CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1778

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/nsp31778N1778SN2596SnonsynaAtaGt459245900.9995648051-8053
ORF1ab/nsp31778N1778SN2596SnonsynAAtTCt459210.000217778051-8053
ORF1ab/nsp31778N1778SN2596SnonsynaATaGC459210.000217778051-8053
ORF1ab/nsp31778N1778NN2596NsynaaTaaC1479147918051-8053
ORF1ab/nsp31778N1778DN2596DnonsynAatGat32732718051-8053
ORF1ab/nsp31778N1778delN2596deldelAAT---11911918051-8053
ORF1ab/nsp31778N1778KN2596KnonsynaaTaaA50270.548051-8053
ORF1ab/nsp31778N1778KN2596KnonsynaaTaaG50230.468051-8053
ORF1ab/nsp31778N1778GN2596GnonsynAAtGGt393918051-8053
ORF1ab/nsp31778N1778IN2596InonsynaAtaTt131318051-8053
ORF1ab/nsp31778N1778TN2596TnonsynaAtaCt13120.9230778051-8053
ORF1ab/nsp31778N1778TN2596TnonsynaATaCA1310.07692318051-8053
ORF1ab/nsp31778N1778YN2596YnonsynAatTat4418051-8053
ORF1ab/nsp31778N1778del1N2596del1delaaTaa-310.3333338051-8053
ORF1ab/nsp31778N1778del1N2596del1delAat-at310.3333338051-8053
ORF1ab/nsp31778N1778del1N2596del1delAaT-aC310.3333338051-8053
ORF1ab/nsp31778N1778del2N2596del2delAAt--t1118051-8053

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/nsp31778N1778SaAtaGt45904592All0.000878
ORF1ab/nsp31778N1778SAAtTCt14592All0
ORF1ab/nsp31778N1778SaATaGC14592All0
ORF1ab/nsp31778N1778SaAtaGt32663266B.1.351.20.9882
ORF1ab/nsp31778N1778NaaTaaC14791479All0.000283
ORF1ab/nsp31778N1778SaAtaGt11181118B.1.351.30.979842
ORF1ab/nsp31778N1778NaaTaaC596596B.1.1.70.000534
ORF1ab/nsp31778N1778DAatGat327327All0.000063
ORF1ab/nsp31778N1778NaaTaaC148148B.1.617.20.000557
ORF1ab/nsp31778N1778NaaTaaC144144AY.430.000638
ORF1ab/nsp31778N1778delAAT---119119All0.000023
ORF1ab/nsp31778N1778NaaTaaC9797AY.1030.000602
ORF1ab/nsp31778N1778SaAtaGt8484B.1.3510.002497
ORF1ab/nsp31778N1778NaaTaaC7474AY.670.034355
ORF1ab/nsp31778N1778KaaTaaA2750All0.000005
ORF1ab/nsp31778N1778KaaTaaG2350All0.000004
ORF1ab/nsp31778N1778DAatGat4949B.1.1.70.000044
ORF1ab/nsp31778N1778NaaTaaC4848AY.340.004654
ORF1ab/nsp31778N1778delAAT---4848B.1.1.70.000043
ORF1ab/nsp31778N1778NaaTaaC4545B.1.10.000816
ORF1ab/nsp31778N1778GAAtGGt3939All0.000007
ORF1ab/nsp31778N1778NaaTaaC2727AY.40.000042
ORF1ab/nsp31778N1778DAatGat2525B.1.1770.000329
ORF1ab/nsp31778N1778DAatGat2525B.1.617.20.000094
ORF1ab/nsp31778N1778SaAtaGt2424AY.50.000496
ORF1ab/nsp31778N1778GAAtGGt2424B.1.351.20.007262
ORF1ab/nsp31778N1778DAatGat2323AY.40.000036
ORF1ab/nsp31778N1778NaaTaaC2323AY.440.00014
ORF1ab/nsp31778N1778KaaTaaG2222AY.40.000034
ORF1ab/nsp31778N1778DAatGat2222B.1.1.2970.049217
ORF1ab/nsp31778N1778NaaTaaC1919B.1.1.2220.003876
ORF1ab/nsp31778N1778SaAtaGt1919B.1.177.810.003597
ORF1ab/nsp31778N1778KaaTaaA1818B.1.1.70.000016
ORF1ab/nsp31778N1778DAatGat1717AY.260.000481
ORF1ab/nsp31778N1778NaaTaaC1717AY.760.082126
ORF1ab/nsp31778N1778NaaTaaC1515AY.1020.000398
ORF1ab/nsp31778N1778NaaTaaC1414AY.390.000346
ORF1ab/nsp31778N1778NaaTaaC1414B.1.5260.000329
ORF1ab/nsp31778N1778IaAtaTt1313All0.000002
ORF1ab/nsp31778N1778TaAtaCt1213All0.000002
ORF1ab/nsp31778N1778TaATaCA113All0
ORF1ab/nsp31778N1778delAAT---1313AY.40.00002
ORF1ab/nsp31778N1778SaAtaGt1313B.10.000119
ORF1ab/nsp31778N1778SaAtaGt1313B.1.1.70.000012
ORF1ab/nsp31778N1778GAAtGGt1313B.1.351.30.011394
ORF1ab/nsp31778N1778NaaTaaC1313P.10.000205
ORF1ab/nsp31778N1778DAatGat1212B.10.00011
ORF1ab/nsp31778N1778NaaTaaC1212B.1.20.000106
ORF1ab/nsp31778N1778DAatGat1212B.1.20.000106
ORF1ab/nsp31778N1778DAatGat1010AY.430.000044
ORF1ab/nsp31778N1778NaaTaaC1010B.10.000092
ORF1ab/nsp31778N1778NaaTaaC1010B.1.3690.002852
ORF1ab/nsp31778N1778DAatGat99AY.4.50.000967
ORF1ab/nsp31778N1778NaaTaaC99AY.98.10.000436
ORF1ab/nsp31778N1778DAatGat88AY.1020.000212
ORF1ab/nsp31778N1778DAatGat88AY.440.000049
ORF1ab/nsp31778N1778DAatGat77AY.270.000453
ORF1ab/nsp31778N1778DAatGat77AY.30.00007
ORF1ab/nsp31778N1778delAAT---77B.10.000064
ORF1ab/nsp31778N1778SaAtaGt77B.1.20.000062
ORF1ab/nsp31778N1778NaaTaaC77B.1.3670.005547
ORF1ab/nsp31778N1778DAatGat66AY.1030.000037
ORF1ab/nsp31778N1778DAatGat66AY.250.000036
ORF1ab/nsp31778N1778NaaTaaC66AY.39.10.000238
ORF1ab/nsp31778N1778SaAtaGt66AY.40.000009
ORF1ab/nsp31778N1778NaaTaaC66AY.7.10.000676
ORF1ab/nsp31778N1778NaaTaaC66AY.90.000406
ORF1ab/nsp31778N1778delAAT---66B.1.10.000109
ORF1ab/nsp31778N1778DAatGat66B.1.1.5190.000238
ORF1ab/nsp31778N1778NaaTaaC66B.1.4290.000141
ORF1ab/nsp31778N1778NaaTaaC55AY.1180.000313
ORF1ab/nsp31778N1778NaaTaaC55AY.250.00003
ORF1ab/nsp31778N1778SaAtaGt45AY.250.000024
ORF1ab/nsp31778N1778SAAtTCt15AY.250.000006
ORF1ab/nsp31778N1778DAatGat55AY.99.20.000461
ORF1ab/nsp31778N1778DAatGat55B.1.1.700.001705
ORF1ab/nsp31778N1778delAAT---55B.1.1770.000066
ORF1ab/nsp31778N1778NaaTaaC55B.1.2210.000355
ORF1ab/nsp31778N1778YAatTat44All0.000001
ORF1ab/nsp31778N1778SaAtaGt44AY.1200.000149
ORF1ab/nsp31778N1778NaaTaaC44AY.260.000113
ORF1ab/nsp31778N1778NaaTaaC44AY.30.00004
ORF1ab/nsp31778N1778delAAT---44AY.4.50.00043
ORF1ab/nsp31778N1778DAatGat44AY.980.000316
ORF1ab/nsp31778N1778DAatGat44B.1.10.000073
ORF1ab/nsp31778N1778TaAtaCt34B.1.1.70.000003
ORF1ab/nsp31778N1778TaATaCA14B.1.1.70.000001
ORF1ab/nsp31778N1778SaAtaGt44B.1.1770.000053
ORF1ab/nsp31778N1778KaaTaaA44B.1.20.000035
ORF1ab/nsp31778N1778NaaTaaC44B.1.3510.000119
ORF1ab/nsp31778N1778DAatGat44B.1.5780.071429
ORF1ab/nsp31778N1778DAatGat44B.1.6270.008081
ORF1ab/nsp31778N1778NaaTaaC44N.50.007067
ORF1ab/nsp31778N1778del1aaTaa-13All0
ORF1ab/nsp31778N1778del1Aat-at13All0
ORF1ab/nsp31778N1778del1AaT-aC13All0
ORF1ab/nsp31778N1778NaaTaaC33AY.140.000264
ORF1ab/nsp31778N1778NaaTaaC33AY.200.000117
ORF1ab/nsp31778N1778delAAT---33AY.250.000018
ORF1ab/nsp31778N1778NaaTaaC33AY.3.10.000256
ORF1ab/nsp31778N1778NaaTaaC33AY.4.20.000065
ORF1ab/nsp31778N1778SaAtaGt33AY.430.000013
ORF1ab/nsp31778N1778delAAT---33AY.430.000013
ORF1ab/nsp31778N1778DAatGat33AY.50.000062
ORF1ab/nsp31778N1778SaAtaGt33B.1.10.000054
ORF1ab/nsp31778N1778SaAtaGt33B.1.1.2140.000166
ORF1ab/nsp31778N1778SaAtaGt33B.1.1.2220.000612
ORF1ab/nsp31778N1778NaaTaaC33B.1.2060.002447
ORF1ab/nsp31778N1778IaAtaTt33B.1.6230.001609
ORF1ab/nsp31778N1778DAatGat33P.10.000047
ORF1ab/nsp31778N1778DAatGat33P.1.70.000958
ORF1ab/nsp31778N1778IaAtaTt22AM.40.007143
ORF1ab/nsp31778N1778NaaTaaC22AY.1130.000285
ORF1ab/nsp31778N1778NaaTaaC22AY.1190.000071
ORF1ab/nsp31778N1778DAatGat22AY.200.000078
ORF1ab/nsp31778N1778NaaTaaC22AY.290.000032
ORF1ab/nsp31778N1778DAatGat22AY.390.000049
ORF1ab/nsp31778N1778SaAtaGt22AY.4.20.000043
ORF1ab/nsp31778N1778NaaTaaC22AY.450.000243
ORF1ab/nsp31778N1778NaaTaaC22AY.460.000208
ORF1ab/nsp31778N1778DAatGat22AY.470.000062
ORF1ab/nsp31778N1778NaaTaaC22AY.690.000373
ORF1ab/nsp31778N1778NaaTaaC22AY.750.000112
ORF1ab/nsp31778N1778NaaTaaC22AY.9.2.10.003953
ORF1ab/nsp31778N1778YAatTat22B.10.000018
ORF1ab/nsp31778N1778NaaTaaC22B.1.1.2980.001724
ORF1ab/nsp31778N1778delAAT---22B.1.1.3150.016949
ORF1ab/nsp31778N1778DAatGat22B.1.1.330.000842
ORF1ab/nsp31778N1778DAatGat22B.1.1.4090.005666
ORF1ab/nsp31778N1778DAatGat22B.1.1.500.001358
ORF1ab/nsp31778N1778NaaTaaC22B.1.1.5260.007092
ORF1ab/nsp31778N1778NaaTaaC22B.1.1.630.000772
ORF1ab/nsp31778N1778NaaTaaC22B.1.1600.000062
ORF1ab/nsp31778N1778NaaTaaC22B.1.177.810.000379
ORF1ab/nsp31778N1778NaaTaaC22B.1.2430.000139
ORF1ab/nsp31778N1778TaAtaCt22B.1.2430.000139
ORF1ab/nsp31778N1778GAAtGGt22B.1.3510.000059
ORF1ab/nsp31778N1778NaaTaaC22B.1.6210.000177
ORF1ab/nsp31778N1778NaaTaaC22P.1.120.000968
ORF1ab/nsp31778N1778IaAtaTt22P.1.150.000465
ORF1ab/nsp31778N1778NaaTaaC22Q.30.00029
ORF1ab/nsp31778N1778NaaTaaC11A.10.000282
ORF1ab/nsp31778N1778NaaTaaC11A.23.10.000704
ORF1ab/nsp31778N1778NaaTaaC11A.270.001656
ORF1ab/nsp31778N1778del2AAt--t11All0
ORF1ab/nsp31778N1778DAatGat11AU.10.001266
ORF1ab/nsp31778N1778SaAtaGt11AY.1030.000006
ORF1ab/nsp31778N1778del2AAt--t11AY.1030.000006
ORF1ab/nsp31778N1778KaaTaaA11AY.1030.000006
ORF1ab/nsp31778N1778NaaTaaC11AY.1060.000335
ORF1ab/nsp31778N1778delAAT---11AY.1110.000183
ORF1ab/nsp31778N1778DAatGat11AY.1130.000142
ORF1ab/nsp31778N1778SaAtaGt11AY.1160.000287
ORF1ab/nsp31778N1778DAatGat11AY.1180.000063
ORF1ab/nsp31778N1778delAAT---11AY.1190.000035
ORF1ab/nsp31778N1778TaAtaCt11AY.1190.000035
ORF1ab/nsp31778N1778DAatGat11AY.120.000316
ORF1ab/nsp31778N1778NaaTaaC11AY.1210.000135
ORF1ab/nsp31778N1778SaAtaGt11AY.16.10.00047
ORF1ab/nsp31778N1778TaAtaCt11AY.250.000006
ORF1ab/nsp31778N1778TaAtaCt11AY.290.000016
ORF1ab/nsp31778N1778TaAtaCt11AY.30.00001
ORF1ab/nsp31778N1778DAatGat11AY.3.10.000085
ORF1ab/nsp31778N1778delAAT---11AY.330.000067
ORF1ab/nsp31778N1778DAatGat11AY.350.000233
ORF1ab/nsp31778N1778TaAtaCt11AY.40.000002
ORF1ab/nsp31778N1778DAatGat11AY.4.20.000022
ORF1ab/nsp31778N1778DAatGat11AY.420.00004
ORF1ab/nsp31778N1778KaaTaaA11AY.430.000004
ORF1ab/nsp31778N1778SaATaGC11AY.440.000006
ORF1ab/nsp31778N1778delAAT---11AY.46.20.000635
ORF1ab/nsp31778N1778NaaTaaC11AY.46.40.000165
ORF1ab/nsp31778N1778NaaTaaC11AY.5.30.000337
ORF1ab/nsp31778N1778DAatGat11AY.5.40.000277
ORF1ab/nsp31778N1778NaaTaaC11AY.550.000917
ORF1ab/nsp31778N1778KaaTaaA11AY.60.000041
ORF1ab/nsp31778N1778DAatGat11AY.690.000187
ORF1ab/nsp31778N1778DAatGat11AY.720.001361
ORF1ab/nsp31778N1778delAAT---11AY.720.001361
ORF1ab/nsp31778N1778NaaTaaC11AY.740.000116
ORF1ab/nsp31778N1778delAAT---11AY.750.000056
ORF1ab/nsp31778N1778DAatGat11AY.9.20.000037
ORF1ab/nsp31778N1778NaaTaaC11AY.910.00073
ORF1ab/nsp31778N1778DAatGat11AY.990.001049
ORF1ab/nsp31778N1778NaaTaaC11AY.99.20.000092
ORF1ab/nsp31778N1778NaaTaaC11B0.000128
ORF1ab/nsp31778N1778YAatTat11B0.000128
ORF1ab/nsp31778N1778IaAtaTt11B.1.10.000018
ORF1ab/nsp31778N1778delAAT---11B.1.1.2360.006897
ORF1ab/nsp31778N1778NaaTaaC11B.1.1.2840.000107
ORF1ab/nsp31778N1778delAAT---11B.1.1.3060.000438
ORF1ab/nsp31778N1778delAAT---11B.1.1.3110.000358
ORF1ab/nsp31778N1778NaaTaaC11B.1.1.3160.000925
ORF1ab/nsp31778N1778NaaTaaC11B.1.1.370.000193
ORF1ab/nsp31778N1778delAAT---11B.1.1.370.000193
ORF1ab/nsp31778N1778IaAtaTt11B.1.1.3850.004464
ORF1ab/nsp31778N1778NaaTaaC11B.1.1.4330.001425
ORF1ab/nsp31778N1778del1AaT-aC11B.1.1.460.004367
ORF1ab/nsp31778N1778delAAT---11B.1.1.460.004367
ORF1ab/nsp31778N1778NaaTaaC11B.1.1.5170.006803
ORF1ab/nsp31778N1778IaAtaTt11B.1.1.70.000001
ORF1ab/nsp31778N1778delAAT---11B.1.1.700.000341
ORF1ab/nsp31778N1778delAAT---11B.1.1400.018868
ORF1ab/nsp31778N1778DAatGat11B.1.1600.000031
ORF1ab/nsp31778N1778NaaTaaC11B.1.1770.000013
ORF1ab/nsp31778N1778delAAT---11B.1.177.160.000664
ORF1ab/nsp31778N1778delAAT---11B.1.177.180.00116
ORF1ab/nsp31778N1778NaaTaaC11B.1.177.40.000211
ORF1ab/nsp31778N1778NaaTaaC11B.1.177.440.000519
ORF1ab/nsp31778N1778delAAT---11B.1.177.60.000977
ORF1ab/nsp31778N1778delAAT---11B.1.177.620.001192
ORF1ab/nsp31778N1778NaaTaaC11B.1.177.720.00339
ORF1ab/nsp31778N1778YAatTat11B.1.177.790.002342
ORF1ab/nsp31778N1778DAatGat11B.1.177.810.000189
ORF1ab/nsp31778N1778NaaTaaC11B.1.1820.007246
ORF1ab/nsp31778N1778SaAtaGt11B.1.1920.009259
ORF1ab/nsp31778N1778SaAtaGt11B.1.2100.002132
ORF1ab/nsp31778N1778SaAtaGt11B.1.2340.000132
ORF1ab/nsp31778N1778IaAtaTt11B.1.2370.004975
ORF1ab/nsp31778N1778delAAT---11B.1.2420.018868
ORF1ab/nsp31778N1778DAatGat11B.1.2580.000067
ORF1ab/nsp31778N1778delAAT---11B.1.258.110.000396
ORF1ab/nsp31778N1778NaaTaaC11B.1.3190.003049
ORF1ab/nsp31778N1778DAatGat11B.1.3490.000715
ORF1ab/nsp31778N1778DAatGat11B.1.3510.00003
ORF1ab/nsp31778N1778SaAtaGt11B.1.351.50.0006
ORF1ab/nsp31778N1778DAatGat11B.1.360.000146
ORF1ab/nsp31778N1778delAAT---11B.1.36.180.00042
ORF1ab/nsp31778N1778NaaTaaC11B.1.36.290.000517
ORF1ab/nsp31778N1778SaAtaGt11B.1.36.80.001
ORF1ab/nsp31778N1778TaAtaCt11B.1.36.90.003215
ORF1ab/nsp31778N1778KaaTaaA11B.1.3690.000285
ORF1ab/nsp31778N1778KaaTaaA11B.1.3750.00082
ORF1ab/nsp31778N1778NaaTaaC11B.1.4000.000429
ORF1ab/nsp31778N1778DAatGat11B.1.4270.00005
ORF1ab/nsp31778N1778DAatGat11B.1.4290.000024
ORF1ab/nsp31778N1778NaaTaaC11B.1.438.10.000107
ORF1ab/nsp31778N1778DAatGat11B.1.466.20.000391
ORF1ab/nsp31778N1778NaaTaaC11B.1.466.20.000391
ORF1ab/nsp31778N1778IaAtaTt11B.1.5170.000427
ORF1ab/nsp31778N1778SaAtaGt11B.1.5540.004405
ORF1ab/nsp31778N1778NaaTaaC11B.1.575.10.002439
ORF1ab/nsp31778N1778NaaTaaC11B.1.5820.000491
ORF1ab/nsp31778N1778DAatGat11B.1.5950.000261
ORF1ab/nsp31778N1778DAatGat11B.1.5960.000087
ORF1ab/nsp31778N1778SaAtaGt11B.1.617.10.000129
ORF1ab/nsp31778N1778del1aaTaa-11B.1.617.20.000004
ORF1ab/nsp31778N1778KaaTaaG11B.1.617.20.000004
ORF1ab/nsp31778N1778delAAT---11B.1.617.20.000004
ORF1ab/nsp31778N1778SaAtaGt11B.1.617.20.000004
ORF1ab/nsp31778N1778TaAtaCt11B.1.617.20.000004
ORF1ab/nsp31778N1778SaAtaGt11B.1.6200.000946
ORF1ab/nsp31778N1778NaaTaaC11B.1.6310.003367
ORF1ab/nsp31778N1778delAAT---11B.1.6380.052632
ORF1ab/nsp31778N1778SaAtaGt11B.1.90.006173
ORF1ab/nsp31778N1778DAatGat11B.400.000364
ORF1ab/nsp31778N1778IaAtaTt11C.350.000774
ORF1ab/nsp31778N1778SaAtaGt11C.370.000116
ORF1ab/nsp31778N1778delAAT---11C.370.000116
ORF1ab/nsp31778N1778NaaTaaC11D.20.000075
ORF1ab/nsp31778N1778delAAT---11D.20.000075
ORF1ab/nsp31778N1778del1Aat-at11D.20.000075
ORF1ab/nsp31778N1778DAatGat11P.1.140.000048
ORF1ab/nsp31778N1778NaaTaaC11P.1.140.000048
ORF1ab/nsp31778N1778delAAT---11P.1.150.000232
ORF1ab/nsp31778N1778DAatGat11P.1.20.001156
ORF1ab/nsp31778N1778delAAT---11Q.10.000126
ORF1ab/nsp31778N1778delAAT---11Q.20.000613
ORF1ab/nsp31778N1778NaaTaaC11R.10.00009
ORF1ab/nsp31778N1778delAAT---11U.30.003861
ORF1ab/nsp31778N1778DAatGat11W.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

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.