CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1195

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/nsp31195L1195LL2013LsynctTctG2641380.5227276302-6304
ORF1ab/nsp31195L1195LL2013LsynctTctC2641080.4090916302-6304
ORF1ab/nsp31195L1195LL2013LsynctTctA264170.06439396302-6304
ORF1ab/nsp31195L1195LL2013LsynCtTTtG26410.003787886302-6304
ORF1ab/nsp31195L1195IL2013InonsynCttAtt84810.9642866302-6304
ORF1ab/nsp31195L1195IL2013InonsynCtTAtC8430.03571436302-6304
ORF1ab/nsp31195L1195FL2013FnonsynCttTtt383816302-6304
ORF1ab/nsp31195L1195delL2013deldelCTT---161616302-6304
ORF1ab/nsp31195L1195PL2013PnonsyncTtcCt141416302-6304
ORF1ab/nsp31195L1195RL2013RnonsyncTtcGt2216302-6304
ORF1ab/nsp31195L1195del1L2013del1delcTtc-t210.56302-6304
ORF1ab/nsp31195L1195del1L2013del1delCtT-tC210.56302-6304
ORF1ab/nsp31195L1195del2L2013del2delcTTc--1116302-6304

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/nsp31195L1195LctTctG138264All0.000026
ORF1ab/nsp31195L1195LctTctC108264All0.000021
ORF1ab/nsp31195L1195LctTctA17264All0.000003
ORF1ab/nsp31195L1195LCtTTtG1264All0
ORF1ab/nsp31195L1195ICttAtt8184All0.000015
ORF1ab/nsp31195L1195ICtTAtC384All0.000001
ORF1ab/nsp31195L1195LctTctG8484B.1.1.4400.988235
ORF1ab/nsp31195L1195FCttTtt3838All0.000007
ORF1ab/nsp31195L1195LctTctG2837B.1.1.70.000025
ORF1ab/nsp31195L1195LctTctC937B.1.1.70.000008
ORF1ab/nsp31195L1195ICttAtt3535B.1.1.70.000031
ORF1ab/nsp31195L1195ICttAtt2222AY.40.000034
ORF1ab/nsp31195L1195LctTctC2222P.10.000347
ORF1ab/nsp31195L1195LctTctC1818AY.230.001255
ORF1ab/nsp31195L1195LctTctG1518B.10.000137
ORF1ab/nsp31195L1195LctTctA118B.10.000009
ORF1ab/nsp31195L1195LctTctC118B.10.000009
ORF1ab/nsp31195L1195LCtTTtG118B.10.000009
ORF1ab/nsp31195L1195delCTT---1616All0.000003
ORF1ab/nsp31195L1195PcTtcCt1414All0.000003
ORF1ab/nsp31195L1195LctTctC1111B.1.177.600.002403
ORF1ab/nsp31195L1195LctTctC88AY.430.000035
ORF1ab/nsp31195L1195LctTctC78B.1.617.20.000026
ORF1ab/nsp31195L1195LctTctA18B.1.617.20.000004
ORF1ab/nsp31195L1195FCttTtt77B.1.1.70.000006
ORF1ab/nsp31195L1195FCttTtt66AY.40.000009
ORF1ab/nsp31195L1195LctTctC66AY.440.000037
ORF1ab/nsp31195L1195LctTctC35AY.40.000005
ORF1ab/nsp31195L1195LctTctG15AY.40.000002
ORF1ab/nsp31195L1195LctTctA15AY.40.000002
ORF1ab/nsp31195L1195LctTctG45B.1.10.000073
ORF1ab/nsp31195L1195LctTctC15B.1.10.000018
ORF1ab/nsp31195L1195LctTctG35B.1.20.000026
ORF1ab/nsp31195L1195LctTctC25B.1.20.000018
ORF1ab/nsp31195L1195LctTctA55B.1.258.110.001982
ORF1ab/nsp31195L1195LctTctC44AY.390.000099
ORF1ab/nsp31195L1195ICttAtt44AY.430.000018
ORF1ab/nsp31195L1195ICttAtt44B.10.000037
ORF1ab/nsp31195L1195LctTctC33AY.200.000117
ORF1ab/nsp31195L1195LctTctA33AY.420.000121
ORF1ab/nsp31195L1195LctTctC33AY.930.000819
ORF1ab/nsp31195L1195FCttTtt33B.10.000027
ORF1ab/nsp31195L1195delCTT---33B.1.1.70.000003
ORF1ab/nsp31195L1195FCttTtt33B.1.617.20.000011
ORF1ab/nsp31195L1195RcTtcGt22All0
ORF1ab/nsp31195L1195del1CtT-tC12All0
ORF1ab/nsp31195L1195del1cTtc-t12All0
ORF1ab/nsp31195L1195LctTctC12AY.250.000006
ORF1ab/nsp31195L1195LctTctG12AY.250.000006
ORF1ab/nsp31195L1195ICttAtt22AY.390.000049
ORF1ab/nsp31195L1195PcTtcCt22AY.40.000003
ORF1ab/nsp31195L1195FCttTtt22AY.46.60.000144
ORF1ab/nsp31195L1195PcTtcCt22B.1.10.000036
ORF1ab/nsp31195L1195FCttTtt22B.1.5250.000226
ORF1ab/nsp31195L1195LctTctA22P.30.00319
ORF1ab/nsp31195L1195ICttAtt11A0.000387
ORF1ab/nsp31195L1195del2cTTc--11All0
ORF1ab/nsp31195L1195FCttTtt11AY.1000.000046
ORF1ab/nsp31195L1195delCTT---11AY.1010.00049
ORF1ab/nsp31195L1195LctTctC11AY.1020.000027
ORF1ab/nsp31195L1195LctTctC11AY.1030.000006
ORF1ab/nsp31195L1195ICttAtt11AY.1030.000006
ORF1ab/nsp31195L1195FCttTtt11AY.1030.000006
ORF1ab/nsp31195L1195FCttTtt11AY.1180.000063
ORF1ab/nsp31195L1195FCttTtt11AY.1190.000035
ORF1ab/nsp31195L1195PcTtcCt11AY.130.000161
ORF1ab/nsp31195L1195FCttTtt11AY.250.000006
ORF1ab/nsp31195L1195delCTT---11AY.250.000006
ORF1ab/nsp31195L1195FCttTtt11AY.30.00001
ORF1ab/nsp31195L1195FCttTtt11AY.330.000067
ORF1ab/nsp31195L1195PcTtcCt11AY.330.000067
ORF1ab/nsp31195L1195LctTctC11AY.360.000148
ORF1ab/nsp31195L1195FCttTtt11AY.390.000025
ORF1ab/nsp31195L1195PcTtcCt11AY.4.50.000107
ORF1ab/nsp31195L1195ICtTAtC11AY.440.000006
ORF1ab/nsp31195L1195LctTctC11AY.460.000104
ORF1ab/nsp31195L1195LctTctA11AY.46.20.000635
ORF1ab/nsp31195L1195LctTctC11AY.46.60.000072
ORF1ab/nsp31195L1195ICttAtt11AY.520.000814
ORF1ab/nsp31195L1195FCttTtt11AY.60.000041
ORF1ab/nsp31195L1195delCTT---11AY.660.00107
ORF1ab/nsp31195L1195delCTT---11AY.850.000427
ORF1ab/nsp31195L1195PcTtcCt11AY.9.20.000037
ORF1ab/nsp31195L1195ICttAtt11AY.950.000761
ORF1ab/nsp31195L1195FCttTtt11AY.950.000761
ORF1ab/nsp31195L1195delCTT---11AY.990.001049
ORF1ab/nsp31195L1195LctTctC11B0.000128
ORF1ab/nsp31195L1195ICttAtt11B0.000128
ORF1ab/nsp31195L1195PcTtcCt11B0.000128
ORF1ab/nsp31195L1195PcTtcCt11B.10.000009
ORF1ab/nsp31195L1195delCTT---11B.10.000009
ORF1ab/nsp31195L1195LctTctC11B.1.1.3110.000358
ORF1ab/nsp31195L1195delCTT---11B.1.1.3150.008475
ORF1ab/nsp31195L1195delCTT---11B.1.1.3480.000796
ORF1ab/nsp31195L1195FCttTtt11B.1.1.5190.00004
ORF1ab/nsp31195L1195LctTctC11B.1.1.5210.005348
ORF1ab/nsp31195L1195PcTtcCt11B.1.1.70.000001
ORF1ab/nsp31195L1195ICttAtt11B.1.1180.006711
ORF1ab/nsp31195L1195FCttTtt11B.1.1770.000013
ORF1ab/nsp31195L1195delCTT---11B.1.1770.000013
ORF1ab/nsp31195L1195ICttAtt11B.1.1770.000013
ORF1ab/nsp31195L1195LctTctC11B.1.1770.000013
ORF1ab/nsp31195L1195LctTctG11B.1.177.210.000076
ORF1ab/nsp31195L1195delCTT---11B.1.177.620.001192
ORF1ab/nsp31195L1195del2cTTc--11B.1.20.000009
ORF1ab/nsp31195L1195FCttTtt11B.1.20.000009
ORF1ab/nsp31195L1195RcTtcGt11B.1.20.000009
ORF1ab/nsp31195L1195LctTctG11B.1.2060.000816
ORF1ab/nsp31195L1195ICttAtt11B.1.3010.005917
ORF1ab/nsp31195L1195RcTtcGt11B.1.3320.003497
ORF1ab/nsp31195L1195LctTctA11B.1.3510.00003
ORF1ab/nsp31195L1195PcTtcCt11B.1.351.50.0006
ORF1ab/nsp31195L1195ICttAtt11B.1.36.160.001425
ORF1ab/nsp31195L1195FCttTtt11B.1.3610.001289
ORF1ab/nsp31195L1195PcTtcCt11B.1.3990.001934
ORF1ab/nsp31195L1195ICttAtt11B.1.4270.00005
ORF1ab/nsp31195L1195LctTctA11B.1.4290.000024
ORF1ab/nsp31195L1195ICttAtt11B.1.4290.000024
ORF1ab/nsp31195L1195ICttAtt11B.1.5260.000024
ORF1ab/nsp31195L1195FCttTtt11B.1.5960.000087
ORF1ab/nsp31195L1195del1CtT-tC11B.1.617.20.000004
ORF1ab/nsp31195L1195ICttAtt11B.1.617.20.000004
ORF1ab/nsp31195L1195LctTctA11B.1.6210.000089
ORF1ab/nsp31195L1195PcTtcCt11B.1.6210.000089
ORF1ab/nsp31195L1195ICttAtt11B.1.6230.000536
ORF1ab/nsp31195L1195delCTT---11B.1.6300.005236
ORF1ab/nsp31195L1195ICtTAtC11C.350.000774
ORF1ab/nsp31195L1195delCTT---11C.370.000116
ORF1ab/nsp31195L1195del1cTtc-t11D.20.000075
ORF1ab/nsp31195L1195ICtTAtC11P.10.000016
ORF1ab/nsp31195L1195delCTT---11P.10.000016

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.