CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 32

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
N	32	R32H		nonsyn	cGc	cAc	3825	3825	1	28367-28369
N	32	R32C		nonsyn	Cgc	Tgc	2133	2133	1	28367-28369
N	32	R32R		syn	cgC	cgT	530	508	0.958491	28367-28369
N	32	R32R		syn	cgC	cgG	530	13	0.0245283	28367-28369
N	32	R32R		syn	cgC	cgA	530	9	0.0169811	28367-28369
N	32	R32L		nonsyn	cGc	cTc	237	237	1	28367-28369
N	32	R32del		del	CGC	---	39	39	1	28367-28369
N	32	R32S		nonsyn	Cgc	Agc	32	32	1	28367-28369
N	32	R32F		nonsyn	CGc	TTc	24	24	1	28367-28369
N	32	R32P		nonsyn	cGc	cCc	5	4	0.8	28367-28369
N	32	R32P		nonsyn	cGC	cCA	5	1	0.2	28367-28369
N	32	R32del1		del	cgC	cg-	3	2	0.666667	28367-28369
N	32	R32del1		del	cGc	c-c	3	1	0.333333	28367-28369
N	32	R32G		nonsyn	Cgc	Ggc	2	2	1	28367-28369
N	32	R32Q		nonsyn	cGC	cAG	1	1	1	28367-28369
N	32	R32del2		del	CGc	--c	1	1	1	28367-28369
N	32	R32Y		nonsyn	CGc	TAc	1	1	1	28367-28369

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
N	32	R32H	cGc	cAc	3825	3825	All	0.000732
N	32	R32C	Cgc	Tgc	2133	2133	All	0.000408
N	32	R32H	cGc	cAc	1231	1231	B.1.422	1
N	32	R32C	Cgc	Tgc	806	806	AY.4	0.001254
N	32	R32R	cgC	cgT	508	530	All	0.000097
N	32	R32R	cgC	cgG	13	530	All	0.000002
N	32	R32R	cgC	cgA	9	530	All	0.000002
N	32	R32C	Cgc	Tgc	403	403	B.1.427	0.02035
N	32	R32H	cGc	cAc	401	401	B.1.221	0.028484
N	32	R32C	Cgc	Tgc	291	291	AY.25	0.00175
N	32	R32H	cGc	cAc	262	262	AY.61	0.027452
N	32	R32L	cGc	cTc	237	237	All	0.000045
N	32	R32H	cGc	cAc	236	236	B.1.617.2	0.000889
N	32	R32H	cGc	cAc	219	219	AY.44	0.001333
N	32	R32H	cGc	cAc	197	197	AY.4	0.000307
N	32	R32H	cGc	cAc	176	176	B.1.1.157	0.160731
N	32	R32H	cGc	cAc	139	139	B.1.1.7	0.000124
N	32	R32R	cgC	cgT	117	118	AY.4	0.000182
N	32	R32R	cgC	cgA	1	118	AY.4	0.000002
N	32	R32R	cgC	cgT	108	110	B.1.1.7	0.000097
N	32	R32R	cgC	cgA	1	110	B.1.1.7	0.000001
N	32	R32R	cgC	cgG	1	110	B.1.1.7	0.000001
N	32	R32C	Cgc	Tgc	105	105	B.1.1.7	0.000094
N	32	R32H	cGc	cAc	87	87	B.1.177.57	0.024445
N	32	R32H	cGc	cAc	82	82	AZ.1	0.071119
N	32	R32H	cGc	cAc	73	73	AY.103	0.000453
N	32	R32H	cGc	cAc	69	69	AY.14	0.006073
N	32	R32L	cGc	cTc	62	62	B.1.258.7	0.118547
N	32	R32R	cgC	cgT	53	53	B.1.427	0.002676
N	32	R32R	cgC	cgT	49	49	B.1.617.2	0.000185
N	32	R32H	cGc	cAc	48	48	B.1	0.00044
N	32	R32C	Cgc	Tgc	47	47	B.1.617.2	0.000177
N	32	R32C	Cgc	Tgc	45	45	AY.3	0.000448
N	32	R32H	cGc	cAc	45	45	B.1.305	0.096774
N	32	R32del	CGC	---	39	39	All	0.000007
N	32	R32C	Cgc	Tgc	38	38	B.1.637	0.002777
N	32	R32L	cGc	cTc	33	33	B.1.1.525	0.180328
N	32	R32S	Cgc	Agc	32	32	All	0.000006
N	32	R32C	Cgc	Tgc	30	30	B.1	0.000275
N	32	R32H	cGc	cAc	29	29	AY.5	0.000599
N	32	R32H	cGc	cAc	27	27	B.1.2	0.000238
N	32	R32H	cGc	cAc	27	27	B.1.429	0.000635
N	32	R32H	cGc	cAc	27	27	B.1.526	0.000635
N	32	R32C	Cgc	Tgc	25	25	AY.39.1	0.00099
N	32	R32F	CGc	TTc	24	24	All	0.000005
N	32	R32F	CGc	TTc	24	24	B.1.221	0.001705
N	32	R32C	Cgc	Tgc	21	21	AY.119	0.000741
N	32	R32C	Cgc	Tgc	21	21	AY.39	0.000519
N	32	R32H	cGc	cAc	20	20	AY.75.1	0.003606
N	32	R32H	cGc	cAc	19	19	AY.25	0.000114
N	32	R32C	Cgc	Tgc	19	19	AY.43	0.000084
N	32	R32L	cGc	cTc	19	19	B.1.1.7	0.000017
N	32	R32H	cGc	cAc	19	19	B.1.36.36	0.011439
N	32	R32C	Cgc	Tgc	19	19	B.1.429	0.000447
N	32	R32H	cGc	cAc	19	19	B.1.617.1	0.00245
N	32	R32C	Cgc	Tgc	18	18	AY.102	0.000477
N	32	R32R	cgC	cgT	18	18	AY.25	0.000108
N	32	R32H	cGc	cAc	18	18	B.1.1.63	0.006944
N	32	R32L	cGc	cTc	16	16	AY.4	0.000025
N	32	R32H	cGc	cAc	16	16	AY.4.4	0.006547
N	32	R32R	cgC	cgT	15	15	AY.103	0.000093
N	32	R32H	cGc	cAc	15	15	AY.20	0.000583
N	32	R32H	cGc	cAc	15	15	B.1.1	0.000272
N	32	R32C	Cgc	Tgc	13	13	AY.26	0.000368
N	32	R32H	cGc	cAc	13	13	AY.3	0.000129
N	32	R32R	cgC	cgT	13	13	B.1.596	0.001133
N	32	R32R	cgC	cgT	12	13	C.37	0.001393
N	32	R32R	cgC	cgA	1	13	C.37	0.000116
N	32	R32S	Cgc	Agc	13	13	P.1.15	0.00302
N	32	R32R	cgC	cgG	11	12	AY.29	0.000174
N	32	R32R	cgC	cgT	1	12	AY.29	0.000016
N	32	R32H	cGc	cAc	12	12	AY.47	0.000373
N	32	R32R	cgC	cgT	11	12	B.1.1	0.0002
N	32	R32R	cgC	cgA	1	12	B.1.1	0.000018
N	32	R32C	Cgc	Tgc	12	12	B.1.239	0.014652
N	32	R32H	cGc	cAc	11	11	AY.102	0.000292
N	32	R32R	cgC	cgT	10	11	B.1	0.000092
N	32	R32R	cgC	cgA	1	11	B.1	0.000009
N	32	R32C	Cgc	Tgc	11	11	B.1.2	0.000097
N	32	R32H	cGc	cAc	11	11	P.1	0.000173
N	32	R32H	cGc	cAc	10	10	AY.29	0.000158
N	32	R32H	cGc	cAc	10	10	B.1.128	0.006353
N	32	R32H	cGc	cAc	10	10	B.1.351	0.000297
N	32	R32L	cGc	cTc	10	10	P.1.14	0.000478
N	32	R32L	cGc	cTc	9	9	B.1.617.2	0.000034
N	32	R32L	cGc	cTc	8	8	AY.14	0.000704
N	32	R32C	Cgc	Tgc	8	8	AY.29	0.000126
N	32	R32L	cGc	cTc	8	8	AY.3	0.00008
N	32	R32L	cGc	cTc	8	8	AY.43	0.000035
N	32	R32R	cgC	cgT	8	8	B.1.1.222	0.001632
N	32	R32H	cGc	cAc	8	8	B.1.1.50	0.005431
N	32	R32R	cgC	cgT	8	8	B.1.258	0.000532
N	32	R32H	cGc	cAc	8	8	B.1.427	0.000404
N	32	R32C	Cgc	Tgc	8	8	B.1.526	0.000188
N	32	R32H	cGc	cAc	7	7	AY.26	0.000198
N	32	R32L	cGc	cTc	7	7	AY.37	0.002212
N	32	R32C	Cgc	Tgc	7	7	AY.44	0.000043
N	32	R32C	Cgc	Tgc	7	7	AY.5	0.000145
N	32	R32C	Cgc	Tgc	7	7	AY.62	0.00305
N	32	R32C	Cgc	Tgc	7	7	AY.66	0.007487
N	32	R32C	Cgc	Tgc	7	7	AY.71	0.003325
N	32	R32H	cGc	cAc	7	7	B.1.177	0.000092
N	32	R32L	cGc	cTc	7	7	B.1.221	0.000497
N	32	R32H	cGc	cAc	7	7	B.1.366	0.034146
N	32	R32R	cgC	cgT	7	7	P.1	0.00011
N	32	R32C	Cgc	Tgc	7	7	Q.1	0.000884
N	32	R32C	Cgc	Tgc	6	6	AY.103	0.000037
N	32	R32H	cGc	cAc	6	6	AY.120	0.000223
N	32	R32H	cGc	cAc	6	6	AY.43	0.000027
N	32	R32H	cGc	cAc	6	6	AY.91	0.004383
N	32	R32H	cGc	cAc	6	6	B.1.1.519	0.000238
N	32	R32del	CGC	---	6	6	B.1.1.7	0.000005
N	32	R32R	cgC	cgT	5	6	B.1.160	0.000156
N	32	R32R	cgC	cgG	1	6	B.1.160	0.000031
N	32	R32H	cGc	cAc	6	6	B.1.459	0.02449
N	32	R32C	Cgc	Tgc	6	6	P.1	0.000095
N	32	R32P	cGc	cCc	4	5	All	0.000001
N	32	R32P	cGC	cCA	1	5	All	0
N	32	R32H	cGc	cAc	5	5	AY.100	0.00023
N	32	R32C	Cgc	Tgc	5	5	AY.100	0.00023
N	32	R32L	cGc	cTc	5	5	AY.102	0.000133
N	32	R32C	Cgc	Tgc	5	5	AY.20	0.000194
N	32	R32H	cGc	cAc	5	5	AY.4.2	0.000108
N	32	R32C	Cgc	Tgc	5	5	AY.64	0.002976
N	32	R32H	cGc	cAc	5	5	AY.71	0.002375
N	32	R32C	Cgc	Tgc	5	5	B.1.1.28	0.001556
N	32	R32C	Cgc	Tgc	5	5	B.1.375	0.004098
N	32	R32C	Cgc	Tgc	5	5	B.1.413	0.021277
N	32	R32H	cGc	cAc	5	5	B.1.448	0.013123
N	32	R32H	cGc	cAc	5	5	B.6	0.00455
N	32	R32S	Cgc	Agc	4	4	AY.1	0.001583
N	32	R32H	cGc	cAc	4	4	AY.27	0.000259
N	32	R32S	Cgc	Agc	4	4	AY.3	0.00004
N	32	R32C	Cgc	Tgc	4	4	AY.42	0.000161
N	32	R32H	cGc	cAc	4	4	AY.42	0.000161
N	32	R32C	Cgc	Tgc	4	4	AY.46	0.000416
N	32	R32C	Cgc	Tgc	4	4	AY.47	0.000124
N	32	R32del	CGC	---	4	4	AY.5	0.000083
N	32	R32R	cgC	cgT	4	4	AY.5	0.000083
N	32	R32R	cgC	cgT	4	4	AY.5.4	0.001107
N	32	R32C	Cgc	Tgc	4	4	AY.54	0.000381
N	32	R32H	cGc	cAc	4	4	AY.86	0.00332
N	32	R32L	cGc	cTc	4	4	B	0.000511
N	32	R32L	cGc	cTc	4	4	B.1	0.000037
N	32	R32R	cgC	cgT	4	4	B.1.1.416	0.00362
N	32	R32C	Cgc	Tgc	4	4	B.1.1.434	0.001394
N	32	R32C	Cgc	Tgc	4	4	B.1.1.519	0.000159
N	32	R32S	Cgc	Agc	4	4	B.1.1.7	0.000004
N	32	R32L	cGc	cTc	4	4	B.1.570	0.011765
N	32	R32H	cGc	cAc	4	4	C.11	0.042553
N	32	R32del1	cgC	cg-	2	3	All	0
N	32	R32del1	cGc	c-c	1	3	All	0
N	32	R32H	cGc	cAc	3	3	AY.110	0.000338
N	32	R32H	cGc	cAc	3	3	AY.113	0.000427
N	32	R32H	cGc	cAc	3	3	AY.24	0.001293
N	32	R32R	cgC	cgT	3	3	AY.3	0.00003
N	32	R32R	cgC	cgT	2	3	AY.34.1	0.00102
N	32	R32R	cgC	cgA	1	3	AY.34.1	0.00051
N	32	R32H	cGc	cAc	3	3	AY.39	0.000074
N	32	R32L	cGc	cTc	3	3	AY.4.2	0.000065
N	32	R32del	CGC	---	3	3	AY.43	0.000013
N	32	R32R	cgC	cgT	3	3	AY.44	0.000018
N	32	R32R	cgC	cgT	3	3	AY.47	0.000093
N	32	R32H	cGc	cAc	3	3	AY.54	0.000286
N	32	R32C	Cgc	Tgc	3	3	AY.61	0.000314
N	32	R32H	cGc	cAc	3	3	AY.62	0.001307
N	32	R32H	cGc	cAc	3	3	AY.87	0.002498
N	32	R32H	cGc	cAc	3	3	B.1.1.348	0.002389
N	32	R32R	cgC	cgT	3	3	B.1.1.519	0.000119
N	32	R32L	cGc	cTc	3	3	B.1.177	0.00004
N	32	R32C	Cgc	Tgc	3	3	B.1.177	0.00004
N	32	R32H	cGc	cAc	3	3	B.1.177.60	0.000655
N	32	R32R	cgC	cgT	3	3	B.1.2	0.000026
N	32	R32H	cGc	cAc	3	3	B.1.258	0.0002
N	32	R32H	cGc	cAc	3	3	B.1.619.1	0.001924
N	32	R32R	cgC	cgT	3	3	C.35	0.002322
N	32	R32R	cgC	cgT	3	3	N.10	0.088235
N	32	R32C	Cgc	Tgc	3	3	Q.2	0.00184
N	32	R32H	cGc	cAc	3	3	R.1	0.00027
N	32	R32H	cGc	cAc	2	2	A.23.1	0.001408
N	32	R32G	Cgc	Ggc	2	2	All	0
N	32	R32R	cgC	cgT	2	2	AY.100	0.000092
N	32	R32L	cGc	cTc	2	2	AY.103	0.000012
N	32	R32L	cGc	cTc	2	2	AY.117	0.000169
N	32	R32C	Cgc	Tgc	2	2	AY.118	0.000125
N	32	R32H	cGc	cAc	2	2	AY.13	0.000322
N	32	R32C	Cgc	Tgc	2	2	AY.13	0.000322
N	32	R32L	cGc	cTc	2	2	AY.2	0.000712
N	32	R32H	cGc	cAc	2	2	AY.23	0.000139
N	32	R32del	CGC	---	2	2	AY.23	0.000139
N	32	R32R	cgC	cgT	2	2	AY.26	0.000057
N	32	R32R	cgC	cgT	2	2	AY.35	0.000466
N	32	R32L	cGc	cTc	2	2	AY.39	0.000049
N	32	R32del	CGC	---	2	2	AY.4	0.000003
N	32	R32S	Cgc	Agc	2	2	AY.4.2	0.000043
N	32	R32C	Cgc	Tgc	2	2	AY.4.2	0.000043
N	32	R32del	CGC	---	2	2	AY.4.4	0.000818
N	32	R32L	cGc	cTc	2	2	AY.44	0.000012
N	32	R32R	cgC	cgT	2	2	AY.45	0.000243
N	32	R32del	CGC	---	2	2	AY.46	0.000208
N	32	R32L	cGc	cTc	2	2	AY.46.4	0.000329
N	32	R32H	cGc	cAc	2	2	AY.55	0.001835
N	32	R32H	cGc	cAc	2	2	AY.59	0.001059
N	32	R32H	cGc	cAc	2	2	AY.65	0.001066
N	32	R32C	Cgc	Tgc	2	2	AY.65	0.001066
N	32	R32R	cgC	cgT	2	2	AY.9.2	0.000073
N	32	R32C	Cgc	Tgc	2	2	B	0.000256
N	32	R32C	Cgc	Tgc	2	2	B.1.1	0.000036
N	32	R32H	cGc	cAc	2	2	B.1.1.318	0.000604
N	32	R32R	cgC	cgT	2	2	B.1.177	0.000026
N	32	R32C	Cgc	Tgc	2	2	B.1.177.4	0.000422
N	32	R32C	Cgc	Tgc	2	2	B.1.177.44	0.001038
N	32	R32C	Cgc	Tgc	2	2	B.1.177.60	0.000437
N	32	R32H	cGc	cAc	2	2	B.1.243	0.000139
N	32	R32C	Cgc	Tgc	2	2	B.1.258.17	0.000208
N	32	R32C	Cgc	Tgc	2	2	B.1.313	0.013158
N	32	R32C	Cgc	Tgc	2	2	B.1.497	0.00063
N	32	R32H	cGc	cAc	2	2	B.1.596	0.000174
N	32	R32H	cGc	cAc	2	2	B.1.609	0.000959
N	32	R32del	CGC	---	2	2	B.1.617.2	0.000008
N	32	R32P	cGc	cCc	2	2	B.1.617.2	0.000008
N	32	R32H	cGc	cAc	2	2	B.1.619	0.001742
N	32	R32H	cGc	cAc	2	2	B.1.621	0.000177
N	32	R32R	cgC	cgT	2	2	B.1.639	0.043478
N	32	R32H	cGc	cAc	2	2	B.1.93	0.001867
N	32	R32H	cGc	cAc	2	2	B.35	0.015625
N	32	R32H	cGc	cAc	2	2	P.1.14	0.000096
N	32	R32H	cGc	cAc	2	2	P.1.15	0.000465
N	32	R32C	Cgc	Tgc	1	1	A.1	0.000282
N	32	R32H	cGc	cAc	1	1	A.2.4	0.003367
N	32	R32C	Cgc	Tgc	1	1	A.2.5	0.000499
N	32	R32Q	cGC	cAG	1	1	All	0
N	32	R32Y	CGc	TAc	1	1	All	0
N	32	R32del2	CGc	--c	1	1	All	0
N	32	R32H	cGc	cAc	1	1	AP.1	0.001502
N	32	R32H	cGc	cAc	1	1	AY.10	0.00053
N	32	R32C	Cgc	Tgc	1	1	AY.106	0.000335
N	32	R32C	Cgc	Tgc	1	1	AY.109	0.00074
N	32	R32C	Cgc	Tgc	1	1	AY.110	0.000113
N	32	R32R	cgC	cgA	1	1	AY.113	0.000142
N	32	R32C	Cgc	Tgc	1	1	AY.113	0.000142
N	32	R32C	Cgc	Tgc	1	1	AY.114	0.000231
N	32	R32H	cGc	cAc	1	1	AY.117	0.000085
N	32	R32C	Cgc	Tgc	1	1	AY.117	0.000085
N	32	R32H	cGc	cAc	1	1	AY.118	0.000063
N	32	R32del2	CGc	--c	1	1	AY.118	0.000063
N	32	R32R	cgC	cgT	1	1	AY.118	0.000063
N	32	R32H	cGc	cAc	1	1	AY.119	0.000035
N	32	R32del	CGC	---	1	1	AY.120	0.000037
N	32	R32C	Cgc	Tgc	1	1	AY.120	0.000037
N	32	R32L	cGc	cTc	1	1	AY.120	0.000037
N	32	R32H	cGc	cAc	1	1	AY.121	0.000135
N	32	R32H	cGc	cAc	1	1	AY.16	0.00038
N	32	R32H	cGc	cAc	1	1	AY.16.1	0.00047
N	32	R32C	Cgc	Tgc	1	1	AY.16.1	0.00047
N	32	R32H	cGc	cAc	1	1	AY.19	0.00114
N	32	R32R	cgC	cgA	1	1	AY.20	0.000039
N	32	R32R	cgC	cgT	1	1	AY.23	0.00007
N	32	R32del1	cgC	cg-	1	1	AY.3	0.00001
N	32	R32R	cgC	cgT	1	1	AY.3.1	0.000085
N	32	R32del	CGC	---	1	1	AY.30	0.000396
N	32	R32H	cGc	cAc	1	1	AY.32	0.000532
N	32	R32H	cGc	cAc	1	1	AY.34.1	0.00051
N	32	R32C	Cgc	Tgc	1	1	AY.35	0.000233
N	32	R32R	cgC	cgT	1	1	AY.36	0.000148
N	32	R32H	cGc	cAc	1	1	AY.36	0.000148
N	32	R32C	Cgc	Tgc	1	1	AY.37	0.000316
N	32	R32R	cgC	cgT	1	1	AY.39	0.000025
N	32	R32H	cGc	cAc	1	1	AY.39.1	0.00004
N	32	R32del1	cgC	cg-	1	1	AY.4	0.000002
N	32	R32R	cgC	cgT	1	1	AY.4.2	0.000022
N	32	R32H	cGc	cAc	1	1	AY.41	0.000294
N	32	R32L	cGc	cTc	1	1	AY.42	0.00004
N	32	R32R	cgC	cgT	1	1	AY.43	0.000004
N	32	R32H	cGc	cAc	1	1	AY.46	0.000104
N	32	R32R	cgC	cgA	1	1	AY.46	0.000104
N	32	R32C	Cgc	Tgc	1	1	AY.46.1	0.001027
N	32	R32C	Cgc	Tgc	1	1	AY.46.4	0.000165
N	32	R32del	CGC	---	1	1	AY.46.6	0.000072
N	32	R32L	cGc	cTc	1	1	AY.46.6	0.000072
N	32	R32H	cGc	cAc	1	1	AY.46.6	0.000072
N	32	R32L	cGc	cTc	1	1	AY.47	0.000031
N	32	R32P	cGc	cCc	1	1	AY.47	0.000031
N	32	R32del	CGC	---	1	1	AY.5.3	0.000337
N	32	R32H	cGc	cAc	1	1	AY.57	0.000656
N	32	R32del	CGC	---	1	1	AY.60	0.000938
N	32	R32H	cGc	cAc	1	1	AY.64	0.000595
N	32	R32L	cGc	cTc	1	1	AY.65	0.000533
N	32	R32R	cgC	cgT	1	1	AY.67	0.000464
N	32	R32H	cGc	cAc	1	1	AY.69	0.000187
N	32	R32C	Cgc	Tgc	1	1	AY.70	0.000209
N	32	R32H	cGc	cAc	1	1	AY.75	0.000056
N	32	R32C	Cgc	Tgc	1	1	AY.75	0.000056
N	32	R32del	CGC	---	1	1	AY.75.1	0.00018
N	32	R32P	cGC	cCA	1	1	AY.75.1	0.00018
N	32	R32H	cGc	cAc	1	1	AY.8	0.000606
N	32	R32R	cgC	cgT	1	1	AY.84	0.000437
N	32	R32del	CGC	---	1	1	AY.9.1	0.000084
N	32	R32C	Cgc	Tgc	1	1	AY.9.1	0.000084
N	32	R32C	Cgc	Tgc	1	1	AY.9.2	0.000037
N	32	R32S	Cgc	Agc	1	1	AY.93	0.000273
N	32	R32C	Cgc	Tgc	1	1	AY.95	0.000761
N	32	R32H	cGc	cAc	1	1	AY.95	0.000761
N	32	R32H	cGc	cAc	1	1	AY.98	0.000079
N	32	R32L	cGc	cTc	1	1	AY.98	0.000079
N	32	R32G	Cgc	Ggc	1	1	AY.98	0.000079
N	32	R32H	cGc	cAc	1	1	AY.98.1	0.000048
N	32	R32H	cGc	cAc	1	1	B	0.000128
N	32	R32del	CGC	---	1	1	B.1	0.000009
N	32	R32P	cGc	cCc	1	1	B.1	0.000009
N	32	R32del1	cGc	c-c	1	1	B.1.1	0.000018
N	32	R32del	CGC	---	1	1	B.1.1	0.000018
N	32	R32L	cGc	cTc	1	1	B.1.1	0.000018
N	32	R32R	cgC	cgT	1	1	B.1.1.135	0.004695
N	32	R32del	CGC	---	1	1	B.1.1.139	0.022727
N	32	R32R	cgC	cgT	1	1	B.1.1.168	0.026316
N	32	R32H	cGc	cAc	1	1	B.1.1.176	0.000439
N	32	R32H	cGc	cAc	1	1	B.1.1.189	0.001513
N	32	R32C	Cgc	Tgc	1	1	B.1.1.192	0.002309
N	32	R32C	Cgc	Tgc	1	1	B.1.1.200	0.007463
N	32	R32C	Cgc	Tgc	1	1	B.1.1.214	0.000055
N	32	R32del	CGC	---	1	1	B.1.1.216	0.00089
N	32	R32C	Cgc	Tgc	1	1	B.1.1.216	0.00089
N	32	R32C	Cgc	Tgc	1	1	B.1.1.220	0.001859
N	32	R32C	Cgc	Tgc	1	1	B.1.1.25	0.000569
N	32	R32H	cGc	cAc	1	1	B.1.1.28	0.000311
N	32	R32C	Cgc	Tgc	1	1	B.1.1.294	0.001266
N	32	R32S	Cgc	Agc	1	1	B.1.1.306	0.000438
N	32	R32H	cGc	cAc	1	1	B.1.1.311	0.000358
N	32	R32R	cgC	cgT	1	1	B.1.1.317	0.000412
N	32	R32S	Cgc	Agc	1	1	B.1.1.318	0.000302
N	32	R32C	Cgc	Tgc	1	1	B.1.1.33	0.000421
N	32	R32H	cGc	cAc	1	1	B.1.1.362	0.005618
N	32	R32R	cgC	cgT	1	1	B.1.1.37	0.000193
N	32	R32H	cGc	cAc	1	1	B.1.1.37	0.000193
N	32	R32R	cgC	cgT	1	1	B.1.1.378	0.007299
N	32	R32del	CGC	---	1	1	B.1.1.420	0.001006
N	32	R32H	cGc	cAc	1	1	B.1.1.434	0.000349
N	32	R32H	cGc	cAc	1	1	B.1.1.440	0.011765
N	32	R32C	Cgc	Tgc	1	1	B.1.1.464	0.001473
N	32	R32Y	CGc	TAc	1	1	B.1.1.7	0.000001
N	32	R32C	Cgc	Tgc	1	1	B.1.126	0.001276
N	32	R32H	cGc	cAc	1	1	B.1.131	0.008772
N	32	R32C	Cgc	Tgc	1	1	B.1.157	0.002985
N	32	R32H	cGc	cAc	1	1	B.1.160.10	0.008065
N	32	R32C	Cgc	Tgc	1	1	B.1.177.20	0.001517
N	32	R32L	cGc	cTc	1	1	B.1.177.23	0.003236
N	32	R32C	Cgc	Tgc	1	1	B.1.177.34	0.052632
N	32	R32H	cGc	cAc	1	1	B.1.177.4	0.000211
N	32	R32C	Cgc	Tgc	1	1	B.1.177.43	0.001477
N	32	R32del	CGC	---	1	1	B.1.177.63	0.002703
N	32	R32H	cGc	cAc	1	1	B.1.177.7	0.000165
N	32	R32L	cGc	cTc	1	1	B.1.177.7	0.000165
N	32	R32H	cGc	cAc	1	1	B.1.177.75	0.001041
N	32	R32del	CGC	---	1	1	B.1.177.75	0.001041
N	32	R32C	Cgc	Tgc	1	1	B.1.177.86	0.000183
N	32	R32L	cGc	cTc	1	1	B.1.2	0.000009
N	32	R32G	Cgc	Ggc	1	1	B.1.2	0.000009
N	32	R32C	Cgc	Tgc	1	1	B.1.210	0.002132
N	32	R32C	Cgc	Tgc	1	1	B.1.214.2	0.0006
N	32	R32del	CGC	---	1	1	B.1.221	0.000071
N	32	R32S	Cgc	Agc	1	1	B.1.221.3	0.000833
N	32	R32C	Cgc	Tgc	1	1	B.1.223	0.002778
N	32	R32R	cgC	cgT	1	1	B.1.23	0.006061
N	32	R32C	Cgc	Tgc	1	1	B.1.234	0.000132
N	32	R32H	cGc	cAc	1	1	B.1.234	0.000132
N	32	R32C	Cgc	Tgc	1	1	B.1.240	0.000216
N	32	R32H	cGc	cAc	1	1	B.1.240	0.000216
N	32	R32C	Cgc	Tgc	1	1	B.1.258	0.000067
N	32	R32L	cGc	cTc	1	1	B.1.258	0.000067
N	32	R32C	Cgc	Tgc	1	1	B.1.258.21	0.007752
N	32	R32L	cGc	cTc	1	1	B.1.351	0.00003
N	32	R32R	cgC	cgT	1	1	B.1.351	0.00003
N	32	R32H	cGc	cAc	1	1	B.1.36.1	0.00114
N	32	R32R	cgC	cgT	1	1	B.1.369	0.000285
N	32	R32L	cGc	cTc	1	1	B.1.408	0.00369
N	32	R32del	CGC	---	1	1	B.1.439	0.005917
N	32	R32C	Cgc	Tgc	1	1	B.1.452	0.013699
N	32	R32R	cgC	cgT	1	1	B.1.466.2	0.000391
N	32	R32R	cgC	cgT	1	1	B.1.471	0.002732
N	32	R32H	cGc	cAc	1	1	B.1.487	0.019608
N	32	R32H	cGc	cAc	1	1	B.1.497	0.000315
N	32	R32R	cgC	cgT	1	1	B.1.497	0.000315
N	32	R32H	cGc	cAc	1	1	B.1.509	0.000866
N	32	R32H	cGc	cAc	1	1	B.1.525	0.000113
N	32	R32R	cgC	cgT	1	1	B.1.526	0.000024
N	32	R32H	cGc	cAc	1	1	B.1.555	0.022222
N	32	R32H	cGc	cAc	1	1	B.1.564	0.000426
N	32	R32C	Cgc	Tgc	1	1	B.1.565	0.00081
N	32	R32H	cGc	cAc	1	1	B.1.595	0.000261
N	32	R32C	Cgc	Tgc	1	1	B.1.609	0.000479
N	32	R32R	cgC	cgT	1	1	B.1.617.1	0.000129
N	32	R32S	Cgc	Agc	1	1	B.1.617.2	0.000004
N	32	R32Q	cGC	cAG	1	1	B.1.617.2	0.000004
N	32	R32C	Cgc	Tgc	1	1	B.1.621	0.000089
N	32	R32R	cgC	cgT	1	1	B.1.621.1	0.000506
N	32	R32H	cGc	cAc	1	1	B.1.623	0.000536
N	32	R32C	Cgc	Tgc	1	1	B.1.631	0.003367
N	32	R32H	cGc	cAc	1	1	B.1.637	0.000073
N	32	R32C	Cgc	Tgc	1	1	B.1.93	0.000934
N	32	R32C	Cgc	Tgc	1	1	B.39	0.002331
N	32	R32C	Cgc	Tgc	1	1	B.6.6	0.000889
N	32	R32L	cGc	cTc	1	1	B.6.8	0.008264
N	32	R32C	Cgc	Tgc	1	1	C.35	0.000774
N	32	R32L	cGc	cTc	1	1	D.2	0.000075
N	32	R32C	Cgc	Tgc	1	1	N.1	0.016949
N	32	R32C	Cgc	Tgc	1	1	N.5	0.001767
N	32	R32H	cGc	cAc	1	1	N.5	0.001767
N	32	R32H	cGc	cAc	1	1	P.1.10	0.000269
N	32	R32R	cgC	cgT	1	1	P.1.14	0.000048
N	32	R32H	cGc	cAc	1	1	P.1.4	0.000977
N	32	R32H	cGc	cAc	1	1	P.2	0.000187
N	32	R32H	cGc	cAc	1	1	U.1	0.012821

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.