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 |
ORF7a | 81 | S81P | nonsyn | Tca | Cca | 1579 | 1577 | 0.998733 | 27634-27636 | |
ORF7a | 81 | S81P | nonsyn | TcA | CcT | 1579 | 2 | 0.00126662 | 27634-27636 |
Details of the mutation S81P 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 |
ORF7a | 81 | S81P | Tca | Cca | 1577 | 1579 | All | 0.000302 |
ORF7a | 81 | S81P | TcA | CcT | 2 | 1579 | All | 0 |
ORF7a | 81 | S81P | Tca | Cca | 345 | 345 | Q.7 | 0.383333 |
ORF7a | 81 | S81P | Tca | Cca | 250 | 250 | AY.4 | 0.000389 |
ORF7a | 81 | S81P | Tca | Cca | 246 | 246 | B.1.523 | 0.602941 |
ORF7a | 81 | S81P | Tca | Cca | 155 | 155 | B.1.1.7 | 0.000139 |
ORF7a | 81 | S81P | Tca | Cca | 90 | 90 | AY.3 | 0.000895 |
ORF7a | 81 | S81P | Tca | Cca | 54 | 55 | AY.44 | 0.000329 |
ORF7a | 81 | S81P | TcA | CcT | 1 | 55 | AY.44 | 0.000006 |
ORF7a | 81 | S81P | Tca | Cca | 51 | 51 | B.1.617.2 | 0.000192 |
ORF7a | 81 | S81P | Tca | Cca | 37 | 37 | AY.120 | 0.001376 |
ORF7a | 81 | S81P | Tca | Cca | 31 | 31 | AY.119 | 0.001095 |
ORF7a | 81 | S81P | Tca | Cca | 25 | 25 | B.1.621 | 0.002213 |
ORF7a | 81 | S81P | Tca | Cca | 23 | 23 | B.1 | 0.000211 |
ORF7a | 81 | S81P | Tca | Cca | 18 | 18 | B.1.2 | 0.000158 |
ORF7a | 81 | S81P | Tca | Cca | 15 | 15 | AY.25 | 0.00009 |
ORF7a | 81 | S81P | Tca | Cca | 15 | 15 | P.1 | 0.000236 |
ORF7a | 81 | S81P | Tca | Cca | 12 | 12 | AY.34 | 0.001164 |
ORF7a | 81 | S81P | Tca | Cca | 11 | 11 | AY.103 | 0.000068 |
ORF7a | 81 | S81P | Tca | Cca | 11 | 11 | AY.23 | 0.000767 |
ORF7a | 81 | S81P | Tca | Cca | 9 | 9 | AY.4.2 | 0.000195 |
ORF7a | 81 | S81P | Tca | Cca | 9 | 9 | AY.43 | 0.00004 |
ORF7a | 81 | S81P | Tca | Cca | 9 | 9 | B.1.36.17 | 0.004447 |
ORF7a | 81 | S81P | Tca | Cca | 7 | 7 | B | 0.000895 |
ORF7a | 81 | S81P | Tca | Cca | 6 | 6 | AY.102 | 0.000159 |
ORF7a | 81 | S81P | Tca | Cca | 6 | 6 | AY.47 | 0.000187 |
ORF7a | 81 | S81P | Tca | Cca | 6 | 6 | C.37 | 0.000696 |
ORF7a | 81 | S81P | Tca | Cca | 5 | 5 | Q.3 | 0.000725 |
ORF7a | 81 | S81P | Tca | Cca | 4 | 4 | AY.106 | 0.00134 |
ORF7a | 81 | S81P | Tca | Cca | 4 | 4 | AY.113 | 0.00057 |
ORF7a | 81 | S81P | Tca | Cca | 4 | 4 | B.1.448 | 0.010499 |
ORF7a | 81 | S81P | Tca | Cca | 4 | 4 | B.1.517 | 0.001708 |
ORF7a | 81 | S81P | Tca | Cca | 4 | 4 | B.1.526 | 0.000094 |
ORF7a | 81 | S81P | Tca | Cca | 4 | 4 | B.1.575 | 0.001214 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | AY.20 | 0.000117 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | AY.36 | 0.000445 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | AY.39 | 0.000074 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | AY.74 | 0.000347 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | AY.98.1 | 0.000145 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.1 | 0.000054 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.1.369 | 0.001339 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.1.39 | 0.001529 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.1.519 | 0.000119 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.149 | 0.010274 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.177 | 0.00004 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.258 | 0.0002 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.361 | 0.003866 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.427 | 0.000151 |
ORF7a | 81 | S81P | Tca | Cca | 3 | 3 | B.1.468 | 0.017143 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | AY.117 | 0.000169 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | AY.26 | 0.000057 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | AY.27 | 0.000129 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | AY.29 | 0.000032 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | AY.39.1 | 0.000079 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | AY.42 | 0.00008 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | AY.48 | 0.00093 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | B.1.1.377 | 0.002762 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | B.1.311 | 0.000549 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | B.1.369 | 0.00057 |
ORF7a | 81 | S81P | Tca | Cca | 2 | 2 | B.1.596 | 0.000174 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | A.2.5 | 0.000499 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.100 | 0.000046 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.108 | 0.001103 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.109 | 0.00074 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.110 | 0.000113 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.116 | 0.000287 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.33 | 0.000067 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.45 | 0.000122 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.46 | 0.000104 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.5 | 0.000021 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.6 | 0.000041 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.75.1 | 0.00018 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.87 | 0.000833 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.9 | 0.000068 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.9.1 | 0.000084 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | AY.99.2 | 0.000092 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.1.222 | 0.000204 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.1.28 | 0.000311 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.1.453 | 0.008475 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.160 | 0.000031 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.177.52 | 0.001757 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.177.57 | 0.000281 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.177.72 | 0.00339 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.177.81 | 0.000189 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.221 | 0.000071 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.258.17 | 0.000104 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.279 | 0.000514 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.36 | 0.000146 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.36.29 | 0.000517 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.408 | 0.00369 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.429 | 0.000024 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.466.2 | 0.000391 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.471 | 0.002732 |
ORF7a | 81 | S81P | TcA | CcT | 1 | 1 | B.1.497 | 0.000315 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.525 | 0.000113 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.617.1 | 0.000129 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.623 | 0.000536 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.1.77 | 0.045455 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | B.3.1 | 0.001658 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | D.2 | 0.000075 |
ORF7a | 81 | S81P | Tca | Cca | 1 | 1 | P.2 | 0.000187 |
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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