GS_00DCRUH.1

Display Name: USA/GS_00DCRUH.1/2025-02-27
Steel, J.; Kirby, M.; Garten, R.; Davis, T.; Dugan, V.

Submission details

Submission ID
PV555793.1.seg4/PV555794.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-04-23 17:06:54 UTC
Date released
2025-04-23 17:07:32 UTC

Authors

Author affiliations
Centers for Disease Control and Prevention, Influenza Division

INSDC

Bioproject accession
PRJNA998888
INSDC accession seg4
PV555793.1
INSDC accession seg8
PV555794.1
NCBI release date
2025-04-23

Clade

Clade HA
V1A.3a.2

Alignment states and QC metrics seg4

Completeness seg4
98.46%
Length seg4
1847
Total ambiguous nucs seg4
0
Total deleted nucs seg4
9
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
56
Total unknown nucs seg4
0

Alignment states and QC metrics seg8

Completeness seg8
99.62%
Length seg8
1066
Total ambiguous nucs seg8
0
Total deleted nucs seg8
0
Total frame shifts seg8
0
Total inserted nucs seg8
4
Total SNPs seg8
16
Total unknown nucs seg8
0

Sample details

Collection country
USA
Collection subdivision level 1
Minnesota
Collection date
2025-02-27
Isolate name
EPI_ISL_19790218

Host

Host name scientific
Homo sapiens
Host taxon id
9606

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: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
  • seg4:A484G
  • seg4:C509T

    • seg8

  • seg8:G26A
  • seg8:A118G
  • seg8:T163C
  • seg8:G190A
  • seg8:T341C
  • seg8:A352C
  • seg8:T391C
  • seg8:C419T
  • seg8:C604T
  • seg8:A610T
  • seg8:C632T
  • seg8:G661A
  • seg8:T775C
  • seg8:C882T
  • seg8:A950G
  • seg8:T963C
    • Deletions
    seg4:562-570
    Insertions
    ins_seg8:1066:TAAA

    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:K165R
  • HA1:E183K
  • HA1:G184E
  • HA1:N197E
  • HA1:A199T
  • HA1:K203R
  • HA1:P241Q
  • HA1:R279K

    • NEP

  • NEP:L30S
  • NEP:S93P

    • NS1

  • NS1:Y104H
  • NS1:K107N
  • NS1:L130F
  • NS1:H201Y
    • Deletions
    HA1:162-164
    Insertions
    None