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/nsp13 | 250 | T250T | T5574T | syn | acT | acC | 15782 | 15682 | 0.993664 | 16984-16986 |
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/nsp13 | 250 | T250T | acT | acC | 15682 | 15782 | All | 0.002999 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 14520 | 14521 | AY.3 | 0.144422 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 427 | 428 | AY.47 | 0.013282 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 140 | 142 | B.1.617.2 | 0.000527 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 72 | 72 | AY.25 | 0.000433 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 69 | 69 | AY.117 | 0.005832 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 49 | B.1.1.7 | 0.000003 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 41 | 41 | AY.102 | 0.001087 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 34 | 34 | AY.119 | 0.0012 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 33 | 33 | AY.44 | 0.000201 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 32 | 32 | AY.92 | 0.009193 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 30 | 30 | AY.42 | 0.001207 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 26 | 26 | AY.84 | 0.011374 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 22 | 23 | AY.43 | 0.000097 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 6 | 16 | AY.4 | 0.000009 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 15 | 15 | AY.46.6 | 0.001083 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 13 | 13 | AY.73 | 0.008649 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 12 | 12 | AY.23 | 0.000837 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 12 | AY.26 | 0.000057 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 12 | 12 | AY.46 | 0.001249 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 10 | 12 | AY.5 | 0.000206 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 11 | 11 | AY.39 | 0.000272 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 10 | 10 | AY.45 | 0.001217 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 9 | 9 | AY.95 | 0.006849 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 5 | 9 | B.1.526 | 0.000118 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 8 | B.1 | 0.000018 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 6 | 6 | AY.113 | 0.000854 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 6 | 6 | B.1.177.51 | 0.027397 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 5 | 5 | AY.103 | 0.000031 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 5 | 5 | AY.110 | 0.000563 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 5 | 5 | AY.29 | 0.000079 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 5 | 5 | AY.5.3 | 0.001687 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 5 | 5 | B.1.1.70 | 0.001705 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 4 | 4 | AY.105 | 0.002572 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 4 | 4 | AY.109 | 0.002959 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 4 | 4 | AY.62 | 0.001743 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 4 | 4 | B | 0.000511 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | AY.100 | 0.000138 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | AY.106 | 0.001005 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | AY.39.1 | 0.000119 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | AY.41 | 0.000882 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | AY.79 | 0.003632 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | AY.82 | 0.004071 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | AY.9 | 0.000203 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | AY.96 | 0.006224 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 3 | 3 | B.1.427 | 0.000151 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | AY.116 | 0.000574 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | AY.120.1 | 0.000642 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 2 | AY.32 | 0.000532 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | AY.33 | 0.000134 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | AY.65 | 0.001066 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | AY.9.2 | 0.000073 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | AY.93 | 0.000546 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | AY.99.2 | 0.000184 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 2 | B.1.1 | 0.000018 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | B.1.258.3 | 0.00335 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 2 | 2 | P.1.7 | 0.000639 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | 0.055556 | |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.23.1 | 0.000417 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.56 | 0.001605 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.58 | 0.000907 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.71 | 0.000475 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.88 | 0.000884 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.90 | 0.000684 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | B.1.474 | 0.001901 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | B.1.565 | 0.00081 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | P.1 | 0.000016 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp13 | 250 | T250T | acT | acC | 1 | 1 | Q.1 | 0.000126 |
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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