CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF3a : Mut = P104L

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
ORF3a104P104LnonsyncCtcTt14679146650.99904625702-25704
ORF3a104P104LnonsyncCTcTC1467970.00047687225702-25704
ORF3a104P104LnonsyncCTcTA1467930.00020437425702-25704
ORF3a104P104LnonsynCCTTTA1467920.00013624925702-25704
ORF3a104P104LnonsyncCTcTG1467920.00013624925702-25704

Details of the mutation P104L within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF3a104P104LcCtcTt1466514679All0.002805
ORF3a104P104LcCTcTC714679All0.000001
ORF3a104P104LcCTcTA314679All0.000001
ORF3a104P104LcCTcTG214679All0
ORF3a104P104LCCTTTA214679All0
ORF3a104P104LcCtcTt84828488B.1.6370.619803
ORF3a104P104LcCTcTC68488B.1.6370.000438
ORF3a104P104LcCtcTt15001500B.1.5260.035257
ORF3a104P104LcCtcTt11551155B.1.1.70.001034
ORF3a104P104LcCtcTt463463AY.40.000721
ORF3a104P104LcCtcTt458459B.10.004195
ORF3a104P104LcCTcTA1459B.10.000009
ORF3a104P104LcCtcTt297297B.1.1.40.883929
ORF3a104P104LcCtcTt231231B.1.1770.003042
ORF3a104P104LcCtcTt214214AY.440.001303
ORF3a104P104LcCtcTt158158AY.250.00095
ORF3a104P104LcCtcTt139139B.1.617.20.000523
ORF3a104P104LcCtcTt9191B.1.20.000801
ORF3a104P104LcCtcTt8888P.10.001386
ORF3a104P104LcCtcTt8585B.1.4290.002
ORF3a104P104LcCtcTt6666AY.430.000292
ORF3a104P104LcCtcTt4747B.1.1.3530.979167
ORF3a104P104LcCtcTt4747B.1.177.600.010266
ORF3a104P104LcCtcTt4444AY.30.000438
ORF3a104P104LcCtcTt4444B.1.2210.003125
ORF3a104P104LcCtcTt4141B.1.10.000744
ORF3a104P104LcCtcTt3939B.1.1.4860.061514
ORF3a104P104LcCtcTt3434AY.1030.000211
ORF3a104P104LcCtcTt3030AY.1020.000795
ORF3a104P104LcCtcTt2929P.1.140.001386
ORF3a104P104LcCtcTt2727B.1.177.40.005699
ORF3a104P104LcCtcTt2727B.1.5250.003055
ORF3a104P104LcCtcTt2626D.20.001951
ORF3a104P104LcCtcTt2525AY.200.000972
ORF3a104P104LcCtcTt2323AY.120.2.10.01146
ORF3a104P104LcCtcTt2222AY.390.000544
ORF3a104P104LcCtcTt2222AY.610.002305
ORF3a104P104LcCtcTt2222B.1.3200.027397
ORF3a104P104LcCtcTt2020B.1.1.5190.000794
ORF3a104P104LcCtcTt2020B.1.3510.000595
ORF3a104P104LcCtcTt1919AY.1000.000874
ORF3a104P104LcCtcTt1818AY.1200.000669
ORF3a104P104LcCtcTt1616AY.1060.005358
ORF3a104P104LcCtcTt1515B.1.1.3020.03112
ORF3a104P104LcCtcTt1515B.1.1600.000468
ORF3a104P104LcCtcTt1414AY.1190.000494
ORF3a104P104LcCtcTt1414AY.290.000221
ORF3a104P104LcCtcTt1414B.1.177.70.002308
ORF3a104P104LcCtcTt1414P.20.002613
ORF3a104P104LcCtcTt1313AY.840.005687
ORF3a104P104LcCtcTt1313C.160.013786
ORF3a104P104LcCtcTt1212AY.260.00034
ORF3a104P104LcCtcTt1212B0.001534
ORF3a104P104LcCtcTt1212B.1.36.360.007225
ORF3a104P104LcCtcTt5110.277778
ORF3a104P104LcCTcTG2110.111111
ORF3a104P104LCCTTTA2110.111111
ORF3a104P104LcCTcTA2110.111111
ORF3a104P104LcCtcTt1111B.1.1.2140.00061
ORF3a104P104LcCtcTt1010AY.540.000953
ORF3a104P104LcCtcTt99AY.60.00037
ORF3a104P104LcCtcTt99B.1.177.530.021531
ORF3a104P104LcCtcTt99B.1.2340.001187
ORF3a104P104LcCtcTt88AU.10.010127
ORF3a104P104LcCtcTt88AY.50.000165
ORF3a104P104LcCtcTt77AY.1170.000592
ORF3a104P104LcCtcTt77AY.39.10.000277
ORF3a104P104LcCtcTt77AY.460.000729
ORF3a104P104LcCtcTt77B.1.1.5250.038251
ORF3a104P104LcCtcTt77B.1.6360.04698
ORF3a104P104LcCtcTt66AY.750.000336
ORF3a104P104LcCtcTt66AZ.30.009119
ORF3a104P104LcCtcTt66B.1.1.5070.052174
ORF3a104P104LcCtcTt55AY.1110.000916
ORF3a104P104LcCtcTt55AY.230.000349
ORF3a104P104LcCtcTt55AY.46.40.000823
ORF3a104P104LcCtcTt55AY.470.000156
ORF3a104P104LcCtcTt55B.1.177.190.007153
ORF3a104P104LcCtcTt55B.1.2400.001078
ORF3a104P104LcCtcTt55B.1.36.290.002587
ORF3a104P104LcCtcTt55B.1.5960.000436
ORF3a104P104LcCtcTt55C.370.00058
ORF3a104P104LcCtcTt55Q.40.002274
ORF3a104P104LcCtcTt55Q.80.000825
ORF3a104P104LcCtcTt44AY.370.001264
ORF3a104P104LcCtcTt44AY.400.003857
ORF3a104P104LcCtcTt44AY.580.00363
ORF3a104P104LcCtcTt44AY.920.001149
ORF3a104P104LcCtcTt44B.1.1.1570.003653
ORF3a104P104LcCtcTt44B.1.1.3160.0037
ORF3a104P104LcCtcTt44B.1.177.170.003284
ORF3a104P104LcCtcTt44B.1.177.650.002661
ORF3a104P104LcCtcTt44B.1.177.730.002265
ORF3a104P104LcCtcTt44B.1.4970.001259
ORF3a104P104LcCtcTt44B.1.6180.016129
ORF3a104P104LcCtcTt44B.1.6210.000354
ORF3a104P104LcCtcTt44P.1.150.000929
ORF3a104P104LcCtcTt33AD.20.000657
ORF3a104P104LcCtcTt33AY.1180.000188
ORF3a104P104LcCtcTt33AY.420.000121
ORF3a104P104LcCtcTt33AY.46.10.00308
ORF3a104P104LcCtcTt33AY.740.000347
ORF3a104P104LcCtcTt33AY.90.000203
ORF3a104P104LcCtcTt33AY.9.20.00011
ORF3a104P104LcCtcTt33AY.91.10.012195
ORF3a104P104LcCtcTt33AY.990.003148
ORF3a104P104LcCtcTt33B.1.1.10.00098
ORF3a104P104LcCtcTt33B.1.1.3170.001235
ORF3a104P104LcCtcTt33B.1.177.320.004049
ORF3a104P104LcCtcTt33B.1.2430.000209
ORF3a104P104LcCtcTt33B.1.4270.000151
ORF3a104P104LcCtcTt33P.1.160.001122
ORF3a104P104LcCtcTt22A.10.000564
ORF3a104P104LcCtcTt22AY.1140.000462
ORF3a104P104LcCtcTt22AY.120.000632
ORF3a104P104LcCtcTt22AY.3.10.000171
ORF3a104P104LcCtcTt22AY.4.20.000043
ORF3a104P104LcCtcTt22AY.4.40.000818
ORF3a104P104LcCtcTt22AY.480.00093
ORF3a104P104LcCtcTt22AY.550.001835
ORF3a104P104LcCtcTt22AY.75.10.000361
ORF3a104P104LcCtcTt22AY.810.003984
ORF3a104P104LcCtcTt22AY.880.001768
ORF3a104P104LcCtcTt22AY.9.10.000167
ORF3a104P104LcCtcTt22AY.99.20.000184
ORF3a104P104LcCtcTt22B.1.1.1530.002191
ORF3a104P104LcCtcTt22B.1.1.2650.006309
ORF3a104P104LcCtcTt22B.1.1.280.000622
ORF3a104P104LcCtcTt22B.1.1.2840.000215
ORF3a104P104LcCtcTt22B.1.1.2940.002532
ORF3a104P104LcCtcTt22B.1.1.4340.000697
ORF3a104P104LcCtcTt22B.1.1470.001512
ORF3a104P104LcCtcTt22B.1.177.440.001038
ORF3a104P104LcCtcTt22B.1.177.570.000562
ORF3a104P104LcCtcTt22B.1.177.790.004684
ORF3a104P104LcCtcTt22B.1.214.20.001199
ORF3a104P104LcCtcTt22B.1.2410.001623
ORF3a104P104LcCtcTt22B.1.2580.000133
ORF3a104P104LcCtcTt22B.1.258.170.000208
ORF3a104P104LcCtcTt22B.1.3110.000549
ORF3a104P104LcCtcTt22B.1.360.000292
ORF3a104P104LcCtcTt22B.1.36.220.002415
ORF3a104P104LcCtcTt22B.1.3970.009709
ORF3a104P104LcCtcTt22B.1.4000.000858
ORF3a104P104LcCtcTt22B.1.4130.008511
ORF3a104P104LcCtcTt22B.1.4260.002018
ORF3a104P104LcCtcTt22B.1.5950.000522
ORF3a104P104LcCtcTt12B.1.910.002075
ORF3a104P104LcCTcTC12B.1.910.002075
ORF3a104P104LcCtcTt22P.1.170.000324
ORF3a104P104LcCtcTt22R.10.00018
ORF3a104P104LcCtcTt11A0.000387
ORF3a104P104LcCtcTt11AM.40.003571
ORF3a104P104LcCtcTt11AY.1040.001984
ORF3a104P104LcCtcTt11AY.1050.000643
ORF3a104P104LcCtcTt11AY.1070.000466
ORF3a104P104LcCtcTt11AY.1130.000142
ORF3a104P104LcCtcTt11AY.1160.000287
ORF3a104P104LcCtcTt11AY.240.000431
ORF3a104P104LcCtcTt11AY.270.000065
ORF3a104P104LcCtcTt11AY.300.000396
ORF3a104P104LcCtcTt11AY.330.000067
ORF3a104P104LcCtcTt11AY.340.000097
ORF3a104P104LcCtcTt11AY.350.000233
ORF3a104P104LcCtcTt11AY.360.000148
ORF3a104P104LcCtcTt11AY.4.50.000107
ORF3a104P104LcCtcTt11AY.450.000122
ORF3a104P104LcCtcTt11AY.5.40.000277
ORF3a104P104LcCtcTt11AY.670.000464
ORF3a104P104LcCtcTt11AY.690.000187
ORF3a104P104LcCtcTt11AY.7.10.000113
ORF3a104P104LcCtcTt11AY.720.001361
ORF3a104P104LcCtcTt11AY.730.000665
ORF3a104P104LcCtcTt11AY.790.001211
ORF3a104P104LcCtcTt11AY.930.000273
ORF3a104P104LcCtcTt11AY.940.000443
ORF3a104P104LcCtcTt11AY.980.000079
ORF3a104P104LcCtcTt11AZ.10.000867
ORF3a104P104LcCtcTt11B.1.1.1890.001513
ORF3a104P104LcCtcTt11B.1.1.2220.000204
ORF3a104P104LcCtcTt11B.1.1.2430.004082
ORF3a104P104LcCtcTt11B.1.1.2660.012195
ORF3a104P104LcCtcTt11B.1.1.2790.001121
ORF3a104P104LcCtcTt11B.1.1.2800.003086
ORF3a104P104LcCtcTt11B.1.1.2910.000742
ORF3a104P104LcCtcTt11B.1.1.3060.000438
ORF3a104P104LcCtcTt11B.1.1.3110.000358
ORF3a104P104LcCtcTt11B.1.1.3180.000302
ORF3a104P104LcCtcTt11B.1.1.3280.016949
ORF3a104P104LcCtcTt11B.1.1.3480.000796
ORF3a104P104LcCtcTt11B.1.1.3720.000689
ORF3a104P104LcCtcTt11B.1.1.3880.045455
ORF3a104P104LcCtcTt11B.1.1.390.00051
ORF3a104P104LcCtcTt11B.1.1.4460.076923
ORF3a104P104LcCtcTt11B.1.1.4480.002033
ORF3a104P104LcCtcTt11B.1.1.500.000679
ORF3a104P104LcCtcTt11B.1.1.5240.020833
ORF3a104P104LcCtcTt11B.1.1.5280.004808
ORF3a104P104LcCtcTt11B.1.1.700.000341
ORF3a104P104LcCtcTt11B.1.1390.000733
ORF3a104P104LcCtcTt11B.1.160.140.002119
ORF3a104P104LcCtcTt11B.1.160.320.004292
ORF3a104P104LcCtcTt11B.1.177.210.000076
ORF3a104P104LcCtcTt11B.1.177.500.004695
ORF3a104P104LcCtcTt11B.1.177.520.001757
ORF3a104P104LcCtcTt11B.1.177.620.001192
ORF3a104P104LcCtcTt11B.1.177.750.001041
ORF3a104P104LcCtcTt11B.1.177.830.001481
ORF3a104P104LcCtcTt11B.1.177.860.000183
ORF3a104P104LcCtcTt11B.1.177.870.000728
ORF3a104P104LcCtcTt11B.1.2180.005155
ORF3a104P104LcCtcTt11B.1.243.10.022222
ORF3a104P104LcCtcTt11B.1.258.150.018868
ORF3a104P104LcCtcTt11B.1.2980.002114
ORF3a104P104LcCtcTt11B.1.3180.038462
ORF3a104P104LcCtcTt11B.1.3240.001605
ORF3a104P104LcCtcTt11B.1.3360.002439
ORF3a104P104LcCtcTt11B.1.3400.004292
ORF3a104P104LcCtcTt11B.1.3500.002933
ORF3a104P104LcCtcTt11B.1.3560.001727
ORF3a104P104LcCtcTt11B.1.3670.000792
ORF3a104P104LcCtcTt11B.1.3750.00082
ORF3a104P104LcCtcTt11B.1.3960.000706
ORF3a104P104LcCtcTt11B.1.3990.001934
ORF3a104P104LcCtcTt11B.1.4010.008197
ORF3a104P104LcCtcTt11B.1.438.10.000107
ORF3a104P104LcCtcTt11B.1.4740.001901
ORF3a104P104LcCtcTt11B.1.5090.000866
ORF3a104P104LcCtcTt11B.1.5300.007143
ORF3a104P104LcCtcTt11B.1.5330.009615
ORF3a104P104LcCtcTt11B.1.5600.00463
ORF3a104P104LcCtcTt11B.1.5640.000426
ORF3a104P104LcCtcTt11B.1.5650.00081
ORF3a104P104LcCtcTt11B.1.5760.000907
ORF3a104P104LcCtcTt11B.1.617.10.000129
ORF3a104P104LcCtcTt11B.1.621.10.000506
ORF3a104P104LcCtcTt11B.1.6230.000536
ORF3a104P104LcCtcTt11B.1.6270.00202
ORF3a104P104LcCtcTt11B.1.6280.000352
ORF3a104P104LcCtcTt11B.1.9.40.006135
ORF3a104P104LcCtcTt11B.1.9.50.005682
ORF3a104P104LcCtcTt11B.30.000831
ORF3a104P104LcCtcTt11B.400.000364
ORF3a104P104LcCtcTt11B.60.00091
ORF3a104P104LcCtcTt11C.140.004329
ORF3a104P104LcCtcTt11C.20.016129
ORF3a104P104LcCtcTt11C.36.3.10.002717
ORF3a104P104LcCtcTt11P.1.10.000318
ORF3a104P104LcCtcTt11P.1.120.000484
ORF3a104P104LcCtcTt11P.1.70.000319

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.