CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 278

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/nsp13278S278SS5602SsyntcTtcC7636930.90825717068-17070
ORF1ab/nsp13278S278SS5602SsyntcTtcA763470.06159917068-17070
ORF1ab/nsp13278S278SS5602SsyntcTtcG763230.030144217068-17070
ORF1ab/nsp13278S278FS5602FnonsyntCttTt1861820.97849517068-17070
ORF1ab/nsp13278S278FS5602FnonsyntCTtTC18640.021505417068-17070
ORF1ab/nsp13278S278AS5602AnonsynTctGct72710.98611117068-17070
ORF1ab/nsp13278S278AS5602AnonsynTcTGcG7210.013888917068-17070
ORF1ab/nsp13278S278delS5602deldelTCT---1616117068-17070
ORF1ab/nsp13278S278TS5602TnonsynTctAct1515117068-17070
ORF1ab/nsp13278S278YS5602YnonsyntCttAt1515117068-17070
ORF1ab/nsp13278S278PS5602PnonsynTctCct11100.90909117068-17070
ORF1ab/nsp13278S278PS5602PnonsynTcTCcC1110.090909117068-17070
ORF1ab/nsp13278S278ES5602EnonsynTCTGAG33117068-17070
ORF1ab/nsp13278S278CS5602CnonsyntCttGt320.66666717068-17070
ORF1ab/nsp13278S278LS5602LnonsyntCTtTA310.33333317068-17070
ORF1ab/nsp13278S278LS5602LnonsynTCtCTt310.33333317068-17070
ORF1ab/nsp13278S278LS5602LnonsynTCTCTC310.33333317068-17070
ORF1ab/nsp13278S278CS5602CnonsyntCTtGC310.33333317068-17070
ORF1ab/nsp13278S278del2S5602del2deltCTt--22117068-17070
ORF1ab/nsp13278S278XS5602XnonsyntCTtAG210.517068-17070
ORF1ab/nsp13278S278XS5602XnonsyntCTtAA210.517068-17070
ORF1ab/nsp13278S278DS5602DnonsynTCtGAt11117068-17070

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/nsp13278S278StcTtcC693763All0.000133
ORF1ab/nsp13278S278StcTtcA47763All0.000009
ORF1ab/nsp13278S278StcTtcG23763All0.000004
ORF1ab/nsp13278S278StcTtcC233236B.1.617.20.000877
ORF1ab/nsp13278S278StcTtcG2236B.1.617.20.000008
ORF1ab/nsp13278S278StcTtcA1236B.1.617.20.000004
ORF1ab/nsp13278S278FtCttTt182186All0.000035
ORF1ab/nsp13278S278FtCTtTC4186All0.000001
ORF1ab/nsp13278S278FtCttTt9090B.10.000824
ORF1ab/nsp13278S278StcTtcC8585B.1.2430.005915
ORF1ab/nsp13278S278StcTtcC5178B.1.1.70.000046
ORF1ab/nsp13278S278StcTtcG1678B.1.1.70.000014
ORF1ab/nsp13278S278StcTtcA1178B.1.1.70.00001
ORF1ab/nsp13278S278ATctGct7172All0.000014
ORF1ab/nsp13278S278ATcTGcG172All0
ORF1ab/nsp13278S278FtCttTt5050B.1.3480.909091
ORF1ab/nsp13278S278StcTtcC4949AY.40.000076
ORF1ab/nsp13278S278StcTtcC2832AY.430.000124
ORF1ab/nsp13278S278StcTtcA432AY.430.000018
ORF1ab/nsp13278S278StcTtcC2626AY.1030.000161
ORF1ab/nsp13278S278StcTtcC2626AY.250.000156
ORF1ab/nsp13278S278StcTtcC1626B.1.20.000141
ORF1ab/nsp13278S278StcTtcA1026B.1.20.000088
ORF1ab/nsp13278S278ATctGct2222B.1.10.000399
ORF1ab/nsp13278S278StcTtcC1717B.1.10.000308
ORF1ab/nsp13278S278delTCT---1616All0.000003
ORF1ab/nsp13278S278TTctAct1515All0.000003
ORF1ab/nsp13278S278YtCttAt1515All0.000003
ORF1ab/nsp13278S278ATctGct1313B.1.617.20.000049
ORF1ab/nsp13278S278PTctCct1011All0.000002
ORF1ab/nsp13278S278PTcTCcC111All0
ORF1ab/nsp13278S278StcTtcC1111AY.440.000067
ORF1ab/nsp13278S278StcTtcC1111B.10.000101
ORF1ab/nsp13278S278StcTtcC611B.1.1.2140.000333
ORF1ab/nsp13278S278StcTtcA511B.1.1.2140.000277
ORF1ab/nsp13278S278StcTtcC910B.1.1770.000119
ORF1ab/nsp13278S278StcTtcA110B.1.1770.000013
ORF1ab/nsp13278S278StcTtcC1010B.1.6370.000731
ORF1ab/nsp13278S278FtCttTt590.277778
ORF1ab/nsp13278S278FtCTtTC490.222222
ORF1ab/nsp13278S278StcTtcC89AY.390.000198
ORF1ab/nsp13278S278StcTtcA19AY.390.000025
ORF1ab/nsp13278S278StcTtcC88B.1.5260.000188
ORF1ab/nsp13278S278StcTtcC77B.1.1.3170.002882
ORF1ab/nsp13278S278StcTtcA47B.1.1600.000125
ORF1ab/nsp13278S278StcTtcC37B.1.1600.000094
ORF1ab/nsp13278S278StcTtcC77P.10.00011
ORF1ab/nsp13278S278TTctAct77P.10.00011
ORF1ab/nsp13278S278ATctGct66AY.98.10.000291
ORF1ab/nsp13278S278StcTtcC450.222222
ORF1ab/nsp13278S278StcTtcA150.055556
ORF1ab/nsp13278S278StcTtcC55AY.1180.000313
ORF1ab/nsp13278S278StcTtcC55AY.30.00005
ORF1ab/nsp13278S278FtCttTt55AY.40.000008
ORF1ab/nsp13278S278ATctGct55AY.60.000206
ORF1ab/nsp13278S278ATctGct44AY.230.000279
ORF1ab/nsp13278S278StcTtcA34AY.260.000085
ORF1ab/nsp13278S278StcTtcC14AY.260.000028
ORF1ab/nsp13278S278FtCttTt44B.1.1.70.000004
ORF1ab/nsp13278S278ATctGct44P.10.000063
ORF1ab/nsp13278S278LTCTCTC130.055556
ORF1ab/nsp13278S278LtCTtTA130.055556
ORF1ab/nsp13278S278LTCtCTt130.055556
ORF1ab/nsp13278S278ATctGct33A.2.50.001497
ORF1ab/nsp13278S278ETCTGAG33All0.000001
ORF1ab/nsp13278S278CtCttGt23All0
ORF1ab/nsp13278S278LTCTCTC13All0
ORF1ab/nsp13278S278CtCTtGC13All0
ORF1ab/nsp13278S278LTCtCTt13All0
ORF1ab/nsp13278S278LtCTtTA13All0
ORF1ab/nsp13278S278StcTtcC33AY.1020.00008
ORF1ab/nsp13278S278StcTtcC33AY.39.10.000119
ORF1ab/nsp13278S278FtCttTt33AY.430.000013
ORF1ab/nsp13278S278StcTtcC33B.1.1.4280.028302
ORF1ab/nsp13278S278TTctAct33B.1.1.5190.000119
ORF1ab/nsp13278S278delTCT---33B.1.1.70.000003
ORF1ab/nsp13278S278ATctGct33B.1.1.70.000003
ORF1ab/nsp13278S278YtCttAt33B.1.1.70.000003
ORF1ab/nsp13278S278YtCttAt33B.1.130.007126
ORF1ab/nsp13278S278FtCttTt33B.1.1770.00004
ORF1ab/nsp13278S278FtCttTt33B.1.20.000026
ORF1ab/nsp13278S278StcTtcC33B.1.36.80.003
ORF1ab/nsp13278S278StcTtcC23B.1.4290.000047
ORF1ab/nsp13278S278StcTtcG13B.1.4290.000024
ORF1ab/nsp13278S278StcTtcC33B.1.4700.004213
ORF1ab/nsp13278S278PTctCct33D.20.000225
ORF1ab/nsp13278S278PTctCct120.055556
ORF1ab/nsp13278S278PTcTCcC120.055556
ORF1ab/nsp13278S278del2tCTt--22All0
ORF1ab/nsp13278S278XtCTtAA12All0
ORF1ab/nsp13278S278XtCTtAG12All0
ORF1ab/nsp13278S278StcTtcC22AY.200.000078
ORF1ab/nsp13278S278StcTtcC22AY.3.10.000171
ORF1ab/nsp13278S278StcTtcC22AY.330.000134
ORF1ab/nsp13278S278StcTtcC22AY.4.20.000043
ORF1ab/nsp13278S278ATctGct22AY.420.00008
ORF1ab/nsp13278S278ETCTGAG22AY.430.000009
ORF1ab/nsp13278S278delTCT---22AY.430.000009
ORF1ab/nsp13278S278ATctGct22AY.430.000009
ORF1ab/nsp13278S278StcTtcC22AY.470.000062
ORF1ab/nsp13278S278StcTtcC22AY.50.000041
ORF1ab/nsp13278S278StcTtcC22AY.60.000082
ORF1ab/nsp13278S278StcTtcC22AY.610.00021
ORF1ab/nsp13278S278ATcTGcG12AY.840.000437
ORF1ab/nsp13278S278ATctGct12AY.840.000437
ORF1ab/nsp13278S278delTCT---22AY.990.002099
ORF1ab/nsp13278S278YtCttAt22B.10.000018
ORF1ab/nsp13278S278StcTtcC22B.1.1.1410.004024
ORF1ab/nsp13278S278StcTtcA22B.1.1.2670.020202
ORF1ab/nsp13278S278StcTtcC22B.1.1.5190.000079
ORF1ab/nsp13278S278StcTtcC22B.1.1.5230.003125
ORF1ab/nsp13278S278StcTtcA22B.1.1310.017544
ORF1ab/nsp13278S278StcTtcC22B.1.177.210.000153
ORF1ab/nsp13278S278YtCttAt22B.1.20.000018
ORF1ab/nsp13278S278FtCttTt22B.1.2210.000142
ORF1ab/nsp13278S278StcTtcC22B.1.2320.001075
ORF1ab/nsp13278S278StcTtcC22B.1.2580.000133
ORF1ab/nsp13278S278StcTtcA12B.1.466.20.000391
ORF1ab/nsp13278S278StcTtcC12B.1.466.20.000391
ORF1ab/nsp13278S278FtCttTt22B.1.5960.000174
ORF1ab/nsp13278S278TTctAct22B.1.6210.000177
ORF1ab/nsp13278S278FtCttTt22B.390.004662
ORF1ab/nsp13278S278StcTtcC22C.360.001821
ORF1ab/nsp13278S278StcTtcC11A.20.000662
ORF1ab/nsp13278S278DTCtGAt11All0
ORF1ab/nsp13278S278StcTtcC11AU.20.002421
ORF1ab/nsp13278S278ATctGct11AY.1000.000046
ORF1ab/nsp13278S278StcTtcG11AY.1000.000046
ORF1ab/nsp13278S278ATctGct11AY.1020.000027
ORF1ab/nsp13278S278FtCttTt11AY.1030.000006
ORF1ab/nsp13278S278StcTtcC11AY.1130.000142
ORF1ab/nsp13278S278FtCttTt11AY.160.00038
ORF1ab/nsp13278S278StcTtcG11AY.23.10.000417
ORF1ab/nsp13278S278StcTtcC11AY.240.000431
ORF1ab/nsp13278S278FtCttTt11AY.250.000006
ORF1ab/nsp13278S278delTCT---11AY.30.00001
ORF1ab/nsp13278S278StcTtcC11AY.340.000097
ORF1ab/nsp13278S278ATctGct11AY.40.000002
ORF1ab/nsp13278S278PTctCct11AY.440.000006
ORF1ab/nsp13278S278delTCT---11AY.440.000006
ORF1ab/nsp13278S278FtCttTt11AY.440.000006
ORF1ab/nsp13278S278CtCTtGC11AY.46.20.000635
ORF1ab/nsp13278S278TTctAct11AY.470.000031
ORF1ab/nsp13278S278ATctGct11AY.550.000917
ORF1ab/nsp13278S278delTCT---11AY.670.000464
ORF1ab/nsp13278S278delTCT---11AY.750.000056
ORF1ab/nsp13278S278StcTtcC11AY.75.10.00018
ORF1ab/nsp13278S278ATctGct11AY.770.001127
ORF1ab/nsp13278S278ETCTGAG11AY.840.000437
ORF1ab/nsp13278S278YtCttAt11AY.840.000437
ORF1ab/nsp13278S278DTCtGAt11AY.840.000437
ORF1ab/nsp13278S278XtCTtAG11AY.840.000437
ORF1ab/nsp13278S278StcTtcG11AY.840.000437
ORF1ab/nsp13278S278StcTtcC11AY.90.000068
ORF1ab/nsp13278S278StcTtcC11AY.9.20.000037
ORF1ab/nsp13278S278StcTtcC11AY.930.000273
ORF1ab/nsp13278S278StcTtcC11AZ.30.00152
ORF1ab/nsp13278S278StcTtcC11B0.000128
ORF1ab/nsp13278S278PTctCct11B.10.000009
ORF1ab/nsp13278S278TTctAct11B.10.000009
ORF1ab/nsp13278S278delTCT---11B.10.000009
ORF1ab/nsp13278S278YtCttAt11B.1.10.000018
ORF1ab/nsp13278S278StcTtcC11B.1.1.10.000327
ORF1ab/nsp13278S278FtCttTt11B.1.1.2160.00089
ORF1ab/nsp13278S278FtCttTt11B.1.1.2530.002506
ORF1ab/nsp13278S278StcTtcC11B.1.1.4190.007407
ORF1ab/nsp13278S278PTctCct11B.1.1.70.000001
ORF1ab/nsp13278S278XtCTtAA11B.1.1.70.000001
ORF1ab/nsp13278S278TTctAct11B.1.1.70.000001
ORF1ab/nsp13278S278del2tCTt--11B.1.1.70.000001
ORF1ab/nsp13278S278del2tCTt--11B.1.1770.000013
ORF1ab/nsp13278S278delTCT---11B.1.177.150.000631
ORF1ab/nsp13278S278delTCT---11B.1.20.000009
ORF1ab/nsp13278S278YtCttAt11B.1.2430.00007
ORF1ab/nsp13278S278StcTtcC11B.1.2650.001271
ORF1ab/nsp13278S278FtCttTt11B.1.3380.008621
ORF1ab/nsp13278S278PTctCct11B.1.3490.000715
ORF1ab/nsp13278S278CtCttGt11B.1.351.30.000876
ORF1ab/nsp13278S278YtCttAt11B.1.351.30.000876
ORF1ab/nsp13278S278StcTtcC11B.1.360.000146
ORF1ab/nsp13278S278PTctCct11B.1.360.000146
ORF1ab/nsp13278S278FtCttTt11B.1.36.180.00042
ORF1ab/nsp13278S278FtCttTt11B.1.3670.000792
ORF1ab/nsp13278S278FtCttTt11B.1.3910.001127
ORF1ab/nsp13278S278delTCT---11B.1.4270.00005
ORF1ab/nsp13278S278ATctGct11B.1.466.20.000391
ORF1ab/nsp13278S278FtCttTt11B.1.5800.004065
ORF1ab/nsp13278S278StcTtcG11B.1.5950.000261
ORF1ab/nsp13278S278StcTtcC11B.1.5960.000087
ORF1ab/nsp13278S278FtCttTt11B.1.617.20.000004
ORF1ab/nsp13278S278YtCttAt11B.1.6370.000073
ORF1ab/nsp13278S278delTCT---11B.340.013699
ORF1ab/nsp13278S278FtCttTt11B.40.002208
ORF1ab/nsp13278S278StcTtcC11D.20.000075
ORF1ab/nsp13278S278StcTtcC11D.30.005917
ORF1ab/nsp13278S278StcTtcA11P.1.140.000048
ORF1ab/nsp13278S278CtCttGt11P.1.150.000232
ORF1ab/nsp13278S278StcTtcC11P.20.000187
ORF1ab/nsp13278S278PTctCct11Q.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.