CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 1057

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
S1057P1057PsynccTccC194417960.92386824731-24733
S1057P1057PsynccTccG19441080.055555624731-24733
S1057P1057PsynccTccA1944400.020576124731-24733
S1057P1057HnonsyncCtcAt8181124731-24733
S1057P1057RnonsyncCtcGt7070124731-24733
S1057P1057deldelCCT---2424124731-24733
S1057P1057LnonsyncCtcTt2323124731-24733
S1057P1057SnonsynCctTct1270.58333324731-24733
S1057P1057SnonsynCcTTcG1240.33333324731-24733
S1057P1057SnonsynCCtAGt1210.083333324731-24733
S1057P1057TnonsynCctAct33124731-24733
S1057P1057del2delCCt--t22124731-24733
S1057P1057AnonsynCctGct11124731-24733

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S1057P1057PccTccC17961944All0.000344
S1057P1057PccTccG1081944All0.000021
S1057P1057PccTccA401944All0.000008
S1057P1057PccTccC11351135B.1.10.02059
S1057P1057PccTccC134203B.1.1.70.00012
S1057P1057PccTccG57203B.1.1.70.000051
S1057P1057PccTccA12203B.1.1.70.000011
S1057P1057PccTccC103107AY.40.00016
S1057P1057PccTccG3107AY.40.000005
S1057P1057PccTccA1107AY.40.000002
S1057P1057HcCtcAt8181All0.000015
S1057P1057RcCtcGt7070All0.000013
S1057P1057PccTccC5858B.1.1.3381
S1057P1057PccTccC5454B.1.1.5220.931034
S1057P1057RcCtcGt4747AY.40.000073
S1057P1057HcCtcAt4646AY.40.000072
S1057P1057PccTccC2527AY.1030.000155
S1057P1057PccTccG227AY.1030.000012
S1057P1057delCCT---2424All0.000005
S1057P1057LcCtcTt2323All0.000004
S1057P1057PccTccC2222AY.30.000219
S1057P1057PccTccC2121B.1.1.10.006861
S1057P1057PccTccC1720B.1.2580.001131
S1057P1057PccTccG220B.1.2580.000133
S1057P1057PccTccA120B.1.2580.000067
S1057P1057PccTccC2020B.1.258.140.019608
S1057P1057PccTccC1717B.1.1.3190.298246
S1057P1057PccTccC1516AY.4.20.000325
S1057P1057PccTccG116AY.4.20.000022
S1057P1057PccTccA1414B.1.6370.001023
S1057P1057SCctTct712All0.000001
S1057P1057SCcTTcG412All0.000001
S1057P1057SCCtAGt112All0
S1057P1057PccTccC1012AY.430.000044
S1057P1057PccTccG212AY.430.000009
S1057P1057PccTccG911AY.1190.000318
S1057P1057PccTccC111AY.1190.000035
S1057P1057PccTccA111AY.1190.000035
S1057P1057PccTccC711B.10.000064
S1057P1057PccTccA211B.10.000018
S1057P1057PccTccG211B.10.000018
S1057P1057PccTccC810B.1.617.20.00003
S1057P1057PccTccG210B.1.617.20.000008
S1057P1057HcCtcAt99AY.4.20.000195
S1057P1057PccTccC99B.1.1.2690.012179
S1057P1057PccTccC88B.1.1.1610.028269
S1057P1057PccTccC88B.1.1.2220.001632
S1057P1057PccTccC88B.1.1.2240.114286
S1057P1057delCCT---88B.1.1.70.000007
S1057P1057PccTccC77B.1.1.4090.01983
S1057P1057PccTccC77B.1.1.4470.25
S1057P1057PccTccC66AY.1110.001099
S1057P1057PccTccG66AY.116.10.001869
S1057P1057RcCtcGt66AY.50.000124
S1057P1057RcCtcGt55AY.4.20.000108
S1057P1057PccTccC55B.1.1.100.005574
S1057P1057PccTccC55B.1.1.1940.024752
S1057P1057PccTccG45B.1.1.4160.00362
S1057P1057PccTccC15B.1.1.4160.000905
S1057P1057PccTccC45P.10.000063
S1057P1057PccTccA15P.10.000016
S1057P1057PccTccA34AY.250.000018
S1057P1057PccTccC14AY.250.000006
S1057P1057RcCtcGt44AY.430.000018
S1057P1057HcCtcAt44AY.50.000083
S1057P1057PccTccC34AY.50.000062
S1057P1057PccTccG14AY.50.000021
S1057P1057HcCtcAt44B.10.000037
S1057P1057PccTccC44B.1.1.2770.003035
S1057P1057PccTccC44B.1.1770.000053
S1057P1057TCctAct33All0.000001
S1057P1057PccTccC33AY.1200.000112
S1057P1057PccTccC33AY.39.10.000119
S1057P1057PccTccG23AY.440.000012
S1057P1057PccTccC13AY.440.000006
S1057P1057PccTccC33B0.000383
S1057P1057SCcTTcG23B.10.000018
S1057P1057SCCtAGt13B.10.000009
S1057P1057PccTccC33B.1.1.280.000934
S1057P1057LcCtcTt33B.1.20.000026
S1057P1057PccTccC23B.1.20.000018
S1057P1057PccTccG13B.1.20.000009
S1057P1057HcCtcAt33B.1.2350.007557
S1057P1057HcCtcAt33B.1.3980.008929
S1057P1057RcCtcGt33B.1.617.20.000011
S1057P1057PccTccC33C.360.002732
S1057P1057del2CCt--t22All0
S1057P1057SCctTct22AY.1030.000012
S1057P1057PccTccC22AY.160.000759
S1057P1057LcCtcTt22AY.250.000012
S1057P1057PccTccA22AY.350.000466
S1057P1057PccTccC12AY.390.000025
S1057P1057PccTccG12AY.390.000025
S1057P1057LcCtcTt22AY.40.000003
S1057P1057HcCtcAt22AY.60.000082
S1057P1057RcCtcGt22AY.60.000082
S1057P1057PccTccG22AY.7.10.000225
S1057P1057HcCtcAt22AY.90.000135
S1057P1057LcCtcTt22B.10.000018
S1057P1057PccTccC22B.1.1.1980.002937
S1057P1057PccTccC22B.1.1.2540.022472
S1057P1057PccTccC22B.1.1.2980.001724
S1057P1057PccTccC22B.1.1.330.000842
S1057P1057PccTccC22B.1.1.3360.033333
S1057P1057PccTccC22B.1.1.3850.008929
S1057P1057PccTccC22B.1.1.4190.014815
S1057P1057PccTccC22B.1.1.4300.083333
S1057P1057LcCtcTt22B.1.1.70.000002
S1057P1057PccTccC22B.1.1.80.007168
S1057P1057delCCT---22B.1.1770.000026
S1057P1057PccTccG22B.1.2210.000142
S1057P1057PccTccG22B.1.2400.000431
S1057P1057PccTccC22B.1.360.000292
S1057P1057PccTccC22B.1.3670.001585
S1057P1057PccTccG22B.1.4040.002604
S1057P1057PccTccG12B.1.4290.000024
S1057P1057PccTccC12B.1.4290.000024
S1057P1057PccTccA22Q.80.00033
S1057P1057PccTccC11A0.000387
S1057P1057PccTccC11A.2.20.001689
S1057P1057ACctGct11All0
S1057P1057PccTccG11AY.1000.000046
S1057P1057LcCtcTt11AY.1030.000006
S1057P1057delCCT---11AY.1110.000183
S1057P1057delCCT---11AY.1200.000037
S1057P1057RcCtcGt11AY.1200.000037
S1057P1057HcCtcAt11AY.220.002092
S1057P1057LcCtcTt11AY.390.000025
S1057P1057del2CCt--t11AY.40.000002
S1057P1057delCCT---11AY.40.000002
S1057P1057PccTccC11AY.4.10.000737
S1057P1057HcCtcAt11AY.4.10.000737
S1057P1057PccTccC11AY.4.2.10.000149
S1057P1057LcCtcTt11AY.4.50.000107
S1057P1057delCCT---11AY.430.000004
S1057P1057SCctTct11AY.430.000004
S1057P1057SCctTct11AY.440.000006
S1057P1057delCCT---11AY.46.20.000635
S1057P1057PccTccC11AY.550.000917
S1057P1057delCCT---11AY.750.000056
S1057P1057PccTccC11AY.860.00083
S1057P1057PccTccC11AY.9.20.000037
S1057P1057HcCtcAt11AY.9.20.000037
S1057P1057HcCtcAt11AY.980.000079
S1057P1057LcCtcTt11AY.98.10.000048
S1057P1057del2CCt--t11B0.000128
S1057P1057HcCtcAt11B0.000128
S1057P1057ACctGct11B.10.000009
S1057P1057TCctAct11B.10.000009
S1057P1057delCCT---11B.10.000009
S1057P1057SCcTTcG11B.1.10.000018
S1057P1057PccTccC11B.1.1.1220.045455
S1057P1057PccTccC11B.1.1.1370.0125
S1057P1057TCctAct11B.1.1.1390.022727
S1057P1057PccTccC11B.1.1.1450.037037
S1057P1057PccTccC11B.1.1.1480.008772
S1057P1057LcCtcTt11B.1.1.2140.000055
S1057P1057delCCT---11B.1.1.2360.006897
S1057P1057SCcTTcG11B.1.1.2650.003155
S1057P1057PccTccC11B.1.1.2990.012195
S1057P1057LcCtcTt11B.1.1.340.013158
S1057P1057PccTccC11B.1.1.3880.045455
S1057P1057PccTccC11B.1.1.3970.002252
S1057P1057PccTccC11B.1.1.3980.003226
S1057P1057PccTccC11B.1.1.4070.041667
S1057P1057PccTccC11B.1.1.4100.037037
S1057P1057PccTccC11B.1.1.4220.045455
S1057P1057PccTccC11B.1.1.540.003021
S1057P1057RcCtcGt11B.1.1.70.000001
S1057P1057SCctTct11B.1.1.70.000001
S1057P1057PccTccC11B.1.1.700.000341
S1057P1057PccTccC11B.1.1.890.006061
S1057P1057LcCtcTt11B.1.1770.000013
S1057P1057SCctTct11B.1.177.420.000894
S1057P1057delCCT---11B.1.177.50.001242
S1057P1057PccTccC11B.1.2060.000816
S1057P1057LcCtcTt11B.1.2210.000071
S1057P1057LcCtcTt11B.1.30.002618
S1057P1057LcCtcTt11B.1.3380.008621
S1057P1057PccTccG11B.1.3510.00003
S1057P1057delCCT---11B.1.3510.00003
S1057P1057PccTccA11B.1.36.160.001425
S1057P1057PccTccG11B.1.36.290.000517
S1057P1057LcCtcTt11B.1.466.20.000391
S1057P1057TCctAct11B.1.5260.000024
S1057P1057PccTccG11B.1.5820.000491
S1057P1057HcCtcAt11B.1.5960.000087
S1057P1057SCctTct11B.1.5960.000087
S1057P1057PccTccC11B.1.617.10.000129
S1057P1057delCCT---11B.1.617.20.000004
S1057P1057LcCtcTt11B.1.617.20.000004
S1057P1057HcCtcAt11B.1.617.20.000004
S1057P1057PccTccC11B.1.6210.000089
S1057P1057RcCtcGt11B.580.010204
S1057P1057HcCtcAt11B.60.00091
S1057P1057delCCT---11C.370.000116
S1057P1057delCCT---11P.1.150.000232
S1057P1057delCCT---11Q.10.000126
S1057P1057PccTccC11Q.30.000145

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.