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_000L3FU.1

Display Name: USA/LOC_000L3FU.1/2005-08-29
Grubaugh, N.; Matteson, N.; Gangavarupa, K.; Barker, C.; Wheeler, S.; Fang, Y.; Coffey, L.; Reisen, W.; Andersen, K.

Submission details

Submission ID
OQ721844.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-29 12:39:12 UTC
Date released
2024-12-29 12:46:26 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-29 12:39insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

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

INSDC

Bioproject accession
PRJNA472981
INSDC accession
OQ721844.1
NCBI release date
2023-08-02
NCBI update date
2023-08-02

Alignment states and QC metrics

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

Sample details

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

Lineage

Lineage
1A

Nucleotide mutations

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

    Substitutions

    NS1

  • NS1:T108M

    • NS4A

  • NS4A:A85T

    • NS5

  • NS5:R26K
  • NS5:K314R

    • env

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