CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 686

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/nsp12686T686TT5078TsynacAacG2662180.81954915496-15498
ORF1ab/nsp12686T686TT5078TsynacAacT266330.1240615496-15498
ORF1ab/nsp12686T686TT5078TsynacAacC266150.05639115496-15498
ORF1ab/nsp12686T686IT5078InonsynaCaaTa1080.815496-15498
ORF1ab/nsp12686T686IT5078InonsynaCAaTT1010.115496-15498
ORF1ab/nsp12686T686IT5078InonsynaCAaTC1010.115496-15498
ORF1ab/nsp12686T686delT5078deldelACA---99115496-15498
ORF1ab/nsp12686T686KT5078KnonsynaCaaAa77115496-15498
ORF1ab/nsp12686T686AT5078AnonsynAcaGca760.85714315496-15498
ORF1ab/nsp12686T686AT5078AnonsynAcAGcT710.14285715496-15498
ORF1ab/nsp12686T686PT5078PnonsynAcaCca530.615496-15498
ORF1ab/nsp12686T686PT5078PnonsynAcACcC520.415496-15498
ORF1ab/nsp12686T686NT5078NnonsynaCAaAC33115496-15498
ORF1ab/nsp12686T686del1T5078del1delAca-ca320.66666715496-15498
ORF1ab/nsp12686T686del1T5078del1delAcA-cT310.33333315496-15498
ORF1ab/nsp12686T686HT5078HnonsynACACAC22115496-15498
ORF1ab/nsp12686T686QT5078QnonsynACaCAa22115496-15498
ORF1ab/nsp12686T686VT5078VnonsynACaGTa210.515496-15498
ORF1ab/nsp12686T686VT5078VnonsynACAGTT210.515496-15498
ORF1ab/nsp12686T686ST5078SnonsynaCAaGC210.515496-15498
ORF1ab/nsp12686T686ST5078SnonsynAcaTca210.515496-15498

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/nsp12686T686TacAacG218266All0.000042
ORF1ab/nsp12686T686TacAacT33266All0.000006
ORF1ab/nsp12686T686TacAacC15266All0.000003
ORF1ab/nsp12686T686TacAacG113113B.1.6320.758389
ORF1ab/nsp12686T686TacAacG1418B.1.1.70.000013
ORF1ab/nsp12686T686TacAacC318B.1.1.70.000003
ORF1ab/nsp12686T686TacAacT118B.1.1.70.000001
ORF1ab/nsp12686T686TacAacT1313A0.005031
ORF1ab/nsp12686T686TacAacG1313B.1.3990.025145
ORF1ab/nsp12686T686IaCaaTa810All0.000002
ORF1ab/nsp12686T686IaCAaTT110All0
ORF1ab/nsp12686T686IaCAaTC110All0
ORF1ab/nsp12686T686delACA---99All0.000002
ORF1ab/nsp12686T686TacAacG99AY.116.10.002803
ORF1ab/nsp12686T686TacAacG99B.1.4800.022388
ORF1ab/nsp12686T686TacAacG48B.10.000037
ORF1ab/nsp12686T686TacAacT38B.10.000027
ORF1ab/nsp12686T686TacAacC18B.10.000009
ORF1ab/nsp12686T686TacAacG88P.10.000126
ORF1ab/nsp12686T686KaCaaAa77All0.000001
ORF1ab/nsp12686T686AAcaGca67All0.000001
ORF1ab/nsp12686T686AAcAGcT17All0
ORF1ab/nsp12686T686TacAacG46AY.40.000006
ORF1ab/nsp12686T686TacAacT26AY.40.000003
ORF1ab/nsp12686T686PAcaCca35All0.000001
ORF1ab/nsp12686T686PAcACcC25All0
ORF1ab/nsp12686T686TacAacG55AY.200.000194
ORF1ab/nsp12686T686TacAacG55AY.440.00003
ORF1ab/nsp12686T686delACA---55B.1.1.70.000004
ORF1ab/nsp12686T686TacAacG45B.1.1770.000053
ORF1ab/nsp12686T686TacAacC15B.1.1770.000013
ORF1ab/nsp12686T686TacAacC55P.1.170.000809
ORF1ab/nsp12686T686TacAacT44AY.1190.000141
ORF1ab/nsp12686T686TacAacG44AY.46.60.000289
ORF1ab/nsp12686T686TacAacG44B.1.20.000035
ORF1ab/nsp12686T686TacAacG44B.1.6090.001918
ORF1ab/nsp12686T686TacAacC230.111111
ORF1ab/nsp12686T686TacAacT130.055556
ORF1ab/nsp12686T686NaCAaAC33All0.000001
ORF1ab/nsp12686T686del1Aca-ca23All0
ORF1ab/nsp12686T686del1AcA-cT13All0
ORF1ab/nsp12686T686TacAacG33B.1.4680.017143
ORF1ab/nsp12686T686TacAacT33B.460.0625
ORF1ab/nsp12686T686NaCAaAC220.111111
ORF1ab/nsp12686T686KaCaaAa220.111111
ORF1ab/nsp12686T686AAcaGca120.055556
ORF1ab/nsp12686T686IaCaaTa120.055556
ORF1ab/nsp12686T686VACAGTT120.055556
ORF1ab/nsp12686T686VACaGTa120.055556
ORF1ab/nsp12686T686AAcAGcT120.055556
ORF1ab/nsp12686T686IaCAaTT120.055556
ORF1ab/nsp12686T686PAcaCca120.055556
ORF1ab/nsp12686T686PAcACcC120.055556
ORF1ab/nsp12686T686HACACAC22All0
ORF1ab/nsp12686T686QACaCAa22All0
ORF1ab/nsp12686T686VACAGTT12All0
ORF1ab/nsp12686T686VACaGTa12All0
ORF1ab/nsp12686T686SAcaTca12All0
ORF1ab/nsp12686T686SaCAaGC12All0
ORF1ab/nsp12686T686TacAacG22B.1.177.600.000437
ORF1ab/nsp12686T686IaCAaTC12B.1.20.000009
ORF1ab/nsp12686T686IaCaaTa12B.1.20.000009
ORF1ab/nsp12686T686PAcACcC12B.1.2210.000071
ORF1ab/nsp12686T686PAcaCca12B.1.2210.000071
ORF1ab/nsp12686T686TacAacG22B.1.258.170.000208
ORF1ab/nsp12686T686TacAacT12B.1.617.20.000004
ORF1ab/nsp12686T686TacAacG12B.1.617.20.000004
ORF1ab/nsp12686T686TacAacG22B.1.6230.001073
ORF1ab/nsp12686T686TacAacC22P.30.00319
ORF1ab/nsp12686T686HACACAC110.055556
ORF1ab/nsp12686T686QACaCAa110.055556
ORF1ab/nsp12686T686IaCaaTa11A0.000387
ORF1ab/nsp12686T686TacAacG11A.20.000662
ORF1ab/nsp12686T686TacAacT11A.23.10.000704
ORF1ab/nsp12686T686TacAacT11A.250.018182
ORF1ab/nsp12686T686IaCaaTa11AY.1030.000006
ORF1ab/nsp12686T686IaCaaTa11AY.1160.000287
ORF1ab/nsp12686T686TacAacG11AY.1170.000085
ORF1ab/nsp12686T686TacAacG11AY.160.00038
ORF1ab/nsp12686T686AAcaGca11AY.250.000006
ORF1ab/nsp12686T686TacAacT11AY.260.000028
ORF1ab/nsp12686T686TacAacG11AY.3.10.000085
ORF1ab/nsp12686T686TacAacT11AY.390.000025
ORF1ab/nsp12686T686PAcaCca11AY.4.20.000022
ORF1ab/nsp12686T686delACA---11AY.4.50.000107
ORF1ab/nsp12686T686AAcaGca11AY.440.000006
ORF1ab/nsp12686T686del1Aca-ca11AY.440.000006
ORF1ab/nsp12686T686TacAacT11AY.610.000105
ORF1ab/nsp12686T686AAcaGca11B.10.000009
ORF1ab/nsp12686T686IaCaaTa11B.10.000009
ORF1ab/nsp12686T686TacAacG11B.1.1.2220.000204
ORF1ab/nsp12686T686IaCaaTa11B.1.1.70.000001
ORF1ab/nsp12686T686AAcaGca11B.1.1.70.000001
ORF1ab/nsp12686T686KaCaaAa11B.1.1180.006711
ORF1ab/nsp12686T686delACA---11B.1.160.230.004831
ORF1ab/nsp12686T686delACA---11B.1.177.540.000606
ORF1ab/nsp12686T686del1Aca-ca11B.1.20.000009
ORF1ab/nsp12686T686KaCaaAa11B.1.2060.000816
ORF1ab/nsp12686T686TacAacC11B.1.2210.000071
ORF1ab/nsp12686T686KaCaaAa11B.1.2210.000071
ORF1ab/nsp12686T686QACaCAa11B.1.2210.000071
ORF1ab/nsp12686T686NaCAaAC11B.1.2210.000071
ORF1ab/nsp12686T686SaCAaGC11B.1.2210.000071
ORF1ab/nsp12686T686HACACAC11B.1.2210.000071
ORF1ab/nsp12686T686TacAacG11B.1.2580.000067
ORF1ab/nsp12686T686AAcaGca11B.1.3800.006623
ORF1ab/nsp12686T686KaCaaAa11B.1.3980.002976
ORF1ab/nsp12686T686IaCaaTa11B.1.4290.000024
ORF1ab/nsp12686T686del1AcA-cT11B.1.5960.000087
ORF1ab/nsp12686T686KaCaaAa11B.1.617.20.000004
ORF1ab/nsp12686T686delACA---11B.1.617.20.000004
ORF1ab/nsp12686T686TacAacG11B.1.6210.000089
ORF1ab/nsp12686T686TacAacG11D.20.000075
ORF1ab/nsp12686T686SAcaTca11P.1.10.000318

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.