CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 632

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/nsp2	632	T632T	T812T	syn	acC	acT	3086	1756	0.569021	2699-2701
ORF1ab/nsp2	632	T632T	T812T	syn	acC	acA	3086	1300	0.421257	2699-2701
ORF1ab/nsp2	632	T632T	T812T	syn	acC	acG	3086	30	0.00972132	2699-2701
ORF1ab/nsp2	632	T632I	T812I	nonsyn	aCc	aTc	1228	1227	0.999186	2699-2701
ORF1ab/nsp2	632	T632I	T812I	nonsyn	aCC	aTA	1228	1	0.000814332	2699-2701
ORF1ab/nsp2	632	T632A	T812A	nonsyn	Acc	Gcc	119	119	1	2699-2701
ORF1ab/nsp2	632	T632del	T812del	del	ACC	---	68	68	1	2699-2701
ORF1ab/nsp2	632	T632N	T812N	nonsyn	aCc	aAc	7	5	0.714286	2699-2701
ORF1ab/nsp2	632	T632N	T812N	nonsyn	aCC	aAT	7	2	0.285714	2699-2701
ORF1ab/nsp2	632	T632P	T812P	nonsyn	Acc	Ccc	4	3	0.75	2699-2701
ORF1ab/nsp2	632	T632del1	T812del1	del	Acc	-cc	4	2	0.5	2699-2701
ORF1ab/nsp2	632	T632S	T812S	nonsyn	aCc	aGc	4	2	0.5	2699-2701
ORF1ab/nsp2	632	T632del1	T812del1	del	aCc	a-c	4	1	0.25	2699-2701
ORF1ab/nsp2	632	T632S	T812S	nonsyn	AcC	TcT	4	1	0.25	2699-2701
ORF1ab/nsp2	632	T632S	T812S	nonsyn	Acc	Tcc	4	1	0.25	2699-2701
ORF1ab/nsp2	632	T632P	T812P	nonsyn	AcC	CcT	4	1	0.25	2699-2701
ORF1ab/nsp2	632	T632del1	T812del1	del	aCC	a-T	4	1	0.25	2699-2701
ORF1ab/nsp2	632	T632K	T812K	nonsyn	aCC	aAA	2	2	1	2699-2701
ORF1ab/nsp2	632	T632del2	T812del2	del	ACC	--N	1	1	1	2699-2701
ORF1ab/nsp2	632	T632F	T812F	nonsyn	ACC	TTT	1	1	1	2699-2701

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/nsp2	632	T632T	acC	acT	1756	3086	All	0.000336
ORF1ab/nsp2	632	T632T	acC	acA	1300	3086	All	0.000249
ORF1ab/nsp2	632	T632T	acC	acG	30	3086	All	0.000006
ORF1ab/nsp2	632	T632I	aCc	aTc	1227	1228	All	0.000235
ORF1ab/nsp2	632	T632I	aCC	aTA	1	1228	All	0
ORF1ab/nsp2	632	T632T	acC	acA	832	834	AY.46	0.086595
ORF1ab/nsp2	632	T632T	acC	acT	2	834	AY.46	0.000208
ORF1ab/nsp2	632	T632T	acC	acT	600	600	AY.5	0.01239
ORF1ab/nsp2	632	T632I	aCc	aTc	425	425	B.1.621	0.037621
ORF1ab/nsp2	632	T632T	acC	acA	287	291	AY.42	0.011546
ORF1ab/nsp2	632	T632T	acC	acT	4	291	AY.42	0.000161
ORF1ab/nsp2	632	T632I	aCc	aTc	261	261	AY.103	0.001621
ORF1ab/nsp2	632	T632T	acC	acT	187	207	B.1.1.7	0.000167
ORF1ab/nsp2	632	T632T	acC	acA	19	207	B.1.1.7	0.000017
ORF1ab/nsp2	632	T632T	acC	acG	1	207	B.1.1.7	0.000001
ORF1ab/nsp2	632	T632T	acC	acT	124	124	B.1.628	0.043693
ORF1ab/nsp2	632	T632T	acC	acT	120	121	AY.98.1	0.005812
ORF1ab/nsp2	632	T632T	acC	acA	1	121	AY.98.1	0.000048
ORF1ab/nsp2	632	T632A	Acc	Gcc	119	119	All	0.000023
ORF1ab/nsp2	632	T632T	acC	acT	99	101	AY.103	0.000615
ORF1ab/nsp2	632	T632T	acC	acA	2	101	AY.103	0.000012
ORF1ab/nsp2	632	T632T	acC	acT	65	75	AY.4	0.000101
ORF1ab/nsp2	632	T632T	acC	acA	10	75	AY.4	0.000016
ORF1ab/nsp2	632	T632I	aCc	aTc	75	75	B.1.1.7	0.000067
ORF1ab/nsp2	632	T632del	ACC	---	68	68	All	0.000013
ORF1ab/nsp2	632	T632I	aCc	aTc	57	57	B.1.2	0.000502
ORF1ab/nsp2	632	T632T	acC	acT	43	53	B.1	0.000394
ORF1ab/nsp2	632	T632T	acC	acA	10	53	B.1	0.000092
ORF1ab/nsp2	632	T632I	aCc	aTc	50	50	B.1.243	0.003479
ORF1ab/nsp2	632	T632T	acC	acA	44	48	B.1.177	0.000579
ORF1ab/nsp2	632	T632T	acC	acT	4	48	B.1.177	0.000053
ORF1ab/nsp2	632	T632T	acC	acT	40	47	B.1.617.2	0.000151
ORF1ab/nsp2	632	T632T	acC	acA	7	47	B.1.617.2	0.000026
ORF1ab/nsp2	632	T632T	acC	acT	36	36	AY.25	0.000217
ORF1ab/nsp2	632	T632I	aCc	aTc	35	35	AY.4	0.000054
ORF1ab/nsp2	632	T632T	acC	acT	34	34	AY.118	0.00213
ORF1ab/nsp2	632	T632T	acC	acT	34	34	B.1.1.93	0.871795
ORF1ab/nsp2	632	T632T	acC	acT	21	27	AY.43	0.000093
ORF1ab/nsp2	632	T632T	acC	acA	6	27	AY.43	0.000027
ORF1ab/nsp2	632	T632T	acC	acT	27	27	B.1.526	0.000635
ORF1ab/nsp2	632	T632T	acC	acG	26	26	AY.99.2	0.002396
ORF1ab/nsp2	632	T632I	aCc	aTc	26	26	B.1	0.000238
ORF1ab/nsp2	632	T632T	acC	acT	23	26	B.1.2	0.000203
ORF1ab/nsp2	632	T632T	acC	acA	3	26	B.1.2	0.000026
ORF1ab/nsp2	632	T632T	acC	acA	20	23	AY.23	0.001395
ORF1ab/nsp2	632	T632T	acC	acT	3	23	AY.23	0.000209
ORF1ab/nsp2	632	T632A	Acc	Gcc	23	23	B.1.1.7	0.000021
ORF1ab/nsp2	632	T632A	Acc	Gcc	21	21	AY.4	0.000033
ORF1ab/nsp2	632	T632T	acC	acT	20	20	AY.120	0.000744
ORF1ab/nsp2	632	T632I	aCc	aTc	19	19	B.1.1.317	0.007822
ORF1ab/nsp2	632	T632I	aCc	aTc	18	18	B.1.526	0.000423
ORF1ab/nsp2	632	T632I	aCc	aTc	17	17	AY.34	0.001648
ORF1ab/nsp2	632	T632T	acC	acT	16	17	B.1.427	0.000808
ORF1ab/nsp2	632	T632T	acC	acA	1	17	B.1.427	0.00005
ORF1ab/nsp2	632	T632A	Acc	Gcc	15	15	AY.118	0.00094
ORF1ab/nsp2	632	T632T	acC	acT	12	15	AY.3	0.000119
ORF1ab/nsp2	632	T632T	acC	acA	2	15	AY.3	0.00002
ORF1ab/nsp2	632	T632T	acC	acG	1	15	AY.3	0.00001
ORF1ab/nsp2	632	T632T	acC	acT	15	15	C.34	0.555556
ORF1ab/nsp2	632	T632I	aCc	aTc	14	14	AY.44	0.000085
ORF1ab/nsp2	632	T632T	acC	acT	14	14	B.1.177.48	0.04375
ORF1ab/nsp2	632	T632T	acC	acA	7	13	AY.44	0.000043
ORF1ab/nsp2	632	T632T	acC	acT	6	13	AY.44	0.000037
ORF1ab/nsp2	632	T632T	acC	acT	13	13	B.1.177.81	0.002461
ORF1ab/nsp2	632	T632T	acC	acT	12	13	P.1	0.000189
ORF1ab/nsp2	632	T632T	acC	acA	1	13	P.1	0.000016
ORF1ab/nsp2	632	T632del	ACC	---	12	12	B.1	0.00011
ORF1ab/nsp2	632	T632T	acC	acT	12	12	B.1.1.519	0.000477
ORF1ab/nsp2	632	T632T	acC	acT	12	12	B.1.595	0.003132
ORF1ab/nsp2	632	T632I	aCc	aTc	11	11	AY.4.2	0.000239
ORF1ab/nsp2	632	T632I	aCc	aTc	11	11	AY.45	0.001339
ORF1ab/nsp2	632	T632A	Acc	Gcc	11	11	B.1.142	0.031884
ORF1ab/nsp2	632	T632I	aCc	aTc	10	10	AY.25	0.00006
ORF1ab/nsp2	632	T632I	aCc	aTc	10	10	AY.89	0.04902
ORF1ab/nsp2	632	T632I	aCc	aTc	10	10	B.1.617.2	0.000038
ORF1ab/nsp2	632	T632T	acC	acA	9	9	B.1.1.298	0.007759
ORF1ab/nsp2	632	T632T	acC	acT	9	9	B.1.36.29	0.004656
ORF1ab/nsp2	632	T632I	aCc	aTc	9	9	P.1	0.000142
ORF1ab/nsp2	632	T632T	acC	acA	8	8	AY.106	0.002679
ORF1ab/nsp2	632	T632I	aCc	aTc	8	8	AY.3	0.00008
ORF1ab/nsp2	632	T632del	ACC	---	8	8	B.1.1.7	0.000007
ORF1ab/nsp2	632	T632A	Acc	Gcc	8	8	B.1.177.60	0.001747
ORF1ab/nsp2	632	T632I	aCc	aTc	8	8	B.1.429	0.000188
ORF1ab/nsp2	632	T632T	acC	acT	8	8	B.1.637	0.000585
ORF1ab/nsp2	632	T632N	aCc	aAc	5	7	All	0.000001
ORF1ab/nsp2	632	T632N	aCC	aAT	2	7	All	0
ORF1ab/nsp2	632	T632T	acC	acT	6	7	AY.102	0.000159
ORF1ab/nsp2	632	T632T	acC	acA	1	7	AY.102	0.000027
ORF1ab/nsp2	632	T632I	aCc	aTc	7	7	AY.39	0.000173
ORF1ab/nsp2	632	T632I	aCc	aTc	7	7	B.1.1.133	0.059322
ORF1ab/nsp2	632	T632del	ACC	---	6	6		0.333333
ORF1ab/nsp2	632	T632I	aCc	aTc	6	6	AY.119	0.000212
ORF1ab/nsp2	632	T632I	aCc	aTc	6	6	AY.43	0.000027
ORF1ab/nsp2	632	T632I	aCc	aTc	6	6	AY.46	0.000624
ORF1ab/nsp2	632	T632I	aCc	aTc	6	6	AY.46.4	0.000987
ORF1ab/nsp2	632	T632T	acC	acT	6	6	AY.68	0.001642
ORF1ab/nsp2	632	T632I	aCc	aTc	6	6	B.1.1.464	0.008837
ORF1ab/nsp2	632	T632I	aCc	aTc	6	6	B.1.351	0.000178
ORF1ab/nsp2	632	T632I	aCc	aTc	5	5	AY.102	0.000133
ORF1ab/nsp2	632	T632T	acC	acT	5	5	AY.24	0.002155
ORF1ab/nsp2	632	T632T	acC	acT	5	5	AY.5.2	0.012315
ORF1ab/nsp2	632	T632P	Acc	Ccc	3	4	All	0.000001
ORF1ab/nsp2	632	T632S	aCc	aGc	2	4	All	0
ORF1ab/nsp2	632	T632del1	Acc	-cc	2	4	All	0
ORF1ab/nsp2	632	T632S	Acc	Tcc	1	4	All	0
ORF1ab/nsp2	632	T632del1	aCC	a-T	1	4	All	0
ORF1ab/nsp2	632	T632S	AcC	TcT	1	4	All	0
ORF1ab/nsp2	632	T632del1	aCc	a-c	1	4	All	0
ORF1ab/nsp2	632	T632P	AcC	CcT	1	4	All	0
ORF1ab/nsp2	632	T632I	aCc	aTc	4	4	AY.29	0.000063
ORF1ab/nsp2	632	T632I	aCc	aTc	4	4	AY.46.6	0.000289
ORF1ab/nsp2	632	T632I	aCc	aTc	4	4	AY.47	0.000124
ORF1ab/nsp2	632	T632I	aCc	aTc	4	4	AY.75	0.000224
ORF1ab/nsp2	632	T632I	aCc	aTc	4	4	AY.92	0.001149
ORF1ab/nsp2	632	T632A	Acc	Gcc	4	4	B.1.2	0.000035
ORF1ab/nsp2	632	T632T	acC	acA	4	4	B.1.346	0.005242
ORF1ab/nsp2	632	T632I	aCc	aTc	4	4	B.1.36	0.000584
ORF1ab/nsp2	632	T632T	acC	acA	3	4	B.1.596	0.000261
ORF1ab/nsp2	632	T632T	acC	acG	1	4	B.1.596	0.000087
ORF1ab/nsp2	632	T632A	Acc	Gcc	4	4	B.1.617.2	0.000015
ORF1ab/nsp2	632	T632I	aCc	aTc	4	4	C.37	0.000464
ORF1ab/nsp2	632	T632A	Acc	Gcc	3	3	AY.103	0.000019
ORF1ab/nsp2	632	T632T	acC	acT	3	3	AY.114	0.000693
ORF1ab/nsp2	632	T632T	acC	acT	2	3	AY.117	0.000169
ORF1ab/nsp2	632	T632T	acC	acA	1	3	AY.117	0.000085
ORF1ab/nsp2	632	T632T	acC	acT	2	3	AY.14	0.000176
ORF1ab/nsp2	632	T632T	acC	acA	1	3	AY.14	0.000088
ORF1ab/nsp2	632	T632I	aCc	aTc	3	3	AY.20	0.000117
ORF1ab/nsp2	632	T632T	acC	acT	2	3	AY.20	0.000078
ORF1ab/nsp2	632	T632T	acC	acA	1	3	AY.20	0.000039
ORF1ab/nsp2	632	T632I	aCc	aTc	3	3	AY.33	0.0002
ORF1ab/nsp2	632	T632T	acC	acT	3	3	AY.46.6	0.000217
ORF1ab/nsp2	632	T632T	acC	acT	2	3	AY.6	0.000082
ORF1ab/nsp2	632	T632T	acC	acA	1	3	AY.6	0.000041
ORF1ab/nsp2	632	T632T	acC	acA	3	3	AY.9.2	0.00011
ORF1ab/nsp2	632	T632T	acC	acA	2	3	B	0.000256
ORF1ab/nsp2	632	T632T	acC	acT	1	3	B	0.000128
ORF1ab/nsp2	632	T632del	ACC	---	3	3	B.1.1	0.000054
ORF1ab/nsp2	632	T632T	acC	acT	3	3	B.1.1	0.000054
ORF1ab/nsp2	632	T632I	aCc	aTc	3	3	B.1.1	0.000054
ORF1ab/nsp2	632	T632T	acC	acT	3	3	B.1.1.214	0.000166
ORF1ab/nsp2	632	T632T	acC	acT	3	3	B.1.1.222	0.000612
ORF1ab/nsp2	632	T632del	ACC	---	3	3	B.1.1.33	0.001263
ORF1ab/nsp2	632	T632T	acC	acT	2	3	B.1.160	0.000062
ORF1ab/nsp2	632	T632T	acC	acA	1	3	B.1.160	0.000031
ORF1ab/nsp2	632	T632T	acC	acT	3	3	B.1.258	0.0002
ORF1ab/nsp2	632	T632del	ACC	---	3	3	B.1.429	0.000071
ORF1ab/nsp2	632	T632T	acC	acT	3	3	B.1.429	0.000071
ORF1ab/nsp2	632	T632T	acC	acT	3	3	B.1.621	0.000266
ORF1ab/nsp2	632	T632T	acC	acT	2	2	A.2.5	0.000998
ORF1ab/nsp2	632	T632K	aCC	aAA	2	2	All	0
ORF1ab/nsp2	632	T632I	aCc	aTc	2	2	AY.1	0.000791
ORF1ab/nsp2	632	T632T	acC	acA	1	2	AY.100	0.000046
ORF1ab/nsp2	632	T632T	acC	acT	1	2	AY.100	0.000046
ORF1ab/nsp2	632	T632I	aCc	aTc	2	2	AY.105	0.001286
ORF1ab/nsp2	632	T632T	acC	acT	2	2	AY.26	0.000057
ORF1ab/nsp2	632	T632T	acC	acT	2	2	AY.29	0.000032
ORF1ab/nsp2	632	T632T	acC	acT	2	2	AY.34	0.000194
ORF1ab/nsp2	632	T632A	Acc	Gcc	2	2	AY.39	0.000049
ORF1ab/nsp2	632	T632T	acC	acT	2	2	AY.4.2	0.000043
ORF1ab/nsp2	632	T632T	acC	acT	2	2	AY.4.5	0.000215
ORF1ab/nsp2	632	T632A	Acc	Gcc	2	2	AY.43	0.000009
ORF1ab/nsp2	632	T632S	aCc	aGc	1	2	AY.43	0.000004
ORF1ab/nsp2	632	T632S	Acc	Tcc	1	2	AY.43	0.000004
ORF1ab/nsp2	632	T632A	Acc	Gcc	2	2	AY.44	0.000012
ORF1ab/nsp2	632	T632I	aCc	aTc	2	2	AY.57	0.001312
ORF1ab/nsp2	632	T632T	acC	acT	1	2	AY.65	0.000533
ORF1ab/nsp2	632	T632T	acC	acA	1	2	AY.65	0.000533
ORF1ab/nsp2	632	T632I	aCc	aTc	2	2	AY.98	0.000158
ORF1ab/nsp2	632	T632I	aCc	aTc	2	2	B	0.000256
ORF1ab/nsp2	632	T632T	acC	acA	2	2	B.1.1.157	0.001826
ORF1ab/nsp2	632	T632A	Acc	Gcc	2	2	B.1.1.214	0.000111
ORF1ab/nsp2	632	T632T	acC	acT	2	2	B.1.1.216	0.001781
ORF1ab/nsp2	632	T632del	ACC	---	2	2	B.1.1.315	0.016949
ORF1ab/nsp2	632	T632del	ACC	---	2	2	B.1.1.348	0.001592
ORF1ab/nsp2	632	T632T	acC	acT	2	2	B.1.1.409	0.005666
ORF1ab/nsp2	632	T632T	acC	acT	2	2	B.1.1.452	0.222222
ORF1ab/nsp2	632	T632I	aCc	aTc	2	2	B.1.1.519	0.000079
ORF1ab/nsp2	632	T632del	ACC	---	2	2	B.1.177	0.000026
ORF1ab/nsp2	632	T632T	acC	acT	2	2	B.1.188	0.033333
ORF1ab/nsp2	632	T632del	ACC	---	2	2	B.1.2	0.000018
ORF1ab/nsp2	632	T632T	acC	acT	2	2	B.1.422	0.001625
ORF1ab/nsp2	632	T632del	ACC	---	2	2	B.1.424	0.016129
ORF1ab/nsp2	632	T632T	acC	acT	2	2	B.1.509	0.001732
ORF1ab/nsp2	632	T632del	ACC	---	2	2	B.1.526	0.000047
ORF1ab/nsp2	632	T632del	ACC	---	2	2	N.6	0.014184
ORF1ab/nsp2	632	T632del	ACC	---	2	2	P.1	0.000032
ORF1ab/nsp2	632	T632A	Acc	Gcc	2	2	P.1	0.000032
ORF1ab/nsp2	632	T632T	acC	acT	2	2	P.1.2	0.002312
ORF1ab/nsp2	632	T632I	aCc	aTc	2	2	P.2	0.000373
ORF1ab/nsp2	632	T632T	acC	acT	2	2	P.2	0.000373
ORF1ab/nsp2	632	T632T	acC	acT	1	1	A	0.000387
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	A.2	0.000662
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	A.2.4	0.003367
ORF1ab/nsp2	632	T632N	aCc	aAc	1	1	A.2.5.2	0.001572
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	A.21	0.00277
ORF1ab/nsp2	632	T632T	acC	acT	1	1	A.5	0.001923
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AE.1	0.011364
ORF1ab/nsp2	632	T632F	ACC	TTT	1	1	All	0
ORF1ab/nsp2	632	T632del2	ACC	--N	1	1	All	0
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.100	0.000046
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.107	0.000466
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.108	0.001103
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.111	0.000183
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.113	0.000142
ORF1ab/nsp2	632	T632T	acC	acA	1	1	AY.119	0.000035
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	AY.120.1	0.000321
ORF1ab/nsp2	632	T632N	aCC	aAT	1	1	AY.120.1	0.000321
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.121	0.000135
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.121	0.000135
ORF1ab/nsp2	632	T632T	acC	acA	1	1	AY.13	0.000161
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.16	0.00038
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.16	0.00038
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	AY.16.1	0.00047
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.19	0.00114
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	AY.23	0.00007
ORF1ab/nsp2	632	T632S	aCc	aGc	1	1	AY.23	0.00007
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.23	0.00007
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	AY.25	0.000006
ORF1ab/nsp2	632	T632del	ACC	---	1	1	AY.25	0.000006
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.26	0.000028
ORF1ab/nsp2	632	T632del	ACC	---	1	1	AY.26	0.000028
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	AY.3.1	0.000085
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.30	0.000396
ORF1ab/nsp2	632	T632T	acC	acA	1	1	AY.32	0.000532
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.33	0.000067
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.37	0.000316
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.39	0.000025
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.39.1	0.00004
ORF1ab/nsp2	632	T632N	aCc	aAc	1	1	AY.4	0.000002
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.4.4	0.000409
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.4.5	0.000107
ORF1ab/nsp2	632	T632del	ACC	---	1	1	AY.40	0.000964
ORF1ab/nsp2	632	T632T	acC	acA	1	1	AY.40	0.000964
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.45	0.000122
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.46.2	0.000635
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.5.3	0.000337
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.5.4	0.000277
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.54	0.000095
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.55	0.000917
ORF1ab/nsp2	632	T632del	ACC	---	1	1	AY.6	0.000041
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.61	0.000105
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.61	0.000105
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.65	0.000533
ORF1ab/nsp2	632	T632del	ACC	---	1	1	AY.68	0.000274
ORF1ab/nsp2	632	T632P	AcC	CcT	1	1	AY.69	0.000187
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.7.1	0.000113
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.7.1	0.000113
ORF1ab/nsp2	632	T632T	acC	acA	1	1	AY.71	0.000475
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.74	0.000116
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.81	0.001992
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.84	0.000437
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.84	0.000437
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.9	0.000068
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	AY.95	0.000761
ORF1ab/nsp2	632	T632T	acC	acT	1	1	AY.98	0.000079
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	AY.98	0.000079
ORF1ab/nsp2	632	T632del	ACC	---	1	1	AY.98.1	0.000048
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1	0.000009
ORF1ab/nsp2	632	T632del2	ACC	--N	1	1	B.1	0.000009
ORF1ab/nsp2	632	T632F	ACC	TTT	1	1	B.1.1	0.000018
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.117	0.009709
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.1.128	0.007092
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.1.186	0.003436
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.1.189	0.001513
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.1.200	0.007463
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.205	0.003717
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.1.214	0.000055
ORF1ab/nsp2	632	T632del1	Acc	-cc	1	1	B.1.1.216	0.00089
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.1.228	0.003049
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.277	0.000759
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.284	0.000107
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.302	0.002075
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.1.328	0.016949
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.33	0.000421
ORF1ab/nsp2	632	T632del1	Acc	-cc	1	1	B.1.1.356	0.008547
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.1.380	0.009804
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.411	0.014706
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.1.1.416	0.000905
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.420	0.001006
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.1.432	0.001266
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.1.46	0.004367
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.1.1.46	0.004367
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.1.50	0.000679
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.1.519	0.00004
ORF1ab/nsp2	632	T632P	Acc	Ccc	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	632	T632K	aCC	aAA	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	632	T632N	aCC	aAT	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	632	T632S	AcC	TcT	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.1.70	0.000341
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.160	0.000031
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.160.28	0.002924
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.167	0.007812
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.177	0.000013
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.177.44	0.000519
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.1.177.51	0.004566
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.177.54	0.000606
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.177.6	0.000977
ORF1ab/nsp2	632	T632T	acC	acA	1	1	B.1.177.60	0.000218
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.177.73	0.000566
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.177.73	0.000566
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.177.75	0.001041
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.177.81	0.000189
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.177.86	0.000183
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.177.86	0.000183
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.189	0.004292
ORF1ab/nsp2	632	T632N	aCc	aAc	1	1	B.1.2	0.000009
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.206	0.000816
ORF1ab/nsp2	632	T632N	aCc	aAc	1	1	B.1.206	0.000816
ORF1ab/nsp2	632	T632T	acC	acG	1	1	B.1.214	0.003663
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.235	0.002519
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.239	0.001221
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.243	0.00007
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.243	0.00007
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.258	0.000067
ORF1ab/nsp2	632	T632I	aCC	aTA	1	1	B.1.333	0.010526
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.351	0.00003
ORF1ab/nsp2	632	T632T	acC	acA	1	1	B.1.351.3	0.000876
ORF1ab/nsp2	632	T632del1	aCc	a-c	1	1	B.1.36	0.000146
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.36	0.000146
ORF1ab/nsp2	632	T632N	aCc	aAc	1	1	B.1.36.1	0.00114
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.36.17	0.000494
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.36.19	0.009259
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.369	0.000285
ORF1ab/nsp2	632	T632T	acC	acA	1	1	B.1.396	0.000706
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.406	0.006061
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.429	0.000024
ORF1ab/nsp2	632	T632K	aCC	aAA	1	1	B.1.466.2	0.000391
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.487	0.019608
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.497	0.000315
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.527	0.003704
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.552	0.015152
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.1.560	0.00463
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.1.561	0.000397
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	B.1.582	0.000491
ORF1ab/nsp2	632	T632P	Acc	Ccc	1	1	B.1.582	0.000491
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.595	0.000261
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.596	0.000087
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.1.617.1	0.000129
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.1.621	0.000089
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	B.1.621.1	0.000506
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.1.621.1	0.000506
ORF1ab/nsp2	632	T632P	Acc	Ccc	1	1	B.1.625	0.002353
ORF1ab/nsp2	632	T632del	ACC	---	1	1	B.57	0.015152
ORF1ab/nsp2	632	T632T	acC	acT	1	1	B.6	0.00091
ORF1ab/nsp2	632	T632T	acC	acA	1	1	C.16	0.00106
ORF1ab/nsp2	632	T632T	acC	acT	1	1	C.37	0.000116
ORF1ab/nsp2	632	T632A	Acc	Gcc	1	1	C.37	0.000116
ORF1ab/nsp2	632	T632del1	aCC	a-T	1	1	D.2	0.000075
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	N.3	0.005814
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	P.1.1	0.000318
ORF1ab/nsp2	632	T632T	acC	acT	1	1	P.1.12	0.000484
ORF1ab/nsp2	632	T632del	ACC	---	1	1	P.1.15	0.000232
ORF1ab/nsp2	632	T632T	acC	acT	1	1	P.1.16	0.000374
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	P.1.2	0.001156
ORF1ab/nsp2	632	T632T	acC	acT	1	1	P.1.7	0.000319
ORF1ab/nsp2	632	T632T	acC	acT	1	1	P.1.8	0.004785
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	P.3	0.001595
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	Q.4	0.000455
ORF1ab/nsp2	632	T632del	ACC	---	1	1	Q.8	0.000165
ORF1ab/nsp2	632	T632I	aCc	aTc	1	1	R.1	0.00009
ORF1ab/nsp2	632	T632T	acC	acT	1	1	Z.1	0.00289

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.