CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : 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/nsp12416N416NN4808NsynaaCaaT23272327114686-14688
ORF1ab/nsp12416N416delN4808deldelAAC---6363114686-14688
ORF1ab/nsp12416N416HN4808HnonsynAacCac88114686-14688
ORF1ab/nsp12416N416KN4808KnonsynaaCaaA77114686-14688
ORF1ab/nsp12416N416SN4808SnonsynaAcaGc44114686-14688
ORF1ab/nsp12416N416TN4808TnonsynaAcaCc33114686-14688
ORF1ab/nsp12416N416IN4808InonsynaACaTA320.66666714686-14688
ORF1ab/nsp12416N416IN4808InonsynaAcaTc310.33333314686-14688
ORF1ab/nsp12416N416del2N4808del2delaACa--22114686-14688
ORF1ab/nsp12416N416del1N4808del1delAac-ac22114686-14688
ORF1ab/nsp12416N416DN4808DnonsynAacGac22114686-14688
ORF1ab/nsp12416N416YN4808YnonsynAacTac22114686-14688
ORF1ab/nsp12416N416QN4808QnonsynAaCCaA11114686-14688
ORF1ab/nsp12416N416GN4808GnonsynAAcGGc11114686-14688

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/nsp12416N416NaaCaaT23272327All0.000445
ORF1ab/nsp12416N416NaaCaaT670670B.1.1.70.0006
ORF1ab/nsp12416N416NaaCaaT395395AY.40.000615
ORF1ab/nsp12416N416NaaCaaT9797B.1.1.5280.466346
ORF1ab/nsp12416N416NaaCaaT8787B.1.10.001578
ORF1ab/nsp12416N416NaaCaaT8383B.1.1770.001093
ORF1ab/nsp12416N416delAAC---6363All0.000012
ORF1ab/nsp12416N416NaaCaaT5959B.1.617.20.000222
ORF1ab/nsp12416N416NaaCaaT5353AY.1030.000329
ORF1ab/nsp12416N416NaaCaaT5252B.10.000476
ORF1ab/nsp12416N416NaaCaaT4343B.1.20.000379
ORF1ab/nsp12416N416NaaCaaT4242AY.200.001632
ORF1ab/nsp12416N416NaaCaaT4141AY.540.003909
ORF1ab/nsp12416N416NaaCaaT3838AY.98.10.00184
ORF1ab/nsp12416N416NaaCaaT3636AY.440.000219
ORF1ab/nsp12416N416NaaCaaT3434B.1.4290.0008
ORF1ab/nsp12416N416NaaCaaT3333AY.99.20.003041
ORF1ab/nsp12416N416delAAC---3232B.1.1.70.000029
ORF1ab/nsp12416N416NaaCaaT3030AY.4.10.022124
ORF1ab/nsp12416N416NaaCaaT2929C.350.022446
ORF1ab/nsp12416N416NaaCaaT2727AY.430.00012
ORF1ab/nsp12416N416NaaCaaT2525AY.250.00015
ORF1ab/nsp12416N416NaaCaaT2121B.1.1.3040.058989
ORF1ab/nsp12416N416NaaCaaT1717B.1.1.2140.000943
ORF1ab/nsp12416N416NaaCaaT1616AY.470.000498
ORF1ab/nsp12416N416NaaCaaT1515AY.220.031381
ORF1ab/nsp12416N416NaaCaaT1515B.1.177.40.003166
ORF1ab/nsp12416N416NaaCaaT1414AY.1200.000521
ORF1ab/nsp12416N416NaaCaaT1414AY.30.000139
ORF1ab/nsp12416N416NaaCaaT1313B.1.1.5190.000516
ORF1ab/nsp12416N416NaaCaaT1313B.1.3620.020031
ORF1ab/nsp12416N416NaaCaaT1111B.1.1.3690.004909
ORF1ab/nsp12416N416NaaCaaT1010AY.1020.000265
ORF1ab/nsp12416N416NaaCaaT99C.370.001045
ORF1ab/nsp12416N416HAacCac88All0.000002
ORF1ab/nsp12416N416NaaCaaT88B.1.1.900.8
ORF1ab/nsp12416N416NaaCaaT88B.1.1600.00025
ORF1ab/nsp12416N416NaaCaaT88B.1.2210.000568
ORF1ab/nsp12416N416NaaCaaT88P.10.000126
ORF1ab/nsp12416N416KaaCaaA77All0.000001
ORF1ab/nsp12416N416NaaCaaT77AY.390.000173
ORF1ab/nsp12416N416NaaCaaT77B.1.1.4340.00244
ORF1ab/nsp12416N416HAacCac77B.1.1.70.000006
ORF1ab/nsp12416N416NaaCaaT55AY.120.10.001605
ORF1ab/nsp12416N416NaaCaaT55AY.290.000079
ORF1ab/nsp12416N416NaaCaaT55AY.350.001165
ORF1ab/nsp12416N416NaaCaaT55AY.46.40.000823
ORF1ab/nsp12416N416NaaCaaT55AY.9.20.000184
ORF1ab/nsp12416N416NaaCaaT55AY.980.000395
ORF1ab/nsp12416N416NaaCaaT55B.1.258.170.00052
ORF1ab/nsp12416N416NaaCaaT55B.1.5260.000118
ORF1ab/nsp12416N416SaAcaGc44All0.000001
ORF1ab/nsp12416N416NaaCaaT44AY.260.000113
ORF1ab/nsp12416N416delAAC---44AY.40.000006
ORF1ab/nsp12416N416delAAC---44AY.4.50.00043
ORF1ab/nsp12416N416NaaCaaT44AY.700.000834
ORF1ab/nsp12416N416NaaCaaT44B.1.1.2650.012618
ORF1ab/nsp12416N416NaaCaaT44B.1.1.330.001684
ORF1ab/nsp12416N416delAAC---44B.1.1770.000053
ORF1ab/nsp12416N416NaaCaaT44B.1.3510.000119
ORF1ab/nsp12416N416NaaCaaT44Q.80.00066
ORF1ab/nsp12416N416NaaCaaT44R.10.00036
ORF1ab/nsp12416N416TaAcaCc33All0.000001
ORF1ab/nsp12416N416IaACaTA23All0
ORF1ab/nsp12416N416IaAcaTc13All0
ORF1ab/nsp12416N416NaaCaaT33AY.1130.000427
ORF1ab/nsp12416N416NaaCaaT33AY.20.001068
ORF1ab/nsp12416N416NaaCaaT33AY.270.000194
ORF1ab/nsp12416N416NaaCaaT33AY.420.000121
ORF1ab/nsp12416N416NaaCaaT33AY.46.20.001906
ORF1ab/nsp12416N416NaaCaaT33AY.60.000123
ORF1ab/nsp12416N416NaaCaaT33AY.9.10.000251
ORF1ab/nsp12416N416NaaCaaT33B.1.1470.002268
ORF1ab/nsp12416N416NaaCaaT33B.1.2180.015464
ORF1ab/nsp12416N416NaaCaaT33B.1.360.000438
ORF1ab/nsp12416N416NaaCaaT33B.1.5610.001191
ORF1ab/nsp12416N416NaaCaaT33B.1.617.10.000387
ORF1ab/nsp12416N416NaaCaaT33C.160.003181
ORF1ab/nsp12416N416NaaCaaT33P.1.70.000958
ORF1ab/nsp12416N416DAacGac22All0
ORF1ab/nsp12416N416del1Aac-ac22All0
ORF1ab/nsp12416N416del2aACa--22All0
ORF1ab/nsp12416N416YAacTac22All0
ORF1ab/nsp12416N416NaaCaaT22AY.1190.000071
ORF1ab/nsp12416N416NaaCaaT22AY.1210.000271
ORF1ab/nsp12416N416NaaCaaT22AY.4.50.000215
ORF1ab/nsp12416N416NaaCaaT22AY.570.001312
ORF1ab/nsp12416N416NaaCaaT22AY.610.00021
ORF1ab/nsp12416N416NaaCaaT22AY.750.000112
ORF1ab/nsp12416N416NaaCaaT22B.1.1.2740.010101
ORF1ab/nsp12416N416NaaCaaT22B.1.1.280.000622
ORF1ab/nsp12416N416NaaCaaT22B.1.1.3030.005525
ORF1ab/nsp12416N416NaaCaaT22B.1.1.370.000386
ORF1ab/nsp12416N416NaaCaaT22B.1.1.4160.00181
ORF1ab/nsp12416N416NaaCaaT22B.1.1280.001271
ORF1ab/nsp12416N416NaaCaaT22B.1.177.570.000562
ORF1ab/nsp12416N416NaaCaaT22B.1.177.580.002663
ORF1ab/nsp12416N416NaaCaaT22B.1.177.70.00033
ORF1ab/nsp12416N416NaaCaaT22B.1.2320.001075
ORF1ab/nsp12416N416NaaCaaT22B.1.2580.000133
ORF1ab/nsp12416N416NaaCaaT22B.1.36.170.000988
ORF1ab/nsp12416N416NaaCaaT22B.1.36.360.001204
ORF1ab/nsp12416N416NaaCaaT22B.1.5250.000226
ORF1ab/nsp12416N416NaaCaaT22B.1.5750.000607
ORF1ab/nsp12416N416delAAC---22B.1.617.20.000008
ORF1ab/nsp12416N416NaaCaaT22B.1.6230.001073
ORF1ab/nsp12416N416NaaCaaT22B.1.6370.000146
ORF1ab/nsp12416N416NaaCaaT22D.20.00015
ORF1ab/nsp12416N416KaaCaaA110.055556
ORF1ab/nsp12416N416delAAC---11A0.000387
ORF1ab/nsp12416N416NaaCaaT11A0.000387
ORF1ab/nsp12416N416SaAcaGc11A.20.000662
ORF1ab/nsp12416N416NaaCaaT11A.2.50.000499
ORF1ab/nsp12416N416NaaCaaT11A.23.10.000704
ORF1ab/nsp12416N416NaaCaaT11A.270.001656
ORF1ab/nsp12416N416NaaCaaT11A.40.012821
ORF1ab/nsp12416N416GAAcGGc11All0
ORF1ab/nsp12416N416QAaCCaA11All0
ORF1ab/nsp12416N416NaaCaaT11AY.10.000396
ORF1ab/nsp12416N416NaaCaaT11AY.1000.000046
ORF1ab/nsp12416N416KaaCaaA11AY.1000.000046
ORF1ab/nsp12416N416NaaCaaT11AY.1060.000335
ORF1ab/nsp12416N416NaaCaaT11AY.1100.000113
ORF1ab/nsp12416N416NaaCaaT11AY.1110.000183
ORF1ab/nsp12416N416delAAC---11AY.1110.000183
ORF1ab/nsp12416N416NaaCaaT11AY.120.000316
ORF1ab/nsp12416N416NaaCaaT11AY.120.20.001285
ORF1ab/nsp12416N416NaaCaaT11AY.120.2.10.000498
ORF1ab/nsp12416N416NaaCaaT11AY.130.000161
ORF1ab/nsp12416N416NaaCaaT11AY.160.00038
ORF1ab/nsp12416N416NaaCaaT11AY.16.10.00047
ORF1ab/nsp12416N416NaaCaaT11AY.230.00007
ORF1ab/nsp12416N416NaaCaaT11AY.240.000431
ORF1ab/nsp12416N416delAAC---11AY.250.000006
ORF1ab/nsp12416N416NaaCaaT11AY.300.000396
ORF1ab/nsp12416N416delAAC---11AY.330.000067
ORF1ab/nsp12416N416NaaCaaT11AY.380.000499
ORF1ab/nsp12416N416TaAcaCc11AY.420.00004
ORF1ab/nsp12416N416NaaCaaT11AY.450.000122
ORF1ab/nsp12416N416NaaCaaT11AY.50.000021
ORF1ab/nsp12416N416NaaCaaT11AY.510.000909
ORF1ab/nsp12416N416SaAcaGc11AY.530.000288
ORF1ab/nsp12416N416DAacGac11AY.530.000288
ORF1ab/nsp12416N416GAAcGGc11AY.530.000288
ORF1ab/nsp12416N416NaaCaaT11AY.560.001605
ORF1ab/nsp12416N416NaaCaaT11AY.590.00053
ORF1ab/nsp12416N416NaaCaaT11AY.650.000533
ORF1ab/nsp12416N416NaaCaaT11AY.730.000665
ORF1ab/nsp12416N416NaaCaaT11AY.75.10.00018
ORF1ab/nsp12416N416NaaCaaT11AY.770.001127
ORF1ab/nsp12416N416NaaCaaT11AY.840.000437
ORF1ab/nsp12416N416KaaCaaA11AY.9.10.000084
ORF1ab/nsp12416N416delAAC---11AY.9.20.000037
ORF1ab/nsp12416N416NaaCaaT11B0.000128
ORF1ab/nsp12416N416YAacTac11B.10.000009
ORF1ab/nsp12416N416KaaCaaA11B.10.000009
ORF1ab/nsp12416N416del1Aac-ac11B.10.000009
ORF1ab/nsp12416N416delAAC---11B.1.10.000018
ORF1ab/nsp12416N416NaaCaaT11B.1.1.10.000327
ORF1ab/nsp12416N416NaaCaaT11B.1.1.1890.001513
ORF1ab/nsp12416N416NaaCaaT11B.1.1.2070.001182
ORF1ab/nsp12416N416NaaCaaT11B.1.1.2220.000204
ORF1ab/nsp12416N416NaaCaaT11B.1.1.2370.005405
ORF1ab/nsp12416N416NaaCaaT11B.1.1.260.005236
ORF1ab/nsp12416N416NaaCaaT11B.1.1.3060.000438
ORF1ab/nsp12416N416delAAC---11B.1.1.3060.000438
ORF1ab/nsp12416N416NaaCaaT11B.1.1.3160.000925
ORF1ab/nsp12416N416NaaCaaT11B.1.1.3180.000302
ORF1ab/nsp12416N416NaaCaaT11B.1.1.3370.003597
ORF1ab/nsp12416N416NaaCaaT11B.1.1.3440.010753
ORF1ab/nsp12416N416NaaCaaT11B.1.1.4090.002833
ORF1ab/nsp12416N416NaaCaaT11B.1.1.4130.006897
ORF1ab/nsp12416N416SaAcaGc11B.1.1.4160.000905
ORF1ab/nsp12416N416NaaCaaT11B.1.1.4200.001006
ORF1ab/nsp12416N416NaaCaaT11B.1.1.4320.001266
ORF1ab/nsp12416N416delAAC---11B.1.1.460.004367
ORF1ab/nsp12416N416NaaCaaT11B.1.1.500.000679
ORF1ab/nsp12416N416NaaCaaT11B.1.1.540.003021
ORF1ab/nsp12416N416NaaCaaT11B.1.1.580.005376
ORF1ab/nsp12416N416DAacGac11B.1.1.70.000001
ORF1ab/nsp12416N416KaaCaaA11B.1.1.70.000001
ORF1ab/nsp12416N416IaAcaTc11B.1.1.70.000001
ORF1ab/nsp12416N416NaaCaaT11B.1.1.700.000341
ORF1ab/nsp12416N416delAAC---11B.1.1600.000031
ORF1ab/nsp12416N416delAAC---11B.1.160.230.004831
ORF1ab/nsp12416N416NaaCaaT11B.1.1670.007812
ORF1ab/nsp12416N416IaACaTA11B.1.1770.000013
ORF1ab/nsp12416N416del2aACa--11B.1.1770.000013
ORF1ab/nsp12416N416SaAcaGc11B.1.1770.000013
ORF1ab/nsp12416N416delAAC---11B.1.177.100.000878
ORF1ab/nsp12416N416delAAC---11B.1.177.160.000664
ORF1ab/nsp12416N416TaAcaCc11B.1.177.40.000211
ORF1ab/nsp12416N416delAAC---11B.1.177.40.000211
ORF1ab/nsp12416N416del1Aac-ac11B.1.177.40.000211
ORF1ab/nsp12416N416NaaCaaT11B.1.177.440.000519
ORF1ab/nsp12416N416delAAC---11B.1.177.540.000606
ORF1ab/nsp12416N416delAAC---11B.1.177.570.000281
ORF1ab/nsp12416N416NaaCaaT11B.1.177.600.000218
ORF1ab/nsp12416N416delAAC---11B.1.177.690.001484
ORF1ab/nsp12416N416del2aACa--11B.1.177.750.001041
ORF1ab/nsp12416N416NaaCaaT11B.1.177.790.002342
ORF1ab/nsp12416N416NaaCaaT11B.1.177.810.000189
ORF1ab/nsp12416N416NaaCaaT11B.1.177.820.000477
ORF1ab/nsp12416N416HAacCac11B.1.20.000009
ORF1ab/nsp12416N416NaaCaaT11B.1.2400.000216
ORF1ab/nsp12416N416NaaCaaT11B.1.2600.003344
ORF1ab/nsp12416N416NaaCaaT11B.1.3490.000715
ORF1ab/nsp12416N416NaaCaaT11B.1.351.20.000303
ORF1ab/nsp12416N416IaACaTA11B.1.36.290.000517
ORF1ab/nsp12416N416NaaCaaT11B.1.36.330.007576
ORF1ab/nsp12416N416NaaCaaT11B.1.36.70.004
ORF1ab/nsp12416N416NaaCaaT11B.1.36.80.001
ORF1ab/nsp12416N416KaaCaaA11B.1.3620.001541
ORF1ab/nsp12416N416NaaCaaT11B.1.4270.00005
ORF1ab/nsp12416N416NaaCaaT11B.1.4280.00102
ORF1ab/nsp12416N416NaaCaaT11B.1.4360.001029
ORF1ab/nsp12416N416NaaCaaT11B.1.4410.009615
ORF1ab/nsp12416N416NaaCaaT11B.1.4620.007246
ORF1ab/nsp12416N416YAacTac11B.1.466.20.000391
ORF1ab/nsp12416N416NaaCaaT11B.1.4700.001404
ORF1ab/nsp12416N416NaaCaaT11B.1.4990.00105
ORF1ab/nsp12416N416NaaCaaT11B.1.5090.000866
ORF1ab/nsp12416N416TaAcaCc11B.1.5260.000024
ORF1ab/nsp12416N416KaaCaaA11B.1.5260.000024
ORF1ab/nsp12416N416NaaCaaT11B.1.5360.02381
ORF1ab/nsp12416N416NaaCaaT11B.1.5960.000087
ORF1ab/nsp12416N416QAaCCaA11B.1.617.20.000004
ORF1ab/nsp12416N416NaaCaaT11B.1.6210.000089
ORF1ab/nsp12416N416NaaCaaT11B.100.008264
ORF1ab/nsp12416N416delAAC---11B.4.40.018868
ORF1ab/nsp12416N416NaaCaaT11P.1.10.000318
ORF1ab/nsp12416N416NaaCaaT11P.1.140.000048
ORF1ab/nsp12416N416NaaCaaT11P.20.000187
ORF1ab/nsp12416N416NaaCaaT11Q.10.000126
ORF1ab/nsp12416N416NaaCaaT11Q.20.000613
ORF1ab/nsp12416N416NaaCaaT11W.20.004831

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.