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/nsp4 | 94 | V94A | V2857A | nonsyn | gTc | gCc | 73321 | 73320 | 0.999986 | 8834-8836 |
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/nsp4 | 94 | V94A | gTc | gCc | 73320 | 73321 | All | 0.014023 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 44313 | 44313 | AY.4 | 0.06897 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 9302 | 9302 | AY.4.2 | 0.201748 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 4904 | 4904 | B.1.617.2 | 0.018466 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3372 | 3372 | AY.43 | 0.01494 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2598 | 2598 | AY.5 | 0.053647 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1625 | 1625 | AY.120 | 0.060416 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1575 | 1575 | AY.4.2.1 | 0.234654 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1119 | 1119 | AY.6 | 0.046023 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 612 | 612 | AY.46.5 | 0.121429 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 568 | 568 | AY.111 | 0.104029 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 311 | 311 | AY.34 | 0.030156 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 310 | 310 | AY.98 | 0.024489 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 300 | 300 | AY.36 | 0.044464 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 210 | 210 | AY.9.2 | 0.007713 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 160 | 160 | AY.3 | 0.001591 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 127 | 127 | AY.98.1 | 0.006151 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 116 | 116 | AY.42 | 0.004667 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 101 | 101 | AY.7 | 0.019796 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 98 | 98 | AY.25 | 0.000589 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 98 | 98 | AY.9 | 0.006624 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 97 | 97 | AY.109 | 0.071746 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 93 | 93 | AY.4.5 | 0.009997 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 89 | 89 | AY.90 | 0.060917 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 73 | 73 | AY.103 | 0.000453 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 69 | 69 | AY.44 | 0.00042 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 65 | 65 | AY.39 | 0.001606 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 64 | 64 | AY.46.6 | 0.004621 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 62 | 62 | AY.46.4 | 0.010199 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 58 | 58 | AY.33 | 0.003873 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 51 | 51 | AY.79 | 0.061743 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 45 | 45 | AY.4.1 | 0.033186 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 40 | 40 | AY.75 | 0.002241 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 35 | 35 | AY.5.3 | 0.011808 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 30 | 30 | AY.46 | 0.003122 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 26 | 26 | AY.47 | 0.000809 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 25 | 25 | AY.87 | 0.020816 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 25 | 25 | B.1.1.7 | 0.000022 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 24 | 24 | AY.108 | 0.026461 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 23 | 23 | B.1.160 | 0.000717 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 22 | 22 | AY.41 | 0.006467 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 22 | 22 | AY.73 | 0.014637 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 21 | 21 | AY.9.1 | 0.001758 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 20 | 20 | AY.121 | 0.002706 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 20 | 20 | AY.5.4 | 0.005534 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 17 | 17 | AY.120.1 | 0.005457 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 16 | 16 | AY.46.3 | 0.014939 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 15 | 15 | AY.4.4 | 0.006137 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 15 | 15 | AY.91 | 0.010957 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 14 | 14 | AY.110 | 0.001578 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 13 | 13 | AY.102 | 0.000345 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 13 | 13 | AY.106 | 0.004354 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 12 | 12 | AY.60 | 0.011257 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 11 | 11 | AY.118 | 0.000689 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 11 | 11 | AY.54 | 0.001049 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 11 | 11 | AY.94 | 0.004869 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 10 | 10 | AY.97 | 0.017007 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 10 | 10 | B.1 | 0.000092 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 9 | 9 | AY.105 | 0.005788 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 9 | 9 | AY.20 | 0.00035 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 9 | 9 | AY.23 | 0.000628 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 9 | 9 | AY.46.2 | 0.005718 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 8 | 8 | AY.7.1 | 0.000902 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 8 | 8 | AY.88 | 0.007073 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 8 | 8 | B.1.2 | 0.00007 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 7 | 7 | AY.99 | 0.007345 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 6 | 6 | AY.114 | 0.001387 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 6 | 6 | AY.4.3 | 0.005051 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 6 | 6 | AY.67 | 0.002786 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 6 | 6 | AY.68 | 0.001642 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 5 | 5 | AY.104 | 0.009921 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 4 | 4 | AY.119 | 0.000141 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 4 | 4 | AY.48 | 0.00186 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 4 | 4 | AY.92 | 0.001149 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 4 | 4 | C.30 | 0.006908 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 4 | 4 | P.1 | 0.000063 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.113 | 0.000427 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.116.1 | 0.000934 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.13 | 0.000483 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.39.1 | 0.000119 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.61 | 0.000314 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.7.2 | 0.001678 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.70 | 0.000626 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.71 | 0.001425 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.74 | 0.000347 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.85 | 0.001282 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 3 | 3 | AY.89 | 0.014706 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.107 | 0.000932 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.116 | 0.000574 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.117 | 0.000169 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.14 | 0.000176 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.27 | 0.000129 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.45 | 0.000243 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.46.1 | 0.002053 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.63 | 0.000774 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.77 | 0.002255 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.8 | 0.001212 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AY.86 | 0.00166 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | AZ.5 | 0.007018 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | B.1.1 | 0.000036 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | B.1.628 | 0.000705 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | P.1.12 | 0.000968 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 2 | 2 | Q.7 | 0.002222 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.120.2 | 0.001285 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.21 | 0.001898 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.22 | 0.002092 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.23.1 | 0.000417 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.39.2 | 0.001541 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.40 | 0.000964 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.50 | 0.000799 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.56 | 0.001605 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.64 | 0.000595 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.65 | 0.000533 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.66 | 0.00107 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.72 | 0.001361 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.78 | 0.001541 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | AY.82 | 0.001357 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.1.269 | 0.001353 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.1.362 | 0.005618 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.363 | 0.012987 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.398 | 0.002976 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.524 | 0.001406 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.567 | 0.003333 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.612 | 0.002653 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | B.6.6 | 0.000889 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | P.1.7 | 0.000319 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | Q.3 | 0.000145 |
ORF1ab/nsp4 | 94 | V94A | gTc | gCc | 1 | 1 | R.1 | 0.00009 |
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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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