CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 272

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
S272P272LnonsyncCtcTt11297112670.99734422376-22378
S272P272LnonsyncCTcTC11297250.0022129822376-22378
S272P272LnonsyncCTcTG1129730.00026555722376-22378
S272P272LnonsynCCTTTA1129710.000088519122376-22378
S272P272LnonsyncCTcTA1129710.000088519122376-22378
S272P272SnonsynCctTct6946930.99855922376-22378
S272P272SnonsynCcTTcA69410.0014409222376-22378
S272P272deldelCCT---208208122376-22378
S272P272HnonsyncCtcAt1821790.98351622376-22378
S272P272HnonsyncCTcAC18230.016483522376-22378
S272P272PsynccTccC115920.822376-22378
S272P272PsynccTccA115160.1391322376-22378
S272P272PsynccTccG11570.060869622376-22378
S272P272TnonsynCctAct79780.98734222376-22378
S272P272TnonsynCcTAcA7910.012658222376-22378
S272P272FnonsynCCtTTt3636122376-22378
S272P272RnonsyncCtcGt1616122376-22378
S272P272AnonsynCctGct540.822376-22378
S272P272AnonsynCcTGcC510.222376-22378
S272P272del1delCct-ct320.66666722376-22378
S272P272del1delccTcc-310.33333322376-22378
S272P272QnonsyncCTcAA22122376-22378
S272P272InonsynCCtATt210.522376-22378
S272P272InonsynCCTATA210.522376-22378
S272P272KnonsynCCTAAA11122376-22378
S272P272VnonsynCCtGTt11122376-22378
S272P272NnonsynCCtAAt11122376-22378

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S272P272LcCtcTt1126711297All0.002155
S272P272LcCTcTC2511297All0.000005
S272P272LcCTcTG311297All0.000001
S272P272LcCTcTA111297All0
S272P272LCCTTTA111297All0
S272P272LcCtcTt57265726B.1.1770.075398
S272P272LcCtcTt20682068B.1.177.820.987112
S272P272LcCtcTt13271327B.1.177.870.965793
S272P272SCctTct693694All0.000133
S272P272SCcTTcA1694All0
S272P272LcCtcTt675675B.1.177.831
S272P272LcCtcTt389389AY.39.10.01541
S272P272LcCtcTt201209B.1.1.70.00018
S272P272LcCTcTC7209B.1.1.70.000006
S272P272LCCTTTA1209B.1.1.70.000001
S272P272delCCT---208208All0.00004
S272P272HcCtcAt179182All0.000034
S272P272HcCTcAC3182All0.000001
S272P272SCctTct171171B.1.617.20.000644
S272P272SCctTct169170B.1.1.70.000151
S272P272SCcTTcA1170B.1.1.70.000001
S272P272LcCtcTt141141B.1.177.840.94
S272P272PccTccC92115All0.000018
S272P272PccTccA16115All0.000003
S272P272PccTccG7115All0.000001
S272P272SCctTct8787AY.40.000135
S272P272LcCtcTt8080B.1.177.880.987654
S272P272TCctAct7879All0.000015
S272P272TCcTAcA179All0
S272P272LcCtcTt7878Q.20.047853
S272P272SCctTct7575AY.1030.000466
S272P272LcCtcTt7274B.10.000659
S272P272LcCTcTC274B.10.000018
S272P272delCCT---4949B.1.1.70.000044
S272P272LcCtcTt4040B.1.177.890.97561
S272P272HcCtcAt3838B.1.4290.000894
S272P272FCCtTTt3636All0.000007
S272P272LcCtcTt3333AY.40.000051
S272P272FCCtTTt3333B.1.1770.000435
S272P272LcCtcTt3333B.1.177.100.028973
S272P272LcCtcTt2929AY.250.000174
S272P272HcCtcAt2626C.160.027572
S272P272SCctTct2323AY.430.000102
S272P272delCCT---2222B.10.000202
S272P272SCctTct1919AY.30.000189
S272P272HcCtcAt1919AY.980.001501
S272P272LcCtcTt1919B.1.177.690.02819
S272P272HcCtcAt1818B.10.000165
S272P272LcCtcTt1818B.1.177.160.01196
S272P272TCctAct1717AY.1030.000106
S272P272SCctTct1717AY.250.000102
S272P272TCctAct1617B.1.1.70.000014
S272P272TCcTAcA117B.1.1.70.000001
S272P272LcCtcTt1517B.1.617.20.000056
S272P272LcCTcTA117B.1.617.20.000004
S272P272LcCTcTG117B.1.617.20.000004
S272P272RcCtcGt1616All0.000003
S272P272LcCtcTt1616AY.430.000071
S272P272LcCtcTt1616B.1.1600.000499
S272P272LcCtcTt1216B.1.4290.000282
S272P272LcCTcTC416B.1.4290.000094
S272P272HcCtcAt1414B.1.1.70.000013
S272P272PccTccC1114B.1.1.70.00001
S272P272PccTccA214B.1.1.70.000002
S272P272PccTccG114B.1.1.70.000001
S272P272delCCT---1414B.1.3510.000416
S272P272HcCtcAt1314B.1.617.20.000049
S272P272HcCTcAC114B.1.617.20.000004
S272P272delCCT---1313AY.430.000058
S272P272PccTccC1313AY.99.20.001198
S272P272LcCtcTt1012AY.260.000283
S272P272LcCTcTC212AY.260.000057
S272P272HcCtcAt1212AY.40.000019
S272P272LcCtcTt1212AY.4.20.00026
S272P272LcCtcTt1112AY.46.60.000794
S272P272LcCTcTG112AY.46.60.000072
S272P272SCctTct1212AY.470.000373
S272P272LcCtcTt1111AY.1030.000068
S272P272LcCtcTt1111AY.30.000109
S272P272LcCtcTt1111B.1.10.0002
S272P272LcCtcTt1011B.1.3510.000297
S272P272LcCTcTC111B.1.3510.00003
S272P272PccTccC1010AY.30.000099
S272P272PccTccC99B.10.000082
S272P272LcCtcTt88AY.290.000126
S272P272LcCtcTt88B.1.177.330.013158
S272P272PccTccC88B.1.20.00007
S272P272delCCT---88B.1.617.20.00003
S272P272delCCT---88P.10.000126
S272P272LcCtcTt77AY.1160.002007
S272P272SCctTct77AY.390.000173
S272P272PccTccC47AY.390.000099
S272P272PccTccA37AY.390.000074
S272P272HcCtcAt77AY.4.20.000152
S272P272LcCtcTt77B.1.177.120.001062
S272P272LcCtcTt77B.1.4040.009115
S272P272delCCT---77B.1.5250.000792
S272P272delCCT---66AY.290.000095
S272P272HcCtcAt56AY.430.000022
S272P272HcCTcAC16AY.430.000004
S272P272SCctTct66AY.440.000037
S272P272SCctTct66AY.50.000124
S272P272SCctTct66AY.540.000572
S272P272SCctTct66B.10.000055
S272P272LcCtcTt66B.1.1.2630.009346
S272P272LcCtcTt66B.1.177.230.019417
S272P272LcCtcTt46B.1.20.000035
S272P272LcCTcTC26B.1.20.000018
S272P272RcCtcGt66B.1.617.20.000023
S272P272ACctGct45All0.000001
S272P272ACcTGcC15All0
S272P272PccTccA45AY.250.000024
S272P272PccTccC15AY.250.000006
S272P272SCctTct55AY.3.10.000426
S272P272TCctAct55AY.60.000206
S272P272LcCtcTt55B.1.177.440.002595
S272P272delCCT---55B.1.351.20.001513
S272P272LcCtcTt55B.1.5260.000118
S272P272PccTccC35B.1.617.20.000011
S272P272PccTccA15B.1.617.20.000004
S272P272PccTccG15B.1.617.20.000004
S272P272LcCtcTt55Q.80.000825
S272P272HcCtcAt44AY.1030.000025
S272P272PccTccC44AY.1030.000025
S272P272TCctAct44AY.30.00004
S272P272LcCtcTt44AY.3.10.000341
S272P272LcCtcTt44AY.39.20.006163
S272P272PccTccC34AY.40.000005
S272P272PccTccA14AY.40.000002
S272P272TCctAct44AY.440.000024
S272P272SCctTct44AY.60.000165
S272P272LcCtcTt44AY.7.10.000451
S272P272SCctTct44AY.770.00451
S272P272LcCtcTt34B.1.1.2140.000166
S272P272LcCTcTC14B.1.1.2140.000055
S272P272LcCtcTt44B.1.1.630.001543
S272P272LcCtcTt44B.1.160.300.011905
S272P272LcCtcTt44B.1.177.310.045977
S272P272LcCtcTt44B.1.177.60.003906
S272P272LcCtcTt44B.1.177.650.002661
S272P272SCctTct44B.1.177.810.000757
S272P272TCctAct44B.1.617.20.000015
S272P272delCCT---44B.1.6210.000354
S272P272SCctTct44B.1.9.40.02454
S272P272delCCT---44P.1.150.000929
S272P272SCctTct33A.2.5.20.004717
S272P272del1Cct-ct23All0
S272P272del1ccTcc-13All0
S272P272SCctTct33AY.1020.00008
S272P272LcCtcTt33AY.1210.000406
S272P272delCCT---33AY.250.000018
S272P272delCCT---33AY.30.00003
S272P272LcCtcTt23AY.440.000012
S272P272LcCTcTG13AY.440.000006
S272P272LcCtcTt23AY.590.001059
S272P272LcCTcTC13AY.590.00053
S272P272LcCtcTt33AY.98.10.000145
S272P272delCCT---33B.1.10.000054
S272P272LcCtcTt33B.1.177.170.002463
S272P272LcCtcTt33B.1.177.630.008108
S272P272LcCtcTt33B.1.177.730.001699
S272P272LcCtcTt33B.1.177.810.000568
S272P272LcCtcTt33B.1.177.860.00055
S272P272delCCT---33B.1.20.000026
S272P272PccTccC33B.1.2430.000209
S272P272LcCtcTt23B.1.2430.000139
S272P272LcCTcTC13B.1.2430.00007
S272P272SCctTct33B.1.360.000438
S272P272LcCTcTC23B.1.3960.001411
S272P272LcCtcTt13B.1.3960.000706
S272P272SCctTct33B.1.5260.000071
S272P272LcCtcTt220.111111
S272P272delCCT---220.111111
S272P272QcCTcAA22All0
S272P272ICCTATA12All0
S272P272ICCtATt12All0
S272P272SCctTct22AY.1000.000092
S272P272TCctAct22AY.1000.000092
S272P272HcCtcAt22AY.1020.000053
S272P272delCCT---22AY.1020.000053
S272P272LcCtcTt22AY.1140.000462
S272P272PccTccC22AY.1160.000574
S272P272SCctTct22AY.120.000632
S272P272SCctTct22AY.1200.000074
S272P272SCctTct22AY.200.000078
S272P272LcCtcTt22AY.200.000078
S272P272HcCtcAt22AY.250.000012
S272P272SCctTct22AY.260.000057
S272P272SCctTct22AY.330.000134
S272P272SCctTct22AY.360.000296
S272P272LcCtcTt22AY.390.000049
S272P272HcCtcAt22AY.390.000049
S272P272TCctAct22AY.40.000003
S272P272delCCT---22AY.40.000003
S272P272SCctTct22AY.410.000588
S272P272TCctAct22AY.430.000009
S272P272HcCtcAt22AY.440.000012
S272P272LcCtcTt22AY.460.000208
S272P272PccTccG12AY.46.60.000072
S272P272PccTccC12AY.46.60.000072
S272P272LcCtcTt22AY.470.000062
S272P272TCctAct22AY.50.000041
S272P272SCctTct22AY.5.40.000553
S272P272LcCtcTt22AY.60.000082
S272P272delCCT---22AY.670.000929
S272P272SCctTct22AY.750.000112
S272P272RcCtcGt22AY.75.10.000361
S272P272PccTccA22AY.75.10.000361
S272P272delCCT---22AY.9.20.000073
S272P272SCctTct22AY.990.002099
S272P272SCctTct22AY.99.20.000184
S272P272PccTccC22B.1.10.000036
S272P272TCctAct22B.1.1.2650.006309
S272P272LcCtcTt22B.1.1.390.001019
S272P272HcCtcAt22B.1.1.5190.000079
S272P272RcCtcGt22B.1.1.70.000002
S272P272ACctGct22B.1.1.70.000002
S272P272ICCTATA12B.1.1.70.000001
S272P272ICCtATt12B.1.1.70.000001
S272P272TCctAct22B.1.177.70.00033
S272P272LcCtcTt22B.1.177.90.002663
S272P272LcCtcTt22B.1.2210.000142
S272P272delCCT---22B.1.2600.006689
S272P272delCCT---22B.1.4560.006536
S272P272LcCtcTt22B.1.5240.002813
S272P272delCCT---22B.1.5760.001813
S272P272delCCT---22B.1.6200.001892
S272P272TCctAct22B.1.930.001867
S272P272PccTccC22B.400.000729
S272P272SCctTct22D.20.00015
S272P272RcCtcGt22P.10.000032
S272P272LcCtcTt22P.10.000032
S272P272PccTccC22P.1.120.000968
S272P272QcCTcAA22P.20.000373
S272P272delCCT---11A0.000387
S272P272delCCT---11A.2.50.000499
S272P272LcCtcTt11A.23.10.000704
S272P272LcCtcTt11A.270.001656
S272P272LcCtcTt11AD.20.000219
S272P272KCCTAAA11All0
S272P272NCCtAAt11All0
S272P272VCCtGTt11All0
S272P272LcCtcTt11AT.10.005128
S272P272delCCT---11AV.10.005051
S272P272delCCT---11AY.1010.00049
S272P272delCCT---11AY.1030.000006
S272P272SCctTct11AY.1050.000643
S272P272TCctAct11AY.1060.000335
S272P272delCCT---11AY.1080.001103
S272P272delCCT---11AY.1100.000113
S272P272PccTccC11AY.1130.000142
S272P272delCCT---11AY.1130.000142
S272P272SCctTct11AY.1130.000142
S272P272SCctTct11AY.116.10.000311
S272P272delCCT---11AY.1170.000085
S272P272delCCT---11AY.1180.000063
S272P272SCctTct11AY.1190.000035
S272P272LcCtcTt11AY.1190.000035
S272P272NCCtAAt11AY.1190.000035
S272P272LcCtcTt11AY.120.000316
S272P272HcCtcAt11AY.160.00038
S272P272SCctTct11AY.16.10.00047
S272P272SCctTct11AY.230.00007
S272P272SCctTct11AY.23.10.000417
S272P272LcCtcTt11AY.240.000431
S272P272TCctAct11AY.250.000006
S272P272HcCtcAt11AY.260.000028
S272P272del1ccTcc-11AY.260.000028
S272P272LcCtcTt11AY.270.000065
S272P272TCctAct11AY.3.10.000085
S272P272PccTccG11AY.340.000097
S272P272delCCT---11AY.360.000148
S272P272HcCtcAt11AY.370.000316
S272P272TCctAct11AY.390.000025
S272P272TCctAct11AY.4.50.000107
S272P272delCCT---11AY.420.00004
S272P272LcCtcTt11AY.420.00004
S272P272RcCtcGt11AY.420.00004
S272P272PccTccC11AY.430.000004
S272P272delCCT---11AY.440.000006
S272P272SCctTct11AY.460.000104
S272P272SCctTct11AY.46.10.001027
S272P272SCctTct11AY.46.60.000072
S272P272delCCT---11AY.470.000031
S272P272PccTccC11AY.470.000031
S272P272RcCtcGt11AY.480.000465
S272P272SCctTct11AY.480.000465
S272P272PccTccA11AY.50.000021
S272P272LcCtcTt11AY.50.000021
S272P272delCCT---11AY.510.000909
S272P272TCctAct11AY.540.000095
S272P272delCCT---11AY.590.00053
S272P272PccTccC11AY.590.00053
S272P272delCCT---11AY.610.000105
S272P272TCctAct11AY.670.000464
S272P272TCctAct11AY.680.000274
S272P272SCctTct11AY.70.000196
S272P272TCctAct11AY.700.000209
S272P272SCctTct11AY.740.000116
S272P272HcCtcAt11AY.740.000116
S272P272LcCtcTt11AY.750.000056
S272P272LcCtcTt11AY.780.001541
S272P272PccTccC11AY.790.001211
S272P272delCCT---11AY.840.000437
S272P272TCctAct11AY.90.000068
S272P272delCCT---11AY.90.000068
S272P272delCCT---11AY.900.000684
S272P272delCCT---11AY.950.000761
S272P272delCCT---11AY.98.10.000048
S272P272delCCT---11AY.990.001049
S272P272LcCtcTt11B0.000128
S272P272FCCtTTt11B0.000128
S272P272del1Cct-ct11B.10.000009
S272P272RcCtcGt11B.1.10.000018
S272P272SCctTct11B.1.10.000018
S272P272PccTccG11B.1.1.10.000327
S272P272PccTccC11B.1.1.1360.021277
S272P272LcCtcTt11B.1.1.1530.001095
S272P272SCctTct11B.1.1.1570.000913
S272P272TCctAct11B.1.1.1700.001247
S272P272LcCtcTt11B.1.1.1740.003378
S272P272TCctAct11B.1.1.2160.00089
S272P272LcCtcTt11B.1.1.2220.000204
S272P272LcCtcTt11B.1.1.2360.006897
S272P272ACcTGcC11B.1.1.3060.000438
S272P272LcCtcTt11B.1.1.3180.000302
S272P272PccTccC11B.1.1.330.000421
S272P272SCctTct11B.1.1.3480.000796
S272P272SCctTct11B.1.1.390.00051
S272P272RcCtcGt11B.1.1.3910.008547
S272P272delCCT---11B.1.1.5170.006803
S272P272LcCtcTt11B.1.1.5190.00004
S272P272PccTccC11B.1.1.5190.00004
S272P272LcCTcTC11B.1.1.540.003021
S272P272del1Cct-ct11B.1.1.70.000001
S272P272FCCtTTt11B.1.1.70.000001
S272P272HcCTcAC11B.1.1.700.000341
S272P272SCctTct11B.1.1600.000031
S272P272PccTccC11B.1.1600.000031
S272P272LcCtcTt11B.1.160.160.000929
S272P272LcCtcTt11B.1.160.280.002924
S272P272LcCtcTt11B.1.160.320.004292
S272P272delCCT---11B.1.1770.000013
S272P272PccTccG11B.1.1770.000013
S272P272HcCtcAt11B.1.1770.000013
S272P272HcCtcAt11B.1.177.210.000076
S272P272LcCtcTt11B.1.177.30.007634
S272P272LcCtcTt11B.1.177.350.000691
S272P272LcCtcTt11B.1.177.400.005155
S272P272SCctTct11B.1.177.440.000519
S272P272delCCT---11B.1.177.520.001757
S272P272LcCtcTt11B.1.177.520.001757
S272P272delCCT---11B.1.177.690.001484
S272P272LcCtcTt11B.1.177.720.00339
S272P272LcCtcTt11B.1.177.750.001041
S272P272FCCtTTt11B.1.177.870.000728
S272P272HcCtcAt11B.1.20.000009
S272P272SCctTct11B.1.20.000009
S272P272SCctTct11B.1.2010.005682
S272P272LcCtcTt11B.1.214.30.007143
S272P272HcCtcAt11B.1.2210.000071
S272P272LcCtcTt11B.1.2220.001692
S272P272HcCtcAt11B.1.2430.00007
S272P272LcCtcTt11B.1.2580.000067
S272P272TCctAct11B.1.2580.000067
S272P272SCctTct11B.1.258.170.000104
S272P272SCctTct11B.1.2650.001271
S272P272HcCtcAt11B.1.3130.006579
S272P272ACctGct11B.1.3510.00003
S272P272PccTccC11B.1.3510.00003
S272P272VCCtGTt11B.1.3510.00003
S272P272KCCTAAA11B.1.3510.00003
S272P272LcCtcTt11B.1.351.20.000303
S272P272HcCtcAt11B.1.351.30.000876
S272P272SCctTct11B.1.351.50.0006
S272P272delCCT---11B.1.360.000146
S272P272LcCtcTt11B.1.36.10.00114
S272P272HcCtcAt11B.1.36.250.002208
S272P272LcCtcTt11B.1.3670.000792
S272P272LcCtcTt11B.1.3750.00082
S272P272PccTccC11B.1.3960.000706
S272P272delCCT---11B.1.416.10.001563
S272P272PccTccA11B.1.4270.00005
S272P272PccTccC11B.1.4290.000024
S272P272SCctTct11B.1.4290.000024
S272P272LcCtcTt11B.1.429.10.012048
S272P272LcCTcTC11B.1.4430.004673
S272P272LcCtcTt11B.1.4730.019231
S272P272LcCtcTt11B.1.4800.002488
S272P272PccTccG11B.1.4990.00105
S272P272ACctGct11B.1.5250.000113
S272P272LcCtcTt11B.1.5330.009615
S272P272LcCtcTt11B.1.5640.000426
S272P272SCctTct11B.1.5720.025
S272P272PccTccC11B.1.5950.000261
S272P272LcCtcTt11B.1.5960.000087
S272P272SCctTct11B.1.5960.000087
S272P272delCCT---11B.1.6090.000479
S272P272delCCT---11B.1.617.10.000129
S272P272LcCtcTt11B.1.6210.000089
S272P272delCCT---11B.1.621.10.000506
S272P272delCCT---11B.1.6270.00202
S272P272delCCT---11B.1.6300.005236
S272P272LcCtcTt11B.1.6360.006711
S272P272TCctAct11B.1.6370.000073
S272P272SCctTct11B.30.000831
S272P272delCCT---11C.1.20.004255
S272P272LcCtcTt11C.36.30.000567
S272P272LcCtcTt11C.370.000116
S272P272delCCT---11C.370.000116
S272P272HcCtcAt11D.20.000075
S272P272PccTccA11D.20.000075
S272P272LcCtcTt11D.50.004975
S272P272SCctTct11P.10.000016
S272P272PccTccC11P.10.000016
S272P272delCCT---11P.1.10.000318
S272P272SCctTct11P.1.120.000484
S272P272LcCtcTt11Q.10.000126
S272P272delCCT---11Q.40.000455
S272P272LcCtcTt11Z.10.00289

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.