CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF3a : Mut = S135S

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
ORF3a135S135SsyntcCtcT263324890.9453125795-25797
ORF3a135S135SsyntcCtcA26331300.049373325795-25797
ORF3a135S135SsyntcCtcG2633140.0053171325795-25797

Details of the mutation S135S within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF3a135S135StcCtcT24892633All0.000476
ORF3a135S135StcCtcA1302633All0.000025
ORF3a135S135StcCtcG142633All0.000003
ORF3a135S135StcCtcT507524B.1.1.70.000454
ORF3a135S135StcCtcA16524B.1.1.70.000014
ORF3a135S135StcCtcG1524B.1.1.70.000001
ORF3a135S135StcCtcT260260R.10.023402
ORF3a135S135StcCtcT233252AY.40.000363
ORF3a135S135StcCtcA14252AY.40.000022
ORF3a135S135StcCtcG5252AY.40.000008
ORF3a135S135StcCtcT221221B.1.5410.977876
ORF3a135S135StcCtcT144145AY.30.001432
ORF3a135S135StcCtcA1145AY.30.00001
ORF3a135S135StcCtcT8893B.1.617.20.000331
ORF3a135S135StcCtcA493B.1.617.20.000015
ORF3a135S135StcCtcG193B.1.617.20.000004
ORF3a135S135StcCtcT6971AY.1030.000428
ORF3a135S135StcCtcA271AY.1030.000012
ORF3a135S135StcCtcT6570AY.430.000288
ORF3a135S135StcCtcA470AY.430.000018
ORF3a135S135StcCtcG170AY.430.000004
ORF3a135S135StcCtcT6869AY.200.002643
ORF3a135S135StcCtcG169AY.200.000039
ORF3a135S135StcCtcT6364B.1.10.001143
ORF3a135S135StcCtcA164B.1.10.000018
ORF3a135S135StcCtcT5454B.1.177.70.008902
ORF3a135S135StcCtcT3944AY.4.20.000846
ORF3a135S135StcCtcA544AY.4.20.000108
ORF3a135S135StcCtcT3640B.1.20.000317
ORF3a135S135StcCtcA440B.1.20.000035
ORF3a135S135StcCtcT3939B.1.1600.001216
ORF3a135S135StcCtcT3536AY.1020.000928
ORF3a135S135StcCtcA136AY.1020.000027
ORF3a135S135StcCtcT2532B.10.000229
ORF3a135S135StcCtcA732B.10.000064
ORF3a135S135StcCtcT3232P.10.000504
ORF3a135S135StcCtcT2630B.1.3490.018585
ORF3a135S135StcCtcA430B.1.3490.002859
ORF3a135S135StcCtcT2728AY.390.000667
ORF3a135S135StcCtcA128AY.390.000025
ORF3a135S135StcCtcT2527AY.250.00015
ORF3a135S135StcCtcA227AY.250.000012
ORF3a135S135StcCtcT2323P.1.140.001099
ORF3a135S135StcCtcT1419AY.440.000085
ORF3a135S135StcCtcA319AY.440.000018
ORF3a135S135StcCtcG219AY.440.000012
ORF3a135S135StcCtcT1819B.1.4270.000909
ORF3a135S135StcCtcA119B.1.4270.00005
ORF3a135S135StcCtcT1717AY.1140.003929
ORF3a135S135StcCtcT1416AY.260.000396
ORF3a135S135StcCtcG216AY.260.000057
ORF3a135S135StcCtcT1616AY.330.001068
ORF3a135S135StcCtcA1416B.1.360.002043
ORF3a135S135StcCtcT216B.1.360.000292
ORF3a135S135StcCtcT1515B.1.5770.010309
ORF3a135S135StcCtcT813AY.290.000126
ORF3a135S135StcCtcA513AY.290.000079
ORF3a135S135StcCtcT1313B.1.177.520.022847
ORF3a135S135StcCtcT612AY.1000.000276
ORF3a135S135StcCtcA612AY.1000.000276
ORF3a135S135StcCtcT1212AY.370.003793
ORF3a135S135StcCtcT1212B.1.1.5190.000477
ORF3a135S135StcCtcA610B.1.1770.000079
ORF3a135S135StcCtcT410B.1.1770.000053
ORF3a135S135StcCtcT99B.1.1.2220.001836
ORF3a135S135StcCtcT99B.1.177.80.006772
ORF3a135S135StcCtcT99B.1.4040.011719
ORF3a135S135StcCtcT88AY.1190.000282
ORF3a135S135StcCtcT88B.1.2340.001056
ORF3a135S135StcCtcT88B.1.36.290.004139
ORF3a135S135StcCtcT67AY.450.00073
ORF3a135S135StcCtcA17AY.450.000122
ORF3a135S135StcCtcT66B.1.2210.000426
ORF3a135S135StcCtcT66B.1.617.10.000774
ORF3a135S135StcCtcT66C.370.000696
ORF3a135S135StcCtcT46D.20.0003
ORF3a135S135StcCtcA26D.20.00015
ORF3a135S135StcCtcT55AY.1170.000423
ORF3a135S135StcCtcT35AY.980.000237
ORF3a135S135StcCtcA25AY.980.000158
ORF3a135S135StcCtcT45B.1.1.700.001364
ORF3a135S135StcCtcA15B.1.1.700.000341
ORF3a135S135StcCtcT55B.1.1980.357143
ORF3a135S135StcCtcT55B.1.60.086207
ORF3a135S135StcCtcT34AY.3.10.000256
ORF3a135S135StcCtcA14AY.3.10.000085
ORF3a135S135StcCtcT24AY.60.000082
ORF3a135S135StcCtcA14AY.60.000041
ORF3a135S135StcCtcG14AY.60.000041
ORF3a135S135StcCtcT44AY.640.002381
ORF3a135S135StcCtcT44AY.90.00027
ORF3a135S135StcCtcT44AY.9.20.000147
ORF3a135S135StcCtcT24AY.99.20.000184
ORF3a135S135StcCtcA24AY.99.20.000184
ORF3a135S135StcCtcT44B.1.1.260.020942
ORF3a135S135StcCtcT44B.1.4290.000094
ORF3a135S135StcCtcT44B.1.5810.037736
ORF3a135S135StcCtcT33AM.40.010714
ORF3a135S135StcCtcA23AY.230.000139
ORF3a135S135StcCtcT13AY.230.00007
ORF3a135S135StcCtcT33AY.350.000699
ORF3a135S135StcCtcT33AY.530.000863
ORF3a135S135StcCtcT33B.1.221.20.012048
ORF3a135S135StcCtcT33B.1.3510.000089
ORF3a135S135StcCtcT33B.1.5250.000339
ORF3a135S135StcCtcT22AY.1130.000285
ORF3a135S135StcCtcT22AY.1200.000074
ORF3a135S135StcCtcT22AY.16.10.00094
ORF3a135S135StcCtcT22AY.270.000129
ORF3a135S135StcCtcT22AY.340.000194
ORF3a135S135StcCtcT22AY.4.2.10.000298
ORF3a135S135StcCtcT22AY.420.00008
ORF3a135S135StcCtcT22AY.50.000041
ORF3a135S135StcCtcT22AY.590.001059
ORF3a135S135StcCtcT22B.1.1.250.001137
ORF3a135S135StcCtcT22B.1.1.3050.007722
ORF3a135S135StcCtcT22B.1.1.3260.003521
ORF3a135S135StcCtcT22B.1.1.3720.001377
ORF3a135S135StcCtcT22B.1.1.400.068966
ORF3a135S135StcCtcT22B.1.1.4160.00181
ORF3a135S135StcCtcT22B.1.214.20.001199
ORF3a135S135StcCtcT22B.1.2580.000133
ORF3a135S135StcCtcT22B.1.3360.004878
ORF3a135S135StcCtcT22B.1.36.310.003503
ORF3a135S135StcCtcT22B.1.3690.00057
ORF3a135S135StcCtcA22B.1.5680.002222
ORF3a135S135StcCtcT22B.1.5960.000174
ORF3a135S135StcCtcT22B.1.6370.000146
ORF3a135S135StcCtcT22P.1.120.000968
ORF3a135S135StcCtcT11A0.000387
ORF3a135S135StcCtcT11A.2.40.003367
ORF3a135S135StcCtcT11AY.100.00053
ORF3a135S135StcCtcT11AY.1010.00049
ORF3a135S135StcCtcA11AY.1100.000113
ORF3a135S135StcCtcT11AY.1110.000183
ORF3a135S135StcCtcT11AY.1160.000287
ORF3a135S135StcCtcT11AY.116.10.000311
ORF3a135S135StcCtcT11AY.1180.000063
ORF3a135S135StcCtcA11AY.29.10.000221
ORF3a135S135StcCtcT11AY.360.000148
ORF3a135S135StcCtcT11AY.4.50.000107
ORF3a135S135StcCtcT11AY.410.000294
ORF3a135S135StcCtcT11AY.460.000104
ORF3a135S135StcCtcT11AY.46.50.000198
ORF3a135S135StcCtcT11AY.5.30.000337
ORF3a135S135StcCtcT11AY.680.000274
ORF3a135S135StcCtcT11AY.70.000196
ORF3a135S135StcCtcA11AY.7.10.000113
ORF3a135S135StcCtcT11AY.7.20.000559
ORF3a135S135StcCtcT11AY.700.000209
ORF3a135S135StcCtcT11AY.740.000116
ORF3a135S135StcCtcT11AY.75.10.00018
ORF3a135S135StcCtcT11AY.840.000437
ORF3a135S135StcCtcT11AY.880.000884
ORF3a135S135StcCtcT11AY.9.10.000084
ORF3a135S135StcCtcT11AY.920.000287
ORF3a135S135StcCtcT11AY.950.000761
ORF3a135S135StcCtcT11AY.98.10.000048
ORF3a135S135StcCtcT11B0.000128
ORF3a135S135StcCtcA11B.1.1.1610.003534
ORF3a135S135StcCtcT11B.1.1.1620.029412
ORF3a135S135StcCtcT11B.1.1.1760.000439
ORF3a135S135StcCtcT11B.1.1.2140.000055
ORF3a135S135StcCtcT11B.1.1.2790.001121
ORF3a135S135StcCtcT11B.1.1.280.000311
ORF3a135S135StcCtcT11B.1.1.2850.006536
ORF3a135S135StcCtcT11B.1.1.2900.018182
ORF3a135S135StcCtcT11B.1.1.3970.002252
ORF3a135S135StcCtcT11B.1.1.4130.006897
ORF3a135S135StcCtcT11B.1.1.5220.017241
ORF3a135S135StcCtcT11B.1.1.990.02381
ORF3a135S135StcCtcA11B.1.1570.002985
ORF3a135S135StcCtcA11B.1.160.160.000929
ORF3a135S135StcCtcT11B.1.177.160.000664
ORF3a135S135StcCtcA11B.1.177.210.000076
ORF3a135S135StcCtcT11B.1.177.440.000519
ORF3a135S135StcCtcT11B.1.177.480.003125
ORF3a135S135StcCtcT11B.1.177.810.000189
ORF3a135S135StcCtcT11B.1.1940.04
ORF3a135S135StcCtcT11B.1.1990.004132
ORF3a135S135StcCtcT11B.1.2320.000537
ORF3a135S135StcCtcT11B.1.2400.000216
ORF3a135S135StcCtcT11B.1.2430.00007
ORF3a135S135StcCtcA11B.1.3110.000275
ORF3a135S135StcCtcA11B.1.3330.010526
ORF3a135S135StcCtcT11B.1.351.20.000303
ORF3a135S135StcCtcT11B.1.3610.001289
ORF3a135S135StcCtcT11B.1.390.003906
ORF3a135S135StcCtcT11B.1.4090.000781
ORF3a135S135StcCtcT11B.1.4170.028571
ORF3a135S135StcCtcA11B.1.4230.010204
ORF3a135S135StcCtcT11B.1.4590.004082
ORF3a135S135StcCtcT11B.1.466.20.000391
ORF3a135S135StcCtcA11B.1.5090.000866
ORF3a135S135StcCtcA11B.1.5170.000427
ORF3a135S135StcCtcT11B.1.5260.000024
ORF3a135S135StcCtcT11B.1.5950.000261
ORF3a135S135StcCtcT11B.1.6090.000479
ORF3a135S135StcCtcT11B.1.6210.000089
ORF3a135S135StcCtcA11B.1.6230.000536
ORF3a135S135StcCtcT11B.1.6280.000352
ORF3a135S135StcCtcA11B.4.50.011905
ORF3a135S135StcCtcA11B.400.000364
ORF3a135S135StcCtcT11N.30.005814
ORF3a135S135StcCtcT11P.20.000187
ORF3a135S135StcCtcT11Q.10.000126

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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