This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.

LOC_000S68T.1

Senegal/LOC_000S68T.1/2022-09
O. Sene, S. N. Sagne, D. Ngom, M. Bocoum, M. K. Diallo, A. Khoule, E. T. Faye, S. M. Diop, I. Diallo, C. Loucoubar, M. Diallo, N. Dia, Y. Sall, B. Diop, M. Ndiaye, A. A. Sall, M. Weidmann, M. M. Diagne, M. Fall, O. Faye, E. Simon-Loriere, D. Diallo, M. A. Barry & G. Fall

Institut Pasteur, Dakar, Virology

Sample details

Collection date
2022-09
Earliest release date
2025-01-18
Sampling location
Senegal
Isolate name
ARD407209

Data use terms

Data use terms
OPEN
Data use terms URL

INSDC

NCBI release date
2025-01-18
INSDC accession M segment
INSDC accession S segment

Host

Host

Submission details

Submission ID
PP894724.1.M/PP894729.1.S
Submitting group
Date submitted
2026-11-02 13:32:02 UTC
Date released
2026-11-02 13:36:16 UTC

Clade & Lineage

Closest reference M segment
M (MH396653.1) (variant)
Closest reference S segment
S11 (MK299338.1) (variant)

Files

Annotations

Alignment and QC

Total SNPs S segment
320
Total inserted nucs S segment
14
Total deleted nucs S segment
8
Length S segment
1686 (100%)
Total SNPs M segment
711
Length M segment
5360 (98.2%)

Nucleotide mutations

Mutations called relative to the NC_005301.3, MH396653.1 & MK299338.1 references

Substitutions

M segment

  • G65A
  • T78C
  • T81C
  • C82T
  • G103A
  • G113A
  • T115C
  • T116C
  • C118T
  • G120A
  • T122C
  • G124A
  • A127G
  • C133T
  • T136C
  • A139G
  • G142A
  • A143G

S segment

  • C22T
  • T38C
  • A48T
  • G72A
  • G80A
  • C87T
  • T90G
  • G99A
  • A108G
  • T126C
  • C138T
  • C141T
  • T153C
  • C156T
  • C159T
  • T162C
  • A168G
  • T171C
Deletions

S segment

1520-1522, 1636-1640
Insertions

S segment

ins_0:T, ins_1580:TTTACAGTCAC, ins_1680:GA

Amino acid substitutions

Substitutions called relative to the NC_005301.3, MH396653.1 & MK299338.1 references

Substitutions

GPC

  • GPC:V9I
  • GPC:F10L
  • GPC:C11Y
  • GPC:K19E
  • GPC:N21H
  • GPC:P23S
  • GPC:G26E
  • GPC:E28R
  • GPC:N31K
  • GPC:H33D
  • GPC:V34T
  • GPC:D39G
  • GPC:Q42L
  • GPC:S43I
  • GPC:P44S
  • GPC:P53S
  • GPC:V54I
  • GPC:S64T

NP

  • NP:S9N
  • NP:D12E
  • NP:Y48F
  • NP:S52G
  • NP:T65S
  • NP:F73Y
  • NP:K91R
  • NP:S101G
  • NP:I117V
  • NP:S124A
  • NP:S125N
  • NP:I141V
  • NP:T146A
  • NP:A154S
  • NP:L163V
  • NP:V164M
  • NP:P165S
  • NP:I179L
Deletions
N/A
Insertions
N/A

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