CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 896

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/nsp12896T896TT5288TsynacAacG3893580.92030816126-16128
ORF1ab/nsp12896T896TT5288TsynacAacT389280.071979416126-16128
ORF1ab/nsp12896T896TT5288TsynacAacC38930.0077120816126-16128
ORF1ab/nsp12896T896IT5288InonsynaCaaTa215215116126-16128
ORF1ab/nsp12896T896delT5288deldelACA---4444116126-16128
ORF1ab/nsp12896T896AT5288AnonsynAcaGca3131116126-16128
ORF1ab/nsp12896T896KT5288KnonsynaCaaAa1313116126-16128
ORF1ab/nsp12896T896del2T5288del2delaCAa--33116126-16128
ORF1ab/nsp12896T896PT5288PnonsynAcaCca33116126-16128
ORF1ab/nsp12896T896NT5288NnonsynaCAaAT11116126-16128
ORF1ab/nsp12896T896del1T5288del1delaCaa-a11116126-16128

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/nsp12896T896TacAacG358389All0.000068
ORF1ab/nsp12896T896TacAacT28389All0.000005
ORF1ab/nsp12896T896TacAacC3389All0.000001
ORF1ab/nsp12896T896IaCaaTa215215All0.000041
ORF1ab/nsp12896T896TacAacG9193B.1.1.70.000081
ORF1ab/nsp12896T896TacAacT293B.1.1.70.000002
ORF1ab/nsp12896T896IaCaaTa7878AY.40.000121
ORF1ab/nsp12896T896TacAacG6868B.1.243.20.985507
ORF1ab/nsp12896T896delACA---4444All0.000008
ORF1ab/nsp12896T896TacAacG3939AY.40.000061
ORF1ab/nsp12896T896IaCaaTa3636AY.270.00233
ORF1ab/nsp12896T896AAcaGca3131All0.000006
ORF1ab/nsp12896T896delACA---2020B.1.1.70.000018
ORF1ab/nsp12896T896TacAacG1717B.10.000156
ORF1ab/nsp12896T896TacAacG1515AY.290.000237
ORF1ab/nsp12896T896IaCaaTa1515B.1.617.20.000056
ORF1ab/nsp12896T896KaCaaAa1313All0.000002
ORF1ab/nsp12896T896TacAacT1313B.1.5960.001133
ORF1ab/nsp12896T896TacAacG1212B.1.617.20.000045
ORF1ab/nsp12896T896TacAacT59B.1.20.000044
ORF1ab/nsp12896T896TacAacG49B.1.20.000035
ORF1ab/nsp12896T896IaCaaTa77AY.200.000272
ORF1ab/nsp12896T896IaCaaTa77AY.250.000042
ORF1ab/nsp12896T896TacAacG77AY.430.000031
ORF1ab/nsp12896T896TacAacG77B.1.10.000127
ORF1ab/nsp12896T896AAcaGca77B.1.2580.000466
ORF1ab/nsp12896T896IaCaaTa77B.1.6280.002467
ORF1ab/nsp12896T896IaCaaTa66AY.1030.000037
ORF1ab/nsp12896T896TacAacG56AY.440.00003
ORF1ab/nsp12896T896TacAacT16AY.440.000006
ORF1ab/nsp12896T896TacAacG66B.1.1770.000079
ORF1ab/nsp12896T896IaCaaTa66B.1.20.000053
ORF1ab/nsp12896T896TacAacG55AY.110.006693
ORF1ab/nsp12896T896delACA---55AY.40.000008
ORF1ab/nsp12896T896IaCaaTa55AY.440.00003
ORF1ab/nsp12896T896AAcaGca55B.1.20.000044
ORF1ab/nsp12896T896TacAacG44AY.1020.000106
ORF1ab/nsp12896T896TacAacG34AY.1180.000188
ORF1ab/nsp12896T896TacAacT14AY.1180.000063
ORF1ab/nsp12896T896TacAacG44AY.470.000124
ORF1ab/nsp12896T896AAcaGca44B.1.1.70.000004
ORF1ab/nsp12896T896KaCaaAa44B.1.1.70.000004
ORF1ab/nsp12896T896TacAacG44B.1.5260.000094
ORF1ab/nsp12896T896KaCaaAa330.166667
ORF1ab/nsp12896T896PAcaCca33All0.000001
ORF1ab/nsp12896T896del2aCAa--33All0.000001
ORF1ab/nsp12896T896TacAacG33AY.1030.000019
ORF1ab/nsp12896T896IaCaaTa33AY.1210.000406
ORF1ab/nsp12896T896TacAacG23AY.250.000012
ORF1ab/nsp12896T896TacAacT13AY.250.000006
ORF1ab/nsp12896T896IaCaaTa33AY.30.00003
ORF1ab/nsp12896T896IaCaaTa33AY.450.000365
ORF1ab/nsp12896T896TacAacC33AY.510.002727
ORF1ab/nsp12896T896IaCaaTa33AY.98.10.000145
ORF1ab/nsp12896T896IaCaaTa33B.10.000027
ORF1ab/nsp12896T896TacAacG33B.1.1.4130.02069
ORF1ab/nsp12896T896IaCaaTa33B.1.1.70.000003
ORF1ab/nsp12896T896AAcaGca33B.1.1600.000094
ORF1ab/nsp12896T896TacAacG33B.1.3510.000089
ORF1ab/nsp12896T896AAcaGca33B.1.617.20.000011
ORF1ab/nsp12896T896TacAacG33C.370.000348
ORF1ab/nsp12896T896AAcaGca22AY.1030.000012
ORF1ab/nsp12896T896TacAacG22AY.1070.000932
ORF1ab/nsp12896T896IaCaaTa22AY.290.000032
ORF1ab/nsp12896T896TacAacG22AY.30.00002
ORF1ab/nsp12896T896delACA---22AY.4.50.000215
ORF1ab/nsp12896T896IaCaaTa22AY.430.000009
ORF1ab/nsp12896T896IaCaaTa22AY.550.001835
ORF1ab/nsp12896T896IaCaaTa22AY.580.001815
ORF1ab/nsp12896T896TacAacG22AY.610.00021
ORF1ab/nsp12896T896del2aCAa--22B.1.1.70.000002
ORF1ab/nsp12896T896delACA---22B.1.1.700.000682
ORF1ab/nsp12896T896delACA---22B.1.1770.000026
ORF1ab/nsp12896T896TacAacG22B.1.177.180.00232
ORF1ab/nsp12896T896delACA---22B.1.177.540.001213
ORF1ab/nsp12896T896TacAacG22B.1.2210.000142
ORF1ab/nsp12896T896TacAacG22B.1.5170.000854
ORF1ab/nsp12896T896TacAacT110.055556
ORF1ab/nsp12896T896NaCAaAT110.055556
ORF1ab/nsp12896T896IaCaaTa11A0.000387
ORF1ab/nsp12896T896TacAacT11A.20.000662
ORF1ab/nsp12896T896AAcaGca11AK.20.045455
ORF1ab/nsp12896T896del1aCaa-a11All0
ORF1ab/nsp12896T896NaCAaAT11All0
ORF1ab/nsp12896T896IaCaaTa11AY.1000.000046
ORF1ab/nsp12896T896TacAacG11AY.1000.000046
ORF1ab/nsp12896T896IaCaaTa11AY.1020.000027
ORF1ab/nsp12896T896TacAacG11AY.1040.001984
ORF1ab/nsp12896T896TacAacG11AY.1060.000335
ORF1ab/nsp12896T896TacAacG11AY.1160.000287
ORF1ab/nsp12896T896TacAacG11AY.120.000316
ORF1ab/nsp12896T896TacAacG11AY.1210.000135
ORF1ab/nsp12896T896TacAacG11AY.200.000039
ORF1ab/nsp12896T896delACA---11AY.250.000006
ORF1ab/nsp12896T896TacAacG11AY.260.000028
ORF1ab/nsp12896T896IaCaaTa11AY.260.000028
ORF1ab/nsp12896T896TacAacG11AY.270.000065
ORF1ab/nsp12896T896KaCaaAa11AY.30.00001
ORF1ab/nsp12896T896PAcaCca11AY.330.000067
ORF1ab/nsp12896T896IaCaaTa11AY.340.000097
ORF1ab/nsp12896T896TacAacG11AY.390.000025
ORF1ab/nsp12896T896IaCaaTa11AY.39.10.00004
ORF1ab/nsp12896T896TacAacG11AY.39.10.00004
ORF1ab/nsp12896T896AAcaGca11AY.40.000002
ORF1ab/nsp12896T896TacAacT11AY.4.50.000107
ORF1ab/nsp12896T896PAcaCca11AY.4.50.000107
ORF1ab/nsp12896T896AAcaGca11AY.430.000004
ORF1ab/nsp12896T896delACA---11AY.430.000004
ORF1ab/nsp12896T896AAcaGca11AY.440.000006
ORF1ab/nsp12896T896PAcaCca11AY.440.000006
ORF1ab/nsp12896T896TacAacG11AY.450.000122
ORF1ab/nsp12896T896TacAacT11AY.46.20.000635
ORF1ab/nsp12896T896IaCaaTa11AY.46.40.000165
ORF1ab/nsp12896T896TacAacG11AY.46.60.000072
ORF1ab/nsp12896T896TacAacG11AY.50.000021
ORF1ab/nsp12896T896TacAacG11AY.580.000907
ORF1ab/nsp12896T896IaCaaTa11AY.590.00053
ORF1ab/nsp12896T896TacAacG11AY.650.000533
ORF1ab/nsp12896T896TacAacG11AY.750.000056
ORF1ab/nsp12896T896TacAacG11AY.850.000427
ORF1ab/nsp12896T896TacAacG11AY.90.000068
ORF1ab/nsp12896T896delACA---11AY.90.000068
ORF1ab/nsp12896T896IaCaaTa11AY.9.20.000037
ORF1ab/nsp12896T896KaCaaAa11B.1.10.000018
ORF1ab/nsp12896T896delACA---11B.1.10.000018
ORF1ab/nsp12896T896IaCaaTa11B.1.10.000018
ORF1ab/nsp12896T896KaCaaAa11B.1.1.1280.007092
ORF1ab/nsp12896T896TacAacG11B.1.1.2140.000055
ORF1ab/nsp12896T896IaCaaTa11B.1.1.2160.00089
ORF1ab/nsp12896T896delACA---11B.1.1.2320.001815
ORF1ab/nsp12896T896TacAacG11B.1.1.3010.001179
ORF1ab/nsp12896T896delACA---11B.1.1.3110.000358
ORF1ab/nsp12896T896AAcaGca11B.1.1.370.000193
ORF1ab/nsp12896T896TacAacG11B.1.1.3770.001381
ORF1ab/nsp12896T896TacAacG11B.1.1.390.00051
ORF1ab/nsp12896T896IaCaaTa11B.1.1.4160.000905
ORF1ab/nsp12896T896TacAacG11B.1.1.700.000341
ORF1ab/nsp12896T896IaCaaTa11B.1.1600.000031
ORF1ab/nsp12896T896IaCaaTa11B.1.1770.000013
ORF1ab/nsp12896T896TacAacG11B.1.177.120.000152
ORF1ab/nsp12896T896delACA---11B.1.177.150.000631
ORF1ab/nsp12896T896delACA---11B.1.177.40.000211
ORF1ab/nsp12896T896TacAacG11B.1.177.60.000977
ORF1ab/nsp12896T896del1aCaa-a11B.1.20.000009
ORF1ab/nsp12896T896KaCaaAa11B.1.20.000009
ORF1ab/nsp12896T896IaCaaTa11B.1.2340.000132
ORF1ab/nsp12896T896TacAacG11B.1.2430.00007
ORF1ab/nsp12896T896TacAacG11B.1.2580.000067
ORF1ab/nsp12896T896IaCaaTa11B.1.2580.000067
ORF1ab/nsp12896T896delACA---11B.1.258.100.011364
ORF1ab/nsp12896T896IaCaaTa11B.1.258.170.000104
ORF1ab/nsp12896T896IaCaaTa11B.1.360.000146
ORF1ab/nsp12896T896TacAacG11B.1.36.170.000494
ORF1ab/nsp12896T896TacAacT11B.1.3810.007812
ORF1ab/nsp12896T896IaCaaTa11B.1.416.10.001563
ORF1ab/nsp12896T896TacAacG11B.1.4270.00005
ORF1ab/nsp12896T896TacAacG11B.1.4290.000024
ORF1ab/nsp12896T896IaCaaTa11B.1.4290.000024
ORF1ab/nsp12896T896AAcaGca11B.1.4290.000024
ORF1ab/nsp12896T896IaCaaTa11B.1.5770.000687
ORF1ab/nsp12896T896delACA---11B.1.5820.000491
ORF1ab/nsp12896T896del2aCAa--11B.1.5850.027778
ORF1ab/nsp12896T896TacAacG11B.1.617.10.000129
ORF1ab/nsp12896T896KaCaaAa11B.1.617.20.000004
ORF1ab/nsp12896T896AAcaGca11B.1.6210.000089
ORF1ab/nsp12896T896TacAacG11B.1.6370.000073
ORF1ab/nsp12896T896IaCaaTa11B.280.003279
ORF1ab/nsp12896T896delACA---11B.340.013699
ORF1ab/nsp12896T896TacAacG11B.380.02381
ORF1ab/nsp12896T896KaCaaAa11C.170.055556
ORF1ab/nsp12896T896TacAacG11C.260.007353
ORF1ab/nsp12896T896TacAacG11D.20.000075
ORF1ab/nsp12896T896TacAacG11P.10.000016
ORF1ab/nsp12896T896TacAacG11P.1.10.000318
ORF1ab/nsp12896T896TacAacG11P.1.130.000898
ORF1ab/nsp12896T896TacAacG11P.20.000187
ORF1ab/nsp12896T896TacAacG11Q.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.