Sierra_Leone/PP_0033TAC.1/2025-05-15
Allan K. O. Campbell, Edyth Parker, Ifeanyi Omah, Choe Miller, Julian Campbell, Vidalyn Folorunso, Naomi Daniel-Sesay, Anu J. Williams, Sia Mani, Roberta Lansana, Amanda Kargbo, Komba Koninga, Harry Adi, Simon Ruhweza, Abu James, Jonathan Greene, Monique Forster, John Klena, Crystal Gigante, Danny Park, Abebaw Kebede, Collins Tanui, Sofonias Tessema, Yenew Kebede, ..., Foday Sahr

Central Public Health Reference Laboratory, National Public Health Agency (NPHA) Sierra Leone, Africa Centers for Disease Control and Prevention, U.S. Centers for Disease Control and Prevention, World Health Organization, The Broad Institute of MIT and Harvard Cambridge MA USA, Institute of Genomics and Global Health Redeemer�s University Ede Osun State Nigeria, College of Medicine and Allied Health Sciences

Sample details

Collection date
2025-05-15
Sampling location
Sierra Leone (Western-Area-Rural)

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-08-16 15:29oakcampbell25@gmail.comOPEN

Clade & Lineage

Clade
IIb
Outbreak
sh2017
Lineage
G.1

INSDC

INSDC accession
BioProject accession
BioSample accession
GCA accession

Submission details

Submission ID
946_S18
Date submitted
2025-08-16 15:29:27 UTC
Date released
2025-08-16 15:31:29 UTC
Earliest release date
2025-08-16

Alignment and QC

Length
197196 (86.3%)
# of SNPs
59
# of deleted bases
13
# of unknown bases
26981
# of frame shifts
1
Frame shifts
OPG174:290-347(nt:148355-148528)

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • C4611T
  • G4969A
  • C6105T
  • C6555T
  • G8560A
  • C10173T
  • C11100T
  • C11880T
  • G11924A
  • G11948A
  • C13298T
  • C14790T
  • G20913A
  • G21991A
  • G23118A
  • T28175C
  • C30636T
  • G32868A
Deletions

607-609, 148529-148535, 196615-196617
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_063383.1 reference

Substitutions

OPG015

  • OPG015:D18N

OPG021

  • OPG021:S196L

OPG023

  • OPG023:S318F
  • OPG023:S326L
  • OPG023:D341N
  • OPG023:E601K

OPG025

  • OPG025:D160N

OPG036

  • OPG036:S51F

OPG037

  • OPG037:S148L

OPG047

  • OPG047:D187N

OPG049

  • OPG049:S95L

OPG053

  • OPG053:G38E

OPG083

  • OPG083:R341K

OPG086

  • OPG086:S3F

OPG094

  • OPG094:G4E

OPG112

  • OPG112:E85K

OPG113

  • OPG113:V528I

OPG118

  • OPG118:K606E

OPG133

  • OPG133:S616F

OPG136

  • OPG136:A327T

OPG145

  • OPG145:D29N

OPG174

  • OPG174:G11R
  • OPG174:S44L

OPG176

  • OPG176:Q22*

OPG180

  • OPG180:D442N

OPG185

  • OPG185:D68N

OPG188

  • OPG188:H120Y

OPG190

  • OPG190:P221S

OPG198

  • OPG198:E57K

OPG204

  • OPG204:E314K

OPG210

  • OPG210:D159N
Deletions

OPG174

OPG174:288, OPG174:289
Insertions
N/A

Report an issue with this sequence or metadata

Create GitHub issue