CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp16 : CodonNum = 145

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/nsp16145S145SS6943SsyntcTtcC5565430.97661921091-21093
ORF1ab/nsp16145S145SS6943SsyntcTtcA556110.019784221091-21093
ORF1ab/nsp16145S145SS6943SsyntcTtcG55620.0035971221091-21093
ORF1ab/nsp16145S145PS6943PnonsynTctCct1051030.98095221091-21093
ORF1ab/nsp16145S145PS6943PnonsynTcTCcC10510.0095238121091-21093
ORF1ab/nsp16145S145PS6943PnonsynTcTCcA10510.0095238121091-21093
ORF1ab/nsp16145S145delS6943deldelTCT---4242121091-21093
ORF1ab/nsp16145S145TS6943TnonsynTctAct22200.90909121091-21093
ORF1ab/nsp16145S145TS6943TnonsynTcTAcC2210.045454521091-21093
ORF1ab/nsp16145S145TS6943TnonsynTcTAcA2210.045454521091-21093
ORF1ab/nsp16145S145YS6943YnonsyntCttAt1919121091-21093
ORF1ab/nsp16145S145FS6943FnonsyntCttTt17150.88235321091-21093
ORF1ab/nsp16145S145FS6943FnonsyntCTtTC1720.11764721091-21093
ORF1ab/nsp16145S145AS6943AnonsynTctGct1515121091-21093
ORF1ab/nsp16145S145CS6943CnonsyntCttGt22121091-21093
ORF1ab/nsp16145S145del1S6943del1deltcTtc-210.521091-21093
ORF1ab/nsp16145S145del1S6943del1deltCtt-t210.521091-21093
ORF1ab/nsp16145S145LS6943LnonsynTCtCTt210.521091-21093
ORF1ab/nsp16145S145LS6943LnonsynTCTCTC210.521091-21093
ORF1ab/nsp16145S145IS6943InonsynTCtATt210.521091-21093
ORF1ab/nsp16145S145IS6943InonsynTCTATC210.521091-21093
ORF1ab/nsp16145S145NS6943NnonsynTCtAAt11121091-21093
ORF1ab/nsp16145S145KS6943KnonsynTCTAAA11121091-21093
ORF1ab/nsp16145S145del2S6943del2delTCt--t11121091-21093
ORF1ab/nsp16145S145XS6943XnonsyntCTtAA11121091-21093

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/nsp16145S145StcTtcC543556All0.000104
ORF1ab/nsp16145S145StcTtcA11556All0.000002
ORF1ab/nsp16145S145StcTtcG2556All0
ORF1ab/nsp16145S145StcTtcC333333B.1.1.40.991071
ORF1ab/nsp16145S145StcTtcC128129AY.40.000199
ORF1ab/nsp16145S145StcTtcA1129AY.40.000002
ORF1ab/nsp16145S145PTctCct103105All0.00002
ORF1ab/nsp16145S145PTcTCcC1105All0
ORF1ab/nsp16145S145PTcTCcA1105All0
ORF1ab/nsp16145S145PTctCct6868AY.430.000301
ORF1ab/nsp16145S145delTCT---4242All0.000008
ORF1ab/nsp16145S145TTctAct2022All0.000004
ORF1ab/nsp16145S145TTcTAcC122All0
ORF1ab/nsp16145S145TTcTAcA122All0
ORF1ab/nsp16145S145YtCttAt1919All0.000004
ORF1ab/nsp16145S145FtCttTt1517All0.000003
ORF1ab/nsp16145S145FtCTtTC217All0
ORF1ab/nsp16145S145ATctGct1515All0.000003
ORF1ab/nsp16145S145PTctCct1414B.1.20.000123
ORF1ab/nsp16145S145delTCT---1212B.1.1.70.000011
ORF1ab/nsp16145S145StcTtcC910B.1.1.70.000008
ORF1ab/nsp16145S145StcTtcA110B.1.1.70.000001
ORF1ab/nsp16145S145PTctCct99AY.200.00035
ORF1ab/nsp16145S145StcTtcC99AY.880.007958
ORF1ab/nsp16145S145TTctAct77AY.390.000173
ORF1ab/nsp16145S145StcTtcC77B.1.360.001021
ORF1ab/nsp16145S145StcTtcC67B.1.617.20.000023
ORF1ab/nsp16145S145StcTtcA17B.1.617.20.000004
ORF1ab/nsp16145S145StcTtcC66AY.430.000027
ORF1ab/nsp16145S145StcTtcC66B.1.4970.001889
ORF1ab/nsp16145S145StcTtcC66B.1.6370.000438
ORF1ab/nsp16145S145StcTtcC55AY.1190.000177
ORF1ab/nsp16145S145StcTtcA35AY.390.000074
ORF1ab/nsp16145S145StcTtcC25AY.390.000049
ORF1ab/nsp16145S145delTCT---55AY.40.000008
ORF1ab/nsp16145S145YtCttAt55B.10.000046
ORF1ab/nsp16145S145StcTtcC55B.1.20.000044
ORF1ab/nsp16145S145ATctGct55B.1.617.20.000019
ORF1ab/nsp16145S145delTCT---44AY.4.50.00043
ORF1ab/nsp16145S145ATctGct33AY.30.00003
ORF1ab/nsp16145S145PTctCct33AY.40.000005
ORF1ab/nsp16145S145YtCttAt33AY.430.000013
ORF1ab/nsp16145S145TTctAct33AY.430.000013
ORF1ab/nsp16145S145PTctCct33AY.440.000018
ORF1ab/nsp16145S145StcTtcC23B.10.000018
ORF1ab/nsp16145S145PTctCct23B.10.000018
ORF1ab/nsp16145S145FtCttTt23B.10.000018
ORF1ab/nsp16145S145StcTtcA13B.10.000009
ORF1ab/nsp16145S145PTcTCcC13B.10.000009
ORF1ab/nsp16145S145FtCTtTC13B.10.000009
ORF1ab/nsp16145S145delTCT---33P.1.150.000697
ORF1ab/nsp16145S145FtCttTt220.111111
ORF1ab/nsp16145S145delTCT---220.111111
ORF1ab/nsp16145S145TTctAct120.055556
ORF1ab/nsp16145S145TTcTAcA120.055556
ORF1ab/nsp16145S145CtCttGt22All0
ORF1ab/nsp16145S145del1tcTtc-12All0
ORF1ab/nsp16145S145ITCTATC12All0
ORF1ab/nsp16145S145ITCtATt12All0
ORF1ab/nsp16145S145LTCTCTC12All0
ORF1ab/nsp16145S145LTCtCTt12All0
ORF1ab/nsp16145S145del1tCtt-t12All0
ORF1ab/nsp16145S145ATctGct22AY.1000.000092
ORF1ab/nsp16145S145ATctGct22AY.1030.000012
ORF1ab/nsp16145S145ATctGct22AY.40.000003
ORF1ab/nsp16145S145StcTtcC22AY.440.000012
ORF1ab/nsp16145S145YtCttAt22B0.000256
ORF1ab/nsp16145S145TTctAct12B.10.000009
ORF1ab/nsp16145S145LTCtCTt12B.10.000009
ORF1ab/nsp16145S145LTCTCTC12B.10.000009
ORF1ab/nsp16145S145ITCtATt12B.10.000009
ORF1ab/nsp16145S145ITCTATC12B.10.000009
ORF1ab/nsp16145S145TTcTAcC12B.10.000009
ORF1ab/nsp16145S145StcTtcC22B.1.2210.000142
ORF1ab/nsp16145S145TTctAct22B.1.4290.000047
ORF1ab/nsp16145S145delTCT---22B.1.617.20.000008
ORF1ab/nsp16145S145YtCttAt110.055556
ORF1ab/nsp16145S145StcTtcA110.055556
ORF1ab/nsp16145S145NTCtAAt110.055556
ORF1ab/nsp16145S145KTCTAAA110.055556
ORF1ab/nsp16145S145XtCTtAA110.055556
ORF1ab/nsp16145S145YtCttAt11A0.000387
ORF1ab/nsp16145S145StcTtcA11A.20.000662
ORF1ab/nsp16145S145KTCTAAA11All0
ORF1ab/nsp16145S145NTCtAAt11All0
ORF1ab/nsp16145S145XtCTtAA11All0
ORF1ab/nsp16145S145del2TCt--t11All0
ORF1ab/nsp16145S145delTCT---11AY.1030.000006
ORF1ab/nsp16145S145TTctAct11AY.1030.000006
ORF1ab/nsp16145S145YtCttAt11AY.1180.000063
ORF1ab/nsp16145S145delTCT---11AY.1200.000037
ORF1ab/nsp16145S145PTcTCcA11AY.120.10.000321
ORF1ab/nsp16145S145PTctCct11AY.230.00007
ORF1ab/nsp16145S145StcTtcC11AY.230.00007
ORF1ab/nsp16145S145StcTtcC11AY.240.000431
ORF1ab/nsp16145S145PTctCct11AY.250.000006
ORF1ab/nsp16145S145delTCT---11AY.330.000067
ORF1ab/nsp16145S145StcTtcC11AY.360.000148
ORF1ab/nsp16145S145FtCttTt11AY.40.000002
ORF1ab/nsp16145S145PTctCct11AY.420.00004
ORF1ab/nsp16145S145YtCttAt11AY.420.00004
ORF1ab/nsp16145S145delTCT---11AY.430.000004
ORF1ab/nsp16145S145FtCTtTC11AY.440.000006
ORF1ab/nsp16145S145del1tCtt-t11AY.440.000006
ORF1ab/nsp16145S145StcTtcC11AY.50.000021
ORF1ab/nsp16145S145YtCttAt11AY.520.000814
ORF1ab/nsp16145S145StcTtcC11AY.680.000274
ORF1ab/nsp16145S145StcTtcC11AY.980.000079
ORF1ab/nsp16145S145StcTtcG11B.1.10.000018
ORF1ab/nsp16145S145FtCttTt11B.1.10.000018
ORF1ab/nsp16145S145TTctAct11B.1.10.000018
ORF1ab/nsp16145S145TTctAct11B.1.1.2530.002506
ORF1ab/nsp16145S145ATctGct11B.1.1.2980.000862
ORF1ab/nsp16145S145delTCT---11B.1.1.3110.000358
ORF1ab/nsp16145S145YtCttAt11B.1.1.70.000001
ORF1ab/nsp16145S145FtCttTt11B.1.1.70.000001
ORF1ab/nsp16145S145TTctAct11B.1.1.70.000001
ORF1ab/nsp16145S145del2TCt--t11B.1.1.70.000001
ORF1ab/nsp16145S145del1tcTtc-11B.1.1.70.000001
ORF1ab/nsp16145S145FtCttTt11B.1.1770.000013
ORF1ab/nsp16145S145delTCT---11B.1.1770.000013
ORF1ab/nsp16145S145TTctAct11B.1.177.120.000152
ORF1ab/nsp16145S145CtCttGt11B.1.177.40.000211
ORF1ab/nsp16145S145delTCT---11B.1.177.540.000606
ORF1ab/nsp16145S145delTCT---11B.1.177.620.001192
ORF1ab/nsp16145S145delTCT---11B.1.177.70.000165
ORF1ab/nsp16145S145StcTtcC11B.1.177.750.001041
ORF1ab/nsp16145S145delTCT---11B.1.177.90.001332
ORF1ab/nsp16145S145FtCttTt11B.1.20.000009
ORF1ab/nsp16145S145CtCttGt11B.1.20.000009
ORF1ab/nsp16145S145TTctAct11B.1.20.000009
ORF1ab/nsp16145S145StcTtcC11B.1.2580.000067
ORF1ab/nsp16145S145delTCT---11B.1.2580.000067
ORF1ab/nsp16145S145YtCttAt11B.1.3010.005917
ORF1ab/nsp16145S145FtCttTt11B.1.3110.000275
ORF1ab/nsp16145S145delTCT---11B.1.360.000146
ORF1ab/nsp16145S145FtCttTt11B.1.36.10.00114
ORF1ab/nsp16145S145StcTtcC11B.1.3660.004878
ORF1ab/nsp16145S145FtCttTt11B.1.3960.000706
ORF1ab/nsp16145S145StcTtcC11B.1.4290.000024
ORF1ab/nsp16145S145delTCT---11B.1.5250.000113
ORF1ab/nsp16145S145StcTtcC11B.1.5260.000024
ORF1ab/nsp16145S145StcTtcC11B.1.5680.001111
ORF1ab/nsp16145S145StcTtcC11B.1.5750.000303
ORF1ab/nsp16145S145FtCttTt11B.1.5960.000087
ORF1ab/nsp16145S145FtCttTt11B.1.617.20.000004
ORF1ab/nsp16145S145delTCT---11B.1.6200.000946
ORF1ab/nsp16145S145StcTtcC11B.1.6210.000089
ORF1ab/nsp16145S145YtCttAt11B.1.6230.000536
ORF1ab/nsp16145S145StcTtcA11B.400.000364
ORF1ab/nsp16145S145StcTtcG11B.550.00295
ORF1ab/nsp16145S145YtCttAt11B.60.00091
ORF1ab/nsp16145S145StcTtcC11B.6.80.008264
ORF1ab/nsp16145S145FtCttTt11D.20.000075
ORF1ab/nsp16145S145PTctCct11D.20.000075
ORF1ab/nsp16145S145StcTtcA11P.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

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