CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 394

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/nsp2394S394SS574SsyntcAtcG599859930.9991661985-1987
ORF1ab/nsp2394S394SS574SsyntcAtcT599840.0006668891985-1987
ORF1ab/nsp2394S394SS574SsyntcAtcC599810.0001667221985-1987
ORF1ab/nsp2394S394AS574AnonsynTcaGca2032010.9901481985-1987
ORF1ab/nsp2394S394AS574AnonsynTcAGcG20320.009852221985-1987
ORF1ab/nsp2394S394delS574deldelTCA---545411985-1987
ORF1ab/nsp2394S394XS574XnonsyntCatAa151511985-1987
ORF1ab/nsp2394S394LS574LnonsyntCatTa141411985-1987
ORF1ab/nsp2394S394TS574TnonsynTcaAca7711985-1987
ORF1ab/nsp2394S394PS574PnonsynTcaCca2211985-1987
ORF1ab/nsp2394S394FS574FnonsyntCAtTT1111985-1987
ORF1ab/nsp2394S394del1S574del1deltcAtc-1111985-1987

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/nsp2394S394StcAtcG59935998All0.001146
ORF1ab/nsp2394S394StcAtcT45998All0.000001
ORF1ab/nsp2394S394StcAtcC15998All0
ORF1ab/nsp2394S394StcAtcG47134713B.1.177.40.994724
ORF1ab/nsp2394S394StcAtcG739739B.1.1770.009731
ORF1ab/nsp2394S394StcAtcG220220B.1.177.21
ORF1ab/nsp2394S394ATcaGca201203All0.000038
ORF1ab/nsp2394S394ATcAGcG2203All0
ORF1ab/nsp2394S394StcAtcG119119B.1.177.30.908397
ORF1ab/nsp2394S394ATcaGca109109AY.40.00017
ORF1ab/nsp2394S394delTCA---5454All0.00001
ORF1ab/nsp2394S394ATcaGca5353B.1.258.110.021007
ORF1ab/nsp2394S394StcAtcG3839AY.40.000059
ORF1ab/nsp2394S394StcAtcT139AY.40.000002
ORF1ab/nsp2394S394StcAtcG2930B.1.1.70.000026
ORF1ab/nsp2394S394StcAtcT130B.1.1.70.000001
ORF1ab/nsp2394S394StcAtcG2323AY.30.000229
ORF1ab/nsp2394S394StcAtcG2223B.10.000202
ORF1ab/nsp2394S394StcAtcT123B.10.000009
ORF1ab/nsp2394S394ATcaGca2121AY.430.000093
ORF1ab/nsp2394S394XtCatAa1515All0.000003
ORF1ab/nsp2394S394LtCatTa1414All0.000003
ORF1ab/nsp2394S394delTCA---1010B.1.1.70.000009
ORF1ab/nsp2394S394StcAtcG99AY.430.00004
ORF1ab/nsp2394S394TTcaAca77All0.000001
ORF1ab/nsp2394S394StcAtcG77AY.1200.00026
ORF1ab/nsp2394S394XtCatAa77B.10.000064
ORF1ab/nsp2394S394StcAtcG77B.1.10.000127
ORF1ab/nsp2394S394StcAtcG77B.1.1.5190.000278
ORF1ab/nsp2394S394StcAtcG77B.1.177.350.004838
ORF1ab/nsp2394S394StcAtcG66B.1.6030.06383
ORF1ab/nsp2394S394ATcaGca56B.1.617.20.000019
ORF1ab/nsp2394S394ATcAGcG16B.1.617.20.000004
ORF1ab/nsp2394S394delTCA---55B.10.000046
ORF1ab/nsp2394S394LtCatTa55B.1.1.70.000004
ORF1ab/nsp2394S394ATcaGca55P.10.000079
ORF1ab/nsp2394S394StcAtcG44AY.1030.000025
ORF1ab/nsp2394S394TTcaAca44B.1.1.70.000004
ORF1ab/nsp2394S394LtCatTa33B.10.000027
ORF1ab/nsp2394S394delTCA---33B.1.1.330.001263
ORF1ab/nsp2394S394delTCA---33B.1.1.3480.002389
ORF1ab/nsp2394S394PTcaCca22All0
ORF1ab/nsp2394S394StcAtcG22AY.290.000032
ORF1ab/nsp2394S394delTCA---22AY.40.000003
ORF1ab/nsp2394S394delTCA---22AY.4.50.000215
ORF1ab/nsp2394S394StcAtcG22AY.440.000012
ORF1ab/nsp2394S394StcAtcG22AY.470.000062
ORF1ab/nsp2394S394StcAtcC12AY.50.000021
ORF1ab/nsp2394S394StcAtcG12AY.50.000021
ORF1ab/nsp2394S394StcAtcG22AY.60.000082
ORF1ab/nsp2394S394XtCatAa22B0.000256
ORF1ab/nsp2394S394LtCatTa22B.1.10.000036
ORF1ab/nsp2394S394PTcaCca22B.1.1.70.000002
ORF1ab/nsp2394S394delTCA---22B.1.1770.000026
ORF1ab/nsp2394S394StcAtcG22B.1.177.560.001335
ORF1ab/nsp2394S394StcAtcG22B.1.177.70.00033
ORF1ab/nsp2394S394StcAtcG22B.1.360.000292
ORF1ab/nsp2394S394delTCA---22B.1.4240.016129
ORF1ab/nsp2394S394StcAtcG22B.1.5250.000226
ORF1ab/nsp2394S394delTCA---22N.60.014184
ORF1ab/nsp2394S394StcAtcG22P.1.150.000465
ORF1ab/nsp2394S394delTCA---22P.20.000373
ORF1ab/nsp2394S394delTCA---22Q.10.000253
ORF1ab/nsp2394S394LtCatTa11A0.000387
ORF1ab/nsp2394S394XtCatAa11A0.000387
ORF1ab/nsp2394S394FtCAtTT11All0
ORF1ab/nsp2394S394del1tcAtc-11All0
ORF1ab/nsp2394S394delTCA---11AY.1030.000006
ORF1ab/nsp2394S394delTCA---11AY.1110.000183
ORF1ab/nsp2394S394StcAtcG11AY.1170.000085
ORF1ab/nsp2394S394StcAtcG11AY.120.10.000321
ORF1ab/nsp2394S394delTCA---11AY.16.10.00047
ORF1ab/nsp2394S394StcAtcG11AY.250.000006
ORF1ab/nsp2394S394delTCA---11AY.250.000006
ORF1ab/nsp2394S394ATcaGca11AY.390.000025
ORF1ab/nsp2394S394StcAtcG11AY.4.20.000022
ORF1ab/nsp2394S394XtCatAa11AY.430.000004
ORF1ab/nsp2394S394del1tcAtc-11AY.440.000006
ORF1ab/nsp2394S394StcAtcG11AY.460.000104
ORF1ab/nsp2394S394TTcaAca11AY.470.000031
ORF1ab/nsp2394S394ATcaGca11AY.50.000021
ORF1ab/nsp2394S394XtCatAa11AY.520.000814
ORF1ab/nsp2394S394delTCA---11AY.540.000095
ORF1ab/nsp2394S394ATcaGca11AY.540.000095
ORF1ab/nsp2394S394LtCatTa11AY.650.000533
ORF1ab/nsp2394S394StcAtcG11AY.7.10.000113
ORF1ab/nsp2394S394StcAtcG11AY.740.000116
ORF1ab/nsp2394S394StcAtcG11AY.750.000056
ORF1ab/nsp2394S394ATcAGcG11AY.750.000056
ORF1ab/nsp2394S394LtCatTa11AY.750.000056
ORF1ab/nsp2394S394delTCA---11AY.75.10.00018
ORF1ab/nsp2394S394TTcaAca11AY.90.000068
ORF1ab/nsp2394S394delTCA---11AY.9.20.000037
ORF1ab/nsp2394S394StcAtcT11AY.980.000079
ORF1ab/nsp2394S394FtCAtTT11B.10.000009
ORF1ab/nsp2394S394delTCA---11B.1.10.000018
ORF1ab/nsp2394S394ATcaGca11B.1.10.000018
ORF1ab/nsp2394S394StcAtcG11B.1.1.2140.000055
ORF1ab/nsp2394S394StcAtcG11B.1.1.280.000311
ORF1ab/nsp2394S394StcAtcG11B.1.1.3150.008475
ORF1ab/nsp2394S394ATcaGca11B.1.1.4120.007634
ORF1ab/nsp2394S394delTCA---11B.1.1.4160.000905
ORF1ab/nsp2394S394ATcaGca11B.1.1.5190.00004
ORF1ab/nsp2394S394ATcaGca11B.1.1.70.000001
ORF1ab/nsp2394S394XtCatAa11B.1.1770.000013
ORF1ab/nsp2394S394delTCA---11B.1.177.120.000152
ORF1ab/nsp2394S394delTCA---11B.1.177.180.00116
ORF1ab/nsp2394S394StcAtcG11B.1.177.530.002392
ORF1ab/nsp2394S394StcAtcG11B.1.177.60.000977
ORF1ab/nsp2394S394StcAtcG11B.1.177.600.000218
ORF1ab/nsp2394S394delTCA---11B.1.1790.003759
ORF1ab/nsp2394S394LtCatTa11B.1.20.000009
ORF1ab/nsp2394S394ATcaGca11B.1.2210.000071
ORF1ab/nsp2394S394delTCA---11B.1.2340.000132
ORF1ab/nsp2394S394StcAtcG11B.1.2580.000067
ORF1ab/nsp2394S394XtCatAa11B.1.3010.005917
ORF1ab/nsp2394S394StcAtcG11B.1.3510.00003
ORF1ab/nsp2394S394StcAtcG11B.1.36.370.002778
ORF1ab/nsp2394S394StcAtcG11B.1.36.390.002217
ORF1ab/nsp2394S394delTCA---11B.1.4290.000024
ORF1ab/nsp2394S394delTCA---11B.1.4390.005917
ORF1ab/nsp2394S394delTCA---11B.1.5610.000397
ORF1ab/nsp2394S394StcAtcG11B.1.5750.000303
ORF1ab/nsp2394S394TTcaAca11B.1.617.20.000004
ORF1ab/nsp2394S394delTCA---11B.1.617.20.000004
ORF1ab/nsp2394S394XtCatAa11B.1.6230.000536
ORF1ab/nsp2394S394delTCA---11B.570.015152
ORF1ab/nsp2394S394StcAtcG11C.160.00106
ORF1ab/nsp2394S394StcAtcG11C.400.027778
ORF1ab/nsp2394S394StcAtcG11D.20.000075
ORF1ab/nsp2394S394StcAtcG11P.10.000016
ORF1ab/nsp2394S394delTCA---11P.10.000016
ORF1ab/nsp2394S394StcAtcG11Q.80.000165

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.