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Designate LZ.1 (S:F456L (T22930A), N:A152T, ORF1a:I740V), LZ.1.1 (S:P…
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…217S, S:N1125S)
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@corneliusroemer
corneliusroemer committed Jun 29, 2024
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4 comments on commit c0e97bd

@FedeGueli
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From #2654

@AngieHinrichs
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@corneliusroemer Some of the designated sequences for LZ.1 have T22928C, not T22930A:

NewZealand/24ZA2942/2024|EPI_ISL_19186728|2024-05-23
NewZealand/24ZA2917/2024|EPI_ISL_19186710|2024-05-22
NewZealand/24ZA2706/2024|EPI_ISL_19187084|2024-05-12
NewZealand/24ZA2408/2024|EPI_ISL_19187283|2024-05-13
Taiwan/CDC-F92608/2024|EPI_ISL_19145817|2024-05-15
Japan/FR021-0490/2024|EPI_ISL_19220316|2024-06-17
Taiwan/CDC-F92676/2024|EPI_ISL_19164437|2024-05-20
Japan/TKYnat17088/2024|EPI_ISL_19201177|2024-05-30
USA/NY-SUNYQB-X9615/2024|EPI_ISL_19205549|2024-05-29
Hubei/HCDC-XY5001/2024|EPI_ISL_19150615|2024-04-24
HongKong/VB24169404/2024|EPI_ISL_19197693|2024-05-24
HongKong/VB24136891/2024|EPI_ISL_19179007|2024-04-30
Australia/VIC-VIDRL-00013881/2024|EPI_ISL_19164254|2024-04-12
Japan/FR021-0435/2024|EPI_ISL_19187516|2024-05-23
Japan/FR012-0171/2024|EPI_ISL_19197865|2024-05-07
HongKong/VB24154520/2024|EPI_ISL_19179014|2024-05-11
USA/CO-CDPHE-41969070/2024|PP967680.1|2024-06-01
USA/CO-CDPHE-41933798/2024|PP921568.1|2024-05-29
England/CLIMB-CM7Y8189/2024|2024-05-20

-- that's a different lineage. They also differ in several other mutations.

@AngieHinrichs
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Here's a taxonium screenshot -- the red circles are designated sequences for LZ.1, and the orange samples have T22928C not T22930A:
image

@FedeGueli
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@FedeGueli FedeGueli commented on c0e97bd Jul 4, 2024 •
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my fault i left in the issue the original query that was then corrected by @aviczhl2 . the query for find samples belonging to LZ.1 is : T22930A, T22321C, T21738C

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