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PPD_00CW1XZ.1

Kenya/PPD_00CW1XZ.1/2024
J. B. Richardson

United States Army Medical Research Institute of Infectious Diseases, Center for Genome Science

Sample details

Collection date
2024
Sampling location
Kenya
Isolate name
T352

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-03-19 03:45insdc_ingest_userOPEN
Data use terms URL

INSDC

INSDC accession L
INSDC accession M
INSDC accession S
NCBI release date
2026-03-18

Host

Host

Submission details

Submission ID
PX753792.1.L/PX753793.1.M/PX753794.1.S
Submitting group
Date submitted
2026-03-19 03:45:12 UTC
Date released
2026-03-19 03:46:38 UTC
Earliest release date
2026-03-18

Lineage

Segment S Lineage
III

Alignment and QC

Length S
1384 (82.7%)
# of SNPs S
107
# of inserted bases S
1
Length M
5346 (99.6%)
# of SNPs M
282
# of deleted bases M
1
Length L
11741 (96.7%)
# of SNPs L
832
# of unknown bases L
36

Nucleotide mutations

Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

Substitutions

L

  • T34C
  • T49C
  • C63G
  • C64T
  • T65C
  • T70C
  • G93A
  • T106C
  • A124G
  • T157C
  • T160C
  • T163C
  • T202C
  • T229C
  • A238T
  • T254A
  • A262G
  • A268G

M

  • C82T
  • G84A
  • C85T
  • T86C
  • A87G
  • A88G
  • A117G
  • A146G
  • A163G
  • A174G
  • A192G
  • C193T
  • C194T
  • A195G
  • A203G
  • C205T
  • C217T
  • T222C

S

  • C295T
  • A298G
  • A322G
  • A325G
  • A327G
  • G346A
  • A358C
  • C370T
  • G397A
  • C400T
  • G418A
  • G421A
  • A425G
  • G428A
  • G429A
  • G451A
  • A460G
  • C484A
Deletions

M

5172
Insertions

S

ins_1577:A

Amino acid substitutions

Substitutions called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

Substitutions

GPC

  • GPC:I9V
  • GPC:H24R
  • GPC:R28G
  • GPC:T34V
  • GPC:M35V
  • GPC:P38L
  • GPC:P42L
  • GPC:S44P
  • GPC:P46H
  • GPC:A51V
  • GPC:S53P
  • GPC:L56P
  • GPC:P58L
  • GPC:P80S
  • GPC:G85E
  • GPC:S86G
  • GPC:P88S
  • GPC:S90P

NP

  • NP:K91R
  • NP:T124A
  • NP:G125N
  • NP:L179Q
  • NP:H195R
  • NP:I246V
  • NP:S301G
  • NP:K428R
  • NP:V436I
  • NP:I482V

RdRp

  • RdRp:S6N
  • RdRp:Y60N
  • RdRp:N206H
  • RdRp:V352I
  • RdRp:I505T
  • RdRp:A508V
  • RdRp:S596G
  • RdRp:N647S
  • RdRp:T757A
  • RdRp:R764K
  • RdRp:T767A
  • RdRp:R770K
  • RdRp:P774L
  • RdRp:G778D
  • RdRp:N779S
  • RdRp:Q780K
  • RdRp:I783T
  • RdRp:E785D
Deletions
N/A
Insertions
N/A

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