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Issues: sars-cov-2-variants/lineage-proposals
Issue to Register Singlet Recombinants that shall be not be r...
#1675
opened Jul 3, 2024 by
aviczhl2
Open
34
Rules for proposals transfer to main page Pango repo or from ...
#1833
opened Aug 5, 2024 by
FedeGueli
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KP.3.1.1 with S:D80Y on T25207C reversion branch (19 seqs, Canada)
DeFLuQE
S:S31-+S:F456L+S:Q493E
Reversions
S:80
S:440
S:500
#2019
opened Sep 12, 2024 by
NkRMnZr
JN.1.67.1+S:I794T(16 seqs, Northeastern China)
Emerged in an undersampled area
Actual infection toll may be much larger than number of sequences suggest
S:456
S:794
#2018
opened Sep 12, 2024 by
aviczhl2
KS.1.1/KP.3 recombinant (2 seqs, Puerto Rico)
FLiRT
FLiRT is an Acronym for S:R346T + S:F456L
FLuQE
S:F456L+S:Q493E
recombinant
S:22
S:59
S:1104
#2017
opened Sep 12, 2024 by
aviczhl2
KP.2.6+S:T385I (12 seqs, 5 countries)
DeFLiRT
S:S31/F32-+S:R346T+S:F456L
S:64
s:385
#2016
opened Sep 12, 2024 by
aviczhl2
KP.3.1.1 + S:I101T, S:A376N (2-nuc), ORF1a:K2200R, ORF1a:K3353R, ORF1b:Y113H [2 seq, USA, Denmark]
2nuc mutation
DeFLuQE
S:S31-+S:F456L+S:Q493E
N Glycan
S:101
S:376
Usher
Issues with usher related problems
#2015
opened Sep 11, 2024 by
ryhisner
XDY + S:A435S, S:A1174T, N:R36Q, ORF7a:P34L, ORF9b:D33G (3 with S:T572I) [6 seq, 4 countries]
DeFLuQE
S:S31-+S:F456L+S:Q493E
Rapid review needed
S:190
S:435
S:572
S:1174
#2014
opened Sep 11, 2024 by
ryhisner
KP.1.1.1 subbranch with S:del257-260 on Orf1a:S2488F branch(29 seqs, 4 countries)
Apparently slow
It means that a lineage is accumulating sequences slowly not that it is intrinsically slow.
Deletions/Truncations/Frameshifted
Lineage showing any deletions or stop codons or TRS changes.
KP.1.1.1
S:257
#2013
opened Sep 10, 2024 by
Over-There-Is
KP.1.1.3 subbranch with S:T>K478R, Orf1a:L1249F, D2026N, Orf1b:S442N and Orf6:L35F(CA-ON 28)
DeFLiRT
S:S31/F32-+S:R346T+S:F456L
KP.1.1
S:478
Small clusters ??
This label identifies lineages with very few sequences,allowing to track them for a couple of weeks
#2012
opened Sep 10, 2024 by
Over-There-Is
KP.2.3 subbranch with Orf9b:P>S10F, Orf1a:Q884E, Q1201K and Orf3a:F105L(CA-ON 18)
ORF9b
Small clusters ??
This label identifies lineages with very few sequences,allowing to track them for a couple of weeks
#2011
opened Sep 10, 2024 by
Over-There-Is
LF.7 subbranch with S:K529N and Orf1a:R1225I (NG 2 via US-VA)
LF.7
N Glycan
S:529
Singlet
One only sample.
#2010
opened Sep 10, 2024 by
Over-There-Is
LB.1 subbranch with S:M731I (32, CA 23, US 9) and further Orf3d:Q22*(CA-ON 22) on Orf1b:R276C, Orf3a:A33S branch
LB.1
S:731
Small clusters ??
This label identifies lineages with very few sequences,allowing to track them for a couple of weeks
#2009
opened Sep 10, 2024 by
Over-There-Is
LB.1.3 subbranch with Orf10:Q29*(CA-ON 40)
DeFLiRT
S:S31/F32-+S:R346T+S:F456L
Orf:10
S:183
Small clusters ??
This label identifies lineages with very few sequences,allowing to track them for a couple of weeks
#2008
opened Sep 10, 2024 by
Over-There-Is
MB.1.1 subbranch with S:P809S(6 sequences, IT 5, US 1)
FViRT
S:F456V+S:R346T
MB.1.1
S:22
S:31
s:182
S:809
#2007
opened Sep 10, 2024 by
Over-There-Is
KP.2.3 subbranch with S:H1101Y (US 48, 7 states)
KP.2.3
S:1101
Small clusters ??
This label identifies lineages with very few sequences,allowing to track them for a couple of weeks
#2006
opened Sep 10, 2024 by
Over-There-Is
LB.1.7.2 subbranch with S:T208M(US 10, 2 states)
Apparently slow
It means that a lineage is accumulating sequences slowly not that it is intrinsically slow.
DeFLiRT
S:S31/F32-+S:R346T+S:F456L
S:183
S:208
S:680
#2005
opened Sep 10, 2024 by
Over-There-Is
KP.3.1.1 subbranch with S:G946R and Orf1a:K527R, A2821T, I3587V(CA-ON 10)
KP.3.1.1
Mutations outside spike
S:964
#2004
opened Sep 10, 2024 by
Over-There-Is
KP.2.3 subbranch with S:del185-189(13 sequences, 3 countries)
DeFLiRT
S:S31/F32-+S:R346T+S:F456L
Deletions between S:180-190
it is an umbrella that collects lineages with mutations in the S:180-190 area of the NTD
KP.2.3
S:146
S:1104
#2003
opened Sep 10, 2024 by
Over-There-Is
KP.2.3 subbranch with S:del243-244, Orf1a:P2079S and Orf1b:E913D(US-CA 3)
Apparently slow
It means that a lineage is accumulating sequences slowly not that it is intrinsically slow.
Deletions/Truncations/Frameshifted
Lineage showing any deletions or stop codons or TRS changes.
S:243
#2002
opened Sep 10, 2024 by
Over-There-Is
KP.3.1.1 plus S:R237M and Orf1b:A545T in Chile (5)
KP.3.1.1
S:237
#2001
opened Sep 10, 2024 by
FedeGueli
XDV.1.7+Orf1a:F3604L+N:T366I+Orf1a:P1207L,S:A1174V (8 seqs, 2 countries)
Convergent evolution
Lineages with convergent mutations
S:1174
XDV
#1997
opened Sep 9, 2024 by
aviczhl2
KS.1.1(or KS.1+S:T22N)+Orf1a:N470T,D1639N,S:R190S(6 seqs, 3 countries)
Emerged in an undersampled area
Actual infection toll may be much larger than number of sequences suggest
FLiRT
FLiRT is an Acronym for S:R346T + S:F456L
S:22
S:190
#1995
opened Sep 8, 2024 by
aviczhl2
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