CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 20

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/nsp320S20NS838NnonsynaGtaAt16316312777-2779
ORF1ab/nsp320S20SS838SsynagTagC16316312777-2779
ORF1ab/nsp320S20IS838InonsynaGtaTt15315312777-2779
ORF1ab/nsp320S20GS838GnonsynAgtGgt10710712777-2779
ORF1ab/nsp320S20delS838deldelAGT---575712777-2779
ORF1ab/nsp320S20RS838RnonsynAgtCgt40150.3752777-2779
ORF1ab/nsp320S20RS838RnonsynagTagA40150.3752777-2779
ORF1ab/nsp320S20RS838RnonsynagTagG40100.252777-2779
ORF1ab/nsp320S20del1S838del1delagTag-980.8888892777-2779
ORF1ab/nsp320S20del1S838del1delaGta-t910.1111112777-2779
ORF1ab/nsp320S20CS838CnonsynAgtTgt8812777-2779
ORF1ab/nsp320S20TS838TnonsynaGtaCt430.752777-2779
ORF1ab/nsp320S20TS838TnonsynaGTaCA410.252777-2779
ORF1ab/nsp320S20del2S838del2delaGTa--2212777-2779
ORF1ab/nsp320S20DS838DnonsynAGtGAt1112777-2779
ORF1ab/nsp320S20MS838MnonsynaGTaTG1112777-2779
ORF1ab/nsp320S20VS838VnonsynAGtGTt1112777-2779

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/nsp320S20NaGtaAt163163All0.000031
ORF1ab/nsp320S20SagTagC163163All0.000031
ORF1ab/nsp320S20IaGtaTt153153All0.000029
ORF1ab/nsp320S20GAgtGgt107107All0.00002
ORF1ab/nsp320S20NaGtaAt7676AY.40.000118
ORF1ab/nsp320S20SagTagC6262AY.250.000373
ORF1ab/nsp320S20GAgtGgt5858B.1.1770.000764
ORF1ab/nsp320S20delAGT---5757All0.000011
ORF1ab/nsp320S20RagTagA1540All0.000003
ORF1ab/nsp320S20RAgtCgt1540All0.000003
ORF1ab/nsp320S20RagTagG1040All0.000002
ORF1ab/nsp320S20IaGtaTt3838B.1.258.150.716981
ORF1ab/nsp320S20SagTagC2525B.1.1.70.000022
ORF1ab/nsp320S20IaGtaTt2121B.1.617.10.002708
ORF1ab/nsp320S20NaGtaAt1818AY.790.021792
ORF1ab/nsp320S20SagTagC1818P.10.000284
ORF1ab/nsp320S20NaGtaAt1515B.1.1.70.000013
ORF1ab/nsp320S20SagTagC1414AY.70.002744
ORF1ab/nsp320S20IaGtaTt1212B.1.1.70.000011
ORF1ab/nsp320S20RAgtCgt711B.1.1.70.000006
ORF1ab/nsp320S20RagTagA311B.1.1.70.000003
ORF1ab/nsp320S20RagTagG111B.1.1.70.000001
ORF1ab/nsp320S20SagTagC1111B.1.4270.000555
ORF1ab/nsp320S20GAgtGgt1111B.1.617.20.000041
ORF1ab/nsp320S20GAgtGgt1010B.1.1.70.000009
ORF1ab/nsp320S20IaGtaTt1010B.1.4290.000235
ORF1ab/nsp320S20del1agTag-89All0.000002
ORF1ab/nsp320S20del1aGta-t19All0
ORF1ab/nsp320S20NaGtaAt99B.1.4270.000454
ORF1ab/nsp320S20NaGtaAt99B.1.6370.000658
ORF1ab/nsp320S20CAgtTgt88All0.000002
ORF1ab/nsp320S20GAgtGgt88AY.440.000049
ORF1ab/nsp320S20delAGT---88B.10.000073
ORF1ab/nsp320S20IaGtaTt88B.1.5610.003176
ORF1ab/nsp320S20SagTagC88B.1.617.20.00003
ORF1ab/nsp320S20IaGtaTt77AY.40.000011
ORF1ab/nsp320S20IaGtaTt66AY.1030.000037
ORF1ab/nsp320S20delAGT---66B.1.1.70.000005
ORF1ab/nsp320S20NaGtaAt66P.10.000095
ORF1ab/nsp320S20RagTagA35B.10.000027
ORF1ab/nsp320S20RagTagG25B.10.000018
ORF1ab/nsp320S20SagTagC55B.1.3490.003574
ORF1ab/nsp320S20IaGtaTt55B.1.617.20.000019
ORF1ab/nsp320S20delAGT---440.222222
ORF1ab/nsp320S20TaGtaCt34All0.000001
ORF1ab/nsp320S20TaGTaCA14All0
ORF1ab/nsp320S20IaGtaTt44AY.430.000018
ORF1ab/nsp320S20IaGtaTt44B.1.1770.000053
ORF1ab/nsp320S20IaGtaTt44B.1.5260.000094
ORF1ab/nsp320S20IaGtaTt33AY.250.000018
ORF1ab/nsp320S20NaGtaAt33AY.250.000018
ORF1ab/nsp320S20NaGtaAt33AY.30.00003
ORF1ab/nsp320S20IaGtaTt33AY.330.0002
ORF1ab/nsp320S20RAgtCgt23AY.40.000003
ORF1ab/nsp320S20RagTagG13AY.40.000002
ORF1ab/nsp320S20GAgtGgt33AY.430.000013
ORF1ab/nsp320S20RAgtCgt23AY.430.000009
ORF1ab/nsp320S20RagTagG13AY.430.000004
ORF1ab/nsp320S20IaGtaTt33B.10.000027
ORF1ab/nsp320S20delAGT---33B.1.10.000054
ORF1ab/nsp320S20delAGT---33B.1.1.330.001263
ORF1ab/nsp320S20delAGT---33B.1.1770.00004
ORF1ab/nsp320S20del1agTag-33B.1.20.000026
ORF1ab/nsp320S20delAGT---33B.1.4290.000071
ORF1ab/nsp320S20delAGT---33P.10.000047
ORF1ab/nsp320S20del2aGTa--22All0
ORF1ab/nsp320S20NaGtaAt22AY.1020.000053
ORF1ab/nsp320S20NaGtaAt22AY.1190.000071
ORF1ab/nsp320S20GAgtGgt22AY.300.000791
ORF1ab/nsp320S20IaGtaTt22AY.390.000049
ORF1ab/nsp320S20SagTagC22AY.40.000003
ORF1ab/nsp320S20GAgtGgt22AY.40.000003
ORF1ab/nsp320S20IaGtaTt22AY.4.10.001475
ORF1ab/nsp320S20NaGtaAt22AY.430.000009
ORF1ab/nsp320S20del1agTag-22AY.440.000012
ORF1ab/nsp320S20NaGtaAt22B.1.10.000036
ORF1ab/nsp320S20IaGtaTt22B.1.10.000036
ORF1ab/nsp320S20delAGT---22B.1.1.3150.016949
ORF1ab/nsp320S20delAGT---22B.1.1.3480.001592
ORF1ab/nsp320S20CAgtTgt22B.1.1.70.000002
ORF1ab/nsp320S20IaGtaTt22B.1.177.120.000303
ORF1ab/nsp320S20GAgtGgt22B.1.177.70.00033
ORF1ab/nsp320S20RagTagG12B.1.20.000009
ORF1ab/nsp320S20RagTagA12B.1.20.000009
ORF1ab/nsp320S20RagTagG12B.1.2580.000067
ORF1ab/nsp320S20RagTagA12B.1.2580.000067
ORF1ab/nsp320S20delAGT---22B.1.4240.016129
ORF1ab/nsp320S20NaGtaAt22B.1.5750.000607
ORF1ab/nsp320S20TaGtaCt22B.1.5960.000174
ORF1ab/nsp320S20NaGtaAt22B.1.6180.008065
ORF1ab/nsp320S20RagTagA22D.20.00015
ORF1ab/nsp320S20delAGT---22N.60.014184
ORF1ab/nsp320S20IaGtaTt22P.10.000032
ORF1ab/nsp320S20GAgtGgt110.055556
ORF1ab/nsp320S20VAGtGTt110.055556
ORF1ab/nsp320S20IaGtaTt110.055556
ORF1ab/nsp320S20TaGtaCt11A.2.50.000499
ORF1ab/nsp320S20MaGTaTG11All0
ORF1ab/nsp320S20DAGtGAt11All0
ORF1ab/nsp320S20VAGtGTt11All0
ORF1ab/nsp320S20IaGtaTt11AY.1010.00049
ORF1ab/nsp320S20RAgtCgt11AY.1020.000027
ORF1ab/nsp320S20GAgtGgt11AY.1020.000027
ORF1ab/nsp320S20TaGTaCA11AY.1030.000006
ORF1ab/nsp320S20RAgtCgt11AY.1030.000006
ORF1ab/nsp320S20delAGT---11AY.1030.000006
ORF1ab/nsp320S20delAGT---11AY.1110.000183
ORF1ab/nsp320S20IaGtaTt11AY.1110.000183
ORF1ab/nsp320S20RagTagG11AY.1130.000142
ORF1ab/nsp320S20IaGtaTt11AY.1200.000037
ORF1ab/nsp320S20delAGT---11AY.190.00114
ORF1ab/nsp320S20IaGtaTt11AY.20.000356
ORF1ab/nsp320S20CAgtTgt11AY.200.000039
ORF1ab/nsp320S20GAgtGgt11AY.200.000039
ORF1ab/nsp320S20SagTagC11AY.230.00007
ORF1ab/nsp320S20RagTagG11AY.260.000028
ORF1ab/nsp320S20SagTagC11AY.260.000028
ORF1ab/nsp320S20CAgtTgt11AY.290.000016
ORF1ab/nsp320S20IaGtaTt11AY.30.00001
ORF1ab/nsp320S20GAgtGgt11AY.30.00001
ORF1ab/nsp320S20GAgtGgt11AY.3.10.000085
ORF1ab/nsp320S20SagTagC11AY.340.000097
ORF1ab/nsp320S20SagTagC11AY.390.000025
ORF1ab/nsp320S20RAgtCgt11AY.390.000025
ORF1ab/nsp320S20CAgtTgt11AY.40.000002
ORF1ab/nsp320S20delAGT---11AY.400.000964
ORF1ab/nsp320S20RagTagA11AY.420.00004
ORF1ab/nsp320S20SagTagC11AY.430.000004
ORF1ab/nsp320S20del1agTag-11AY.430.000004
ORF1ab/nsp320S20NaGtaAt11AY.440.000006
ORF1ab/nsp320S20SagTagC11AY.440.000006
ORF1ab/nsp320S20MaGTaTG11AY.440.000006
ORF1ab/nsp320S20del1agTag-11AY.46.20.000635
ORF1ab/nsp320S20SagTagC11AY.470.000031
ORF1ab/nsp320S20SagTagC11AY.50.000021
ORF1ab/nsp320S20SagTagC11AY.580.000907
ORF1ab/nsp320S20delAGT---11AY.60.000041
ORF1ab/nsp320S20delAGT---11AY.680.000274
ORF1ab/nsp320S20RagTagA11AY.740.000116
ORF1ab/nsp320S20SagTagC11AY.750.000056
ORF1ab/nsp320S20NaGtaAt11AY.9.10.000084
ORF1ab/nsp320S20IaGtaTt11AY.980.000079
ORF1ab/nsp320S20delAGT---11AY.98.10.000048
ORF1ab/nsp320S20GAgtGgt11AY.98.10.000048
ORF1ab/nsp320S20SagTagC11B.10.000009
ORF1ab/nsp320S20del1aGta-t11B.10.000009
ORF1ab/nsp320S20GAgtGgt11B.10.000009
ORF1ab/nsp320S20SagTagC11B.1.1.1860.003436
ORF1ab/nsp320S20NaGtaAt11B.1.1.2890.002083
ORF1ab/nsp320S20SagTagC11B.1.1.3170.000412
ORF1ab/nsp320S20delAGT---11B.1.1.4160.000905
ORF1ab/nsp320S20DAGtGAt11B.1.1.460.004367
ORF1ab/nsp320S20delAGT---11B.1.1.460.004367
ORF1ab/nsp320S20GAgtGgt11B.1.1.5190.00004
ORF1ab/nsp320S20del2aGTa--11B.1.1.70.000001
ORF1ab/nsp320S20delAGT---11B.1.1.700.000341
ORF1ab/nsp320S20CAgtTgt11B.1.1420.002899
ORF1ab/nsp320S20RagTagA11B.1.1600.000031
ORF1ab/nsp320S20GAgtGgt11B.1.160.300.002976
ORF1ab/nsp320S20NaGtaAt11B.1.1660.008475
ORF1ab/nsp320S20NaGtaAt11B.1.1770.000013
ORF1ab/nsp320S20GAgtGgt11B.1.177.150.000631
ORF1ab/nsp320S20CAgtTgt11B.1.177.210.000076
ORF1ab/nsp320S20IaGtaTt11B.1.177.430.001477
ORF1ab/nsp320S20delAGT---11B.1.177.510.004566
ORF1ab/nsp320S20RagTagA11B.1.177.70.000165
ORF1ab/nsp320S20del2aGTa--11B.1.20.000009
ORF1ab/nsp320S20NaGtaAt11B.1.20.000009
ORF1ab/nsp320S20GAgtGgt11B.1.20.000009
ORF1ab/nsp320S20SagTagC11B.1.20.000009
ORF1ab/nsp320S20IaGtaTt11B.1.20.000009
ORF1ab/nsp320S20IaGtaTt11B.1.2340.000132
ORF1ab/nsp320S20RagTagA11B.1.360.000146
ORF1ab/nsp320S20RagTagG11B.1.4290.000024
ORF1ab/nsp320S20IaGtaTt11B.1.466.20.000391
ORF1ab/nsp320S20NaGtaAt11B.1.4700.001404
ORF1ab/nsp320S20NaGtaAt11B.1.5050.004386
ORF1ab/nsp320S20SagTagC11B.1.5260.000024
ORF1ab/nsp320S20delAGT---11B.1.5260.000024
ORF1ab/nsp320S20delAGT---11B.1.5610.000397
ORF1ab/nsp320S20SagTagC11B.1.5750.000303
ORF1ab/nsp320S20RAgtCgt11B.1.617.20.000004
ORF1ab/nsp320S20CAgtTgt11B.1.617.20.000004
ORF1ab/nsp320S20del1agTag-11B.1.617.20.000004
ORF1ab/nsp320S20NaGtaAt11B.1.617.20.000004
ORF1ab/nsp320S20delAGT---11B.1.621.10.000506
ORF1ab/nsp320S20IaGtaTt11B.40.002208
ORF1ab/nsp320S20NaGtaAt11B.550.00295
ORF1ab/nsp320S20delAGT---11B.570.015152
ORF1ab/nsp320S20IaGtaTt11B.6.10.026316
ORF1ab/nsp320S20IaGtaTt11D.20.000075
ORF1ab/nsp320S20NaGtaAt11D.20.000075
ORF1ab/nsp320S20SagTagC11N.60.007092
ORF1ab/nsp320S20delAGT---11P.1.150.000232
ORF1ab/nsp320S20IaGtaTt11Q.10.000126
ORF1ab/nsp320S20NaGtaAt11Q.80.000165
ORF1ab/nsp320S20SagTagC11R.10.00009

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.