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_000L4VY.1

Display Name: USA/LOC_000L4VY.1/2005-08-29
N. Grubaugh, N. Matteson, K. Gangavarupa, C. Barker, S. Wheeler, Y. Fang, L. Coffey, W. Reisen & K. Andersen

Sample details

Collection date
2005-08-29
Collection date (lower bound)
2005-08-29
Collection date (upper bound)
2005-08-29
Earliest release date
2023-08-02
Collection country
USA
Collection subdivision level 1
Kern, California

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-10-29 14:38insdc_ingest_userOPEN
Data use terms URL

Authors

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

INSDC

NCBI release date
2023-08-02
NCBI update date
2023-08-02
INSDC accession
Bioproject accession

Alignment and QC metrics

Length
10302
Total SNPs
47
Total inserted nucs
0
Total deleted nucs
0
Total ambiguous nucs
0
Total unknown nucs
259
Total frame shifts
0
Completeness
91.06%
Total stop codons
0

Submission details

Submission ID
OQ721844.1
Submitting group
Date submitted
2025-10-29 14:38:55 UTC
Date released
2025-10-29 14:54:44 UTC

Lineage

Lineage
1A

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • A630G
  • C660T
  • T1290C
  • C1314T
  • A1320G
  • T1442C
  • C1465T
  • T1890G
  • T1971C
  • C1974T
  • C2466T
  • G2631T
  • C2792T
  • T3399C
  • T3792C
  • T3850C
  • C4107T
  • A4146G
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS1

  • NS1:T108M

    • NS4A

  • NS4A:A85T

    • NS5

  • NS5:R26K
  • NS5:K314R

    • env

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

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