CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 641

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
S641N641NsynaaTaaC933933123483-23485
S641N641SnonsynaAtaGt631631123483-23485
S641N641deldelAAT---9494123483-23485
S641N641KnonsynaaTaaA66500.75757623483-23485
S641N641KnonsynaaTaaG66160.24242423483-23485
S641N641InonsynaAtaTt4848123483-23485
S641N641YnonsynAatTat4646123483-23485
S641N641TnonsynaAtaCt2424123483-23485
S641N641DnonsynAatGat2121123483-23485
S641N641HnonsynAatCat88123483-23485
S641N641del1delAat-at870.87523483-23485
S641N641del1delAaT-aC810.12523483-23485
S641N641del2delAATG--11123483-23485
S641N641VnonsynAAtGTt11123483-23485

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S641N641NaaTaaC933933All0.000178
S641N641SaAtaGt631631All0.000121
S641N641NaaTaaC303303B.1.1.70.000271
S641N641SaAtaGt236236C.36.10.979253
S641N641SaAtaGt231231B.1.1.70.000207
S641N641NaaTaaC223223AY.40.000347
S641N641NaaTaaC104104B.1.617.20.000392
S641N641delAAT---9494All0.000018
S641N641NaaTaaC9292B.1.4290.002165
S641N641KaaTaaA5066All0.00001
S641N641KaaTaaG1666All0.000003
S641N641IaAtaTt4848All0.000009
S641N641YAatTat4646All0.000009
S641N641NaaTaaC2929AY.1020.000769
S641N641NaaTaaC2828AY.440.00017
S641N641KaaTaaA2025B.1.1.70.000018
S641N641KaaTaaG525B.1.1.70.000004
S641N641TaAtaCt2424All0.000005
S641N641KaaTaaA2324B.1.20.000203
S641N641KaaTaaG124B.1.20.000009
S641N641DAatGat2121All0.000004
S641N641delAAT---2121B.1.1.700.007162
S641N641SaAtaGt2020AY.230.001395
S641N641SaAtaGt2020AY.430.000089
S641N641IaAtaTt2020B.1.1.70.000018
S641N641SaAtaGt1919AY.40.00003
S641N641NaaTaaC1919Q.70.021111
S641N641delAAT---1616AY.40.000025
S641N641SaAtaGt1515B.1.20.000132
S641N641YAatTat1313AY.250.000078
S641N641NaaTaaC1212AY.1030.000075
S641N641SaAtaGt1212AY.60.000494
S641N641NaaTaaC1111B.1.1.100.012263
S641N641NaaTaaC1111B.1.4990.011555
S641N641YAatTat99B.1.1.70.000008
S641N641NaaTaaC99B.1.2580.000599
S641N641SaAtaGt99C.360.008197
S641N641HAatCat88All0.000002
S641N641del1Aat-at78All0.000001
S641N641del1AaT-aC18All0
S641N641NaaTaaC88B.10.000073
S641N641NaaTaaC77AY.390.000173
S641N641NaaTaaC77AY.50.000145
S641N641delAAT---77B.1.1.70.000006
S641N641SaAtaGt77B.1.2580.000466
S641N641NaaTaaC66AY.640.003571
S641N641SaAtaGt55AY.1190.000177
S641N641delAAT---55AY.430.000022
S641N641DAatGat55AY.440.00003
S641N641SaAtaGt55B.1.10.000091
S641N641delAAT---55C.80.022321
S641N641NaaTaaC55P.1.140.000239
S641N641HAatCat44AY.1000.000184
S641N641SaAtaGt44AY.1180.000251
S641N641NaaTaaC44AY.1200.000149
S641N641TaAtaCt44AY.30.00004
S641N641NaaTaaC44AY.330.000267
S641N641YAatTat44AY.430.000018
S641N641NaaTaaC44AY.450.000487
S641N641SaAtaGt44B.1.1.10.001307
S641N641delAAT---44B.1.2430.000278
S641N641SaAtaGt44B.1.617.20.000015
S641N641TaAtaCt44Q.70.004444
S641N641KaaTaaA330.166667
S641N641NaaTaaC33AY.1000.000138
S641N641delAAT---33AY.250.000018
S641N641KaaTaaA23AY.30.00002
S641N641KaaTaaG13AY.30.00001
S641N641DAatGat33AY.320.001597
S641N641IaAtaTt33AY.39.10.000119
S641N641TaAtaCt33AY.440.000018
S641N641IaAtaTt33AY.440.000018
S641N641SaAtaGt33AY.50.000062
S641N641NaaTaaC33AY.7.20.001678
S641N641del1Aat-at33B.1.10.000054
S641N641TaAtaCt33B.1.1.70.000003
S641N641delAAT---33B.1.1600.000094
S641N641KaaTaaG33B.1.617.20.000011
S641N641HAatCat33B.1.617.20.000011
S641N641KaaTaaG22AY.1030.000012
S641N641delAAT---22AY.1170.000169
S641N641YAatTat22AY.200.000078
S641N641NaaTaaC22AY.250.000012
S641N641IaAtaTt22AY.250.000012
S641N641delAAT---22AY.290.000032
S641N641IaAtaTt22AY.30.00002
S641N641SaAtaGt22AY.30.00002
S641N641delAAT---22AY.390.000049
S641N641SaAtaGt22AY.390.000049
S641N641IaAtaTt22AY.430.000009
S641N641NaaTaaC22AY.430.000009
S641N641SaAtaGt22AY.46.60.000144
S641N641NaaTaaC22AY.610.00021
S641N641SaAtaGt22AY.980.000158
S641N641SaAtaGt22B.10.000018
S641N641delAAT---22B.10.000018
S641N641NaaTaaC22B.1.10.000036
S641N641YAatTat22B.1.1.5180.012658
S641N641SaAtaGt22B.1.1.5230.003125
S641N641YAatTat22B.1.1470.001512
S641N641NaaTaaC22B.1.1770.000026
S641N641SaAtaGt22B.1.1770.000026
S641N641NaaTaaC22B.1.177.90.002663
S641N641delAAT---22B.1.20.000018
S641N641TaAtaCt22B.1.20.000018
S641N641NaaTaaC22B.1.20.000018
S641N641NaaTaaC22B.1.3510.000059
S641N641delAAT---22B.1.4040.002604
S641N641delAAT---22B.1.5250.000226
S641N641NaaTaaC22B.1.5650.001621
S641N641del1Aat-at22B.1.617.20.000008
S641N641YAatTat22B.1.617.20.000008
S641N641NaaTaaC22B.1.6210.000177
S641N641SaAtaGt22B.1.6210.000177
S641N641SaAtaGt22P.10.000032
S641N641NaaTaaC22P.10.000032
S641N641del2AATG--11All0
S641N641VAAtGTt11All0
S641N641TaAtaCt11AY.100.00053
S641N641NaaTaaC11AY.100.00053
S641N641SaAtaGt11AY.1000.000046
S641N641SaAtaGt11AY.1020.000027
S641N641YAatTat11AY.1020.000027
S641N641DAatGat11AY.1030.000006
S641N641delAAT---11AY.1030.000006
S641N641del1Aat-at11AY.1060.000335
S641N641YAatTat11AY.1110.000183
S641N641SaAtaGt11AY.1130.000142
S641N641SaAtaGt11AY.116.10.000311
S641N641KaaTaaG11AY.1190.000035
S641N641DAatGat11AY.1200.000037
S641N641SaAtaGt11AY.1200.000037
S641N641delAAT---11AY.200.000039
S641N641NaaTaaC11AY.230.00007
S641N641DAatGat11AY.240.000431
S641N641SaAtaGt11AY.250.000006
S641N641KaaTaaG11AY.250.000006
S641N641SaAtaGt11AY.260.000028
S641N641DAatGat11AY.260.000028
S641N641IaAtaTt11AY.290.000016
S641N641SaAtaGt11AY.290.000016
S641N641TaAtaCt11AY.290.000016
S641N641SaAtaGt11AY.330.000067
S641N641YAatTat11AY.330.000067
S641N641delAAT---11AY.370.000316
S641N641delAAT---11AY.380.000499
S641N641NaaTaaC11AY.380.000499
S641N641TaAtaCt11AY.40.000002
S641N641DAatGat11AY.40.000002
S641N641KaaTaaG11AY.40.000002
S641N641IaAtaTt11AY.40.000002
S641N641DAatGat11AY.4.20.000022
S641N641SaAtaGt11AY.4.2.10.000149
S641N641KaaTaaA11AY.410.000294
S641N641del2AATG--11AY.430.000004
S641N641SaAtaGt11AY.440.000006
S641N641YAatTat11AY.440.000006
S641N641DAatGat11AY.450.000122
S641N641delAAT---11AY.46.60.000072
S641N641SaAtaGt11AY.470.000031
S641N641NaaTaaC11AY.470.000031
S641N641NaaTaaC11AY.480.000465
S641N641delAAT---11AY.50.000021
S641N641IaAtaTt11AY.5.40.000277
S641N641delAAT---11AY.60.000041
S641N641DAatGat11AY.640.000595
S641N641YAatTat11AY.680.000274
S641N641IaAtaTt11AY.800.001129
S641N641NaaTaaC11AY.840.000437
S641N641SaAtaGt11AY.90.000068
S641N641NaaTaaC11AY.90.000068
S641N641DAatGat11AY.9.20.000037
S641N641del1Aat-at11AY.980.000079
S641N641IaAtaTt11B.10.000009
S641N641YAatTat11B.10.000009
S641N641TaAtaCt11B.10.000009
S641N641YAatTat11B.1.10.000018
S641N641IaAtaTt11B.1.10.000018
S641N641delAAT---11B.1.10.000018
S641N641IaAtaTt11B.1.1.100.001115
S641N641IaAtaTt11B.1.1.250.000569
S641N641YAatTat11B.1.1.2970.002237
S641N641IaAtaTt11B.1.1.3180.000302
S641N641NaaTaaC11B.1.1.3180.000302
S641N641SaAtaGt11B.1.1.390.00051
S641N641delAAT---11B.1.1.4340.000349
S641N641IaAtaTt11B.1.1.470.005348
S641N641VAAtGTt11B.1.1.70.000001
S641N641HAatCat11B.1.1.70.000001
S641N641IaAtaTt11B.1.1600.000031
S641N641del1AaT-aC11B.1.1600.000031
S641N641SaAtaGt11B.1.177.120.000152
S641N641SaAtaGt11B.1.177.430.001477
S641N641YAatTat11B.1.177.520.001757
S641N641TaAtaCt11B.1.177.80.000752
S641N641delAAT---11B.1.1790.003759
S641N641IaAtaTt11B.1.20.000009
S641N641IaAtaTt11B.1.2320.000537
S641N641DAatGat11B.1.2340.000132
S641N641NaaTaaC11B.1.2390.001221
S641N641NaaTaaC11B.1.2430.00007
S641N641NaaTaaC11B.1.258.30.001675
S641N641SaAtaGt11B.1.360.000146
S641N641NaaTaaC11B.1.360.000146
S641N641NaaTaaC11B.1.4270.00005
S641N641KaaTaaG11B.1.4560.003268
S641N641YAatTat11B.1.4590.004082
S641N641NaaTaaC11B.1.466.20.000391
S641N641DAatGat11B.1.466.20.000391
S641N641YAatTat11B.1.4990.00105
S641N641delAAT---11B.1.5260.000024
S641N641YAatTat11B.1.5260.000024
S641N641NaaTaaC11B.1.5300.007143
S641N641delAAT---11B.1.5680.001111
S641N641TaAtaCt11B.1.5820.000491
S641N641DAatGat11B.1.5960.000087
S641N641NaaTaaC11B.1.6090.000479
S641N641TaAtaCt11B.1.617.10.000129
S641N641delAAT---11B.1.617.20.000004
S641N641IaAtaTt11B.1.617.20.000004
S641N641DAatGat11B.1.617.20.000004
S641N641TaAtaCt11B.1.619.10.000641
S641N641delAAT---11B.1.6200.000946
S641N641IaAtaTt11B.1.6250.002353
S641N641NaaTaaC11C.260.007353
S641N641SaAtaGt11C.370.000116
S641N641NaaTaaC11D.20.000075
S641N641SaAtaGt11N.50.001767
S641N641delAAT---11P.10.000016
S641N641KaaTaaA11P.10.000016
S641N641IaAtaTt11P.10.000016
S641N641NaaTaaC11P.1.170.000162
S641N641delAAT---11P.20.000187

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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