This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.

LOC_000M279.1

Display Name: USA/LOC_000M279.1/2013-06-10
N. Grubaugh, Y. Fang, N. L. Matteson, K. Gangavarapu, L. Coffey, C. Barker & K. Andersen

Sample details

Collection date
2013-06-10
Collection date (lower bound)
2013-06-10
Collection date (upper bound)
2013-06-10
Earliest release date
2019-01-20
Collection country
USA
Collection subdivision level 1
Bakersfield,California
Isolate name
WNV/bird/Bakersfield_CA_USA/2013-06-10/W339

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-01-28 14:56insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
The Scripps Research Institute, Department of Immunology and Microbiology

INSDC

NCBI release date
2019-01-20
NCBI update date
2019-01-20
INSDC accession
Bioproject accession

Host

Host taxon id
Host name scientific
Aphelocoma californica

Alignment and QC metrics

Length
10302
Total SNPs
78
Total inserted nucs
0
Total deleted nucs
0
Total ambiguous nucs
0
Total unknown nucs
586
Total frame shifts
0
Completeness
88.10%
Total stop codons
0

Submission details

Submission ID
MH507887.1
Submitting group
Date submitted
2026-01-28 14:56:35 UTC
Date released
2026-01-28 15:12:49 UTC

Lineage

Lineage
1A

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C101T
  • C340T
  • C422T
  • T585C
  • A630G
  • C660T
  • T891G
  • T1062C
  • T1092C
  • T1442C
  • C1465T
  • C1632T
  • C1635T
  • A1785G
  • G1812T
  • C2080T
  • C2181T
  • C2466T
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS1

  • NS1:N131S

    • NS2A

  • NS2A:K31N

    • NS3

  • NS3:T353S
  • NS3:I462V

    • NS4A

  • NS4A:A85T

    • NS4B

  • NS4B:K8R

    • NS5

  • NS5:N273S
  • NS5:K314R

    • capsid

  • capsid:S2F
  • capsid:T109I

    • env

  • env:V159A
  • env:L167F
    • Deletions
    None
    Insertions
    None

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