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/nsp14A2-B | 289 | R289H | R6214H | nonsyn | cGt | cAt | 18947 | 18943 | 0.999789 | 18904-18906 |
ORF1ab/nsp14A2-B | 289 | R289H | R6214H | nonsyn | cGT | cAC | 18947 | 4 | 0.000211115 | 18904-18906 |
Details of the mutation R289H 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/nsp14A2-B | 289 | R289H | cGt | cAt | 18943 | 18947 | All | 0.003623 |
ORF1ab/nsp14A2-B | 289 | R289H | cGT | cAC | 4 | 18947 | All | 0.000001 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 8442 | 8442 | B.1.617.2 | 0.031788 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5680 | 5681 | AY.102 | 0.150599 |
ORF1ab/nsp14A2-B | 289 | R289H | cGT | cAC | 1 | 5681 | AY.102 | 0.000027 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 855 | 855 | AY.42 | 0.034397 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 593 | 593 | AY.39 | 0.014654 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 559 | 562 | AY.44 | 0.003402 |
ORF1ab/nsp14A2-B | 289 | R289H | cGT | cAC | 3 | 562 | AY.44 | 0.000018 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 315 | 315 | AY.4 | 0.00049 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 245 | 245 | AY.9.2 | 0.008999 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 237 | 237 | AY.86 | 0.19668 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 204 | 204 | AY.43 | 0.000904 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 129 | 129 | AY.46 | 0.013426 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 110 | 110 | AY.45 | 0.013385 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 88 | 88 | AY.118 | 0.005513 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 82 | 82 | AY.104 | 0.162698 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 80 | 80 | B.1.1.7 | 0.000072 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 74 | 74 | AY.117 | 0.006254 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 60 | 60 | AY.34.1 | 0.030597 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 54 | 54 | AY.103 | 0.000335 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 54 | 54 | AY.5.3 | 0.018219 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 50 | 50 | AY.5 | 0.001032 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 50 | 50 | AY.98 | 0.00395 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 48 | 48 | AY.46.4 | 0.007896 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 48 | 48 | B.1 | 0.00044 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 38 | 38 | AY.75.1 | 0.006852 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 37 | 37 | AY.6 | 0.001522 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 36 | 36 | AY.116 | 0.010324 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 35 | 35 | AY.119 | 0.001236 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 35 | 35 | AY.25 | 0.000211 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 26 | 26 | AY.33 | 0.001736 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 25 | 25 | AY.23 | 0.001744 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 22 | 22 | AY.100 | 0.001012 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 22 | 22 | AY.111 | 0.004029 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 22 | 22 | AY.84 | 0.009624 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 21 | 21 | AY.46.2 | 0.013342 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 20 | 20 | AY.55 | 0.018349 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 18 | 18 | AY.110 | 0.002028 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 18 | 18 | AY.41 | 0.005291 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 18 | 18 | AY.75 | 0.001008 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 17 | 17 | AY.77 | 0.019166 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 17 | 17 | AY.99 | 0.017838 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 17 | 17 | B.1.2 | 0.00015 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 15 | 15 | AY.106 | 0.005023 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 15 | 15 | AY.108 | 0.016538 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 15 | 15 | AY.120 | 0.000558 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 15 | 15 | AY.64 | 0.008929 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 15 | 15 | B.1.221 | 0.001065 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 14 | 14 | AY.105 | 0.009003 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 14 | 14 | AY.3 | 0.000139 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 12 | 12 | AY.47 | 0.000373 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 12 | 12 | AY.92 | 0.003447 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 11 | 11 | AY.5.4 | 0.003044 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 11 | 11 | AY.50 | 0.008793 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 11 | 11 | AY.56 | 0.017657 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 11 | 11 | B.1.1.519 | 0.000437 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 10 | 10 | AY.114 | 0.002311 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 10 | 10 | AY.78 | 0.015408 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 10 | 10 | B.1.177 | 0.000132 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 9 | 9 | AY.46.1 | 0.00924 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 9 | 9 | AY.80 | 0.010158 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 8 | 8 | AY.90 | 0.005476 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 7 | 7 | AY.98.1 | 0.000339 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 6 | 6 | AY.113 | 0.000854 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 6 | 6 | AY.59 | 0.003178 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 6 | 6 | AY.74 | 0.000694 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | AY.120.1 | 0.001605 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | AY.14 | 0.00044 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | AY.20 | 0.000194 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | AY.32 | 0.002662 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | AY.87 | 0.004163 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | AY.89 | 0.02451 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | B.1.1.480 | 0.125 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | B.1.177.65 | 0.003327 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 5 | 5 | B.1.499 | 0.005252 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | AY.11 | 0.005355 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | AY.17 | 0.032787 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | AY.34 | 0.000388 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | AY.36 | 0.000593 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | AY.58 | 0.00363 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | AY.61 | 0.000419 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | AY.88 | 0.003537 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | B.1.526 | 0.000094 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 4 | 4 | P.1 | 0.000063 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.121 | 0.000406 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.19 | 0.003421 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.21 | 0.005693 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.29 | 0.000047 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.40 | 0.002893 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.71 | 0.001425 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.82 | 0.004071 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.85 | 0.001282 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | AY.96 | 0.006224 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.1 | 0.000791 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.109 | 0.001479 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.39.1 | 0.000079 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.4.2.1 | 0.000298 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.46.6 | 0.000144 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.48 | 0.00093 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.52 | 0.001629 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.68 | 0.000547 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.79 | 0.002421 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.93 | 0.000546 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | AY.95 | 0.001522 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | B | 0.000256 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | B.1.1 | 0.000036 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | B.1.1.1 | 0.000653 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 2 | 2 | B.1.627 | 0.00404 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | A.29 | 0.005319 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AD.2 | 0.000219 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.10 | 0.00053 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.107 | 0.000466 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.4.3 | 0.000842 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.4.4 | 0.000409 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.49 | 0.003195 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.57 | 0.000656 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.65 | 0.000533 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.66 | 0.00107 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.67 | 0.000464 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.1.265 | 0.003155 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.1.316 | 0.000925 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.1.354 | 0.004386 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.1.397 | 0.002252 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.396 | 0.000706 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.609 | 0.000479 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.619 | 0.000871 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | B.1.623 | 0.000536 |
ORF1ab/nsp14A2-B | 289 | R289H | cGt | cAt | 1 | 1 | P.1.17 | 0.000162 |
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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