PP_00339YK.1

Display Name: USA/PP_00339YK.1/2023-09-13
Shawn Freed Jr, Sarah Chandler, Sarah Uhm, Dikchha Gurung, Ava Butz, Kaylee Herzog & Joseph R. Fauver

Sample details

Collection date
2023-09-13
Country
USA
Admin level 1
Nebrsaka
Admin level 2
Adams

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-08-20 01:57josephfauverOPEN
2025-08-14 03:45josephfauverRESTRICTED until 2026-08-13
Data use terms URL

Lineage

Lineage
1A

Authors

Author affiliations
University of Nebraska Medical Center

Host

Host name - scientific
Culex pipiens/restuans/salinarius

Sequencing

Sequencing instrument
Illumina NovaSeq
Sequencing protocol
IDT xGen WNV

Alignment and QC metrics

Length
10169
Completeness
89.12%
# of SNPs
105
# of inserted bases
0
# of deleted bases
1
# of ambiguous bases
0
# of unknown bases
341
# of frame shifts
1
# of stop codons
0
Frame shifts
NS5:206-905(nt:8294-10395)

Submission details

Submission ID
UNMC0729
Submitting group
Date submitted
2025-08-14 03:45:22 UTC
Date released
2025-08-14 03:46:21 UTC
Earliest release date
2025-08-14

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C282T
  • A288G
  • C340T
  • G430A
  • C435T
  • C522T
  • T528C
  • C624T
  • A630G
  • G741A
  • C816T
  • T891C
  • T928C
  • T1149C
  • T1368C
  • T1442C
  • C1465T
  • T1563C
    • Deletions
    8293
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS1

  • NS1:T108M

    • NS2A

  • NS2A:R188K

    • NS4B

  • NS4B:I240M

    • capsid

  • capsid:A112T

    • env

  • env:V159A
  • env:L167F

    • prM

  • prM:F155L
    • Deletions
    NS5:205
    Insertions
    None

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