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JN.1.11.1 + C5467T got FLiRT (99) and further S:F59S (31) #2583

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FedeGueli opened this issue May 6, 2024 · 7 comments
Closed

JN.1.11.1 + C5467T got FLiRT (99) and further S:F59S (31) #2583

FedeGueli opened this issue May 6, 2024 · 7 comments

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@FedeGueli
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FedeGueli commented May 6, 2024

Former Branch 100 of sars-cov-2-variants/lineage-proposals#1089
( be aware there are two JN.1.11.1 branches with 5467T and FLiRT )

Defining mutations:
JN.1.11.1 > C5467T > S:R346T (G22599C)
Query: C5467T, G22599C,C7113T,-C9857T,T3565C
Samples: 14 from Uk, Taiwan , Singapore, Canada, India, Australia
with an unclear sub branch with S:F59S : Query: T21738C,C5467T,C7113T Samples: 3 (Taiwan,Singapore,Australia)
Samples:
EPI_ISL_19010304, EPI_ISL_19013458, EPI_ISL_19054979,
EPI_ISL_19055640, EPI_ISL_19062567, EPI_ISL_19062641,
EPI_ISL_19066217, EPI_ISL_19071001, EPI_ISL_19088236,
EPI_ISL_19095652, EPI_ISL_19095844

Tree:
Screenshot 2024-05-06 alle 14 52 42
https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_1baf3_8b9380.json?label=id:node_6978268

@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (13 samples, 4 countries) JN.1.11.1 + C5467T got FLiRT (14 samples, 4 countries ) with a sublineage with S:F59S (3) May 7, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (14 samples, 4 countries ) with a sublineage with S:F59S (3) JN.1.11.1 + C5467T got FLiRT (14 samples, 6 countries ) with a sublineage with S:F59S (3) May 7, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (14 samples, 6 countries ) with a sublineage with S:F59S (3) JN.1.11.1 + C5467T got FLiRT (15 samples, 6 countries ) with a sublineage with S:F59S (3) May 13, 2024
@FedeGueli
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15

@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (15 samples, 6 countries ) with a sublineage with S:F59S (3) JN.1.11.1 + C5467T got FLiRT (20 samples, 8 countries ) with a sublineage with S:F59S (3) May 20, 2024
@FedeGueli
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20 now most recent samples coming from Australia and Spain

@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (20 samples, 8 countries ) with a sublineage with S:F59S (3) JN.1.11.1 + C5467T got FLiRT (27 samples, 8 countries ) May 22, 2024
@FedeGueli
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27

@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (27 samples, 8 countries ) JN.1.11.1 + C5467T got FLiRT (45 ) Jun 10, 2024
@FedeGueli
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45 not sure how much it could do likely Nextclade reads it as KP.2 so i m closing it

@FedeGueli FedeGueli closed this as not planned Won't fix, can't repro, duplicate, stale Jun 10, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (45 ) JN.1.11.1 + C5467T got FLiRT (53 ) Jun 14, 2024
@FedeGueli
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53 with recent samples reopening

@FedeGueli FedeGueli reopened this Jun 14, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (53 ) JN.1.11.1 + C5467T got FLiRT (58 ) Jun 17, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (58 ) JN.1.11.1 + C5467T got FLiRT (61 ) Jun 20, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (61 ) JN.1.11.1 + C5467T got FLiRT (66) Jun 24, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (66) JN.1.11.1 + C5467T got FLiRT (73) Jul 1, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (73) JN.1.11.1 + C5467T got FLiRT (86) Jul 13, 2024
@FedeGueli
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86

@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (86) JN.1.11.1 + C5467T got FLiRT (86) and further S:F59S (22) Jul 14, 2024
@FedeGueli FedeGueli changed the title JN.1.11.1 + C5467T got FLiRT (86) and further S:F59S (22) JN.1.11.1 + C5467T got FLiRT (99) and further S:F59S (31) Aug 3, 2024
@FedeGueli
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dying

@FedeGueli FedeGueli closed this as not planned Won't fix, can't repro, duplicate, stale Aug 3, 2024
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