dipped-bubbling.yml

unique-id: dipped-bubbling
phe-label: V-22APR-04
who-label: Omicron
alternate-names:
-
belongs-to-lineage:
- PANGO: BA.5
description: This variant is a sublineage of B.1.1.529
information-sources:
- https://github.com/cov-lineages/pango-designation/issues/517
requires: plausible-scanner
variants:
- codon-change: GAG-GAA
  gene: ORF1ab
  one-based-reference-position: 12160
  predicted-effect: synonymous
  protein: nsp8
  protein-codon-position: 23
  reference-base: G
  snp-codon-position: 3
  type: SNP
  variant-base: A
- amino-acid-change: F486V
  codon-change: TTT-GTT
  gene: S
  one-based-reference-position: 23018
  predicted-effect: non-synonymous
  protein: surface glycoprotein
  protein-codon-position: 486
  reference-base: T
  type: SNP
  variant-base: G
- amino-acid-change: D3N
  codon-change: GAT-AAT
  gene: M
  one-based-reference-position: 26529
  predicted-effect: non-synonymous
  protein: membrane glycoprotein
  protein-codon-position: 3
  reference-base: G
  type: SNP
  variant-base: A
- codon-change: ACA-ACG
  gene: M
  one-based-reference-position: 27038
  predicted-effect: synonymous
  protein: membrane glycoprotein
  protein-codon-position: 172
  reference-base: A
  snp-codon-position: 3
  type: SNP
  variant-base: G
- gene: .
  one-based-reference-position: 27889
  protein: .
  reference-base: C
  type: SNP
  variant-base: T
calling-definition:
  confirmed:
    mutations-required: 4
    indels-required: 0
    allowed-wildtype: 0
  probable:
    mutations-required: 3
    indels-required: 0
    allowed-wildtype: 1
  low-qc:
    mutations-required: 0
    indels-required: 0
    allowed-wildtype: 0