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PPD_0023AJD.1

Display Name: Kenya/PPD_0023AJD.1/2010-04-12
J. R. Otieno, C. N. Agoti, C. W. Gitahi, A. Bett, M. Ngama, G. F. Medley, P. A. Cane, D. J. Nokes & J. D. Nokes

Submission details

Submission ID
KT765279.1
Submitting group
Date submitted
2025-07-16 15:12:40 UTC
Date released
2025-07-16 15:19:25 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-07-16 15:13insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
Kenya Medical Research Institute (KEMRI) - Wellcome Trust Research Programme, Department of Epidemiology and Demography

Alignment and QC metrics

Completeness
4.51%
Length
615
Total ambiguous nucs
0
Total deleted nucs
72
Total frame shifts
0
Total inserted nucs
0
Total SNPs
21
Total unknown nucs
0

Sample details

Earliest release date
2016-02-27
Collection country
Kenya
Collection date
2010-04-12
Collection date (lower bound)
2010-04-12
Collection date (upper bound)
2010-04-12
Isolate name
KEN/Kilifi/848_12/04/2010

Host

Host name - scientific
Homo sapiens
Host taxon ID

INSDC

INSDC accession
NCBI release date
2016-02-27
NCBI update date
2016-04-18

Lineage

Lineage
A.3.1

Nucleotide mutations

Mutations called relative to the PP109421.1 reference

Substitutions

  • T4936C
  • C4952T
  • T5052A
  • T5075C
  • T5076A
  • C5185T
  • C5273A
  • G5322A
  • T5332C
  • T5341C
  • G5346A
  • A5360G
  • T5368C
  • C5374A
  • G5379T
  • A5409C
  • A5435G
  • A5444C
    • Deletions
    5501-5572
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the PP109421.1 reference

    Substitutions

    G

  • G:L101F
  • G:I134K
  • G:L142Q
  • G:L208I
  • G:G224E
  • G:G232E
  • G:N237D
  • G:S243I
  • G:K253T
  • G:Y297N
  • G:P298L
  • G:L314P
    • Deletions
    G:262-285
    Insertions
    None

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