Sierra_Leone/PP_003416A.1/2025-07-19
Allan K. O. Campbell, Martin Faye, Mohamed Kane, Mignane Ndiaye, Ifeanyi Omah, Andy Mahine Diouf, Mamadou Aliou Barry, Aboubacry Gaye, Moussa Moise Diagne, Aminata Koroma, Joseph Kanu, Mohamed Boie, Zikan Koroma, Doris Harding, Boubacar Diallo, Abdurahmane Sow, Amadou Alpha Sall, Ibrahima Soce Fall, James Squire, Mohamed Alex Vandi & Foday Sahr

National Public Health Agency (NPHA) Sierra Leone, Central Public Health Reference Laboratory, Institute Pasteur de Dakar,University of Endinburg

Sample details

Collection date
2025-07-19
Sampling location
Sierra Leone (PortLoko)

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-08-17 21:05oakcampbell25@gmail.comOPEN

Clade & Lineage

Clade
IIb
Outbreak
sh2017
Lineage
G.1

INSDC

INSDC accession
BioProject accession
BioSample accession
GCA accession

Submission details

Submission ID
PL-25-07-123
Date submitted
2025-08-17 21:05:48 UTC
Date released
2025-08-17 21:09:26 UTC
Earliest release date
2025-08-17

Alignment and QC

Length
195659 (73%)
# of SNPs
39
# of ambiguous bases
2
# of unknown bases
51690

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • C6105T
  • C6555T
  • G8560A
  • C10173T
  • C13298T
  • C14790T
  • G20913A
  • C21359T
  • G23118A
  • G28139A
  • T28175C
  • C34472T
  • C34578T
  • C63695T
  • G63811A
  • G65751A
  • C72680T
  • G77383A
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_063383.1 reference

Substitutions

OPG015

  • OPG015:D18N

OPG021

  • OPG021:S196L

OPG025

  • OPG025:D160N

OPG036

  • OPG036:S51F

OPG037

  • OPG037:V359I

OPG044

  • OPG044:D17N

OPG053

  • OPG053:G38E

OPG083

  • OPG083:R341K

OPG084

  • OPG084:A344T

OPG092

  • OPG092:D90N

OPG098

  • OPG098:E162K

OPG106

  • OPG106:R29K

OPG112

  • OPG112:E85K

OPG113

  • OPG113:V528I

OPG122

  • OPG122:H198Y

OPG132

  • OPG132:M357I

OPG174

  • OPG174:S44L

OPG180

  • OPG180:D442N

OPG188

  • OPG188:H120Y

OPG210

  • OPG210:D159N
  • OPG210:D1877N
Deletions
N/A
Insertions
N/A

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