CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 848

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/nsp3848S848SS1666SsyntcTtcC4523970.8783195261-5263
ORF1ab/nsp3848S848SS1666SsyntcTtcA452450.09955755261-5263
ORF1ab/nsp3848S848SS1666SsyntcTtcG452100.02212395261-5263
ORF1ab/nsp3848S848delS1666deldelTCT---44744715261-5263
ORF1ab/nsp3848S848AS1666AnonsynTctGct84810.9642865261-5263
ORF1ab/nsp3848S848AS1666AnonsynTcTGcC8430.03571435261-5263
ORF1ab/nsp3848S848YS1666YnonsyntCttAt828215261-5263
ORF1ab/nsp3848S848FS1666FnonsyntCttTt232315261-5263
ORF1ab/nsp3848S848CS1666CnonsyntCttGt18170.9444445261-5263
ORF1ab/nsp3848S848CS1666CnonsyntCTtGC1810.05555565261-5263
ORF1ab/nsp3848S848GS1666GnonsynTCTGGC13110.8461545261-5263
ORF1ab/nsp3848S848GS1666GnonsynTCtGGt1320.1538465261-5263
ORF1ab/nsp3848S848PS1666PnonsynTctCct12110.9166675261-5263
ORF1ab/nsp3848S848PS1666PnonsynTcTCcC1210.08333335261-5263
ORF1ab/nsp3848S848TS1666TnonsynTctAct970.7777785261-5263
ORF1ab/nsp3848S848TS1666TnonsynTcTAcA910.1111115261-5263
ORF1ab/nsp3848S848TS1666TnonsynTcTAcG910.1111115261-5263
ORF1ab/nsp3848S848del1S1666del1deltcTtc-420.55261-5263
ORF1ab/nsp3848S848del1S1666del1delTcTAc-410.255261-5263
ORF1ab/nsp3848S848del1S1666del1delTct-ct410.255261-5263
ORF1ab/nsp3848S848del2S1666del2delTCt--t3315261-5263
ORF1ab/nsp3848S848DS1666DnonsynTCtGAt1115261-5263
ORF1ab/nsp3848S848LS1666LnonsynTCTCTA1115261-5263
ORF1ab/nsp3848S848NS1666NnonsynTCTAAC1115261-5263

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/nsp3848S848StcTtcC397452All0.000076
ORF1ab/nsp3848S848StcTtcA45452All0.000009
ORF1ab/nsp3848S848StcTtcG10452All0.000002
ORF1ab/nsp3848S848delTCT---447447All0.000085
ORF1ab/nsp3848S848StcTtcC211211B.1.6180.850806
ORF1ab/nsp3848S848delTCT---125125B.1.1.70.000112
ORF1ab/nsp3848S848ATctGct8184All0.000015
ORF1ab/nsp3848S848ATcTGcC384All0.000001
ORF1ab/nsp3848S848YtCttAt8282All0.000016
ORF1ab/nsp3848S848delTCT---8181B.1.617.10.010446
ORF1ab/nsp3848S848StcTtcA3859B.1.617.10.004901
ORF1ab/nsp3848S848StcTtcC2159B.1.617.10.002708
ORF1ab/nsp3848S848delTCT---4949B.10.000449
ORF1ab/nsp3848S848delTCT---4747AY.440.000286
ORF1ab/nsp3848S848StcTtcC4040B.1.20.000352
ORF1ab/nsp3848S848YtCttAt3232AY.40.00005
ORF1ab/nsp3848S848StcTtcC2828AY.430.000124
ORF1ab/nsp3848S848FtCttTt2323All0.000004
ORF1ab/nsp3848S848YtCttAt2323AY.4.50.002472
ORF1ab/nsp3848S848StcTtcC1521AY.40.000023
ORF1ab/nsp3848S848StcTtcG621AY.40.000009
ORF1ab/nsp3848S848ATctGct2020AY.430.000089
ORF1ab/nsp3848S848StcTtcC1820B.1.617.20.000068
ORF1ab/nsp3848S848StcTtcA220B.1.617.20.000008
ORF1ab/nsp3848S848CtCttGt1718All0.000003
ORF1ab/nsp3848S848CtCTtGC118All0
ORF1ab/nsp3848S848delTCT---1616AY.1030.000099
ORF1ab/nsp3848S848StcTtcC1414B.1.5820.006869
ORF1ab/nsp3848S848GTCTGGC1113All0.000002
ORF1ab/nsp3848S848GTCtGGt213All0
ORF1ab/nsp3848S848PTctCct1112All0.000002
ORF1ab/nsp3848S848PTcTCcC112All0
ORF1ab/nsp3848S848delTCT---1212B.1.10.000218
ORF1ab/nsp3848S848ATctGct1011B.1.1.70.000009
ORF1ab/nsp3848S848ATcTGcC111B.1.1.70.000001
ORF1ab/nsp3848S848StcTtcC1010C.160.010604
ORF1ab/nsp3848S848TTctAct79All0.000001
ORF1ab/nsp3848S848TTcTAcA19All0
ORF1ab/nsp3848S848TTcTAcG19All0
ORF1ab/nsp3848S848delTCT---88B.1.5760.007253
ORF1ab/nsp3848S848delTCT---77AY.250.000042
ORF1ab/nsp3848S848delTCT---77AY.390.000173
ORF1ab/nsp3848S848ATctGct77AY.420.000282
ORF1ab/nsp3848S848ATctGct55AY.40.000008
ORF1ab/nsp3848S848YtCttAt55AY.90.000338
ORF1ab/nsp3848S848delTCT---55B.1.3750.004098
ORF1ab/nsp3848S848delTCT---55B.1.617.20.000019
ORF1ab/nsp3848S848del1tcTtc-24All0
ORF1ab/nsp3848S848del1TcTAc-14All0
ORF1ab/nsp3848S848del1Tct-ct14All0
ORF1ab/nsp3848S848delTCT---44AY.1000.000184
ORF1ab/nsp3848S848delTCT---44AY.30.00004
ORF1ab/nsp3848S848delTCT---44AY.40.000006
ORF1ab/nsp3848S848StcTtcC44AY.470.000124
ORF1ab/nsp3848S848delTCT---44AY.470.000124
ORF1ab/nsp3848S848ATctGct44AY.5.30.00135
ORF1ab/nsp3848S848delTCT---44AY.750.000224
ORF1ab/nsp3848S848YtCttAt44AY.80.002424
ORF1ab/nsp3848S848YtCttAt44B.10.000037
ORF1ab/nsp3848S848GTCTGGC44B.1.10.000073
ORF1ab/nsp3848S848FtCttTt44B.1.1.70.000004
ORF1ab/nsp3848S848CtCttGt34B.1.1.70.000003
ORF1ab/nsp3848S848StcTtcC34B.1.1.70.000003
ORF1ab/nsp3848S848CtCTtGC14B.1.1.70.000001
ORF1ab/nsp3848S848StcTtcA14B.1.1.70.000001
ORF1ab/nsp3848S848del2TCt--t33All0.000001
ORF1ab/nsp3848S848delTCT---33AY.1130.000427
ORF1ab/nsp3848S848delTCT---33AY.1190.000106
ORF1ab/nsp3848S848ATctGct33AY.50.000062
ORF1ab/nsp3848S848StcTtcC33AY.5.40.00083
ORF1ab/nsp3848S848delTCT---33AY.950.002283
ORF1ab/nsp3848S848ATctGct33AY.98.10.000145
ORF1ab/nsp3848S848FtCttTt33B.10.000027
ORF1ab/nsp3848S848PTctCct33B.10.000027
ORF1ab/nsp3848S848StcTtcC23B.10.000018
ORF1ab/nsp3848S848StcTtcG13B.10.000009
ORF1ab/nsp3848S848StcTtcC33B.1.10.000054
ORF1ab/nsp3848S848GTCtGGt23B.1.1.70.000002
ORF1ab/nsp3848S848GTCTGGC13B.1.1.70.000001
ORF1ab/nsp3848S848delTCT---33B.1.360.000438
ORF1ab/nsp3848S848TTctAct33B.1.4270.000151
ORF1ab/nsp3848S848delTCT---33B.1.5250.000339
ORF1ab/nsp3848S848CtCttGt33B.1.617.10.000387
ORF1ab/nsp3848S848ATctGct33B.1.617.20.000011
ORF1ab/nsp3848S848delTCT---33B.1.6210.000266
ORF1ab/nsp3848S848delTCT---22AY.10.000791
ORF1ab/nsp3848S848StcTtcG12AY.1030.000006
ORF1ab/nsp3848S848StcTtcC12AY.1030.000006
ORF1ab/nsp3848S848YtCttAt22AY.1200.000074
ORF1ab/nsp3848S848FtCttTt22AY.250.000012
ORF1ab/nsp3848S848StcTtcC22AY.250.000012
ORF1ab/nsp3848S848delTCT---22AY.260.000057
ORF1ab/nsp3848S848ATctGct22AY.340.000194
ORF1ab/nsp3848S848PTctCct22AY.40.000003
ORF1ab/nsp3848S848PTcTCcC12AY.440.000006
ORF1ab/nsp3848S848PTctCct12AY.440.000006
ORF1ab/nsp3848S848StcTtcC22AY.460.000208
ORF1ab/nsp3848S848ATctGct22AY.46.60.000144
ORF1ab/nsp3848S848ATctGct22AY.5.40.000553
ORF1ab/nsp3848S848delTCT---22AY.540.000191
ORF1ab/nsp3848S848YtCttAt22AY.580.001815
ORF1ab/nsp3848S848del1tcTtc-12B.10.000009
ORF1ab/nsp3848S848del1Tct-ct12B.10.000009
ORF1ab/nsp3848S848YtCttAt22B.1.1.70.000002
ORF1ab/nsp3848S848delTCT---22B.1.177.730.001133
ORF1ab/nsp3848S848TTctAct22B.1.3510.000059
ORF1ab/nsp3848S848ATctGct12B.1.3670.000792
ORF1ab/nsp3848S848ATcTGcC12B.1.3670.000792
ORF1ab/nsp3848S848delTCT---22B.1.4560.006536
ORF1ab/nsp3848S848delTCT---22B.1.5600.009259
ORF1ab/nsp3848S848delTCT---22B.1.6200.001892
ORF1ab/nsp3848S848StcTtcA110.055556
ORF1ab/nsp3848S848del2TCt--t11A0.000387
ORF1ab/nsp3848S848delTCT---11A.2.20.001689
ORF1ab/nsp3848S848delTCT---11A.23.10.000704
ORF1ab/nsp3848S848ATcTGcC11A.270.001656
ORF1ab/nsp3848S848delTCT---11AH.30.003802
ORF1ab/nsp3848S848LTCTCTA11All0
ORF1ab/nsp3848S848DTCtGAt11All0
ORF1ab/nsp3848S848NTCTAAC11All0
ORF1ab/nsp3848S848ATctGct11AW.10.003049
ORF1ab/nsp3848S848StcTtcA11AY.1000.000046
ORF1ab/nsp3848S848StcTtcC11AY.1020.000027
ORF1ab/nsp3848S848FtCttTt11AY.1030.000006
ORF1ab/nsp3848S848TTctAct11AY.1030.000006
ORF1ab/nsp3848S848CtCttGt11AY.1030.000006
ORF1ab/nsp3848S848ATctGct11AY.1110.000183
ORF1ab/nsp3848S848CtCttGt11AY.1180.000063
ORF1ab/nsp3848S848StcTtcG11AY.1180.000063
ORF1ab/nsp3848S848StcTtcC11AY.1190.000035
ORF1ab/nsp3848S848delTCT---11AY.1200.000037
ORF1ab/nsp3848S848delTCT---11AY.120.10.000321
ORF1ab/nsp3848S848ATctGct11AY.120.20.001285
ORF1ab/nsp3848S848delTCT---11AY.16.10.00047
ORF1ab/nsp3848S848YtCttAt11AY.170.008197
ORF1ab/nsp3848S848CtCttGt11AY.200.000039
ORF1ab/nsp3848S848delTCT---11AY.200.000039
ORF1ab/nsp3848S848StcTtcC11AY.230.00007
ORF1ab/nsp3848S848ATctGct11AY.230.00007
ORF1ab/nsp3848S848ATctGct11AY.250.000006
ORF1ab/nsp3848S848FtCttTt11AY.260.000028
ORF1ab/nsp3848S848FtCttTt11AY.330.000067
ORF1ab/nsp3848S848StcTtcC11AY.340.000097
ORF1ab/nsp3848S848CtCttGt11AY.390.000025
ORF1ab/nsp3848S848ATctGct11AY.39.10.00004
ORF1ab/nsp3848S848FtCttTt11AY.40.000002
ORF1ab/nsp3848S848ATctGct11AY.4.20.000022
ORF1ab/nsp3848S848StcTtcC11AY.4.20.000022
ORF1ab/nsp3848S848GTCTGGC11AY.4.2.10.000149
ORF1ab/nsp3848S848StcTtcC11AY.4.40.000409
ORF1ab/nsp3848S848delTCT---11AY.4.50.000107
ORF1ab/nsp3848S848delTCT---11AY.430.000004
ORF1ab/nsp3848S848CtCttGt11AY.430.000004
ORF1ab/nsp3848S848del2TCt--t11AY.440.000006
ORF1ab/nsp3848S848CtCttGt11AY.440.000006
ORF1ab/nsp3848S848ATctGct11AY.440.000006
ORF1ab/nsp3848S848ATctGct11AY.46.40.000165
ORF1ab/nsp3848S848ATctGct11AY.75.10.00018
ORF1ab/nsp3848S848YtCttAt11AY.870.000833
ORF1ab/nsp3848S848ATctGct11AY.9.20.000037
ORF1ab/nsp3848S848StcTtcC11AY.9.20.000037
ORF1ab/nsp3848S848ATctGct11AY.980.000079
ORF1ab/nsp3848S848StcTtcC11B0.000128
ORF1ab/nsp3848S848del2TCt--t11B.10.000009
ORF1ab/nsp3848S848CtCttGt11B.10.000009
ORF1ab/nsp3848S848GTCTGGC11B.10.000009
ORF1ab/nsp3848S848FtCttTt11B.1.10.000018
ORF1ab/nsp3848S848TTcTAcG11B.1.10.000018
ORF1ab/nsp3848S848ATctGct11B.1.10.000018
ORF1ab/nsp3848S848delTCT---11B.1.1.1420.017544
ORF1ab/nsp3848S848PTctCct11B.1.1.1610.003534
ORF1ab/nsp3848S848delTCT---11B.1.1.2790.001121
ORF1ab/nsp3848S848GTCTGGC11B.1.1.330.000421
ORF1ab/nsp3848S848delTCT---11B.1.1.3650.005587
ORF1ab/nsp3848S848PTctCct11B.1.1.3720.000689
ORF1ab/nsp3848S848StcTtcC11B.1.1.470.005348
ORF1ab/nsp3848S848delTCT---11B.1.1.5190.00004
ORF1ab/nsp3848S848StcTtcC11B.1.1.5190.00004
ORF1ab/nsp3848S848FtCttTt11B.1.1.5260.003546
ORF1ab/nsp3848S848TTcTAcA11B.1.1.5280.004808
ORF1ab/nsp3848S848DTCtGAt11B.1.1.70.000001
ORF1ab/nsp3848S848del1tcTtc-11B.1.1.70.000001
ORF1ab/nsp3848S848YtCttAt11B.1.1.700.000341
ORF1ab/nsp3848S848FtCttTt11B.1.1280.000635
ORF1ab/nsp3848S848delTCT---11B.1.1450.052632
ORF1ab/nsp3848S848StcTtcC11B.1.1570.002985
ORF1ab/nsp3848S848StcTtcC11B.1.1600.000031
ORF1ab/nsp3848S848PTctCct11B.1.1600.000031
ORF1ab/nsp3848S848StcTtcA11B.1.160.140.002119
ORF1ab/nsp3848S848ATctGct11B.1.177.150.000631
ORF1ab/nsp3848S848delTCT---11B.1.177.160.000664
ORF1ab/nsp3848S848delTCT---11B.1.177.170.000821
ORF1ab/nsp3848S848delTCT---11B.1.177.180.00116
ORF1ab/nsp3848S848delTCT---11B.1.177.510.004566
ORF1ab/nsp3848S848delTCT---11B.1.177.70.000165
ORF1ab/nsp3848S848delTCT---11B.1.177.80.000752
ORF1ab/nsp3848S848delTCT---11B.1.177.810.000189
ORF1ab/nsp3848S848del1TcTAc-11B.1.20.000009
ORF1ab/nsp3848S848FtCttTt11B.1.20.000009
ORF1ab/nsp3848S848delTCT---11B.1.20.000009
ORF1ab/nsp3848S848delTCT---11B.1.2140.003663
ORF1ab/nsp3848S848StcTtcC11B.1.2210.000071
ORF1ab/nsp3848S848FtCttTt11B.1.2210.000071
ORF1ab/nsp3848S848YtCttAt11B.1.2430.00007
ORF1ab/nsp3848S848StcTtcC11B.1.2580.000067
ORF1ab/nsp3848S848delTCT---11B.1.3190.003049
ORF1ab/nsp3848S848GTCTGGC11B.1.3510.00003
ORF1ab/nsp3848S848delTCT---11B.1.3510.00003
ORF1ab/nsp3848S848CtCttGt11B.1.351.20.000303
ORF1ab/nsp3848S848StcTtcC11B.1.360.000146
ORF1ab/nsp3848S848FtCttTt11B.1.36.100.004785
ORF1ab/nsp3848S848FtCttTt11B.1.36.290.000517
ORF1ab/nsp3848S848delTCT---11B.1.36.290.000517
ORF1ab/nsp3848S848StcTtcC11B.1.3910.001127
ORF1ab/nsp3848S848delTCT---11B.1.416.10.001563
ORF1ab/nsp3848S848StcTtcA11B.1.4290.000024
ORF1ab/nsp3848S848ATctGct11B.1.4290.000024
ORF1ab/nsp3848S848YtCttAt11B.1.4530.003236
ORF1ab/nsp3848S848delTCT---11B.1.4650.003802
ORF1ab/nsp3848S848PTctCct11B.1.4870.019608
ORF1ab/nsp3848S848PTctCct11B.1.4970.000315
ORF1ab/nsp3848S848YtCttAt11B.1.5260.000024
ORF1ab/nsp3848S848ATctGct11B.1.5260.000024
ORF1ab/nsp3848S848delTCT---11B.1.5330.009615
ORF1ab/nsp3848S848delTCT---11B.1.5370.02
ORF1ab/nsp3848S848StcTtcC11B.1.5640.000426
ORF1ab/nsp3848S848StcTtcC11B.1.5650.00081
ORF1ab/nsp3848S848FtCttTt11B.1.5820.000491
ORF1ab/nsp3848S848FtCttTt11B.1.5960.000087
ORF1ab/nsp3848S848YtCttAt11B.1.5990.00365
ORF1ab/nsp3848S848NTCTAAC11B.1.617.10.000129
ORF1ab/nsp3848S848TTctAct11B.1.617.20.000004
ORF1ab/nsp3848S848LTCTCTA11B.1.617.20.000004
ORF1ab/nsp3848S848YtCttAt11B.1.617.20.000004
ORF1ab/nsp3848S848delTCT---11B.1.617.30.002985
ORF1ab/nsp3848S848StcTtcG11B.1.617.30.002985
ORF1ab/nsp3848S848StcTtcC11B.1.6210.000089
ORF1ab/nsp3848S848delTCT---11B.1.6300.005236
ORF1ab/nsp3848S848CtCttGt11B.1.6370.000073
ORF1ab/nsp3848S848delTCT---11B.150.017544
ORF1ab/nsp3848S848ATctGct11B.4.50.011905
ORF1ab/nsp3848S848CtCttGt11B.60.00091
ORF1ab/nsp3848S848FtCttTt11D.20.000075
ORF1ab/nsp3848S848ATctGct11P.10.000016
ORF1ab/nsp3848S848GTCTGGC11P.10.000016
ORF1ab/nsp3848S848GTCTGGC11P.1.10.000318
ORF1ab/nsp3848S848StcTtcC11P.1.120.000484
ORF1ab/nsp3848S848CtCttGt11P.1.130.000898
ORF1ab/nsp3848S848ATctGct11Q.40.000455

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.