Closed ktmeaton closed 1 year ago
Clade: Omicron/BA.2.75/22D,Omicron/XBB/22F Lineage: BA.2.75*,XBB.1* Lineage Confidence: 0.992,0.87
Omicron/BA.2.75/22D
Omicron/XBB/22F
BA.2.75*
XBB.1*
0.992
0.87
RBD Level: 7 RBD Substitutions: S:R346T,S:V445P,S:G446S,S:N460K,S:F486S,S:F490S,S:R493Q Immune Escape: 0.907 ACE2 Binding: 0.407
7
S:R346T
S:V445P
S:G446S
S:N460K
S:F486S
S:F490S
S:R493Q
0.907
0.407
Higher values indicate an increased capacity to evade antibodies.
TBD
Higher values indicate an increased capacity for viral entry into the host cell.
proposed1340 is successfully detected with the sc2rf mode for VOC:
proposed1340
sc2rf
VOC
python3 sc2rf/sc2rf.py results/proposed1340/nextclade/alignment.fasta --max-name-length 50 --clades BA.2.10 BA.2.3.17 BA.2.3.20 BA.2.75 BA.2.76 BA.4.6 BA.5.2 BA.5.3 XBB CJ.1 --ansi --parents 2-4 --breakpoints 1-5 --unique 1 --max-ambiguous 20 --max-intermission-length 2 --max-intermission-count 3 --ignore-shared --mutation-threshold 0.25 --csvfile results/proposed1340/sc2rf/stats.voc.csv
Breakpoint 1: 20236:21809
20236:21809
resources/breakpoints.tsv
Parents
Clade:
Omicron/BA.2.75/22D
,Omicron/XBB/22F
Lineage:BA.2.75*
,XBB.1*
Lineage Confidence:0.992
,0.87
Immunity
RBD Level:
7
RBD Substitutions:S:R346T
,S:V445P
,S:G446S
,S:N460K
,S:F486S
,S:F490S
,S:R493Q
Immune Escape:0.907
ACE2 Binding:0.407
Immune Escape Ranking
TBD
ACE2 Binding Ranking
TBD
Alleles
proposed1340
is successfully detected with thesc2rf
mode forVOC
:Breakpoints
Breakpoint 1:
20236:21809
Tasks
resources/breakpoints.tsv
Updated