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 |
S | 968 | S968S | syn | tcC | tcT | 775 | 682 | 0.88 | 24464-24466 | |
S | 968 | S968S | syn | tcC | tcG | 775 | 60 | 0.0774194 | 24464-24466 | |
S | 968 | S968S | syn | tcC | tcA | 775 | 33 | 0.0425806 | 24464-24466 |
Details of the mutation S968S 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 |
S | 968 | S968S | tcC | tcT | 682 | 775 | All | 0.00013 |
S | 968 | S968S | tcC | tcG | 60 | 775 | All | 0.000011 |
S | 968 | S968S | tcC | tcA | 33 | 775 | All | 0.000006 |
S | 968 | S968S | tcC | tcT | 132 | 132 | A.2.5.1 | 0.634615 |
S | 968 | S968S | tcC | tcT | 113 | 113 | AY.3 | 0.001124 |
S | 968 | S968S | tcC | tcT | 78 | 87 | B.1.1.7 | 0.00007 |
S | 968 | S968S | tcC | tcA | 5 | 87 | B.1.1.7 | 0.000004 |
S | 968 | S968S | tcC | tcG | 4 | 87 | B.1.1.7 | 0.000004 |
S | 968 | S968S | tcC | tcT | 25 | 30 | AY.4 | 0.000039 |
S | 968 | S968S | tcC | tcG | 4 | 30 | AY.4 | 0.000006 |
S | 968 | S968S | tcC | tcA | 1 | 30 | AY.4 | 0.000002 |
S | 968 | S968S | tcC | tcT | 29 | 30 | B.1.526 | 0.000682 |
S | 968 | S968S | tcC | tcG | 1 | 30 | B.1.526 | 0.000024 |
S | 968 | S968S | tcC | tcG | 26 | 26 | B.1.1.420 | 0.026157 |
S | 968 | S968S | tcC | tcT | 24 | 24 | AY.39 | 0.000593 |
S | 968 | S968S | tcC | tcT | 19 | 19 | AY.65 | 0.010128 |
S | 968 | S968S | tcC | tcT | 10 | 18 | B.1.1 | 0.000181 |
S | 968 | S968S | tcC | tcG | 7 | 18 | B.1.1 | 0.000127 |
S | 968 | S968S | tcC | tcA | 1 | 18 | B.1.1 | 0.000018 |
S | 968 | S968S | tcC | tcT | 11 | 18 | B.1.617.2 | 0.000041 |
S | 968 | S968S | tcC | tcA | 4 | 18 | B.1.617.2 | 0.000015 |
S | 968 | S968S | tcC | tcG | 3 | 18 | B.1.617.2 | 0.000011 |
S | 968 | S968S | tcC | tcT | 17 | 17 | AY.42 | 0.000684 |
S | 968 | S968S | tcC | tcT | 17 | 17 | B.1.177 | 0.000224 |
S | 968 | S968S | tcC | tcT | 16 | 16 | AY.9 | 0.001082 |
S | 968 | S968S | tcC | tcT | 13 | 15 | B.1 | 0.000119 |
S | 968 | S968S | tcC | tcA | 2 | 15 | B.1 | 0.000018 |
S | 968 | S968S | tcC | tcT | 11 | 14 | AY.43 | 0.000049 |
S | 968 | S968S | tcC | tcG | 2 | 14 | AY.43 | 0.000009 |
S | 968 | S968S | tcC | tcA | 1 | 14 | AY.43 | 0.000004 |
S | 968 | S968S | tcC | tcT | 13 | 14 | B.1.2 | 0.000114 |
S | 968 | S968S | tcC | tcA | 1 | 14 | B.1.2 | 0.000009 |
S | 968 | S968S | tcC | tcT | 10 | 14 | P.1 | 0.000158 |
S | 968 | S968S | tcC | tcA | 4 | 14 | P.1 | 0.000063 |
S | 968 | S968S | tcC | tcT | 11 | 11 | AY.69 | 0.002053 |
S | 968 | S968S | tcC | tcT | 8 | 9 | AY.44 | 0.000049 |
S | 968 | S968S | tcC | tcA | 1 | 9 | AY.44 | 0.000006 |
S | 968 | S968S | tcC | tcT | 9 | 9 | B.1.577 | 0.006186 |
S | 968 | S968S | tcC | tcT | 8 | 8 | B.1.429 | 0.000188 |
S | 968 | S968S | tcC | tcT | 7 | 7 | AY.23 | 0.000488 |
S | 968 | S968S | tcC | tcT | 7 | 7 | AY.25 | 0.000042 |
S | 968 | S968S | tcC | tcT | 6 | 6 | AY.14 | 0.000528 |
S | 968 | S968S | tcC | tcT | 5 | 5 | AY.103 | 0.000031 |
S | 968 | S968S | tcC | tcT | 5 | 5 | B.1.596 | 0.000436 |
S | 968 | S968S | tcC | tcT | 4 | 4 | AY.113 | 0.00057 |
S | 968 | S968S | tcC | tcT | 4 | 4 | AY.45 | 0.000487 |
S | 968 | S968S | tcC | tcA | 3 | 3 | AY.22 | 0.006276 |
S | 968 | S968S | tcC | tcG | 3 | 3 | AY.33 | 0.0002 |
S | 968 | S968S | tcC | tcT | 3 | 3 | AY.64 | 0.001786 |
S | 968 | S968S | tcC | tcT | 3 | 3 | AY.86 | 0.00249 |
S | 968 | S968S | tcC | tcT | 2 | 3 | B.1.351 | 0.000059 |
S | 968 | S968S | tcC | tcG | 1 | 3 | B.1.351 | 0.00003 |
S | 968 | S968S | tcC | tcT | 2 | 2 | A.1 | 0.000564 |
S | 968 | S968S | tcC | tcT | 1 | 2 | AY.117 | 0.000085 |
S | 968 | S968S | tcC | tcG | 1 | 2 | AY.117 | 0.000085 |
S | 968 | S968S | tcC | tcT | 2 | 2 | AY.34 | 0.000194 |
S | 968 | S968S | tcC | tcG | 1 | 2 | AY.39.1 | 0.00004 |
S | 968 | S968S | tcC | tcT | 1 | 2 | AY.39.1 | 0.00004 |
S | 968 | S968S | tcC | tcT | 2 | 2 | AY.58 | 0.001815 |
S | 968 | S968S | tcC | tcG | 2 | 2 | AY.74 | 0.000231 |
S | 968 | S968S | tcC | tcT | 2 | 2 | B.1.1.216 | 0.001781 |
S | 968 | S968S | tcC | tcT | 2 | 2 | B.1.1.298 | 0.001724 |
S | 968 | S968S | tcC | tcT | 2 | 2 | B.1.1.318 | 0.000604 |
S | 968 | S968S | tcC | tcT | 2 | 2 | B.1.1.385 | 0.008929 |
S | 968 | S968S | tcC | tcG | 2 | 2 | B.1.1.83 | 0.00542 |
S | 968 | S968S | tcC | tcT | 2 | 2 | B.1.160 | 0.000062 |
S | 968 | S968S | tcC | tcT | 2 | 2 | B.1.258 | 0.000133 |
S | 968 | S968S | tcC | tcT | 2 | 2 | B.1.36 | 0.000292 |
S | 968 | S968S | tcC | tcA | 2 | 2 | B.1.427 | 0.000101 |
S | 968 | S968S | tcC | tcA | 2 | 2 | B.1.497 | 0.00063 |
S | 968 | S968S | tcC | tcG | 2 | 2 | B.1.525 | 0.000226 |
S | 968 | S968S | tcC | tcT | 2 | 2 | C.16 | 0.002121 |
S | 968 | S968S | tcC | tcT | 2 | 2 | C.37 | 0.000232 |
S | 968 | S968S | tcC | tcT | 2 | 2 | P.1.16 | 0.000748 |
S | 968 | S968S | tcC | tcT | 1 | 1 | A.2.5 | 0.000499 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.102 | 0.000027 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.20 | 0.000039 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.26 | 0.000028 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.29 | 0.000016 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.36 | 0.000148 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.4.2 | 0.000022 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.46.4 | 0.000165 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.5 | 0.000021 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.52 | 0.000814 |
S | 968 | S968S | tcC | tcG | 1 | 1 | AY.6 | 0.000041 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.78 | 0.001541 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.79 | 0.001211 |
S | 968 | S968S | tcC | tcT | 1 | 1 | AY.92 | 0.000287 |
S | 968 | S968S | tcC | tcA | 1 | 1 | B | 0.000128 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.1.28 | 0.000311 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.1.372 | 0.000689 |
S | 968 | S968S | tcC | tcA | 1 | 1 | B.1.1.453 | 0.008475 |
S | 968 | S968S | tcC | tcA | 1 | 1 | B.1.1.519 | 0.00004 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.1.57 | 0.011494 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.157 | 0.002985 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.160.16 | 0.000929 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.177.87 | 0.000728 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.222 | 0.001692 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.239 | 0.001221 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.243 | 0.00007 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.284 | 0.013158 |
S | 968 | S968S | tcC | tcA | 1 | 1 | B.1.351.5 | 0.0006 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.36.17 | 0.000494 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.36.36 | 0.000602 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.36.8 | 0.001 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.462 | 0.007246 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.495 | 0.009091 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.595 | 0.000261 |
S | 968 | S968S | tcC | tcA | 1 | 1 | B.1.609 | 0.000479 |
S | 968 | S968S | tcC | tcT | 1 | 1 | B.1.617.1 | 0.000129 |
S | 968 | S968S | tcC | tcA | 1 | 1 | B.6.3 | 0.026316 |
S | 968 | S968S | tcC | tcT | 1 | 1 | P.1.12 | 0.000484 |
S | 968 | S968S | tcC | tcT | 1 | 1 | P.1.14 | 0.000048 |
S | 968 | S968S | tcC | tcT | 1 | 1 | Q.2 | 0.000613 |
S | 968 | S968S | tcC | tcT | 1 | 1 | R.1 | 0.00009 |
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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