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 |
ORF3a | 100 | G100S | nonsyn | Ggc | Agc | 1068 | 1065 | 0.997191 | 25690-25692 | |
ORF3a | 100 | G100S | nonsyn | GGc | TCc | 1068 | 2 | 0.00187266 | 25690-25692 | |
ORF3a | 100 | G100S | nonsyn | GGC | TCA | 1068 | 1 | 0.00093633 | 25690-25692 |
Details of the mutation G100S 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 |
ORF3a | 100 | G100S | Ggc | Agc | 1065 | 1068 | All | 0.000204 |
ORF3a | 100 | G100S | GGc | TCc | 2 | 1068 | All | 0 |
ORF3a | 100 | G100S | GGC | TCA | 1 | 1068 | All | 0 |
ORF3a | 100 | G100S | Ggc | Agc | 491 | 491 | AY.25 | 0.002953 |
ORF3a | 100 | G100S | Ggc | Agc | 85 | 85 | B.1.1.7 | 0.000076 |
ORF3a | 100 | G100S | Ggc | Agc | 75 | 75 | AY.4 | 0.000117 |
ORF3a | 100 | G100S | Ggc | Agc | 29 | 29 | AY.3 | 0.000288 |
ORF3a | 100 | G100S | Ggc | Agc | 29 | 29 | AY.46.6 | 0.002094 |
ORF3a | 100 | G100S | Ggc | Agc | 27 | 27 | AY.103 | 0.000168 |
ORF3a | 100 | G100S | Ggc | Agc | 27 | 27 | AY.14 | 0.002376 |
ORF3a | 100 | G100S | Ggc | Agc | 22 | 22 | AY.44 | 0.000134 |
ORF3a | 100 | G100S | Ggc | Agc | 19 | 19 | B.1.617.2 | 0.000072 |
ORF3a | 100 | G100S | Ggc | Agc | 18 | 18 | B.1.2 | 0.000158 |
ORF3a | 100 | G100S | Ggc | Agc | 18 | 18 | R.1 | 0.00162 |
ORF3a | 100 | G100S | Ggc | Agc | 17 | 17 | AY.43 | 0.000075 |
ORF3a | 100 | G100S | Ggc | Agc | 17 | 17 | B.1.429 | 0.0004 |
ORF3a | 100 | G100S | Ggc | Agc | 13 | 15 | B.1 | 0.000119 |
ORF3a | 100 | G100S | GGC | TCA | 1 | 15 | B.1 | 0.000009 |
ORF3a | 100 | G100S | GGc | TCc | 1 | 15 | B.1 | 0.000009 |
ORF3a | 100 | G100S | Ggc | Agc | 13 | 13 | AY.119 | 0.000459 |
ORF3a | 100 | G100S | Ggc | Agc | 11 | 11 | B.1.351 | 0.000327 |
ORF3a | 100 | G100S | Ggc | Agc | 10 | 10 | B.1.1 | 0.000181 |
ORF3a | 100 | G100S | Ggc | Agc | 7 | 7 | B.1.467 | 0.28 |
ORF3a | 100 | G100S | Ggc | Agc | 6 | 6 | B.1.240 | 0.001293 |
ORF3a | 100 | G100S | Ggc | Agc | 5 | 5 | B.1.1.519 | 0.000199 |
ORF3a | 100 | G100S | Ggc | Agc | 5 | 5 | B.1.160 | 0.000156 |
ORF3a | 100 | G100S | Ggc | Agc | 5 | 5 | B.1.177 | 0.000066 |
ORF3a | 100 | G100S | Ggc | Agc | 5 | 5 | B.1.258 | 0.000333 |
ORF3a | 100 | G100S | Ggc | Agc | 4 | 4 | AY.102 | 0.000106 |
ORF3a | 100 | G100S | Ggc | Agc | 4 | 4 | AY.26 | 0.000113 |
ORF3a | 100 | G100S | Ggc | Agc | 4 | 4 | AY.32 | 0.00213 |
ORF3a | 100 | G100S | Ggc | Agc | 4 | 4 | AY.39 | 0.000099 |
ORF3a | 100 | G100S | Ggc | Agc | 4 | 4 | AY.5 | 0.000083 |
ORF3a | 100 | G100S | Ggc | Agc | 4 | 4 | B.1.526 | 0.000094 |
ORF3a | 100 | G100S | Ggc | Agc | 3 | 3 | AY.100 | 0.000138 |
ORF3a | 100 | G100S | Ggc | Agc | 3 | 3 | AY.20 | 0.000117 |
ORF3a | 100 | G100S | Ggc | Agc | 3 | 3 | AY.47 | 0.000093 |
ORF3a | 100 | G100S | Ggc | Agc | 3 | 3 | B.1.1.253 | 0.007519 |
ORF3a | 100 | G100S | Ggc | Agc | 3 | 3 | B.1.1.33 | 0.001263 |
ORF3a | 100 | G100S | Ggc | Agc | 3 | 3 | B.1.234 | 0.000396 |
ORF3a | 100 | G100S | Ggc | Agc | 3 | 3 | B.1.427 | 0.000151 |
ORF3a | 100 | G100S | Ggc | Agc | 3 | 3 | P.1 | 0.000047 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | 0.111111 | |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.120 | 0.000074 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.36 | 0.000296 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.4.4 | 0.000818 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.42 | 0.00008 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.46 | 0.000208 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.46.4 | 0.000329 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.53 | 0.000575 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.54 | 0.000191 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.88 | 0.001768 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | AY.98.1 | 0.000097 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | B.1.177.15 | 0.001262 |
ORF3a | 100 | G100S | Ggc | Agc | 2 | 2 | B.1.516 | 0.003914 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | A.2 | 0.000662 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AE.8 | 0.000489 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.117 | 0.000085 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.23 | 0.00007 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.29 | 0.000016 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.3.1 | 0.000085 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.30 | 0.000396 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.33 | 0.000067 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.4.2 | 0.000022 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.7.1 | 0.000113 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.71 | 0.000475 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.78 | 0.001541 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.9.2 | 0.000037 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.92 | 0.000287 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.99 | 0.001049 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | AY.99.2 | 0.000092 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.1.134 | 0.011364 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.1.222 | 0.000204 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.1.28 | 0.000311 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.1.334 | 0.016393 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.1.348 | 0.000796 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.1.39 | 0.00051 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.1.425 | 0.045455 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.1.63 | 0.000386 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.177.62 | 0.001192 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.177.7 | 0.000165 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.221 | 0.000071 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.36.29 | 0.000517 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.36.8 | 0.001 |
ORF3a | 100 | G100S | GGc | TCc | 1 | 1 | B.1.362.2 | 0.004717 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.367 | 0.000792 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.468 | 0.005714 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.621 | 0.000089 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.91 | 0.002075 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | B.1.93 | 0.000934 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | C.36 | 0.000911 |
ORF3a | 100 | G100S | Ggc | Agc | 1 | 1 | C.37 | 0.000116 |
ORF3a | 100 | G100S | Ggc | Agc | 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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