legroom-finished.yml

unique-id: legroom-finished
phe-label: V-22SEP-01
who-label: Omicron
alternate-names:
-
belongs-to-lineage:
- PANGO: BA.4.6
description: This variant is a sublineage of BA.4 (VOC-22APR-03)
information-sources:
-
requires: radiator-ditto
variants:
- codon-change: TCC-TCT
  gene: ORF1ab
  one-based-reference-position: 8140
  predicted-effect: synonymous
  protein: nsp3
  protein-codon-position: 1807
  reference-base: C
  snp-codon-position: 3
  type: SNP
  variant-base: T
- amino-acid-change: R346T
  codon-change: AGA-ACA
  gene: S
  one-based-reference-position: 22599
  predicted-effect: non-synonymous
  protein: surface glycoprotein
  protein-codon-position: 346
  reference-base: G
  type: SNP
  variant-base: C
- codon-change: CTA-TTA
  gene: ORF1ab
  one-based-reference-position: 14599
  predicted-effect: synonymous
  protein: nsp12
  protein-codon-position: 387
  reference-base: C
  snp-codon-position: 1
  type: SNP
  variant-base: T
- amino-acid-change: N658S
  codon-change: AAC-AGC
  gene: S
  one-based-reference-position: 23535
  predicted-effect: non-synonymous
  protein: surface glycoprotein
  protein-codon-position: 658
  reference-base: A
  type: SNP
  variant-base: G
calling-definition:
  confirmed:
    mutations-required: 3
    indels-required: 0
    allowed-wildtype: 0
  probable:
    mutations-required: 2
    indels-required: 0
    allowed-wildtype: 1
  low-qc:
    mutations-required: 0
    indels-required: 0
    allowed-wildtype: 0