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_000LNLY.1

Display Name: USA/LOC_000LNLY.1/2016-08-03
Feriancek, N. M.; Breban, M. I.; Bourgikos, E.; Bransfield, A.; Armstrong, P. M.; Vogels, C. B.; Grubaugh, N. D.

Submission details

Submission ID
OZ201814.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-23 19:43:09 UTC
Date released
2024-12-23 19:51:20 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-23 19:43insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

Author affiliations
Yale School of Public Health, New Haven, CT

INSDC

Bioproject accession
PRJEB80643
Biosample accession
SAMEA116354234
INSDC accession
OZ201814.1
NCBI release date
2024-11-07
NCBI update date
2024-11-08

Alignment states and QC metrics

Completeness
98.98%
Length
11029
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
112

Sample details

Earliest release date
2024-11-07
Collection subdivision level 1
Connecticut
Collection country
USA
Collection date
2016-08-03
Collection date (lower bound)
2016-08-03
Collection date (upper bound)
2016-08-03
Isolate name
SM62G-8-3-Cxp-2

Host

Host name scientific
Culex pipiens
Host taxon id
7175

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • A630G
  • T1150C
  • A1311G
  • A1401G
  • T1442C
  • C1465T
  • G1545A
  • T1965C
  • T1983C
  • A2097C
  • C2371T
  • C2466T
  • T2841C
  • C2991T
  • T3021C
  • T3138C
  • C3504T
  • C3680T
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS2A

  • NS2A:T52I
  • NS2A:L95F

    • NS3

  • NS3:S334T

    • NS4B

  • NS4B:S14I

    • env

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