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_000L2GT.1

Display Name: USA/LOC_000L2GT.1/2005-07-27
Grubaugh, N.; Matteson, N.; Gangavarupa, K.; Neitzel, D.; Andersen, K.

Submission details

Submission ID
OQ721812.1
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
OQ721812.1
NCBI release date
2023-08-02
NCBI update date
2023-08-02

Alignment states and QC metrics

Completeness
93.41%
Length
10302
Total ambiguous nucs
0
Total deleted nucs
0
Total frame shifts
0
Total inserted nucs
0
Total SNPs
44
Total stop codons
0
Total unknown nucs
0

Sample details

Earliest release date
2023-08-02
Collection subdivision level 1
Stearns, Minnesota
Collection country
USA
Collection date
2005-07-27
Collection date (lower bound)
2005-07-27
Collection date (upper bound)
2005-07-27

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • A630G
  • C660T
  • A729G
  • T896C
  • C1065A
  • T1092C
  • C1242T
  • T1442C
  • C1465T
  • T2154C
  • C2466T
  • C2529T
  • C3898T
  • C4107T
  • A4146G
  • C4196T
  • C4518T
  • T4564C
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS2A

  • NS2A:A224V

    • NS4A

  • NS4A:A85T

    • NS4B

  • NS4B:V47I

    • NS5

  • NS5:T25S

    • env

  • env:V159A
  • env:L167F

    • prM

  • prM:M144T
    • Deletions
    None
    Insertions
    None