CoV-GLUE | Mutations | Mutation
Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):
ORF | CodonNum | Mut | ORF1abMut | MutType | RefCodon | MutCodon | AACount | CodonCount | CodonProp | Genome Position |
ORF1ab/nsp13 | 236 | S236I | S5560I | nonsyn | aGt | aTt | 2819 | 2819 | 1 | 16942-16944 |
Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):
ORF | CodonNum | Mut | RefCodon | MutCodon | CodonCount | AACount | Lineage | LineageCodonProp |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2819 | 2819 | All | 0.000539 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 703 | 703 | AY.98.1 | 0.034047 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 640 | 640 | B.1.1.7 | 0.000573 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 161 | 161 | B.1.2 | 0.001418 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 128 | 128 | AY.4 | 0.000199 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 106 | 106 | AY.43 | 0.00047 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 96 | 96 | AY.25 | 0.000577 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 89 | 89 | B.1.258 | 0.005923 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 70 | 70 | B.1.617.2 | 0.000264 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 54 | 54 | AY.9.2 | 0.001983 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 50 | 50 | D.2 | 0.003752 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 40 | 40 | B.1.160 | 0.001248 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 38 | 38 | AY.103 | 0.000236 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 37 | 37 | B.1.1 | 0.000671 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 36 | 36 | B.1.1.519 | 0.00143 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 30 | 30 | AY.23 | 0.002092 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 29 | 29 | AY.41 | 0.008524 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 27 | 27 | B.1.177 | 0.000356 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 26 | 26 | P.1 | 0.00041 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 20 | 20 | AY.20 | 0.000777 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 19 | 19 | B.1.1.214 | 0.001054 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 18 | 18 | AY.44 | 0.00011 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 18 | 18 | B.1 | 0.000165 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 18 | 18 | R.1 | 0.00162 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 16 | 16 | AY.102 | 0.000424 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 16 | 16 | AY.3 | 0.000159 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 15 | 15 | AY.27 | 0.000971 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 14 | 14 | B.1.427 | 0.000707 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 11 | 11 | AY.14 | 0.000968 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 10 | 10 | AY.24 | 0.00431 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 10 | 10 | AY.39 | 0.000247 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 10 | 10 | B.1.351 | 0.000297 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 9 | 9 | AY.29.1 | 0.001985 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 9 | 9 | AY.98 | 0.000711 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 9 | 9 | P.2 | 0.00168 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 8 | 8 | AY.33 | 0.000534 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 8 | 8 | B.1.596 | 0.000697 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 6 | 6 | AY.46.6 | 0.000433 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 6 | 6 | B.1.243 | 0.000418 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 6 | 6 | B.1.36.29 | 0.003104 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 6 | 6 | B.1.617.1 | 0.000774 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 5 | 5 | AY.119 | 0.000177 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 5 | 5 | B.1.177.75 | 0.005203 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 5 | 5 | B.1.429 | 0.000118 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 4 | 4 | AY.16 | 0.001519 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 4 | 4 | AY.45 | 0.000487 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 4 | 4 | AY.92 | 0.001149 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 4 | 4 | B.1.1.153 | 0.004381 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 4 | 4 | B.1.1.93 | 0.102564 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 4 | 4 | B.1.526 | 0.000094 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 4 | 4 | B.1.590 | 0.018182 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.1 | 0.001187 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.113 | 0.000427 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.118 | 0.000188 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.120 | 0.000112 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.3.1 | 0.000256 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.36 | 0.000445 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.5 | 0.000062 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.61 | 0.000314 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | AY.68 | 0.000821 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | B.1.1.25 | 0.001706 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | B.1.1.319 | 0.052632 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | B.1.540 | 0.029126 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | B.1.621 | 0.000266 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 3 | 3 | B.6 | 0.00273 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | AY.46.4 | 0.000329 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | AY.5.3 | 0.000675 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | AY.5.4 | 0.000553 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B | 0.000256 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.1.1 | 0.000653 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.1.10 | 0.00223 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.1.198 | 0.002937 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.1.305 | 0.007722 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.1.89 | 0.012121 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.177.21 | 0.000153 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.177.52 | 0.003515 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.177.77 | 0.001452 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.234 | 0.000264 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.258.17 | 0.000208 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.36 | 0.000292 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.497 | 0.00063 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.1.609 | 0.000959 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | B.26 | 0.029412 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | C.12 | 0.014388 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 2 | 2 | P.1.14 | 0.000096 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | 0.055556 | |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | A | 0.000387 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.35 | 0.000233 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.63 | 0.000387 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.7.2 | 0.000559 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.79 | 0.001211 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AY.93 | 0.000273 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | AZ.2 | 0.000821 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.1.291 | 0.000742 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.1.425 | 0.045455 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.1.526 | 0.003546 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.1.63 | 0.000386 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.112 | 0.005181 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.128 | 0.000635 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.140 | 0.018868 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.177.54 | 0.000606 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.177.55 | 0.002331 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.214.2 | 0.0006 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.349 | 0.000715 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.36.27 | 0.000763 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.380 | 0.006623 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.404 | 0.001302 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.428 | 0.00102 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.499 | 0.00105 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.577 | 0.000687 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.612 | 0.002653 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.1.94 | 0.027027 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | B.39 | 0.002331 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | D.3 | 0.005917 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | P.3 | 0.001595 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | Q.4 | 0.000455 |
ORF1ab/nsp13 | 236 | S236I | aGt | aTt | 1 | 1 | Q.8 | 0.000165 |
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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