CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 399

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/nsp12399A399TA4791TnonsynGctAct4714700.99787714635-14637
ORF1ab/nsp12399A399TA4791TnonsynGcTAcA47110.0021231414635-14637
ORF1ab/nsp12399A399AA4791AsyngcTgcA4402700.61363614635-14637
ORF1ab/nsp12399A399AA4791AsyngcTgcC4401390.31590914635-14637
ORF1ab/nsp12399A399AA4791AsyngcTgcG440310.070454514635-14637
ORF1ab/nsp12399A399VA4791VnonsyngCtgTt6161114635-14637
ORF1ab/nsp12399A399delA4791deldelGCT---4040114635-14637
ORF1ab/nsp12399A399SA4791SnonsynGctTct3232114635-14637
ORF1ab/nsp12399A399DA4791DnonsyngCtgAt33114635-14637
ORF1ab/nsp12399A399del2A4791del2delGCt--t11114635-14637
ORF1ab/nsp12399A399PA4791PnonsynGctCct11114635-14637
ORF1ab/nsp12399A399EA4791EnonsyngCTgAG11114635-14637

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/nsp12399A399TGctAct470471All0.00009
ORF1ab/nsp12399A399TGcTAcA1471All0
ORF1ab/nsp12399A399AgcTgcA270440All0.000052
ORF1ab/nsp12399A399AgcTgcC139440All0.000027
ORF1ab/nsp12399A399AgcTgcG31440All0.000006
ORF1ab/nsp12399A399TGctAct212212B.1.1.70.00019
ORF1ab/nsp12399A399AgcTgcA156156B.1.160.121
ORF1ab/nsp12399A399TGctAct131131AY.440.000797
ORF1ab/nsp12399A399VgCtgTt6161All0.000012
ORF1ab/nsp12399A399AgcTgcA1842B.1.1.70.000016
ORF1ab/nsp12399A399AgcTgcC1742B.1.1.70.000015
ORF1ab/nsp12399A399AgcTgcG742B.1.1.70.000006
ORF1ab/nsp12399A399delGCT---4040All0.000008
ORF1ab/nsp12399A399VgCtgTt3535B.561
ORF1ab/nsp12399A399SGctTct3232All0.000006
ORF1ab/nsp12399A399AgcTgcC1828B.1.617.20.000068
ORF1ab/nsp12399A399AgcTgcG828B.1.617.20.00003
ORF1ab/nsp12399A399AgcTgcA228B.1.617.20.000008
ORF1ab/nsp12399A399AgcTgcC2627AY.430.000115
ORF1ab/nsp12399A399AgcTgcA127AY.430.000004
ORF1ab/nsp12399A399AgcTgcA2727B.1.1600.000842
ORF1ab/nsp12399A399TGctAct2525AY.40.000039
ORF1ab/nsp12399A399delGCT---1919B.1.1.70.000017
ORF1ab/nsp12399A399AgcTgcC1218AY.40.000019
ORF1ab/nsp12399A399AgcTgcA518AY.40.000008
ORF1ab/nsp12399A399AgcTgcG118AY.40.000002
ORF1ab/nsp12399A399TGctAct1717B.1.1.5190.000675
ORF1ab/nsp12399A399TGctAct1112B.1.1770.000145
ORF1ab/nsp12399A399TGcTAcA112B.1.1770.000013
ORF1ab/nsp12399A399AgcTgcC1212B.1.177.350.008293
ORF1ab/nsp12399A399AgcTgcC48AY.1020.000106
ORF1ab/nsp12399A399AgcTgcA38AY.1020.00008
ORF1ab/nsp12399A399AgcTgcG18AY.1020.000027
ORF1ab/nsp12399A399AgcTgcA88B.1.1.3540.035088
ORF1ab/nsp12399A399TGctAct88B.1.617.20.00003
ORF1ab/nsp12399A399AgcTgcC47AY.440.000024
ORF1ab/nsp12399A399AgcTgcA37AY.440.000018
ORF1ab/nsp12399A399AgcTgcC77AY.50.000145
ORF1ab/nsp12399A399AgcTgcA57B.10.000046
ORF1ab/nsp12399A399AgcTgcC17B.10.000009
ORF1ab/nsp12399A399AgcTgcG17B.10.000009
ORF1ab/nsp12399A399AgcTgcC77B.1.177.420.006261
ORF1ab/nsp12399A399AgcTgcA36B.1.20.000026
ORF1ab/nsp12399A399AgcTgcC26B.1.20.000018
ORF1ab/nsp12399A399AgcTgcG16B.1.20.000009
ORF1ab/nsp12399A399AgcTgcA45AY.1030.000025
ORF1ab/nsp12399A399AgcTgcC15AY.1030.000006
ORF1ab/nsp12399A399AgcTgcG55AY.200.000194
ORF1ab/nsp12399A399AgcTgcC55AY.46.60.000361
ORF1ab/nsp12399A399TGctAct55B.1.36.330.037879
ORF1ab/nsp12399A399TGctAct55Q.80.000825
ORF1ab/nsp12399A399TGctAct44AY.1020.000106
ORF1ab/nsp12399A399TGctAct44AY.390.000099
ORF1ab/nsp12399A399AgcTgcA44AY.39.10.000158
ORF1ab/nsp12399A399AgcTgcG44AY.750.000224
ORF1ab/nsp12399A399VgCtgTt44AY.980.000316
ORF1ab/nsp12399A399AgcTgcA44B.1.1770.000053
ORF1ab/nsp12399A399TGctAct44B.1.3460.005242
ORF1ab/nsp12399A399AgcTgcA44B.1.4270.000202
ORF1ab/nsp12399A399SGctTct44B.1.4290.000094
ORF1ab/nsp12399A399VgCtgTt44B.1.617.20.000015
ORF1ab/nsp12399A399SGctTct44B.1.617.20.000015
ORF1ab/nsp12399A399DgCtgAt33All0.000001
ORF1ab/nsp12399A399TGctAct33AY.1030.000019
ORF1ab/nsp12399A399TGctAct33AY.250.000018
ORF1ab/nsp12399A399AgcTgcA23AY.250.000012
ORF1ab/nsp12399A399AgcTgcC13AY.250.000006
ORF1ab/nsp12399A399AgcTgcC23AY.290.000032
ORF1ab/nsp12399A399AgcTgcA13AY.290.000016
ORF1ab/nsp12399A399SGctTct33AY.40.000005
ORF1ab/nsp12399A399TGctAct33B.10.000027
ORF1ab/nsp12399A399TGctAct33B.1.10.000054
ORF1ab/nsp12399A399SGctTct33B.1.1.3170.001235
ORF1ab/nsp12399A399AgcTgcC23B.1.5260.000047
ORF1ab/nsp12399A399AgcTgcA13B.1.5260.000024
ORF1ab/nsp12399A399AgcTgcC33B.400.001093
ORF1ab/nsp12399A399TGctAct33P.1.140.000143
ORF1ab/nsp12399A399AgcTgcC22AY.280.003781
ORF1ab/nsp12399A399AgcTgcG12AY.30.00001
ORF1ab/nsp12399A399AgcTgcA12AY.30.00001
ORF1ab/nsp12399A399TGctAct22AY.340.000194
ORF1ab/nsp12399A399VgCtgTt22AY.40.000003
ORF1ab/nsp12399A399VgCtgTt22AY.430.000009
ORF1ab/nsp12399A399SGctTct22AY.440.000012
ORF1ab/nsp12399A399SGctTct22B.10.000018
ORF1ab/nsp12399A399VgCtgTt22B.10.000018
ORF1ab/nsp12399A399SGctTct22B.1.10.000036
ORF1ab/nsp12399A399AgcTgcA22B.1.1.370.000386
ORF1ab/nsp12399A399VgCtgTt22B.1.1.5190.000079
ORF1ab/nsp12399A399SGctTct22B.1.1.70.000002
ORF1ab/nsp12399A399TGctAct22B.1.2580.000133
ORF1ab/nsp12399A399TGctAct22B.1.351.30.001753
ORF1ab/nsp12399A399delGCT---22B.1.617.20.000008
ORF1ab/nsp12399A399TGctAct22P.10.000032
ORF1ab/nsp12399A399AgcTgcA11A.23.10.000704
ORF1ab/nsp12399A399del2GCt--t11All0
ORF1ab/nsp12399A399PGctCct11All0
ORF1ab/nsp12399A399EgCTgAG11All0
ORF1ab/nsp12399A399delGCT---11AY.1000.000046
ORF1ab/nsp12399A399VgCtgTt11AY.1020.000027
ORF1ab/nsp12399A399TGctAct11AY.1080.001103
ORF1ab/nsp12399A399AgcTgcG11AY.1090.00074
ORF1ab/nsp12399A399delGCT---11AY.1110.000183
ORF1ab/nsp12399A399AgcTgcA11AY.1150.005208
ORF1ab/nsp12399A399TGctAct11AY.1160.000287
ORF1ab/nsp12399A399AgcTgcA11AY.1160.000287
ORF1ab/nsp12399A399AgcTgcA11AY.1170.000085
ORF1ab/nsp12399A399TGctAct11AY.1190.000035
ORF1ab/nsp12399A399AgcTgcC11AY.1190.000035
ORF1ab/nsp12399A399PGctCct11AY.140.000088
ORF1ab/nsp12399A399AgcTgcG11AY.230.00007
ORF1ab/nsp12399A399TGctAct11AY.230.00007
ORF1ab/nsp12399A399delGCT---11AY.250.000006
ORF1ab/nsp12399A399AgcTgcC11AY.260.000028
ORF1ab/nsp12399A399SGctTct11AY.260.000028
ORF1ab/nsp12399A399TGctAct11AY.260.000028
ORF1ab/nsp12399A399AgcTgcA11AY.270.000065
ORF1ab/nsp12399A399TGctAct11AY.290.000016
ORF1ab/nsp12399A399VgCtgTt11AY.30.00001
ORF1ab/nsp12399A399SGctTct11AY.30.00001
ORF1ab/nsp12399A399AgcTgcC11AY.390.000025
ORF1ab/nsp12399A399delGCT---11AY.40.000002
ORF1ab/nsp12399A399TGctAct11AY.4.20.000022
ORF1ab/nsp12399A399AgcTgcC11AY.4.2.10.000149
ORF1ab/nsp12399A399delGCT---11AY.4.50.000107
ORF1ab/nsp12399A399del2GCt--t11AY.440.000006
ORF1ab/nsp12399A399AgcTgcC11AY.450.000122
ORF1ab/nsp12399A399delGCT---11AY.46.20.000635
ORF1ab/nsp12399A399DgCtgAt11AY.50.000021
ORF1ab/nsp12399A399delGCT---11AY.680.000274
ORF1ab/nsp12399A399AgcTgcC11AY.690.000187
ORF1ab/nsp12399A399TGctAct11AY.750.000056
ORF1ab/nsp12399A399AgcTgcC11AY.770.001127
ORF1ab/nsp12399A399VgCtgTt11AY.840.000437
ORF1ab/nsp12399A399delGCT---11AY.90.000068
ORF1ab/nsp12399A399SGctTct11AY.9.10.000084
ORF1ab/nsp12399A399TGctAct11AY.9.20.000037
ORF1ab/nsp12399A399delGCT---11AY.9.20.000037
ORF1ab/nsp12399A399SGctTct11AY.99.10.001553
ORF1ab/nsp12399A399delGCT---11AY.99.10.001553
ORF1ab/nsp12399A399SGctTct11B0.000128
ORF1ab/nsp12399A399VgCtgTt11B0.000128
ORF1ab/nsp12399A399delGCT---11B.1.10.000018
ORF1ab/nsp12399A399AgcTgcA11B.1.10.000018
ORF1ab/nsp12399A399VgCtgTt11B.1.1.280.000311
ORF1ab/nsp12399A399delGCT---11B.1.1.3060.000438
ORF1ab/nsp12399A399AgcTgcC11B.1.1.330.000421
ORF1ab/nsp12399A399VgCtgTt11B.1.1.3480.000796
ORF1ab/nsp12399A399AgcTgcC11B.1.1.4160.000905
ORF1ab/nsp12399A399AgcTgcA11B.1.1.4490.022727
ORF1ab/nsp12399A399delGCT---11B.1.1.460.004367
ORF1ab/nsp12399A399AgcTgcA11B.1.1.5190.00004
ORF1ab/nsp12399A399TGctAct11B.1.1.5260.003546
ORF1ab/nsp12399A399DgCtgAt11B.1.1.70.000001
ORF1ab/nsp12399A399delGCT---11B.1.1600.000031
ORF1ab/nsp12399A399AgcTgcA11B.1.160.260.002421
ORF1ab/nsp12399A399VgCtgTt11B.1.1770.000013
ORF1ab/nsp12399A399VgCtgTt11B.1.177.120.000152
ORF1ab/nsp12399A399delGCT---11B.1.177.160.000664
ORF1ab/nsp12399A399AgcTgcA11B.1.177.440.000519
ORF1ab/nsp12399A399delGCT---11B.1.177.540.000606
ORF1ab/nsp12399A399AgcTgcC11B.1.177.560.000668
ORF1ab/nsp12399A399SGctTct11B.1.177.870.000728
ORF1ab/nsp12399A399VgCtgTt11B.1.20.000009
ORF1ab/nsp12399A399TGctAct11B.1.20.000009
ORF1ab/nsp12399A399TGctAct11B.1.2060.000816
ORF1ab/nsp12399A399TGctAct11B.1.220.001318
ORF1ab/nsp12399A399AgcTgcA11B.1.2210.000071
ORF1ab/nsp12399A399VgCtgTt11B.1.2210.000071
ORF1ab/nsp12399A399delGCT---11B.1.2210.000071
ORF1ab/nsp12399A399delGCT---11B.1.2580.000067
ORF1ab/nsp12399A399TGctAct11B.1.258.170.000104
ORF1ab/nsp12399A399AgcTgcA11B.1.258.170.000104
ORF1ab/nsp12399A399TGctAct11B.1.3020.013333
ORF1ab/nsp12399A399AgcTgcA11B.1.3510.00003
ORF1ab/nsp12399A399TGctAct11B.1.351.20.000303
ORF1ab/nsp12399A399AgcTgcC11B.1.360.000146
ORF1ab/nsp12399A399TGctAct11B.1.360.000146
ORF1ab/nsp12399A399SGctTct11B.1.36.90.003215
ORF1ab/nsp12399A399AgcTgcA11B.1.4290.000024
ORF1ab/nsp12399A399TGctAct11B.1.4290.000024
ORF1ab/nsp12399A399TGctAct11B.1.466.20.000391
ORF1ab/nsp12399A399AgcTgcC11B.1.5090.000866
ORF1ab/nsp12399A399delGCT---11B.1.5610.000397
ORF1ab/nsp12399A399SGctTct11B.1.5640.000426
ORF1ab/nsp12399A399AgcTgcC11B.1.5950.000261
ORF1ab/nsp12399A399SGctTct11B.1.5960.000087
ORF1ab/nsp12399A399TGctAct11B.1.5990.00365
ORF1ab/nsp12399A399DgCtgAt11B.1.617.20.000004
ORF1ab/nsp12399A399EgCTgAG11B.1.617.20.000004
ORF1ab/nsp12399A399AgcTgcA11D.20.000075
ORF1ab/nsp12399A399SGctTct11N.50.001767
ORF1ab/nsp12399A399AgcTgcA11P.1.170.000162
ORF1ab/nsp12399A399TGctAct11Q.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

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