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GS_00DWFFH.1

Display Name: USA/GS_00DWFFH.1/2025-02-23
Fox, E. B.; Garrigues, J. M.; Green, N. M.

Submission details

Submission ID
PV639790.1.seg4
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-05-23 06:49:37 UTC
Date released
2025-05-23 06:49:52 UTC

Authors

Author affiliations
Los Angeles County Public Health Lab microbial pathogen submission group, Los Angeles County Public Health Laboratories

Clade

Clade HA
V1A.3a.2

Alignment states and QC metrics seg4

Completeness seg4
93.26%
Length seg4
1749
Total ambiguous nucs seg4
0
Total deleted nucs seg4
9
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
54
Total unknown nucs seg4
0

Sample details

Collection country
USA
Collection subdivision level 1
California
Collection date
2025-02-23
Isolate name
B/California/LACPHL-INF01906/2025

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession seg4
PV639790.1
NCBI release date
2025-05-14

INSDC seg4

Lineage seg4
vic

Nucleotide mutations

Mutations called relative to the CY115157.1, CY115158.1, CY115156.1, KX058884.1, CY115154.1, CY073894.1, CY115152.1 & CY115155.1 references

Substitutions

seg4

  • seg4:T195C
  • seg4:C252A
  • seg4:C265T
  • seg4:G267A
  • seg4:C270T
  • seg4:G297A
  • seg4:G312T
  • seg4:A318G
  • seg4:A351G
  • seg4:C375T
  • seg4:C378T
  • seg4:T402C
  • seg4:A427G
  • seg4:C441T
  • seg4:T444C
  • seg4:G457A
  • seg4:A461G
  • seg4:A463G
    • Deletions
    seg4:562-570
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the CY115157.1, CY115158.1, CY115156.1, KX058884.1, CY115154.1, CY073894.1, CY115152.1 & CY115155.1 references

    Substitutions

    HA1

  • HA1:I117V
  • HA1:A127T
  • HA1:E128G
  • HA1:N129D
  • HA1:K136E
  • HA1:P144L
  • HA1:N150K
  • HA1:E183K
  • HA1:G184E
  • HA1:N197E
  • HA1:A199T
  • HA1:K203R
  • HA1:R279K

    • HA2

  • HA2:E72D
    • Deletions
    HA1:162-164
    Insertions
    None