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_000L3DY.1

Display Name: USA/LOC_000L3DY.1/2017-08-01
Grubaugh, N.; Matteson, N.; Gangavarupa, K.; Balasuriya, U.; Christofferson, R.; Harden, T.; Mekuria, Z.; Peak, L.; Roy, A.; Strother, K.; Andersen, K.

Submission details

Submission ID
OQ721842.1
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
OQ721842.1
NCBI release date
2023-08-02
NCBI update date
2023-08-02

Alignment states and QC metrics

Completeness
88.47%
Length
10302
Total ambiguous nucs
1
Total deleted nucs
0
Total frame shifts
0
Total inserted nucs
0
Total SNPs
83
Total stop codons
0
Total unknown nucs
544

Sample details

Earliest release date
2023-08-02
Collection subdivision level 1
Ouachita, Louisiana
Collection country
USA
Collection date
2017-08-01
Collection date (lower bound)
2017-08-01
Collection date (upper bound)
2017-08-01

Host

Host name scientific
Culex quinquefasciatus
Host taxon id
7176

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • T348C
  • A630G
  • A939G
  • C954T
  • C1371A
  • A1401G
  • T1442C
  • C1465T
  • G1686A
  • T1965C
  • A2097C
  • C2371T
  • C2466T
  • T2475C
  • T2607C
  • G2677T
  • T3138C
  • C3504T
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS1

  • NS1:A70S

    • NS2A

  • NS2A:T52I
  • NS2A:L95V

    • NS3

  • NS3:S334T
  • NS3:P466S
  • NS3:R561Q

    • NS4B

  • NS4B:S14I
  • NS4B:I240M

    • NS5

  • NS5:I520V

    • env

  • env:V159A
  • env:L167F
  • env:M240I
    • Deletions
    None
    Insertions
    None