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/nsp1 | 85 | M85del1 | M85del1 | del | Atg | -tg | 1106 | 1058 | 0.9566 | 518-520 |
ORF1ab/nsp1 | 85 | M85del1 | M85del1 | del | ATG | -NN | 1106 | 24 | 0.0216998 | 518-520 |
ORF1ab/nsp1 | 85 | M85del1 | M85del1 | del | AtG | -tN | 1106 | 11 | 0.00994575 | 518-520 |
ORF1ab/nsp1 | 85 | M85del1 | M85del1 | del | atG | at- | 1106 | 7 | 0.00632911 | 518-520 |
ORF1ab/nsp1 | 85 | M85del1 | M85del1 | del | AtG | -tT | 1106 | 2 | 0.00180832 | 518-520 |
ORF1ab/nsp1 | 85 | M85del1 | M85del1 | del | aTG | a-N | 1106 | 2 | 0.00180832 | 518-520 |
ORF1ab/nsp1 | 85 | M85del1 | M85del1 | del | ATg | -Ng | 1106 | 1 | 0.000904159 | 518-520 |
ORF1ab/nsp1 | 85 | M85del1 | M85del1 | del | aTg | a-g | 1106 | 1 | 0.000904159 | 518-520 |
Details of the mutation M85del1 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/nsp1 | 85 | M85del1 | Atg | -tg | 1058 | 1106 | All | 0.000202 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 24 | 1106 | All | 0.000005 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 11 | 1106 | All | 0.000002 |
ORF1ab/nsp1 | 85 | M85del1 | atG | at- | 7 | 1106 | All | 0.000001 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tT | 2 | 1106 | All | 0 |
ORF1ab/nsp1 | 85 | M85del1 | aTG | a-N | 2 | 1106 | All | 0 |
ORF1ab/nsp1 | 85 | M85del1 | aTg | a-g | 1 | 1106 | All | 0 |
ORF1ab/nsp1 | 85 | M85del1 | ATg | -Ng | 1 | 1106 | All | 0 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 189 | 189 | AY.44 | 0.00115 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 182 | 184 | AY.103 | 0.00113 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 184 | AY.103 | 0.000006 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 1 | 184 | AY.103 | 0.000006 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 134 | 135 | AY.25 | 0.000806 |
ORF1ab/nsp1 | 85 | M85del1 | atG | at- | 1 | 135 | AY.25 | 0.000006 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 126 | 131 | B.1.617.2 | 0.000474 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 2 | 131 | B.1.617.2 | 0.000008 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 2 | 131 | B.1.617.2 | 0.000008 |
ORF1ab/nsp1 | 85 | M85del1 | atG | at- | 1 | 131 | B.1.617.2 | 0.000004 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 75 | 77 | AY.3 | 0.000746 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 77 | AY.3 | 0.00001 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 1 | 77 | AY.3 | 0.00001 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 51 | 52 | AY.26 | 0.001444 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 1 | 52 | AY.26 | 0.000028 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 28 | 28 | AY.20 | 0.001088 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 27 | 27 | AY.75 | 0.001513 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 23 | 23 | AY.47 | 0.000715 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 21 | 21 | AY.119 | 0.000741 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 19 | 20 | AY.14 | 0.001672 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 1 | 20 | AY.14 | 0.000088 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 19 | 20 | AY.39 | 0.00047 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 20 | AY.39 | 0.000025 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 18 | 19 | B.1.1.7 | 0.000016 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 19 | B.1.1.7 | 0.000001 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 6 | 16 | AY.4 | 0.000009 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 4 | 16 | AY.4 | 0.000006 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 3 | 16 | AY.4 | 0.000005 |
ORF1ab/nsp1 | 85 | M85del1 | atG | at- | 1 | 16 | AY.4 | 0.000002 |
ORF1ab/nsp1 | 85 | M85del1 | ATg | -Ng | 1 | 16 | AY.4 | 0.000002 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tT | 1 | 16 | AY.4 | 0.000002 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 12 | 12 | AY.118 | 0.000752 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 9 | 12 | AY.43 | 0.00004 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 3 | 12 | AY.43 | 0.000013 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 11 | 11 | AY.117 | 0.00093 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 9 | 9 | AY.116.1 | 0.002803 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 8 | 8 | AY.3.1 | 0.000682 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 6 | 7 | AY.13 | 0.000966 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 1 | 7 | AY.13 | 0.000161 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 6 | 7 | AY.39.1 | 0.000238 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 7 | AY.39.1 | 0.00004 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 6 | 6 | AY.113 | 0.000854 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 5 | 6 | AY.5 | 0.000103 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 6 | AY.5 | 0.000021 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 5 | 6 | B.1.2 | 0.000044 |
ORF1ab/nsp1 | 85 | M85del1 | aTg | a-g | 1 | 6 | B.1.2 | 0.000009 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 5 | 5 | B.1.429 | 0.000118 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 4 | 4 | AY.107 | 0.001864 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 4 | 4 | AY.2 | 0.001425 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 4 | 4 | AY.34 | 0.000388 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 2 | 3 | AY.35 | 0.000466 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tN | 1 | 3 | AY.35 | 0.000233 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 3 | 3 | AY.48 | 0.001395 |
ORF1ab/nsp1 | 85 | M85del1 | atG | at- | 1 | 3 | B.1 | 0.000009 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 3 | B.1 | 0.000009 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 3 | B.1 | 0.000009 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 2 | 2 | AY.1 | 0.000791 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 2 | 2 | AY.114 | 0.000462 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 2 | AY.33 | 0.000067 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 2 | AY.33 | 0.000067 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 2 | 2 | AY.77 | 0.002255 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 2 | 2 | B.1.147 | 0.001512 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 2 | 2 | B.1.623 | 0.001073 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | A.2.5 | 0.000499 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp1 | 85 | M85del1 | aTG | a-N | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.56 | 0.001605 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.64 | 0.000595 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.86 | 0.00083 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | AY.95 | 0.000761 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 1 | B | 0.000128 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | B.1.1.176 | 0.000439 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 1 | B.1.1.198 | 0.001468 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp1 | 85 | M85del1 | atG | at- | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | B.1.105 | 0.009615 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp1 | 85 | M85del1 | aTG | a-N | 1 | 1 | B.1.177.16 | 0.000664 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | B.1.177.83 | 0.001481 |
ORF1ab/nsp1 | 85 | M85del1 | atG | at- | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp1 | 85 | M85del1 | ATG | -NN | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp1 | 85 | M85del1 | atG | at- | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | B.1.580 | 0.004065 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | P.1.10 | 0.000269 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp1 | 85 | M85del1 | AtG | -tT | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp1 | 85 | M85del1 | Atg | -tg | 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
|