CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 130

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/nsp13130L130LL5454LsynctCctT121611850.97450716624-16626
ORF1ab/nsp13130L130LL5454LsynctCctA1216260.021381616624-16626
ORF1ab/nsp13130L130LL5454LsynctCctG121650.0041118416624-16626
ORF1ab/nsp13130L130delL5454deldelCTC---173173116624-16626
ORF1ab/nsp13130L130IL5454InonsynCtcAtc68670.98529416624-16626
ORF1ab/nsp13130L130IL5454InonsynCtCAtA6810.014705916624-16626
ORF1ab/nsp13130L130HL5454HnonsyncTccAc2929116624-16626
ORF1ab/nsp13130L130FL5454FnonsynCtcTtc26240.92307716624-16626
ORF1ab/nsp13130L130FL5454FnonsynCtCTtT2620.076923116624-16626
ORF1ab/nsp13130L130PL5454PnonsyncTccCc1090.916624-16626
ORF1ab/nsp13130L130PL5454PnonsyncTCcCA1010.116624-16626
ORF1ab/nsp13130L130del1L5454del1delCtc-tc740.57142916624-16626
ORF1ab/nsp13130L130del1L5454del1delctCct-720.28571416624-16626
ORF1ab/nsp13130L130del1L5454del1delCtC-tA710.14285716624-16626
ORF1ab/nsp13130L130RL5454RnonsyncTccGc22116624-16626
ORF1ab/nsp13130L130TL5454TnonsynCTCACT210.516624-16626
ORF1ab/nsp13130L130TL5454TnonsynCTCACG210.516624-16626
ORF1ab/nsp13130L130del2L5454del2delCTC--T11116624-16626
ORF1ab/nsp13130L130NL5454NnonsynCTCAAT11116624-16626
ORF1ab/nsp13130L130KL5454KnonsynCTCAAG11116624-16626
ORF1ab/nsp13130L130VL5454VnonsynCtcGtc11116624-16626

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/nsp13130L130LctCctT11851216All0.000227
ORF1ab/nsp13130L130LctCctA261216All0.000005
ORF1ab/nsp13130L130LctCctG51216All0.000001
ORF1ab/nsp13130L130LctCctT354354B.1.1.3060.155195
ORF1ab/nsp13130L130LctCctT265268B.1.1.70.000237
ORF1ab/nsp13130L130LctCctA3268B.1.1.70.000003
ORF1ab/nsp13130L130delCTC---173173All0.000033
ORF1ab/nsp13130L130delCTC---105105B.1.1.70.000094
ORF1ab/nsp13130L130ICtcAtc6768All0.000013
ORF1ab/nsp13130L130ICtCAtA168All0
ORF1ab/nsp13130L130LctCctT6767AY.470.002084
ORF1ab/nsp13130L130LctCctT3942AY.1030.000242
ORF1ab/nsp13130L130LctCctA342AY.1030.000019
ORF1ab/nsp13130L130LctCctT3737B.1.20.000326
ORF1ab/nsp13130L130HcTccAc2929All0.000006
ORF1ab/nsp13130L130FCtcTtc2426All0.000005
ORF1ab/nsp13130L130FCtCTtT226All0
ORF1ab/nsp13130L130LctCctT2626B.1.5480.928571
ORF1ab/nsp13130L130LctCctT2022AY.40.000031
ORF1ab/nsp13130L130LctCctA122AY.40.000002
ORF1ab/nsp13130L130LctCctG122AY.40.000002
ORF1ab/nsp13130L130ICtcAtc2222B.1.1770.00029
ORF1ab/nsp13130L130LctCctT2222P.1.140.001052
ORF1ab/nsp13130L130LctCctT2020AY.50.000413
ORF1ab/nsp13130L130LctCctT1818B.1.1.5190.000715
ORF1ab/nsp13130L130delCTC---1818B.1.1770.000237
ORF1ab/nsp13130L130LctCctT1416AY.390.000346
ORF1ab/nsp13130L130LctCctA216AY.390.000049
ORF1ab/nsp13130L130LctCctT1416AY.430.000062
ORF1ab/nsp13130L130LctCctA216AY.430.000009
ORF1ab/nsp13130L130LctCctT1616P.10.000252
ORF1ab/nsp13130L130LctCctT1115B.10.000101
ORF1ab/nsp13130L130LctCctA415B.10.000037
ORF1ab/nsp13130L130LctCctT1515D.20.001126
ORF1ab/nsp13130L130LctCctT1414B.1.617.20.000053
ORF1ab/nsp13130L130LctCctT1313B.1.4290.000306
ORF1ab/nsp13130L130LctCctT1212AY.250.000072
ORF1ab/nsp13130L130ICtcAtc1212AY.40.000019
ORF1ab/nsp13130L130HcTccAc1111AY.40.000017
ORF1ab/nsp13130L130LctCctT1111AY.440.000067
ORF1ab/nsp13130L130PcTccCc910All0.000002
ORF1ab/nsp13130L130PcTCcCA110All0
ORF1ab/nsp13130L130LctCctT1010B.1.360.001459
ORF1ab/nsp13130L130HcTccAc99AY.4.50.000967
ORF1ab/nsp13130L130LctCctT89B.1.3510.000238
ORF1ab/nsp13130L130LctCctA19B.1.3510.00003
ORF1ab/nsp13130L130LctCctT78AY.30.00007
ORF1ab/nsp13130L130LctCctA18AY.30.00001
ORF1ab/nsp13130L130LctCctT88AY.880.007073
ORF1ab/nsp13130L130LctCctT88B.1.1.3400.363636
ORF1ab/nsp13130L130LctCctT88B.1.6320.053691
ORF1ab/nsp13130L130del1Ctc-tc47All0.000001
ORF1ab/nsp13130L130del1ctCct-27All0
ORF1ab/nsp13130L130del1CtC-tA17All0
ORF1ab/nsp13130L130LctCctT77AY.3.10.000597
ORF1ab/nsp13130L130LctCctT77AY.4.20.000152
ORF1ab/nsp13130L130LctCctT77B.1.3110.001922
ORF1ab/nsp13130L130LctCctT77N.90.041667
ORF1ab/nsp13130L130LctCctT66B.1.10.000109
ORF1ab/nsp13130L130delCTC---66B.1.10.000109
ORF1ab/nsp13130L130delCTC---55AD.20.001095
ORF1ab/nsp13130L130LctCctT55AY.1110.000916
ORF1ab/nsp13130L130LctCctT55AY.230.000349
ORF1ab/nsp13130L130LctCctT55AY.290.000079
ORF1ab/nsp13130L130LctCctT55B.1.1.1760.002197
ORF1ab/nsp13130L130delCTC---440.222222
ORF1ab/nsp13130L130LctCctT44AY.1190.000141
ORF1ab/nsp13130L130ICtcAtc44AY.250.000024
ORF1ab/nsp13130L130LctCctT44AY.4.50.00043
ORF1ab/nsp13130L130delCTC---44AZ.20.003284
ORF1ab/nsp13130L130LctCctT44B.1.1.1700.004988
ORF1ab/nsp13130L130LctCctT44B.1.4270.000202
ORF1ab/nsp13130L130ICtcAtc44B.1.6200.003784
ORF1ab/nsp13130L130LctCctT34P.1.170.000485
ORF1ab/nsp13130L130LctCctA14P.1.170.000162
ORF1ab/nsp13130L130LctCctT33AY.1000.000138
ORF1ab/nsp13130L130LctCctT33AY.1020.00008
ORF1ab/nsp13130L130LctCctT33AY.240.001293
ORF1ab/nsp13130L130LctCctT33AY.330.0002
ORF1ab/nsp13130L130ICtcAtc33AY.430.000013
ORF1ab/nsp13130L130LctCctT33AY.780.004622
ORF1ab/nsp13130L130delCTC---33B.10.000027
ORF1ab/nsp13130L130FCtcTtc33B.10.000027
ORF1ab/nsp13130L130ICtcAtc33B.1.10.000054
ORF1ab/nsp13130L130ICtcAtc33B.1.1.70.000003
ORF1ab/nsp13130L130LctCctT33B.1.2430.000209
ORF1ab/nsp13130L130LctCctG33B.1.6190.002613
ORF1ab/nsp13130L130delCTC---33Q.10.000379
ORF1ab/nsp13130L130PcTccCc220.111111
ORF1ab/nsp13130L130FCtCTtT220.111111
ORF1ab/nsp13130L130LctCctT22A.2.50.000998
ORF1ab/nsp13130L130RcTccGc22All0
ORF1ab/nsp13130L130TCTCACT12All0
ORF1ab/nsp13130L130TCTCACG12All0
ORF1ab/nsp13130L130LctCctT22AY.200.000078
ORF1ab/nsp13130L130delCTC---22AY.430.000009
ORF1ab/nsp13130L130HcTccAc22AY.80.001212
ORF1ab/nsp13130L130LctCctT22AY.9.20.000073
ORF1ab/nsp13130L130ICtCAtA12B.10.000009
ORF1ab/nsp13130L130ICtcAtc12B.10.000009
ORF1ab/nsp13130L130TCTCACG12B.1.10.000018
ORF1ab/nsp13130L130TCTCACT12B.1.10.000018
ORF1ab/nsp13130L130FCtcTtc22B.1.1.10.000653
ORF1ab/nsp13130L130delCTC---22B.1.1.3060.000877
ORF1ab/nsp13130L130delCTC---22B.1.1.3150.016949
ORF1ab/nsp13130L130del1Ctc-tc22B.1.1.70.000002
ORF1ab/nsp13130L130FCtcTtc22B.1.1770.000026
ORF1ab/nsp13130L130LctCctT22B.1.1770.000026
ORF1ab/nsp13130L130LctCctT22B.1.177.40.000422
ORF1ab/nsp13130L130PcTccCc22B.1.20.000018
ORF1ab/nsp13130L130FCtcTtc22B.1.20.000018
ORF1ab/nsp13130L130LctCctT22B.1.2340.000264
ORF1ab/nsp13130L130ICtcAtc22B.1.258.170.000208
ORF1ab/nsp13130L130ICtcAtc22B.1.4290.000047
ORF1ab/nsp13130L130ICtcAtc22B.1.617.20.000008
ORF1ab/nsp13130L130LctCctA11A0.000387
ORF1ab/nsp13130L130ICtcAtc11A.20.000662
ORF1ab/nsp13130L130HcTccAc11A.2.40.003367
ORF1ab/nsp13130L130LctCctT11A.2.40.003367
ORF1ab/nsp13130L130FCtcTtc11A.50.001923
ORF1ab/nsp13130L130LctCctT11AE.20.058824
ORF1ab/nsp13130L130NCTCAAT11All0
ORF1ab/nsp13130L130del2CTC--T11All0
ORF1ab/nsp13130L130VCtcGtc11All0
ORF1ab/nsp13130L130KCTCAAG11All0
ORF1ab/nsp13130L130ICtcAtc11AY.1030.000006
ORF1ab/nsp13130L130LctCctT11AY.1130.000142
ORF1ab/nsp13130L130LctCctT11AY.1170.000085
ORF1ab/nsp13130L130FCtcTtc11AY.1180.000063
ORF1ab/nsp13130L130LctCctT11AY.1180.000063
ORF1ab/nsp13130L130HcTccAc11AY.1200.000037
ORF1ab/nsp13130L130LctCctT11AY.120.10.000321
ORF1ab/nsp13130L130delCTC---11AY.240.000431
ORF1ab/nsp13130L130LctCctT11AY.270.000065
ORF1ab/nsp13130L130LctCctT11AY.320.000532
ORF1ab/nsp13130L130VCtcGtc11AY.39.10.00004
ORF1ab/nsp13130L130LctCctT11AY.39.10.00004
ORF1ab/nsp13130L130delCTC---11AY.40.000002
ORF1ab/nsp13130L130LctCctT11AY.420.00004
ORF1ab/nsp13130L130PcTccCc11AY.430.000004
ORF1ab/nsp13130L130del1Ctc-tc11AY.430.000004
ORF1ab/nsp13130L130del2CTC--T11AY.440.000006
ORF1ab/nsp13130L130FCtcTtc11AY.440.000006
ORF1ab/nsp13130L130del1CtC-tA11AY.440.000006
ORF1ab/nsp13130L130delCTC---11AY.440.000006
ORF1ab/nsp13130L130LctCctT11AY.450.000122
ORF1ab/nsp13130L130delCTC---11AY.450.000122
ORF1ab/nsp13130L130LctCctA11AY.520.000814
ORF1ab/nsp13130L130HcTccAc11AY.580.000907
ORF1ab/nsp13130L130LctCctT11AY.580.000907
ORF1ab/nsp13130L130LctCctT11AY.620.000436
ORF1ab/nsp13130L130RcTccGc11AY.690.000187
ORF1ab/nsp13130L130HcTccAc11AY.90.000068
ORF1ab/nsp13130L130ICtcAtc11AY.950.000761
ORF1ab/nsp13130L130LctCctT11AY.99.20.000092
ORF1ab/nsp13130L130LctCctA11B0.000128
ORF1ab/nsp13130L130KCTCAAG11B.1.10.000018
ORF1ab/nsp13130L130NCTCAAT11B.1.10.000018
ORF1ab/nsp13130L130PcTccCc11B.1.10.000018
ORF1ab/nsp13130L130LctCctT11B.1.1.2100.005714
ORF1ab/nsp13130L130LctCctT11B.1.1.2220.000204
ORF1ab/nsp13130L130delCTC---11B.1.1.2310.003096
ORF1ab/nsp13130L130LctCctT11B.1.1.2410.00207
ORF1ab/nsp13130L130LctCctT11B.1.1.2730.006757
ORF1ab/nsp13130L130delCTC---11B.1.1.3050.003861
ORF1ab/nsp13130L130ICtcAtc11B.1.1.3110.000358
ORF1ab/nsp13130L130delCTC---11B.1.1.3180.000302
ORF1ab/nsp13130L130LctCctT11B.1.1.3260.001761
ORF1ab/nsp13130L130LctCctT11B.1.1.330.000421
ORF1ab/nsp13130L130LctCctT11B.1.1.3770.001381
ORF1ab/nsp13130L130FCtcTtc11B.1.1.4090.002833
ORF1ab/nsp13130L130delCTC---11B.1.1.440.00241
ORF1ab/nsp13130L130delCTC---11B.1.1.510.001718
ORF1ab/nsp13130L130delCTC---11B.1.1.5190.00004
ORF1ab/nsp13130L130ICtcAtc11B.1.1.5190.00004
ORF1ab/nsp13130L130HcTccAc11B.1.1.70.000001
ORF1ab/nsp13130L130FCtcTtc11B.1.1.70.000001
ORF1ab/nsp13130L130delCTC---11B.1.1400.018868
ORF1ab/nsp13130L130LctCctG11B.1.160.120.00641
ORF1ab/nsp13130L130PcTccCc11B.1.160.140.002119
ORF1ab/nsp13130L130delCTC---11B.1.160.230.004831
ORF1ab/nsp13130L130HcTccAc11B.1.1770.000013
ORF1ab/nsp13130L130del1Ctc-tc11B.1.1770.000013
ORF1ab/nsp13130L130delCTC---11B.1.177.730.000566
ORF1ab/nsp13130L130delCTC---11B.1.177.830.001481
ORF1ab/nsp13130L130LctCctT11B.1.177.860.000183
ORF1ab/nsp13130L130delCTC---11B.1.20.000009
ORF1ab/nsp13130L130ICtcAtc11B.1.20.000009
ORF1ab/nsp13130L130FCtcTtc11B.1.2210.000071
ORF1ab/nsp13130L130FCtcTtc11B.1.221.20.004016
ORF1ab/nsp13130L130ICtcAtc11B.1.2360.002053
ORF1ab/nsp13130L130delCTC---11B.1.2420.018868
ORF1ab/nsp13130L130FCtcTtc11B.1.2430.00007
ORF1ab/nsp13130L130LctCctT11B.1.2580.000067
ORF1ab/nsp13130L130LctCctA11B.1.3010.005917
ORF1ab/nsp13130L130LctCctT11B.1.3240.001605
ORF1ab/nsp13130L130LctCctT11B.1.3360.002439
ORF1ab/nsp13130L130LctCctT11B.1.351.50.0006
ORF1ab/nsp13130L130delCTC---11B.1.360.000146
ORF1ab/nsp13130L130LctCctA11B.1.36.80.001
ORF1ab/nsp13130L130PcTccCc11B.1.3620.001541
ORF1ab/nsp13130L130FCtcTtc11B.1.3910.001127
ORF1ab/nsp13130L130FCtcTtc11B.1.4000.000429
ORF1ab/nsp13130L130LctCctT11B.1.4040.001302
ORF1ab/nsp13130L130ICtcAtc11B.1.416.10.001563
ORF1ab/nsp13130L130FCtcTtc11B.1.4320.011236
ORF1ab/nsp13130L130LctCctT11B.1.4340.052632
ORF1ab/nsp13130L130LctCctT11B.1.438.10.000107
ORF1ab/nsp13130L130LctCctT11B.1.466.20.000391
ORF1ab/nsp13130L130LctCctT11B.1.4680.005714
ORF1ab/nsp13130L130FCtcTtc11B.1.4800.002488
ORF1ab/nsp13130L130RcTccGc11B.1.4970.000315
ORF1ab/nsp13130L130LctCctT11B.1.5030.002488
ORF1ab/nsp13130L130LctCctT11B.1.5090.000866
ORF1ab/nsp13130L130LctCctT11B.1.5250.000113
ORF1ab/nsp13130L130LctCctT11B.1.5600.00463
ORF1ab/nsp13130L130FCtcTtc11B.1.5610.000397
ORF1ab/nsp13130L130del1ctCct-11B.1.5670.003333
ORF1ab/nsp13130L130LctCctT11B.1.5940.03125
ORF1ab/nsp13130L130LctCctT11B.1.5950.000261
ORF1ab/nsp13130L130FCtcTtc11B.1.5960.000087
ORF1ab/nsp13130L130HcTccAc11B.1.5990.00365
ORF1ab/nsp13130L130delCTC---11B.1.617.10.000129
ORF1ab/nsp13130L130PcTCcCA11B.1.617.20.000004
ORF1ab/nsp13130L130LctCctT11B.1.6180.004032
ORF1ab/nsp13130L130LctCctT11B.1.6210.000089
ORF1ab/nsp13130L130LctCctA11B.1.6230.000536
ORF1ab/nsp13130L130LctCctT11B.1.6280.000352
ORF1ab/nsp13130L130LctCctT11B.1.6340.003425
ORF1ab/nsp13130L130LctCctA11B.1.6370.000073
ORF1ab/nsp13130L130LctCctT11B.4.50.011905
ORF1ab/nsp13130L130PcTccCc11B.550.00295
ORF1ab/nsp13130L130LctCctT11C.160.00106
ORF1ab/nsp13130L130LctCctT11C.36.30.000567
ORF1ab/nsp13130L130LctCctA11C.370.000116
ORF1ab/nsp13130L130FCtcTtc11D.20.000075
ORF1ab/nsp13130L130ICtcAtc11P.10.000016
ORF1ab/nsp13130L130delCTC---11P.10.000016
ORF1ab/nsp13130L130LctCctT11P.1.150.000232
ORF1ab/nsp13130L130del1ctCct-11Q.30.000145

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.