Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

New EG.5.1.1-Flip lineage with insertion on Orf8(104 seqs, 11 countries, 26 seqs with S:G184S) #2434

Closed
xz-keg opened this issue Jan 2, 2024 · 4 comments
Closed

New EG.5.1.1-Flip lineage with insertion on Orf8(104 seqs, 11 countries, 26 seqs with S:G184S) #2434

xz-keg opened this issue Jan 2, 2024 · 4 comments

Comments

@xz-keg
Copy link
Contributor

xz-keg commented Jan 2, 2024

From sars-cov-2-variants/lineage-proposals#1186

EG.5.1.1->T14988C, A23014T->C1471T->C12823T->G25459T,G22927T(Orf3a:A23S,S:L455F), ins28214T or TT or TTT

GISAID query: C12823,G25459, C1471,C29625T
No. of seqs: 80(Denmark 2 UK 1 Finland 28 France 4 Lithuania 29 Netherlands 3 Poland 2 Sweden 9 USA 1)

First: EPI_ISL_18393737,Lithuania, 2023-9-6
Latest: EPI_ISL_18659915, Sweden, 2023-12-15

GISAID query for S:G184S sub-branch: C12823T,G22112,G25459,16456 (19 seqs)

Most of the seqs has insertion on 28214(Orf8:107), however the insertion pattern seems complex. Some has ins28214T, some has ins28214TT, some has ins28214TTT or more Ts. Every insertion seqs are distributed all over the branch.
I guess they shall have the same insertion but due to some artefact it is sequenced as various forms.

usher

image
@xz-keg xz-keg changed the title New EG.5.1.1-Flip lineage with insertion on Orf8(80 seqs, 9 countries, 19 seqs with S:G184S) New EG.5.1.1-Flip lineage with insertion on Orf8(83 seqs, 9 countries, 19 seqs with S:G184S) Jan 6, 2024
@xz-keg
Copy link
Contributor Author

xz-keg commented Jan 18, 2024

+1 Japan

@xz-keg xz-keg changed the title New EG.5.1.1-Flip lineage with insertion on Orf8(83 seqs, 9 countries, 19 seqs with S:G184S) New EG.5.1.1-Flip lineage with insertion on Orf8(84 seqs, 10 countries, 19 seqs with S:G184S) Jan 18, 2024
@NkRMnZr NkRMnZr mentioned this issue Jan 21, 2024
Closed
@xz-keg xz-keg changed the title New EG.5.1.1-Flip lineage with insertion on Orf8(84 seqs, 10 countries, 19 seqs with S:G184S) New EG.5.1.1-Flip lineage with insertion on Orf8(95 seqs, 10 countries, 24 seqs with S:G184S) Jan 22, 2024
@FedeGueli
Copy link
Contributor

97, 0 from January

@xz-keg
Copy link
Contributor Author

xz-keg commented Jan 29, 2024

New country of Switzerland

@xz-keg xz-keg changed the title New EG.5.1.1-Flip lineage with insertion on Orf8(95 seqs, 10 countries, 24 seqs with S:G184S) New EG.5.1.1-Flip lineage with insertion on Orf8(97 seqs, 11 countries, 24 seqs with S:G184S) Jan 29, 2024
@xz-keg xz-keg changed the title New EG.5.1.1-Flip lineage with insertion on Orf8(97 seqs, 11 countries, 24 seqs with S:G184S) New EG.5.1.1-Flip lineage with insertion on Orf8(98 seqs, 11 countries, 24 seqs with S:G184S) Feb 14, 2024
@xz-keg xz-keg changed the title New EG.5.1.1-Flip lineage with insertion on Orf8(98 seqs, 11 countries, 24 seqs with S:G184S) New EG.5.1.1-Flip lineage with insertion on Orf8(104 seqs, 11 countries, 26 seqs with S:G184S) Feb 18, 2024
@xz-keg
Copy link
Contributor Author

xz-keg commented Mar 7, 2024

No new seqs

@xz-keg xz-keg closed this as not planned Won't fix, can't repro, duplicate, stale Mar 7, 2024
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@xz-keg @FedeGueli