PP_001103R.2

Senegal/PP_001103R.2/2022-08
O. Sene

Institut Pasteur, Dakar, Virology

Sample details

Collection date
2022-08
Sampling location
Senegal
Isolate name
ARD401180

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-01-22 09:24insdc_ingest_userOPEN
Data use terms URL

INSDC

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

Host

Host

Submission details

Submission ID
PP894721.1.L/PP894745.1.M/PP894740.1.S
Submitting group
Date submitted
2025-05-28 14:40:10 UTC
Date released
2025-05-28 14:40:38 UTC
Earliest release date
2025-01-18

Lineage

Segment S Lineage
III

Alignment and QC

Length L
12090 (99.9%)
# of SNPs L
294
Length M
5092 (94.9%)
# of SNPs M
135
Length S
1569 (93.7%)
# of SNPs S
126
# of inserted bases S
1
# of ambiguous bases S
1

Nucleotide mutations

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

Substitutions

L

  • A40G
  • T65C
  • T70C
  • G93A
  • G130T
  • T151C
  • C244T
  • T254A
  • A280G
  • T292C
  • A298G
  • C313T
  • T340C
  • A409G
  • C427T
  • A460G
  • T550G
  • G553A

M

  • A178G
  • A203G
  • C217T
  • G236A
  • T259C
  • C269T
  • T301C
  • C320T
  • T360C
  • A377G
  • T385C
  • C404T
  • T406C
  • C410T
  • G414A
  • C426T
  • C428T
  • C431T

S

  • G47C
  • A50G
  • G54A
  • G67A
  • G99A
  • G100A
  • C178A
  • T181C
  • G189A
  • T199C
  • G202A
  • G229A
  • C235T
  • A247G
  • G271A
  • C295T
  • A298G
  • A322G
Deletions
N/A
Insertions

S

ins_1577:A

Amino acid mutations

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

Substitutions

GPC

  • GPC:H29R
  • GPC:P42L
  • GPC:L56P
  • GPC:L70S
  • GPC:S90P
  • GPC:V98A
  • GPC:L105S
  • GPC:G108S
  • GPC:P112S
  • GPC:A122T
  • GPC:P123L
  • GPC:N131S
  • GPC:S171P
  • GPC:Q191R
  • GPC:L216P
  • GPC:P226L
  • GPC:H238S
  • GPC:K250E

NP

  • NP:R15K
  • NP:R45K
  • NP:K91R
  • NP:T124A
  • NP:G125N
  • NP:L179Q
  • NP:H195R
  • NP:I246V
  • NP:S301G
  • NP:K428R
  • NP:V436I

RdRp

  • RdRp:S6N
  • RdRp:Y60N
  • RdRp:I505T
  • RdRp:T767A
  • RdRp:K809R
  • RdRp:G812E
  • RdRp:T876S
  • RdRp:A1038T
  • RdRp:G1047E
  • RdRp:V1228I
  • RdRp:N1367D
  • RdRp:N1514S
  • RdRp:M1647L
  • RdRp:P1660T
  • RdRp:T1675N
  • RdRp:R1676K
  • RdRp:I1949V
  • RdRp:I1996V
Deletions
N/A
Insertions
N/A

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