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_000L3S5.1

Display Name: USA/LOC_000L3S5.1/2017-10-05
Grubaugh, N.; Matteson, N.; Gangavarupa, K.; Bolton, D.; Mathewson, A.; Fredette, C.; Lovell, R.; Kutschke, A.; Andersen, K.

Submission details

Submission ID
OQ721855.1
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
OQ721855.1
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
94
Total stop codons
0
Total unknown nucs
0

Sample details

Earliest release date
2023-08-02
Collection subdivision level 1
Rockingham, New Hampshire
Collection country
USA
Collection date
2017-10-05
Collection date (lower bound)
2017-10-05
Collection date (upper bound)
2017-10-05

Host

Host name scientific
Culiseta melanura
Host taxon id
329109

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • C340T
  • C435T
  • A630G
  • T666C
  • T825C
  • C885T
  • A981T
  • C1077T
  • T1143C
  • T1206C
  • C1377T
  • T1442C
  • C1465T
  • C1467T
  • G1662A
  • C1750T
  • C2109T
  • G2121A
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS2A

  • NS2A:R188K

    • NS2B

  • NS2B:I26V
  • NS2B:D65N

    • NS4B

  • NS4B:I240M

    • NS5

  • NS5:A860T
  • NS5:E895G

    • env

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