CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF1ab/nsp15A1-B : CodonNum = 311
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/nsp15A1-B | 311 | L311L | L6763L | syn | ttA | ttG | 947 | 897 | 0.947202 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311L | L6763L | syn | Tta | Cta | 947 | 50 | 0.0527983 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311del | L6763del | del | TTA | --- | 51 | 51 | 1 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311I | L6763I | nonsyn | TtA | AtT | 35 | 24 | 0.685714 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311I | L6763I | nonsyn | Tta | Ata | 35 | 11 | 0.314286 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311S | L6763S | nonsyn | tTa | tCa | 14 | 14 | 1 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311X | L6763X | nonsyn | tTa | tGa | 7 | 5 | 0.714286 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311X | L6763X | nonsyn | tTA | tAG | 7 | 1 | 0.142857 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311X | L6763X | nonsyn | tTa | tAa | 7 | 1 | 0.142857 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311F | L6763F | nonsyn | ttA | ttT | 6 | 5 | 0.833333 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311F | L6763F | nonsyn | ttA | ttC | 6 | 1 | 0.166667 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311V | L6763V | nonsyn | Tta | Gta | 3 | 2 | 0.666667 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311del1 | L6763del1 | del | TtA | -tG | 3 | 2 | 0.666667 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311del1 | L6763del1 | del | ttA | tt- | 3 | 1 | 0.333333 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311V | L6763V | nonsyn | TtA | GtG | 3 | 1 | 0.333333 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311del2 | L6763del2 | del | TTa | --a | 1 | 1 | 1 | 20551-20553 |
| ORF1ab/nsp15A1-B | 311 | L311K | L6763K | nonsyn | TTa | AAa | 1 | 1 | 1 | 20551-20553 |
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/nsp15A1-B | 311 | L311L | ttA | ttG | 897 | 947 | All | 0.000172 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 50 | 947 | All | 0.00001 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 459 | 467 | B.1.1.7 | 0.000411 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 8 | 467 | B.1.1.7 | 0.000007 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 135 | 137 | AY.4 | 0.00021 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 2 | 137 | AY.4 | 0.000003 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 89 | 89 | B.1.507 | 1 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 51 | 51 | All | 0.00001 |
| ORF1ab/nsp15A1-B | 311 | L311I | TtA | AtT | 24 | 35 | All | 0.000005 |
| ORF1ab/nsp15A1-B | 311 | L311I | Tta | Ata | 11 | 35 | All | 0.000002 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 30 | 30 | AY.120.2.1 | 0.014948 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 23 | 23 | B.1.617.2 | 0.000087 |
| ORF1ab/nsp15A1-B | 311 | L311I | TtA | AtT | 20 | 20 | B.1.1.7 | 0.000018 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 17 | 17 | B.1 | 0.000156 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 14 | 14 | All | 0.000003 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 14 | 14 | B.1.1.7 | 0.000013 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 13 | 14 | B.1.2 | 0.000114 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 1 | 14 | B.1.2 | 0.000009 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 11 | 12 | AY.25 | 0.000066 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 1 | 12 | AY.25 | 0.000006 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 10 | 10 | AY.102 | 0.000265 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 10 | 10 | AY.3 | 0.000099 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 9 | 10 | AY.4.2 | 0.000195 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 1 | 10 | AY.4.2 | 0.000022 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 10 | 10 | AY.6 | 0.000411 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 6 | 8 | P.1 | 0.000095 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 2 | 8 | P.1 | 0.000032 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTa | tGa | 5 | 7 | All | 0.000001 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTA | tAG | 1 | 7 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTa | tAa | 1 | 7 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 7 | 7 | AY.42 | 0.000282 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 7 | 7 | AY.43 | 0.000031 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 7 | 7 | AY.44 | 0.000043 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 7 | 7 | B.1.637 | 0.000512 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 6 | 6 | 0.333333 | |
| ORF1ab/nsp15A1-B | 311 | L311F | ttA | ttT | 5 | 6 | All | 0.000001 |
| ORF1ab/nsp15A1-B | 311 | L311F | ttA | ttC | 1 | 6 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 5 | 6 | AY.103 | 0.000031 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 1 | 6 | AY.103 | 0.000006 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 6 | 6 | B.1.526 | 0.000141 |
| ORF1ab/nsp15A1-B | 311 | L311I | Tta | Ata | 5 | 5 | B.1.617.2 | 0.000019 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 5 | 5 | P.1.15 | 0.001162 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 4 | 4 | B.1.1.28 | 0.001245 |
| ORF1ab/nsp15A1-B | 311 | L311del1 | TtA | -tG | 2 | 3 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311V | Tta | Gta | 2 | 3 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311V | TtA | GtG | 1 | 3 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311del1 | ttA | tt- | 1 | 3 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 3 | 3 | AY.120 | 0.000112 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 3 | 3 | AY.39 | 0.000074 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 3 | 3 | AY.9 | 0.000203 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 3 | 3 | AY.9.1 | 0.000251 |
| ORF1ab/nsp15A1-B | 311 | L311F | ttA | ttT | 2 | 3 | B.1.1.7 | 0.000002 |
| ORF1ab/nsp15A1-B | 311 | L311F | ttA | ttC | 1 | 3 | B.1.1.7 | 0.000001 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 3 | 3 | B.1.177.7 | 0.000495 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 3 | 3 | B.1.429 | 0.000071 |
| ORF1ab/nsp15A1-B | 311 | L311I | TtA | AtT | 3 | 3 | B.1.621 | 0.000266 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 3 | 3 | D.2 | 0.000225 |
| ORF1ab/nsp15A1-B | 311 | L311del1 | TtA | -tG | 2 | 2 | 0.111111 | |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 2 | 2 | AY.100 | 0.000092 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 2 | 2 | AY.20 | 0.000078 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 2 | 2 | AY.26 | 0.000057 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 2 | 2 | AY.4 | 0.000003 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 2 | 2 | AY.4 | 0.000003 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 2 | 2 | AY.4.5 | 0.000215 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 2 | 2 | AY.46 | 0.000208 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 2 | 2 | B.1.1 | 0.000036 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 2 | 2 | B.1.1.70 | 0.000682 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 2 | 2 | B.1.2 | 0.000018 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 2 | 2 | B.1.258 | 0.000133 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTa | tGa | 2 | 2 | B.1.617.2 | 0.000008 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | A | 0.000387 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | A.2 | 0.000662 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | A.2.2 | 0.001689 |
| ORF1ab/nsp15A1-B | 311 | L311K | TTa | AAa | 1 | 1 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311del2 | TTa | --a | 1 | 1 | All | 0 |
| ORF1ab/nsp15A1-B | 311 | L311I | Tta | Ata | 1 | 1 | AY.100 | 0.000046 |
| ORF1ab/nsp15A1-B | 311 | L311I | Tta | Ata | 1 | 1 | AY.103 | 0.000006 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTa | tGa | 1 | 1 | AY.103 | 0.000006 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.114 | 0.000231 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | AY.120.1 | 0.000321 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.29.1 | 0.000221 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | AY.3 | 0.00001 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 1 | 1 | AY.30 | 0.000396 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | AY.36 | 0.000148 |
| ORF1ab/nsp15A1-B | 311 | L311I | Tta | Ata | 1 | 1 | AY.4 | 0.000002 |
| ORF1ab/nsp15A1-B | 311 | L311del2 | TTa | --a | 1 | 1 | AY.4 | 0.000002 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.40 | 0.000964 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | AY.43 | 0.000004 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTA | tAG | 1 | 1 | AY.44 | 0.000006 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | AY.44 | 0.000006 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.45 | 0.000122 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.47 | 0.000031 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | AY.5 | 0.000021 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.5.3 | 0.000337 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.61 | 0.000105 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.75 | 0.000056 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.92 | 0.000287 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.98 | 0.000079 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.98.1 | 0.000048 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | AY.99 | 0.001049 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | B.1 | 0.000009 |
| ORF1ab/nsp15A1-B | 311 | L311F | ttA | ttT | 1 | 1 | B.1 | 0.000009 |
| ORF1ab/nsp15A1-B | 311 | L311I | Tta | Ata | 1 | 1 | B.1.1 | 0.000018 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTa | tAa | 1 | 1 | B.1.1 | 0.000018 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.1.159 | 0.004673 |
| ORF1ab/nsp15A1-B | 311 | L311I | Tta | Ata | 1 | 1 | B.1.1.176 | 0.000439 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.1.311 | 0.000358 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.1.432 | 0.001266 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTa | tGa | 1 | 1 | B.1.1.7 | 0.000001 |
| ORF1ab/nsp15A1-B | 311 | L311del1 | ttA | tt- | 1 | 1 | B.1.1.7 | 0.000001 |
| ORF1ab/nsp15A1-B | 311 | L311K | TTa | AAa | 1 | 1 | B.1.1.7 | 0.000001 |
| ORF1ab/nsp15A1-B | 311 | L311V | Tta | Gta | 1 | 1 | B.1.1.7 | 0.000001 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | B.1.1.89 | 0.006061 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.160.7 | 0.002079 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | B.1.177 | 0.000013 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.177 | 0.000013 |
| ORF1ab/nsp15A1-B | 311 | L311F | ttA | ttT | 1 | 1 | B.1.177 | 0.000013 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.177 | 0.000013 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.177.18 | 0.00116 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.177.4 | 0.000211 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.177.69 | 0.001484 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.177.83 | 0.001481 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.23 | 0.006061 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | B.1.232 | 0.000537 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.234 | 0.000132 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | B.1.234 | 0.000132 |
| ORF1ab/nsp15A1-B | 311 | L311V | Tta | Gta | 1 | 1 | B.1.236 | 0.002053 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.243 | 0.00007 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 1 | 1 | B.1.258.17 | 0.000104 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 1 | 1 | B.1.311 | 0.000275 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.349 | 0.000715 |
| ORF1ab/nsp15A1-B | 311 | L311I | TtA | AtT | 1 | 1 | B.1.351 | 0.00003 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.36.29 | 0.000517 |
| ORF1ab/nsp15A1-B | 311 | L311L | Tta | Cta | 1 | 1 | B.1.389 | 0.001002 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | B.1.396 | 0.000706 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.409 | 0.000781 |
| ORF1ab/nsp15A1-B | 311 | L311I | Tta | Ata | 1 | 1 | B.1.429 | 0.000024 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.517 | 0.000427 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.526 | 0.000024 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.596 | 0.000087 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.617.2 | 0.000004 |
| ORF1ab/nsp15A1-B | 311 | L311V | TtA | GtG | 1 | 1 | B.1.617.2 | 0.000004 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.1.620 | 0.000946 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.621 | 0.000089 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.623 | 0.000536 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.639 | 0.021739 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.1.9.4 | 0.006135 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | B.34 | 0.013699 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | B.6.4 | 0.045455 |
| ORF1ab/nsp15A1-B | 311 | L311F | ttA | ttT | 1 | 1 | C.36.3 | 0.000567 |
| ORF1ab/nsp15A1-B | 311 | L311S | tTa | tCa | 1 | 1 | P.1.14 | 0.000048 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | P.1.15 | 0.000232 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | P.1.7 | 0.000319 |
| ORF1ab/nsp15A1-B | 311 | L311X | tTa | tGa | 1 | 1 | P.2 | 0.000187 |
| ORF1ab/nsp15A1-B | 311 | L311L | ttA | ttG | 1 | 1 | Q.1 | 0.000126 |
| ORF1ab/nsp15A1-B | 311 | L311del | TTA | --- | 1 | 1 | Q.8 | 0.000165 |
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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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