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 | 88 | I88I | syn | atC | atT | 3904 | 3873 | 0.992059 | 27655-27657 |
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 |
ORF7a | 88 | I88I | atC | atT | 3873 | 3904 | All | 0.000741 |
ORF7a | 88 | I88I | atC | atT | 1440 | 1440 | AY.73 | 0.958084 |
ORF7a | 88 | I88I | atC | atT | 634 | 634 | AY.4 | 0.000987 |
ORF7a | 88 | I88I | atC | atT | 224 | 224 | AY.43 | 0.000992 |
ORF7a | 88 | I88I | atC | atT | 162 | 167 | B.1.1.7 | 0.000145 |
ORF7a | 88 | I88I | atC | atT | 129 | 133 | B.1.617.2 | 0.000486 |
ORF7a | 88 | I88I | atC | atT | 127 | 128 | AY.29 | 0.002003 |
ORF7a | 88 | I88I | atC | atT | 106 | 106 | AY.9.1 | 0.008875 |
ORF7a | 88 | I88I | atC | atT | 95 | 95 | AY.102 | 0.002519 |
ORF7a | 88 | I88I | atC | atT | 75 | 75 | AY.25 | 0.000451 |
ORF7a | 88 | I88I | atC | atT | 74 | 74 | AY.44 | 0.00045 |
ORF7a | 88 | I88I | atC | atT | 63 | 63 | AY.90 | 0.043121 |
ORF7a | 88 | I88I | atC | atT | 58 | 58 | AY.23 | 0.004045 |
ORF7a | 88 | I88I | atC | atT | 54 | 54 | AY.47 | 0.00168 |
ORF7a | 88 | I88I | atC | atT | 42 | 42 | AY.20 | 0.001632 |
ORF7a | 88 | I88I | atC | atT | 38 | 40 | AY.103 | 0.000236 |
ORF7a | 88 | I88I | atC | atT | 40 | 40 | AY.26 | 0.001132 |
ORF7a | 88 | I88I | atC | atT | 28 | 28 | P.1 | 0.000441 |
ORF7a | 88 | I88I | atC | atT | 24 | 24 | AY.113 | 0.003417 |
ORF7a | 88 | I88I | atC | atT | 23 | 23 | AY.27 | 0.001489 |
ORF7a | 88 | I88I | atC | atT | 18 | 18 | AY.5 | 0.000372 |
ORF7a | 88 | I88I | atC | atT | 15 | 15 | AY.46 | 0.001561 |
ORF7a | 88 | I88I | atC | atT | 14 | 14 | AY.4.2 | 0.000304 |
ORF7a | 88 | I88I | atC | atT | 9 | 12 | AY.39 | 0.000222 |
ORF7a | 88 | I88I | atC | atT | 12 | 12 | AY.4.3 | 0.010101 |
ORF7a | 88 | I88I | atC | atT | 12 | 12 | AY.61 | 0.001257 |
ORF7a | 88 | I88I | atC | atT | 12 | 12 | B.1.2 | 0.000106 |
ORF7a | 88 | I88I | atC | atT | 12 | 12 | B.1.429 | 0.000282 |
ORF7a | 88 | I88I | atC | atT | 11 | 11 | AY.3 | 0.000109 |
ORF7a | 88 | I88I | atC | atT | 11 | 11 | B.1.1 | 0.0002 |
ORF7a | 88 | I88I | atC | atT | 10 | 10 | AY.54 | 0.000953 |
ORF7a | 88 | I88I | atC | atT | 10 | 10 | B.1.595 | 0.00261 |
ORF7a | 88 | I88I | atC | atT | 8 | 9 | B.1 | 0.000073 |
ORF7a | 88 | I88I | atC | atT | 9 | 9 | B.1.1.50 | 0.00611 |
ORF7a | 88 | I88I | atC | atT | 8 | 8 | AY.42 | 0.000322 |
ORF7a | 88 | I88I | atC | atT | 1 | 8 | AY.69 | 0.000187 |
ORF7a | 88 | I88I | atC | atT | 8 | 8 | AY.9.2 | 0.000294 |
ORF7a | 88 | I88I | atC | atT | 7 | 7 | AY.120 | 0.00026 |
ORF7a | 88 | I88I | atC | atT | 7 | 7 | B.1.351 | 0.000208 |
ORF7a | 88 | I88I | atC | atT | 6 | 6 | AY.117 | 0.000507 |
ORF7a | 88 | I88I | atC | atT | 6 | 6 | AY.119 | 0.000212 |
ORF7a | 88 | I88I | atC | atT | 6 | 6 | AY.33 | 0.000401 |
ORF7a | 88 | I88I | atC | atT | 5 | 5 | AY.45 | 0.000608 |
ORF7a | 88 | I88I | atC | atT | 5 | 5 | AY.46.5 | 0.000992 |
ORF7a | 88 | I88I | atC | atT | 5 | 5 | AY.6 | 0.000206 |
ORF7a | 88 | I88I | atC | atT | 5 | 5 | B.1.177 | 0.000066 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | A.2.4 | 0.013468 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.110 | 0.000451 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.4.2.1 | 0.000596 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.58 | 0.00363 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.74 | 0.000463 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.75 | 0.000224 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.77 | 0.00451 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.84 | 0.00175 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.85 | 0.001709 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.9 | 0.00027 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | AY.98.1 | 0.000194 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | B.1.1.157 | 0.003653 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | B.1.1.301 | 0.004717 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | B.1.1.519 | 0.000159 |
ORF7a | 88 | I88I | atC | atT | 2 | 4 | B.1.160 | 0.000062 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | B.1.36 | 0.000584 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | B.1.617.1 | 0.000516 |
ORF7a | 88 | I88I | atC | atT | 4 | 4 | C.37 | 0.000464 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | AY.100 | 0.000138 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | AY.118 | 0.000188 |
ORF7a | 88 | I88I | atC | atT | 2 | 3 | AY.3.1 | 0.000171 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | AY.34.1 | 0.00153 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | AY.57 | 0.001969 |
ORF7a | 88 | I88I | atC | atT | 2 | 3 | AY.7.1 | 0.000225 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | AY.92 | 0.000862 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | AY.99.2 | 0.000276 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | B.1.177.81 | 0.000568 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | B.1.221 | 0.000213 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | B.1.258 | 0.0002 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | B.1.526 | 0.000071 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | B.1.596 | 0.000261 |
ORF7a | 88 | I88I | atC | atT | 1 | 3 | B.1.637 | 0.000073 |
ORF7a | 88 | I88I | atC | atT | 3 | 3 | P.1.14 | 0.000143 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | AY.121 | 0.000271 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | AY.14 | 0.000176 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | AY.24 | 0.000862 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | AY.29.1 | 0.000441 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | AY.39.1 | 0.000079 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | AY.4.4 | 0.000818 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | AY.40 | 0.001929 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | B.1.1.153 | 0.002191 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | B.1.1.189 | 0.003026 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | B.1.1.284 | 0.000215 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | B.1.427 | 0.000101 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | P.1.17.1 | 0.00175 |
ORF7a | 88 | I88I | atC | atT | 2 | 2 | Q.1 | 0.000253 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AU.3 | 0.00211 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.104 | 0.001984 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.105 | 0.000643 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.106 | 0.000335 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.116 | 0.000287 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.120.2.1 | 0.000498 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.16 | 0.00038 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.16.1 | 0.00047 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.28 | 0.00189 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.35 | 0.000233 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.36 | 0.000148 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.41 | 0.000294 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.46.4 | 0.000165 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.5.3 | 0.000337 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.5.4 | 0.000277 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.51 | 0.000909 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.62 | 0.000436 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.63 | 0.000387 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.7 | 0.000196 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.72 | 0.001361 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.8 | 0.000606 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.81 | 0.001992 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.88 | 0.000884 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.89 | 0.004902 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.91 | 0.00073 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.93 | 0.000273 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | AY.98 | 0.000079 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B | 0.000128 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.1 | 0.000327 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.222 | 0.000204 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.243 | 0.004082 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.279 | 0.001121 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.306 | 0.000438 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.318 | 0.000302 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.372 | 0.000689 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.39 | 0.00051 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.1.61 | 0.008772 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.110.1 | 0.1 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.128 | 0.000635 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.177.21 | 0.000076 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.177.23 | 0.003236 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.177.44 | 0.000519 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.177.5 | 0.001242 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.210 | 0.002132 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.232 | 0.000537 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.243 | 0.00007 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.329 | 0.000608 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.362 | 0.001541 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.391 | 0.001127 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.408 | 0.00369 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.438.1 | 0.000107 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.467 | 0.04 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.575 | 0.000303 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.580 | 0.004065 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.609 | 0.000479 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.621.1 | 0.000506 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.1.625 | 0.002353 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.4 | 0.002208 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.4.2 | 0.066667 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | B.6.6 | 0.000889 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | C.36.3 | 0.000567 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | D.2 | 0.000075 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | N.5 | 0.001767 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | P.1.12 | 0.000484 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | P.1.15 | 0.000232 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | P.2 | 0.000187 |
ORF7a | 88 | I88I | atC | atT | 1 | 1 | P.3 | 0.001595 |
ORF7a | 88 | I88I | atC | atT | 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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