCT	cAA	1	1	All	0
ORF1ab/nsp3	192	P192C	CCT	TGC	1	1	All	0
ORF1ab/nsp3	192	P192del2	cCT	c--	1	1	All	0
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	AY.10	0.00053
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	AY.100	0.000046
ORF1ab/nsp3	192	P192R	cCt	cGt	1	1	AY.100	0.000046
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	AY.100	0.000046
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	AY.102	0.000027
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.102	0.000027
ORF1ab/nsp3	192	P192del1	Cct	-ct	1	1	AY.103	0.000006
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.108	0.001103
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	AY.114	0.000231
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.116	0.000287
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	AY.118	0.000063
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.118	0.000063
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.119	0.000035
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.120	0.000037
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	AY.120	0.000037
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	AY.120	0.000037
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.120.2	0.001285
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.13	0.000161
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.14	0.000088
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.15	0.002222
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	AY.16	0.00038
ORF1ab/nsp3	192	P192R	cCt	cGt	1	1	AY.20	0.000039
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.20	0.000039
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.20	0.000039
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.23	0.00007
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.23	0.00007
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.23	0.00007
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	AY.25	0.000006
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.27	0.000065
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.29	0.000016
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.34	0.000097
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.36	0.000148
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.39	0.000025
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.39.1	0.00004
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.4.2	0.000022
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.4.5	0.000107
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.42	0.00004
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	AY.43	0.000004
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.46.1	0.001027
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.46.5	0.000198
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	AY.46.6	0.000072
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.47	0.000031
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.48	0.000465
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.5.3	0.000337
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.52	0.000814
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.53	0.000288
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.58	0.000907
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.59	0.00053
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.61	0.000105
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.61	0.000105
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.61	0.000105
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	AY.63	0.000387
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.67	0.000464
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.7.1	0.000113
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.75.1	0.00018
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	AY.75.1	0.00018
ORF1ab/nsp3	192	P192P	ccT	ccG	1	1	AY.80	0.001129
ORF1ab/nsp3	192	P192C	CCT	TGC	1	1	AY.85	0.000427
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.85	0.000427
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.9	0.000068
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	AY.9.1	0.000084
ORF1ab/nsp3	192	P192del	CCT	---	1	1	AY.9.2	0.000037
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.1.1	0.000327
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.1.10	0.001115
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.1.117	0.009709
ORF1ab/nsp3	192	P192R	cCt	cGt	1	1	B.1.1.157	0.000913
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.1.208	0.012195
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.1.214	0.000055
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.1.216	0.00089
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.1.284	0.000107
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	B.1.1.300	0.010753
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.1.327	0.1
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.1.33	0.000421
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.1.1.348	0.000796
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.1.369	0.000446
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.1.1.39	0.00051
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.1.41	0.006329
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.1.434	0.000349
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.1.49	0.017544
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.1.523	0.001563
ORF1ab/nsp3	192	P192del1	ccT	cc-	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.110.3	0.000718
ORF1ab/nsp3	192	P192P	ccT	ccG	1	1	B.1.110.3	0.000718
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.111	0.001175
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.128	0.000635
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.139	0.000733
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.157	0.002985
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.160.12	0.00641
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.1.160.16	0.000929
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.160.30	0.002976
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.1.177	0.000013
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.177.11	0.001698
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	B.1.177.15	0.000631
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.177.16	0.000664
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.177.23	0.003236
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.177.51	0.004566
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	B.1.177.55	0.002331
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.177.75	0.001041
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	B.1.177.77	0.000726
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.177.83	0.001481
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.177.87	0.000728
ORF1ab/nsp3	192	P192del1	Cct	-ct	1	1	B.1.2	0.000009
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	B.1.2	0.000009
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.221	0.000071
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.241	0.000812
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.243	0.00007
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.258.11	0.000396
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.258.17	0.000104
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	B.1.351	0.00003
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	B.1.351	0.00003
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.36.22	0.001208
ORF1ab/nsp3	192	P192T	Cct	Act	1	1	B.1.36.31	0.001751
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.1.375	0.00082
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.380	0.006623
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.382	0.008929
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.389	0.001002
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.397	0.004854
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.427	0.00005
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.427	0.00005
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.429	0.000024
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.1.438.1	0.000107
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	B.1.453	0.003236
ORF1ab/nsp3	192	P192Q	cCT	cAA	1	1	B.1.453	0.003236
ORF1ab/nsp3	192	P192P	ccT	ccA	1	1	B.1.453	0.003236
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.466.2	0.000391
ORF1ab/nsp3	192	P192del2	cCT	c--	1	1	B.1.466.2	0.000391
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.1.468	0.005714
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	B.1.474	0.001901
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.524	0.001406
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.575	0.000303
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.595	0.000261
ORF1ab/nsp3	192	P192del	CCT	---	1	1	B.1.596	0.000087
ORF1ab/nsp3	192	P192del1	ccT	cc-	1	1	B.1.596	0.000087
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.596	0.000087
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	B.1.596	0.000087
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.621	0.000089
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.1.621.1	0.000506
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	B.1.93	0.000934
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.29	0.003509
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	B.3	0.000831
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	B.4	0.002208
ORF1ab/nsp3	192	P192P	ccT	ccG	1	1	C.1	0.002392
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	C.37	0.000116
ORF1ab/nsp3	192	P192P	ccT	ccG	1	1	N.4	0.004255
ORF1ab/nsp3	192	P192P	ccT	ccC	1	1	P.1.1	0.000318
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	P.1.14	0.000048
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	P.1.15	0.000232
ORF1ab/nsp3	192	P192L	cCt	cTt	1	1	P.1.8	0.004785
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	P.2	0.000187
ORF1ab/nsp3	192	P192S	Cct	Tct	1	1	Q.1	0.000126
ORF1ab/nsp3	192	P192del	CCT	---	1	1	Q.4	0.000455
ORF1ab/nsp3	192	P192H	cCt	cAt	1	1	Q.8	0.000165
ORF1ab/nsp3	192	P192del	CCT	---	1	1	Q.8	0.000165
ORF1ab/nsp3	192	P192L	cCT	cTC	1	1	R.1	0.00009
ORF1ab/nsp3	192	P192del	CCT	---	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.