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Repository for suggesting new lineages that should be added to the current scheme
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EG.5.1.1 with S:L455F on C9118T Branch (124 seqs, mainly in Japan, 11 countries) #2341

Closed NkRMnZr closed 3 months ago

NkRMnZr commented 10 months ago

Taken from Branch 17 of multitask sars-cov-2-variants/lineage-proposals#537

Defining Mutations: EG.5.1.1 > C9118T > G22927T(S:L455F) Query: C6541T, C9118T, G22927T, -C25546A Earliest seq: 2023-08-14 (EPI_ISL_18214798, Osaka, Japan) Latest seq: 2023-10-02 (EPI_ISL_18373543, England, UK) Sampled Countries: Japan (37), USA (4: TX/2; NJ; SC), South Korea (2), UK (2: EN), Australia (1: WA), Canada (1: ON), France (1)

Genomes: `EPI_ISL_18162837, EPI_ISL_18166739, EPI_ISL_18214798, EPI_ISL_18214838, EPI_ISL_18226559, EPI_ISL_18235760, EPI_ISL_18236014, EPI_ISL_18242568, EPI_ISL_18243896, EPI_ISL_18247826-18247827, EPI_ISL_18253490, EPI_ISL_18261506, EPI_ISL_18271898, EPI_ISL_18279175, EPI_ISL_18279234, EPI_ISL_18285272, EPI_ISL_18285440, EPI_ISL_18294200, EPI_ISL_18300272, EPI_ISL_18338985, EPI_ISL_18342460, EPI_ISL_18354762, EPI_ISL_18354776, EPI_ISL_18362312, EPI_ISL_18370698, EPI_ISL_18370761, EPI_ISL_18371874, EPI_ISL_18372806, EPI_ISL_18373146, EPI_ISL_18373543, EPI_ISL_18376280, EPI_ISL_18376286, EPI_ISL_18377931, EPI_ISL_18382356, EPI_ISL_18382437, EPI_ISL_18382737, EPI_ISL_18385259, EPI_ISL_18387636, EPI_ISL_18390707, EPI_ISL_18390782, EPI_ISL_18390836, EPI_ISL_18397002, EPI_ISL_18402105, EPI_ISL_18402112, EPI_ISL_18411313, EPI_ISL_18413797, EPI_ISL_18413896`

UShER: https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_1f50e_2e6ab0.json?f_userOrOld=uploaded%20sample&label=id:node_3461917 image

NkRMnZr commented 10 months ago

Tracking updates

23-10-25, 7 seqs from Japan EPI_ISL_18417889, EPI_ISL_18417948, EPI_ISL_18432509, EPI_ISL_18432530, EPI_ISL_18432570, EPI_ISL_18434916, EPI_ISL_18434973 11-06, 13 seqs from Austria, Italy, Japan and USA EPI_ISL_18444014, EPI_ISL_18449255, EPI_ISL_18449500, EPI_ISL_18454161, EPI_ISL_18454451, EPI_ISL_18455451, EPI_ISL_18457318, EPI_ISL_18457394, EPI_ISL_18457680, EPI_ISL_18465877, EPI_ISL_18465900, EPI_ISL_18465932, EPI_ISL_18466218

11-18, 12 seqs from Australia, China (ex. Japan), Japan and South Korea ![image](https://github.com/cov-lineages/pango-designation/assets/125747944/ac858cbc-4208-4724-bf81-3ba7007df4c3) `EPI_ISL_18475251, EPI_ISL_18481176, EPI_ISL_18495936, EPI_ISL_18495939-18495940, EPI_ISL_18496002, EPI_ISL_18496085, EPI_ISL_18496128, EPI_ISL_18499963, EPI_ISL_18499979, EPI_ISL_18502024, EPI_ISL_18510964`
11-26, 8 seqs from Australia, Japan, S. Korea, Netherlands and USA `EPI_ISL_18520802, EPI_ISL_18520921, EPI_ISL_18524633, EPI_ISL_18524994, EPI_ISL_18530155, EPI_ISL_18533618, EPI_ISL_18536230, EPI_ISL_18539769`

12-06, 5 seqs from Japan and USA EPI_ISL_18588797, EPI_ISL_18589801, EPI_ISL_18589803, EPI_ISL_18593216, EPI_ISL_18593268

24-01-13, 28 seqs from Australia, Canada, Japan, S. Korea and USA `EPI_ISL_18597104, EPI_ISL_18615543, EPI_ISL_18623896, EPI_ISL_18623898, EPI_ISL_18624236, EPI_ISL_18624353, EPI_ISL_18624517, EPI_ISL_18642508, EPI_ISL_18645196, EPI_ISL_18646645, EPI_ISL_18650276, EPI_ISL_18650443, EPI_ISL_18651829, EPI_ISL_18654676, EPI_ISL_18655115, EPI_ISL_18656142, EPI_ISL_18659232, EPI_ISL_18663193, EPI_ISL_18666548, EPI_ISL_18666556, EPI_ISL_18666571, EPI_ISL_18687145, EPI_ISL_18687347, EPI_ISL_18693723, EPI_ISL_18711414, EPI_ISL_18720944, EPI_ISL_18733487, EPI_ISL_18738810`
DailyCovidCases commented 3 months ago

Please close this issue