CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 99 & Codon = tTc

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/nsp299S99FS279FnonsyntCctTc503350270.9988081100-1102

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/nsp299S99FtCctTc50275033All0.000961
ORF1ab/nsp299S99FtCctTc30693069AY.930.838067
ORF1ab/nsp299S99FtCctTc655660B.1.1.70.000586
ORF1ab/nsp299S99FtCctTc317317AY.40.000493
ORF1ab/nsp299S99FtCctTc7777B.10.000705
ORF1ab/nsp299S99FtCctTc7071AY.430.00031
ORF1ab/nsp299S99FtCctTc6565B.1.1.2740.328283
ORF1ab/nsp299S99FtCctTc5858B.1.1.141
ORF1ab/nsp299S99FtCctTc5151AY.1030.000317
ORF1ab/nsp299S99FtCctTc4646B.1.617.20.000173
ORF1ab/nsp299S99FtCctTc4343AY.250.000259
ORF1ab/nsp299S99FtCctTc3232P.10.000504
ORF1ab/nsp299S99FtCctTc2929B.1.10.000526
ORF1ab/nsp299S99FtCctTc2727B.1.1.4160.024434
ORF1ab/nsp299S99FtCctTc2626B.1.20.000229
ORF1ab/nsp299S99FtCctTc2525AY.260.000708
ORF1ab/nsp299S99FtCctTc1919AY.440.000116
ORF1ab/nsp299S99FtCctTc1818AY.420.000724
ORF1ab/nsp299S99FtCctTc1616B.1.258.170.001664
ORF1ab/nsp299S99FtCctTc1212AE.71
ORF1ab/nsp299S99FtCctTc1111AY.1190.000388
ORF1ab/nsp299S99FtCctTc1111AY.230.000767
ORF1ab/nsp299S99FtCctTc1111AY.4.20.000239
ORF1ab/nsp299S99FtCctTc1111B.1.1950.055276
ORF1ab/nsp299S99FtCctTc1010B.1.1770.000132
ORF1ab/nsp299S99FtCctTc1010P.1.10.003177
ORF1ab/nsp299S99FtCctTc99B.1.1.2140.000499
ORF1ab/nsp299S99FtCctTc88A0.003096
ORF1ab/nsp299S99FtCctTc88AY.1020.000212
ORF1ab/nsp299S99FtCctTc77AY.1170.000592
ORF1ab/nsp299S99FtCctTc77B.1.1600.000218
ORF1ab/nsp299S99FtCctTc77B.1.36.290.003621
ORF1ab/nsp299S99FtCctTc77Q.10.000884
ORF1ab/nsp299S99FtCctTc66B.1.2210.000426
ORF1ab/nsp299S99FtCctTc55AY.30.00005
ORF1ab/nsp299S99FtCctTc55AY.330.000334
ORF1ab/nsp299S99FtCctTc55AY.610.000524
ORF1ab/nsp299S99FtCctTc55B.1.1.1700.006234
ORF1ab/nsp299S99FtCctTc55B.1.1.2220.00102
ORF1ab/nsp299S99FtCctTc55B.1.1.3060.002192
ORF1ab/nsp299S99FtCctTc55B.1.2340.00066
ORF1ab/nsp299S99FtCctTc55B.1.617.10.000645
ORF1ab/nsp299S99FtCctTc44AY.1210.000541
ORF1ab/nsp299S99FtCctTc44AY.470.000124
ORF1ab/nsp299S99FtCctTc44B0.000511
ORF1ab/nsp299S99FtCctTc44B.1.1.330.001684
ORF1ab/nsp299S99FtCctTc44B.1.1.3480.003185
ORF1ab/nsp299S99FtCctTc44B.1.1.3720.002755
ORF1ab/nsp299S99FtCctTc44B.1.1.5190.000159
ORF1ab/nsp299S99FtCctTc44B.1.258.30.0067
ORF1ab/nsp299S99FtCctTc44B.1.360.000584
ORF1ab/nsp299S99FtCctTc44B.1.5960.000349
ORF1ab/nsp299S99FtCctTc44C.370.000464
ORF1ab/nsp299S99FtCctTc44Q.80.00066
ORF1ab/nsp299S99FtCctTc33AY.1110.000549
ORF1ab/nsp299S99FtCctTc33AY.290.000047
ORF1ab/nsp299S99FtCctTc33B.1.1.2320.005445
ORF1ab/nsp299S99FtCctTc33B.1.1.4340.001046
ORF1ab/nsp299S99FtCctTc33B.1.1.700.001023
ORF1ab/nsp299S99FtCctTc33B.1.1620.015075
ORF1ab/nsp299S99FtCctTc33B.1.2180.015464
ORF1ab/nsp299S99FtCctTc33B.1.5260.000071
ORF1ab/nsp299S99FtCctTc33P.1.150.000697
ORF1ab/nsp299S99FtCctTc22A.290.010638
ORF1ab/nsp299S99FtCctTc22AL.10.025974
ORF1ab/nsp299S99FtCctTc22AY.3.10.000171
ORF1ab/nsp299S99FtCctTc22AY.39.20.003082
ORF1ab/nsp299S99FtCctTc22AY.50.000041
ORF1ab/nsp299S99FtCctTc22AY.600.001876
ORF1ab/nsp299S99FtCctTc22AY.750.000112
ORF1ab/nsp299S99FtCctTc22AZ.30.00304
ORF1ab/nsp299S99FtCctTc22B.1.1.1890.003026
ORF1ab/nsp299S99FtCctTc22B.1.1.3970.004505
ORF1ab/nsp299S99FtCctTc22B.1.1.4480.004065
ORF1ab/nsp299S99FtCctTc22B.1.1.4490.045455
ORF1ab/nsp299S99FtCctTc22B.1.2350.005038
ORF1ab/nsp299S99FtCctTc22B.1.2400.000431
ORF1ab/nsp299S99FtCctTc22B.1.2450.0625
ORF1ab/nsp299S99FtCctTc22B.1.2580.000133
ORF1ab/nsp299S99FtCctTc22B.1.466.20.000782
ORF1ab/nsp299S99FtCctTc22B.1.4970.00063
ORF1ab/nsp299S99FtCctTc22B.1.5820.000981
ORF1ab/nsp299S99FtCctTc22B.1.6210.000177
ORF1ab/nsp299S99FtCctTc22P.1.140.000096
ORF1ab/nsp299S99FtCctTc22P.1.170.000324
ORF1ab/nsp299S99FtCctTc22R.10.00018
ORF1ab/nsp299S99FtCctTc110.055556
ORF1ab/nsp299S99FtCctTc11A.10.000282
ORF1ab/nsp299S99FtCctTc11A.2.5.20.001572
ORF1ab/nsp299S99FtCctTc11A.240.071429
ORF1ab/nsp299S99FtCctTc11AY.1000.000046
ORF1ab/nsp299S99FtCctTc11AY.1100.000113
ORF1ab/nsp299S99FtCctTc11AY.1200.000037
ORF1ab/nsp299S99FtCctTc11AY.160.00038
ORF1ab/nsp299S99FtCctTc11AY.200.000039
ORF1ab/nsp299S99FtCctTc11AY.340.000097
ORF1ab/nsp299S99FtCctTc11AY.34.10.00051
ORF1ab/nsp299S99FtCctTc11AY.360.000148
ORF1ab/nsp299S99FtCctTc11AY.370.000316
ORF1ab/nsp299S99FtCctTc11AY.390.000025
ORF1ab/nsp299S99FtCctTc11AY.39.10.00004
ORF1ab/nsp299S99FtCctTc11AY.4.2.10.000149
ORF1ab/nsp299S99FtCctTc11AY.4.50.000107
ORF1ab/nsp299S99FtCctTc11AY.46.60.000072
ORF1ab/nsp299S99FtCctTc11AY.530.000288
ORF1ab/nsp299S99FtCctTc11AY.570.000656
ORF1ab/nsp299S99FtCctTc11AY.670.000464
ORF1ab/nsp299S99FtCctTc11AY.730.000665
ORF1ab/nsp299S99FtCctTc11AY.75.10.00018
ORF1ab/nsp299S99FtCctTc11AY.830.001724
ORF1ab/nsp299S99FtCctTc11AY.9.10.000084
ORF1ab/nsp299S99FtCctTc11AY.9.20.000037
ORF1ab/nsp299S99FtCctTc11AY.980.000079
ORF1ab/nsp299S99FtCctTc11AY.98.10.000048
ORF1ab/nsp299S99FtCctTc11AY.99.20.000092
ORF1ab/nsp299S99FtCctTc11B.1.1.1010.01
ORF1ab/nsp299S99FtCctTc11B.1.1.1740.003378
ORF1ab/nsp299S99FtCctTc11B.1.1.1920.002309
ORF1ab/nsp299S99FtCctTc11B.1.1.2160.00089
ORF1ab/nsp299S99FtCctTc11B.1.1.2170.003636
ORF1ab/nsp299S99FtCctTc11B.1.1.2200.001859
ORF1ab/nsp299S99FtCctTc11B.1.1.2510.007937
ORF1ab/nsp299S99FtCctTc11B.1.1.270.00565
ORF1ab/nsp299S99FtCctTc11B.1.1.3180.000302
ORF1ab/nsp299S99FtCctTc11B.1.1.3340.016393
ORF1ab/nsp299S99FtCctTc11B.1.1.3580.034483
ORF1ab/nsp299S99FtCctTc11B.1.1.3680.003086
ORF1ab/nsp299S99FtCctTc11B.1.1.370.000193
ORF1ab/nsp299S99FtCctTc11B.1.1.390.00051
ORF1ab/nsp299S99FtCctTc11B.1.1.4090.002833
ORF1ab/nsp299S99FtCctTc11B.1.1.4210.030303
ORF1ab/nsp299S99FtCctTc11B.1.1.4640.001473
ORF1ab/nsp299S99FtCctTc11B.1.1.580.005376
ORF1ab/nsp299S99FtCctTc11B.1.1.630.000386
ORF1ab/nsp299S99FtCctTc11B.1.1.710.006061
ORF1ab/nsp299S99FtCctTc11B.1.1110.001175
ORF1ab/nsp299S99FtCctTc11B.1.177.350.000691
ORF1ab/nsp299S99FtCctTc11B.1.177.420.000894
ORF1ab/nsp299S99FtCctTc11B.1.177.520.001757
ORF1ab/nsp299S99FtCctTc11B.1.177.570.000281
ORF1ab/nsp299S99FtCctTc11B.1.177.580.001332
ORF1ab/nsp299S99FtCctTc11B.1.177.620.001192
ORF1ab/nsp299S99FtCctTc11B.1.177.690.001484
ORF1ab/nsp299S99FtCctTc11B.1.177.790.002342
ORF1ab/nsp299S99FtCctTc11B.1.177.810.000189
ORF1ab/nsp299S99FtCctTc11B.1.177.830.001481
ORF1ab/nsp299S99FtCctTc11B.1.177.870.000728
ORF1ab/nsp299S99FtCctTc11B.1.2060.000816
ORF1ab/nsp299S99FtCctTc11B.1.221.30.000833
ORF1ab/nsp299S99FtCctTc11B.1.30.002618
ORF1ab/nsp299S99FtCctTc11B.1.3060.005714
ORF1ab/nsp299S99FtCctTc11B.1.3360.002439
ORF1ab/nsp299S99FtCctTc11B.1.351.30.000876
ORF1ab/nsp299S99FtCctTc11B.1.36.260.002857
ORF1ab/nsp299S99FtCctTc11B.1.3750.00082
ORF1ab/nsp299S99FtCctTc11B.1.3800.006623
ORF1ab/nsp299S99FtCctTc11B.1.4040.001302
ORF1ab/nsp299S99FtCctTc11B.1.4270.00005
ORF1ab/nsp299S99FtCctTc11B.1.4990.00105
ORF1ab/nsp299S99FtCctTc11B.1.5700.002941
ORF1ab/nsp299S99FtCctTc11B.1.5950.000261
ORF1ab/nsp299S99FtCctTc11B.1.6090.000479
ORF1ab/nsp299S99FtCctTc11B.1.6310.003367
ORF1ab/nsp299S99FtCctTc11B.40.002208
ORF1ab/nsp299S99FtCctTc11B.60.00091
ORF1ab/nsp299S99FtCctTc11C.10.002392
ORF1ab/nsp299S99FtCctTc11C.140.004329
ORF1ab/nsp299S99FtCctTc11D.20.000075
ORF1ab/nsp299S99FtCctTc11K.30.006173
ORF1ab/nsp299S99FtCctTc11P.1.120.000484
ORF1ab/nsp299S99FtCctTc11P.1.70.000319
ORF1ab/nsp299S99FtCctTc11P.20.000187
ORF1ab/nsp299S99FtCctTc11U.10.012821
ORF1ab/nsp299S99FtCctTc11W.40.001351

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

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