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/nsp3 | 1754 | L1754L | L2572L | syn | ctA | ctG | 1979 | 1447 | 0.731177 | 7979-7981 |
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/nsp3 | 1754 | L1754L | ctA | ctG | 1447 | 1979 | All | 0.000277 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 473 | 473 | Q.7 | 0.525556 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 203 | 206 | AY.39 | 0.005016 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 83 | 127 | AY.4 | 0.000129 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 57 | 126 | B.1.1.7 | 0.000051 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 28 | 74 | AY.25 | 0.000168 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 39 | 70 | P.1 | 0.000614 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 52 | 64 | B.1.243 | 0.003618 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 57 | 57 | B.1.438.1 | 0.006114 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 25 | 56 | B.1 | 0.000229 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 51 | 51 | P.1.6 | 0.099222 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 42 | 43 | B.1.177.15 | 0.026498 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 18 | 41 | B.1.617.2 | 0.000068 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 13 | 40 | B.1.2 | 0.000114 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 4 | 39 | B.1.526 | 0.000094 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 13 | 31 | AY.103 | 0.000081 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 26 | 27 | AY.42 | 0.001046 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 21 | 21 | AY.4.2 | 0.000455 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 12 | 20 | AY.102 | 0.000318 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 11 | 20 | AY.43 | 0.000049 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 5 | 17 | AY.44 | 0.00003 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 6 | 16 | B.1.177 | 0.000079 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 15 | 15 | B.1.497 | 0.004721 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 7 | 12 | AY.3 | 0.00007 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 10 | AY.26 | 0.000057 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 4 | 10 | B.1.36 | 0.000584 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 8 | 9 | AY.100 | 0.000368 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 7 | 8 | B.1.1 | 0.000127 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 8 | 8 | B.1.628 | 0.002819 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 7 | 7 | AY.121 | 0.000947 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 7 | AY.29 | 0.000047 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 7 | 7 | B.1.221 | 0.000497 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 7 | 7 | B.1.258 | 0.000466 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 4 | 7 | B.1.351 | 0.000119 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 7 | 7 | B.1.466.1 | 0.05036 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 6 | 6 | B.1.1.200 | 0.044776 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 6 | B.1.525 | 0.000226 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 5 | B.1.160 | 0.000031 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 5 | 5 | B.1.499 | 0.005252 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 5 | B.1.637 | 0.000219 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 4 | 5 | P.1.14 | 0.000191 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 4 | 4 | AE.8 | 0.001956 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 4 | 4 | AY.117 | 0.000338 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 4 | B.1.621 | 0.000177 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 4 | 4 | B.1.93 | 0.003735 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | A.2.5.2 | 0.004717 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 3 | AY.23 | 0.00007 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 3 | AY.27 | 0.000129 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 3 | AY.9.2 | 0.000073 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | AY.91 | 0.002191 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | AY.95 | 0.002283 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | B.1.1.318 | 0.000905 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | B.1.1.437 | 0.03125 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | B.1.214.2 | 0.001799 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 3 | B.1.349 | 0.000715 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | B.1.429 | 0.000071 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | B.1.575 | 0.00091 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | B.1.602 | 0.019608 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 3 | 3 | P.1.17 | 0.000485 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | AY.120.1 | 0.000642 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | AY.16 | 0.000759 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 2 | AY.32 | 0.000532 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | AY.34.1 | 0.00102 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 2 | AY.4.5 | 0.000107 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 2 | AY.45 | 0.000122 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | AY.5.3 | 0.000675 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | AY.56 | 0.00321 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 2 | AY.6 | 0.000041 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | B.1.1.269 | 0.002706 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | B.3 | 0.001661 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 2 | D.2 | 0.000075 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | Q.1 | 0.000253 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 2 | 2 | R.1 | 0.00018 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | A.23.1 | 0.000704 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.29.1 | 0.000221 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.46.5 | 0.000198 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.57 | 0.000656 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.63 | 0.000387 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | AY.93 | 0.000273 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.1.182 | 0.090909 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.1.25 | 0.000569 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.177.53 | 0.002392 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.258.3 | 0.001675 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.473 | 0.019231 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | C.23 | 0.005814 |
ORF1ab/nsp3 | 1754 | L1754L | ctA | ctG | 1 | 1 | P.1.12 | 0.000484 |
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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