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PPD_000QC15.1

Display Name: USA/PPD_000QC15.1/2013-09-24
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
KX547565.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-04-02 07:54:11 UTC
Date released
2025-04-02 08:03:05 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
KX547565.1
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
69
Total stop codons
0
Total unknown nucs
0

Sample details

Earliest release date
2016-08-02
Collection subdivision level 1
Onondaga Co., NY
Collection country
USA
Collection date
2013-09-24
Collection date (lower bound)
2013-09-24
Collection date (upper bound)
2013-09-24

Host

Host name scientific
Culiseta
Host taxon id
174825

Lineage

Lineage
1A

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C340T
  • C435T
  • A630G
  • C1047T
  • T1442C
  • C1465T
  • G1662A
  • C1750T
  • T1755C
  • C2109T
  • C2304T
  • C2466T
  • T2637C
  • C3501T
  • T3528C
  • C3912T
  • C3969T
  • G4088A
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS2A

  • NS2A:R188K

    • NS3

  • NS3:S421G

    • NS4B

  • NS4B:S62T
  • NS4B:G104E
  • NS4B:I240M

    • env

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

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