GS_00BC7A6.1

Display Name: USA/GS_00BC7A6.1/2025-02-04
Dohrn, C.; Dunn, D.; Gauger, P. C.

Submission details

Submission ID
PV240828.1.seg4/PV240829.1.seg6
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-03-07 03:17:44 UTC
Date released
2025-03-07 03:18:16 UTC

Authors

Author affiliations
Iowa State University Veterinary Diagnostic Lab, Bioinformatics

Clade

Clade ha
1

Alignment states and QC metrics seg4

Completeness seg4
97.09%
Length seg4
1701
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
180
Total unknown nucs seg4
0

Sample details

Collection country
USA
Collection subdivision level 1
Iowa
Collection date
2025-02-04
Isolate name
A02858352

Host

Host name scientific
Sus scrofa
Host taxon id
9823

INSDC

INSDC accession seg4
PV240828.1
INSDC accession seg6
PV240829.1
NCBI release date
2025-03-06

Alignment states and QC metrics seg6

Length seg6
1410

INSDC seg4

Subtype seg4
H1

INSDC seg6

Subtype seg6
N1

Nucleotide mutations

Mutations called relative to the NC_026438.1, NC_026435.1, NC_026437.1, CY121680.1, NC_026436.1, MW626056.1, NC_026431.1 & NC_026432.1 references

Substitutions

seg4

  • seg4:T41C
  • seg4:A49G
  • seg4:G57A
  • seg4:C61A
  • seg4:C62A
  • seg4:A71C
  • seg4:A86C
  • seg4:G98A
  • seg4:A110T
  • seg4:T161C
  • seg4:C164T
  • seg4:G174A
  • seg4:A178G
  • seg4:C185T
  • seg4:C215T
  • seg4:T224C
  • seg4:A238G
  • seg4:T245C
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_026438.1, NC_026435.1, NC_026437.1, CY121680.1, NC_026436.1, MW626056.1, NC_026431.1 & NC_026432.1 references

    Substitutions

    HA1

  • HA1:D35N
  • HA1:K36R
  • HA1:N56S
  • HA1:I61L
  • HA1:S74R
  • HA1:P83S
  • HA1:S84K
  • HA1:D86E
  • HA1:D97N
  • HA1:S128T
  • HA1:N129D
  • HA1:A141T
  • HA1:K142N
  • HA1:K146R
  • HA1:I149V
  • HA1:K153Q
  • HA1:L161I
  • HA1:S162N

    • HA2

  • HA2:V18I
  • HA2:E47G
  • HA2:N71S
  • HA2:K75R
  • HA2:N146D
  • HA2:T147M
  • HA2:V152I
  • HA2:A166S
  • HA2:I183V
  • HA2:V200I

    • SigPep

  • SigPep:Y10C
  • SigPep:A13T
  • SigPep:T14K
    • Deletions
    None
    Insertions
    None