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_000LMLZ.1

Display Name: USA/LOC_000LMLZ.1/2018-07-23
Feriancek, N. M.; Breban, M. I.; Bourgikos, E.; Bransfield, A.; Armstrong, P. M.; Vogels, C. B.; Grubaugh, N. D.

Submission details

Submission ID
OZ201780.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-02 15:57:48 UTC
Date released
2024-12-02 16:04:57 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-02 15:58insdc_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
SAMEA116354469
INSDC accession
OZ201780.1
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
90
Total stop codons
0
Total unknown nucs
112

Sample details

Collection subdivision level 1
Connecticut
Collection country
USA
Collection date
2018-07-23
Collection date (lower bound)
2018-07-23
Collection date (upper bound)
2018-07-23
Isolate name
SM62B-7-23-Cxr

Host

Host name scientific
Culex restuans
Host taxon id
38742

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • C340T
  • T348C
  • C435T
  • A630G
  • A908G
  • T1442C
  • C1465T
  • C1473T
  • G1662A
  • C1750T
  • C2025T
  • C2109T
  • C2304T
  • C2466T
  • C2472T
  • C2955T
  • G3330A
  • C3501T
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS2A

  • NS2A:R188K

    • NS3

  • NS3:Y355H

    • NS4B

  • NS4B:I240M

    • NS5

  • NS5:G805R
  • NS5:D881E

    • env

  • env:V159A
  • env:L167F

    • prM

  • prM:N148S
    • Deletions
    None
    Insertions
    None