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_000L2S6.1

Display Name: USA/LOC_000L2S6.1/2018-07-24
Grubaugh, N.; Matteson, N.; Gangavarupa, K.; Garrett, L.; Sohner, K.; Scott, J.; Andersen, K.

Submission details

Submission ID
OQ721822.1
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
OQ721822.1
NCBI release date
2023-08-02
NCBI update date
2023-08-02

Alignment states and QC metrics

Completeness
84.82%
Length
10302
Total ambiguous nucs
0
Total deleted nucs
0
Total frame shifts
0
Total inserted nucs
0
Total SNPs
73
Total stop codons
0
Total unknown nucs
947

Sample details

Earliest release date
2023-08-02
Collection subdivision level 1
Montgomery, Ohio
Collection country
USA
Collection date
2018-07-24
Collection date (lower bound)
2018-07-24
Collection date (upper bound)
2018-07-24

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • C435T
  • A630G
  • G948A
  • T1442C
  • C1465T
  • C1473T
  • C1644T
  • G1662A
  • G1713A
  • C1734T
  • C1750T
  • G1857A
  • C2109T
  • C2304T
  • C2466T
  • A2595G
  • G2716A
  • T3399C
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS1

  • NS1:G83S

    • NS2A

  • NS2A:R188K

    • NS4B

  • NS4B:I240M

    • env

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