CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 416

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORFCodonNumMutORF1abMutMutTypeRefCodonMutCodonAACountCodonCountCodonPropGenome Position
ORF1ab/nsp13416T416IT5740InonsynaCaaTa13111311117482-17484
ORF1ab/nsp13416T416TT5740TsynacAacG1651470.89090917482-17484
ORF1ab/nsp13416T416TT5740TsynacAacC165130.078787917482-17484
ORF1ab/nsp13416T416TT5740TsynacAacT16550.03030317482-17484
ORF1ab/nsp13416T416AT5740AnonsynAcaGca9797117482-17484
ORF1ab/nsp13416T416ST5740SnonsynAcaTca39380.97435917482-17484
ORF1ab/nsp13416T416ST5740SnonsynaCAaGT3910.02564117482-17484
ORF1ab/nsp13416T416delT5740deldelACA---2525117482-17484
ORF1ab/nsp13416T416PT5740PnonsynAcaCca13110.84615417482-17484
ORF1ab/nsp13416T416PT5740PnonsynAcACcT1320.15384617482-17484
ORF1ab/nsp13416T416VT5740VnonsynACAGTC320.66666717482-17484
ORF1ab/nsp13416T416VT5740VnonsynACAGTG310.33333317482-17484
ORF1ab/nsp13416T416del1T5740del1delAca-ca22117482-17484
ORF1ab/nsp13416T416RT5740RnonsynaCaaGa11117482-17484
ORF1ab/nsp13416T416MT5740MnonsynaCAaTG11117482-17484
ORF1ab/nsp13416T416WT5740WnonsynACATGG11117482-17484

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp13416T416IaCaaTa13111311All0.000251
ORF1ab/nsp13416T416IaCaaTa893893B.1.5680.992222
ORF1ab/nsp13416T416TacAacG147165All0.000028
ORF1ab/nsp13416T416TacAacC13165All0.000002
ORF1ab/nsp13416T416TacAacT5165All0.000001
ORF1ab/nsp13416T416AAcaGca9797All0.000019
ORF1ab/nsp13416T416IaCaaTa6666B.1.5260.001551
ORF1ab/nsp13416T416IaCaaTa4444B.10.000403
ORF1ab/nsp13416T416IaCaaTa4343AY.430.000191
ORF1ab/nsp13416T416IaCaaTa4343B.1.1.70.000038
ORF1ab/nsp13416T416IaCaaTa4242AY.40.000065
ORF1ab/nsp13416T416TacAacG3842B.1.1.70.000034
ORF1ab/nsp13416T416TacAacC342B.1.1.70.000003
ORF1ab/nsp13416T416TacAacT142B.1.1.70.000001
ORF1ab/nsp13416T416SAcaTca3839All0.000007
ORF1ab/nsp13416T416SaCAaGT139All0
ORF1ab/nsp13416T416TacAacG2929AY.200.001127
ORF1ab/nsp13416T416delACA---2525All0.000005
ORF1ab/nsp13416T416AAcaGca2121B0.002684
ORF1ab/nsp13416T416TacAacG1617AY.40.000025
ORF1ab/nsp13416T416TacAacC117AY.40.000002
ORF1ab/nsp13416T416IaCaaTa1616B.1.617.20.00006
ORF1ab/nsp13416T416PAcaCca1113All0.000002
ORF1ab/nsp13416T416PAcACcT213All0
ORF1ab/nsp13416T416IaCaaTa1313P.10.000205
ORF1ab/nsp13416T416IaCaaTa1212AY.39.10.000475
ORF1ab/nsp13416T416TacAacG1212B.1.6370.000877
ORF1ab/nsp13416T416IaCaaTa1212P.1.160.004489
ORF1ab/nsp13416T416IaCaaTa1010AY.470.000311
ORF1ab/nsp13416T416AAcaGca1010B.10.000092
ORF1ab/nsp13416T416delACA---1010B.1.1.70.000009
ORF1ab/nsp13416T416AAcaGca99B.1.1.70.000008
ORF1ab/nsp13416T416IaCaaTa99B.1.20.000079
ORF1ab/nsp13416T416IaCaaTa99B.1.5820.004416
ORF1ab/nsp13416T416IaCaaTa88AY.98.10.000387
ORF1ab/nsp13416T416SAcaTca77B.1.1.70.000006
ORF1ab/nsp13416T416AAcaGca77B.1.177.730.003964
ORF1ab/nsp13416T416TacAacG66AY.1020.000159
ORF1ab/nsp13416T416IaCaaTa66AY.60.000247
ORF1ab/nsp13416T416IaCaaTa66B.1.1770.000079
ORF1ab/nsp13416T416IaCaaTa66B.1.6120.015915
ORF1ab/nsp13416T416AAcaGca55AY.1030.000031
ORF1ab/nsp13416T416TacAacG55AY.1030.000031
ORF1ab/nsp13416T416IaCaaTa55AY.1030.000031
ORF1ab/nsp13416T416TacAacG55AY.3.10.000426
ORF1ab/nsp13416T416AAcaGca55AY.40.000008
ORF1ab/nsp13416T416TacAacG55AY.50.000103
ORF1ab/nsp13416T416TacAacG45B.10.000037
ORF1ab/nsp13416T416TacAacT15B.10.000009
ORF1ab/nsp13416T416AAcaGca55B.1.1.630.001929
ORF1ab/nsp13416T416SAcaTca55P.10.000079
ORF1ab/nsp13416T416IaCaaTa44AY.1020.000106
ORF1ab/nsp13416T416PAcaCca44AY.430.000018
ORF1ab/nsp13416T416IaCaaTa44AY.440.000024
ORF1ab/nsp13416T416AAcaGca44AY.440.000024
ORF1ab/nsp13416T416SAcaTca44AY.50.000083
ORF1ab/nsp13416T416SAcaTca44B.1.1.3160.0037
ORF1ab/nsp13416T416TacAacG44B.1.3960.002823
ORF1ab/nsp13416T416IaCaaTa44B.1.5960.000349
ORF1ab/nsp13416T416TacAacG44B.1.617.20.000015
ORF1ab/nsp13416T416SAcaTca44Q.30.00058
ORF1ab/nsp13416T416VACAGTC23All0
ORF1ab/nsp13416T416VACAGTG13All0
ORF1ab/nsp13416T416IaCaaTa33AY.250.000018
ORF1ab/nsp13416T416TacAacC23AY.250.000012
ORF1ab/nsp13416T416TacAacG13AY.250.000006
ORF1ab/nsp13416T416TacAacG23AY.430.000009
ORF1ab/nsp13416T416TacAacC13AY.430.000004
ORF1ab/nsp13416T416AAcaGca33AY.5.30.001012
ORF1ab/nsp13416T416AAcaGca33B.1.20.000026
ORF1ab/nsp13416T416TacAacG23B.1.20.000018
ORF1ab/nsp13416T416TacAacT13B.1.20.000009
ORF1ab/nsp13416T416IaCaaTa33B.1.6210.000266
ORF1ab/nsp13416T416TacAacC33P.20.00056
ORF1ab/nsp13416T416AAcaGca33Q.10.000379
ORF1ab/nsp13416T416PAcACcT220.111111
ORF1ab/nsp13416T416VACAGTC220.111111
ORF1ab/nsp13416T416TacAacT220.111111
ORF1ab/nsp13416T416AAcaGca220.111111
ORF1ab/nsp13416T416del1Aca-ca22All0
ORF1ab/nsp13416T416IaCaaTa22AU.30.004219
ORF1ab/nsp13416T416SAcaTca22AY.1030.000012
ORF1ab/nsp13416T416IaCaaTa22AY.30.00002
ORF1ab/nsp13416T416SAcaTca22AY.40.000003
ORF1ab/nsp13416T416IaCaaTa22AY.450.000243
ORF1ab/nsp13416T416TacAacG22AY.480.00093
ORF1ab/nsp13416T416IaCaaTa22AY.5.40.000553
ORF1ab/nsp13416T416TacAacG12AY.60.000041
ORF1ab/nsp13416T416TacAacC12AY.60.000041
ORF1ab/nsp13416T416SAcaTca22AY.650.001066
ORF1ab/nsp13416T416AAcaGca22AY.980.000158
ORF1ab/nsp13416T416IaCaaTa22AZ.20.001642
ORF1ab/nsp13416T416TacAacG22B.1.2500.028986
ORF1ab/nsp13416T416IaCaaTa22B.1.2580.000133
ORF1ab/nsp13416T416IaCaaTa22B.1.360.000292
ORF1ab/nsp13416T416AAcaGca22B.1.4270.000101
ORF1ab/nsp13416T416delACA---22B.1.617.20.000008
ORF1ab/nsp13416T416IaCaaTa22L.30.007092
ORF1ab/nsp13416T416AAcaGca22P.10.000032
ORF1ab/nsp13416T416PAcaCca11A.10.000282
ORF1ab/nsp13416T416delACA---11AD.20.000219
ORF1ab/nsp13416T416IaCaaTa11AD.20.000219
ORF1ab/nsp13416T416RaCaaGa11All0
ORF1ab/nsp13416T416MaCAaTG11All0
ORF1ab/nsp13416T416WACATGG11All0
ORF1ab/nsp13416T416AAcaGca11AY.1000.000046
ORF1ab/nsp13416T416AAcaGca11AY.1190.000035
ORF1ab/nsp13416T416IaCaaTa11AY.120.000316
ORF1ab/nsp13416T416IaCaaTa11AY.1200.000037
ORF1ab/nsp13416T416TacAacG11AY.1210.000135
ORF1ab/nsp13416T416delACA---11AY.230.00007
ORF1ab/nsp13416T416AAcaGca11AY.230.00007
ORF1ab/nsp13416T416AAcaGca11AY.250.000006
ORF1ab/nsp13416T416AAcaGca11AY.30.00001
ORF1ab/nsp13416T416TacAacG11AY.30.00001
ORF1ab/nsp13416T416IaCaaTa11AY.330.000067
ORF1ab/nsp13416T416IaCaaTa11AY.360.000148
ORF1ab/nsp13416T416IaCaaTa11AY.390.000025
ORF1ab/nsp13416T416AAcaGca11AY.39.10.00004
ORF1ab/nsp13416T416delACA---11AY.40.000002
ORF1ab/nsp13416T416IaCaaTa11AY.4.20.000022
ORF1ab/nsp13416T416TacAacG11AY.4.2.10.000149
ORF1ab/nsp13416T416PAcaCca11AY.420.00004
ORF1ab/nsp13416T416AAcaGca11AY.430.000004
ORF1ab/nsp13416T416SAcaTca11AY.440.000006
ORF1ab/nsp13416T416PAcaCca11AY.440.000006
ORF1ab/nsp13416T416del1Aca-ca11AY.440.000006
ORF1ab/nsp13416T416TacAacG11AY.440.000006
ORF1ab/nsp13416T416TacAacG11AY.46.40.000165
ORF1ab/nsp13416T416SAcaTca11AY.480.000465
ORF1ab/nsp13416T416IaCaaTa11AY.540.000095
ORF1ab/nsp13416T416IaCaaTa11AY.570.000656
ORF1ab/nsp13416T416PAcaCca11AY.670.000464
ORF1ab/nsp13416T416IaCaaTa11AY.720.001361
ORF1ab/nsp13416T416TacAacG11AY.730.000665
ORF1ab/nsp13416T416IaCaaTa11AY.75.10.00018
ORF1ab/nsp13416T416TacAacC11AY.9.10.000084
ORF1ab/nsp13416T416IaCaaTa11AY.9.20.000037
ORF1ab/nsp13416T416IaCaaTa11AY.980.000079
ORF1ab/nsp13416T416delACA---11AY.99.10.001553
ORF1ab/nsp13416T416SAcaTca11B.10.000009
ORF1ab/nsp13416T416RaCaaGa11B.10.000009
ORF1ab/nsp13416T416del1Aca-ca11B.10.000009
ORF1ab/nsp13416T416IaCaaTa11B.1.10.000018
ORF1ab/nsp13416T416SaCAaGT11B.1.10.000018
ORF1ab/nsp13416T416IaCaaTa11B.1.1.2070.001182
ORF1ab/nsp13416T416SAcaTca11B.1.1.250.000569
ORF1ab/nsp13416T416SAcaTca11B.1.1.3060.000438
ORF1ab/nsp13416T416IaCaaTa11B.1.1.3180.000302
ORF1ab/nsp13416T416SAcaTca11B.1.1.3290.003846
ORF1ab/nsp13416T416TacAacG11B.1.1.470.005348
ORF1ab/nsp13416T416MaCAaTG11B.1.1.70.000001
ORF1ab/nsp13416T416WACATGG11B.1.1.70.000001
ORF1ab/nsp13416T416AAcaGca11B.1.1600.000031
ORF1ab/nsp13416T416delACA---11B.1.177.540.000606
ORF1ab/nsp13416T416delACA---11B.1.177.690.001484
ORF1ab/nsp13416T416IaCaaTa11B.1.177.860.000183
ORF1ab/nsp13416T416delACA---11B.1.177.90.001332
ORF1ab/nsp13416T416delACA---11B.1.1790.003759
ORF1ab/nsp13416T416SAcaTca11B.1.20.000009
ORF1ab/nsp13416T416IaCaaTa11B.1.2120.016667
ORF1ab/nsp13416T416PAcaCca11B.1.2210.000071
ORF1ab/nsp13416T416IaCaaTa11B.1.221.30.000833
ORF1ab/nsp13416T416delACA---11B.1.2580.000067
ORF1ab/nsp13416T416IaCaaTa11B.1.3510.00003
ORF1ab/nsp13416T416AAcaGca11B.1.3510.00003
ORF1ab/nsp13416T416IaCaaTa11B.1.3670.000792
ORF1ab/nsp13416T416TacAacG11B.1.3690.000285
ORF1ab/nsp13416T416IaCaaTa11B.1.3960.000706
ORF1ab/nsp13416T416IaCaaTa11B.1.4130.004255
ORF1ab/nsp13416T416delACA---11B.1.4150.014286
ORF1ab/nsp13416T416AAcaGca11B.1.4290.000024
ORF1ab/nsp13416T416IaCaaTa11B.1.5170.000427
ORF1ab/nsp13416T416IaCaaTa11B.1.5600.00463
ORF1ab/nsp13416T416IaCaaTa11B.1.5760.000907
ORF1ab/nsp13416T416AAcaGca11B.1.5770.000687
ORF1ab/nsp13416T416delACA---11B.1.5770.000687
ORF1ab/nsp13416T416TacAacG11B.1.5890.007576
ORF1ab/nsp13416T416AAcaGca11B.1.5990.00365
ORF1ab/nsp13416T416SAcaTca11B.1.617.20.000004
ORF1ab/nsp13416T416AAcaGca11B.1.617.20.000004
ORF1ab/nsp13416T416IaCaaTa11B.1.619.10.000641
ORF1ab/nsp13416T416IaCaaTa11B.1.6280.000352
ORF1ab/nsp13416T416delACA---11B.1.6300.005236
ORF1ab/nsp13416T416IaCaaTa11B.1.6370.000073
ORF1ab/nsp13416T416IaCaaTa11B.1.810.021277
ORF1ab/nsp13416T416VACAGTG11B.40.002208
ORF1ab/nsp13416T416IaCaaTa11C.350.000774
ORF1ab/nsp13416T416TacAacC11C.370.000116
ORF1ab/nsp13416T416IaCaaTa11C.380.008065
ORF1ab/nsp13416T416PAcaCca11P.10.000016
ORF1ab/nsp13416T416IaCaaTa11P.1.10.000318
ORF1ab/nsp13416T416PAcaCca11P.1.140.000048
ORF1ab/nsp13416T416AAcaGca11Q.80.000165
ORF1ab/nsp13416T416IaCaaTa11R.10.00009
ORF1ab/nsp13416T416delACA---11U.30.003861

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.