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_000LN6T.1

Display Name: USA/LOC_000LN6T.1/2018-08-27
Feriancek, N. M.; Breban, M. I.; Bourgikos, E.; Bransfield, A.; Armstrong, P. M.; Vogels, C. B.; Grubaugh, N. D.

Submission details

Submission ID
OZ201800.1
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
SAMEA116354657
INSDC accession
OZ201800.1
NCBI release date
2024-11-07
NCBI update date
2024-11-08

Alignment states and QC metrics

Completeness
98.79%
Length
11027
Total ambiguous nucs
22
Total deleted nucs
2
Total frame shifts
0
Total inserted nucs
0
Total SNPs
87
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
2018-08-27
Collection date (lower bound)
2018-08-27
Collection date (upper bound)
2018-08-27
Isolate name
NO58G-8-27-Cxp-3

Host

Host name scientific
Culex pipiens
Host taxon id
7175

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • C52T
  • C340T
  • C435T
  • A630G
  • T1143C
  • C1395T
  • T1442C
  • C1465T
  • G1662A
  • G1722A
  • C1750T
  • C2109T
  • C2304T
  • C2466T
  • G2829A
  • C3501T
  • T3528C
  • C3912T
    • Deletions
    10470, 10471
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS2A

  • NS2A:R188K

    • NS2B

  • NS2B:I26V

    • NS4B

  • NS4B:I240M

    • NS5

  • NS5:K314R
  • NS5:A860T

    • env

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