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PPD_000QDEC.1

Display Name: USA/PPD_000QDEC.1/2012-08-21
Shabman, R.; Das, S. R.; Halpin, R. A.; Shilts, M.; Fedorova, N.; Puri, V.; Amedeo, P.; Shrivastava, S.; Maffei, J.; Dupuis, A.; Jones, S.; Backenson, B.; Zink, S.; Ciota, A.; Kramer, L.

Submission details

Submission ID
KX547612.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-04-02 07:54:11 UTC
Date released
2025-04-02 08:03:36 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-04-02 07:54insdc_ingest_userOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
J. Craig Venter Institute

INSDC

Bioproject accession
PRJNA262930
INSDC accession
KX547612.1
NCBI release date
2016-08-02
NCBI update date
2016-08-02

Alignment and QC metrics

Completeness
97.81%
Length
10787
Total ambiguous nucs
0
Total deleted nucs
0
Total frame shifts
0
Total inserted nucs
0
Total SNPs
73
Total stop codons
0
Total unknown nucs
0

Sample details

Earliest release date
2016-08-02
Collection subdivision level 1
Suffolk Co., NY
Collection country
USA
Collection date
2012-08-21
Collection date (lower bound)
2012-08-21
Collection date (upper bound)
2012-08-21

Host

Host name scientific
Culex
Host taxon id
7174

Lineage

Lineage
1A

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • A630G
  • A1401G
  • T1442C
  • C1465T
  • T1965C
  • A2097C
  • C2319T
  • C2371T
  • C2466T
  • T2475C
  • T2730C
  • C3129T
  • T3138C
  • C3504T
  • C3680T
  • C3699T
  • C3808T
  • C4107T
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS2A

  • NS2A:T52I
  • NS2A:L95F

    • NS3

  • NS3:S334T

    • NS4B

  • NS4B:S14I

    • env

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

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