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 | 12 | T12del | del | ACT | --- | 889 | 889 | 1 | 25426-25428 |
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 |
ORF3a | 12 | T12del | ACT | --- | 889 | 889 | All | 0.00017 |
ORF3a | 12 | T12del | ACT | --- | 258 | 258 | B.1.1.7 | 0.000231 |
ORF3a | 12 | T12del | ACT | --- | 114 | 114 | B.1.177 | 0.001501 |
ORF3a | 12 | T12del | ACT | --- | 76 | 76 | AY.4 | 0.000118 |
ORF3a | 12 | T12del | ACT | --- | 27 | 27 | B.1 | 0.000247 |
ORF3a | 12 | T12del | ACT | --- | 25 | 25 | B.1.526 | 0.000588 |
ORF3a | 12 | T12del | ACT | --- | 24 | 24 | AY.8 | 0.014545 |
ORF3a | 12 | T12del | ACT | --- | 22 | 22 | AY.43 | 0.000097 |
ORF3a | 12 | T12del | ACT | --- | 18 | 18 | B.1.617.2 | 0.000068 |
ORF3a | 12 | T12del | ACT | --- | 16 | 16 | B.1.2 | 0.000141 |
ORF3a | 12 | T12del | ACT | --- | 16 | 16 | P.1 | 0.000252 |
ORF3a | 12 | T12del | ACT | --- | 14 | 14 | AY.25 | 0.000084 |
ORF3a | 12 | T12del | ACT | --- | 14 | 14 | AY.44 | 0.000085 |
ORF3a | 12 | T12del | ACT | --- | 13 | 13 | AY.29 | 0.000205 |
ORF3a | 12 | T12del | ACT | --- | 10 | 10 | AY.4.5 | 0.001075 |
ORF3a | 12 | T12del | ACT | --- | 9 | 9 | AY.3 | 0.00009 |
ORF3a | 12 | T12del | ACT | --- | 9 | 9 | B.1.1 | 0.000163 |
ORF3a | 12 | T12del | ACT | --- | 9 | 9 | B.1.234 | 0.001187 |
ORF3a | 12 | T12del | ACT | --- | 7 | 7 | B.1.1.317 | 0.002882 |
ORF3a | 12 | T12del | ACT | --- | 7 | 7 | B.1.540 | 0.067961 |
ORF3a | 12 | T12del | ACT | --- | 6 | 6 | AZ.1 | 0.005204 |
ORF3a | 12 | T12del | ACT | --- | 6 | 6 | B.1.160 | 0.000187 |
ORF3a | 12 | T12del | ACT | --- | 6 | 6 | B.1.177.7 | 0.000989 |
ORF3a | 12 | T12del | ACT | --- | 6 | 6 | B.1.561 | 0.002382 |
ORF3a | 12 | T12del | ACT | --- | 6 | 6 | B.1.609 | 0.002876 |
ORF3a | 12 | T12del | ACT | --- | 5 | 5 | B.1.258 | 0.000333 |
ORF3a | 12 | T12del | ACT | --- | 5 | 5 | B.1.429 | 0.000118 |
ORF3a | 12 | T12del | ACT | --- | 4 | 4 | B.1.1.214 | 0.000222 |
ORF3a | 12 | T12del | ACT | --- | 4 | 4 | B.1.1.222 | 0.000816 |
ORF3a | 12 | T12del | ACT | --- | 4 | 4 | B.1.1.28 | 0.001245 |
ORF3a | 12 | T12del | ACT | --- | 4 | 4 | B.1.177.4 | 0.000844 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.1.133 | 0.025424 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.1.519 | 0.000119 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.126 | 0.003827 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.177.20 | 0.004552 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.177.60 | 0.000655 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.221 | 0.000213 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.36.18 | 0.001261 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.510 | 0.078947 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | B.1.637 | 0.000219 |
ORF3a | 12 | T12del | ACT | --- | 3 | 3 | C.37 | 0.000348 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | AD.2 | 0.000438 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | AY.103 | 0.000012 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | AY.27 | 0.000129 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | AY.47 | 0.000062 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | AY.5 | 0.000041 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | AY.75 | 0.000112 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | AY.90 | 0.001369 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.1.301 | 0.002358 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.177.32 | 0.002699 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.177.83 | 0.002963 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.258.3 | 0.00335 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.427 | 0.000101 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.453 | 0.006472 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.506 | 0.047619 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.525 | 0.000226 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.582 | 0.000981 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | B.1.596 | 0.000174 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | C.36.3 | 0.001134 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | P.1.14 | 0.000096 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | R.1 | 0.00018 |
ORF3a | 12 | T12del | ACT | --- | 2 | 2 | U.3 | 0.007722 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | A.2.5 | 0.000499 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.100 | 0.000046 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.105 | 0.000643 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.111 | 0.000183 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.117 | 0.000085 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.14 | 0.000088 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.19 | 0.00114 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.20 | 0.000039 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.23 | 0.00007 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.26 | 0.000028 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.29.1 | 0.000221 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.3.1 | 0.000085 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.33 | 0.000067 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.35 | 0.000233 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.39 | 0.000025 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.42 | 0.00004 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.5.4 | 0.000277 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.6 | 0.000041 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.60 | 0.000938 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.81 | 0.001992 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.9 | 0.000068 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.9.2 | 0.000037 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.92 | 0.000287 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | AY.99 | 0.001049 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.1 | 0.000327 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.10 | 0.001115 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.220 | 0.001859 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.234 | 0.012048 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.312 | 0.001912 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.37 | 0.000193 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.409 | 0.002833 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.486 | 0.001577 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.1.98 | 0.018519 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.128 | 0.000635 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.142 | 0.002899 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.160.16 | 0.000929 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.160.23 | 0.004831 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.160.32 | 0.004292 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.177.19 | 0.001431 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.177.57 | 0.000281 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.177.58 | 0.001332 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.177.69 | 0.001484 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.177.73 | 0.000566 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.177.76 | 0.002494 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.195 | 0.005025 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.221.1 | 0.002907 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.243 | 0.00007 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.258.17 | 0.000104 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.351 | 0.00003 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.363 | 0.012987 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.375 | 0.00082 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.378 | 0.006849 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.408 | 0.00369 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.409 | 0.000781 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.422 | 0.000812 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.500 | 0.052632 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.577 | 0.000687 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.595 | 0.000261 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.617.1 | 0.000129 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.623 | 0.000536 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.628 | 0.000352 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.1.638 | 0.052632 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.3.1 | 0.001658 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | B.40 | 0.000364 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | C.36 | 0.000911 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | P.1.10 | 0.000269 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | P.1.15 | 0.000232 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | P.1.16 | 0.000374 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | P.1.7 | 0.000319 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | P.2 | 0.000187 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | Q.2 | 0.000613 |
ORF3a | 12 | T12del | ACT | --- | 1 | 1 | Q.4 | 0.000455 |
ORF3a | 12 | T12del | ACT | --- | 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
|