PP_000RFKX.2

North_Macedonia/PP_000RFKX.2/2023
G. Bosevska, P. Emmerich, R. von Possel, E. G. Toth, D. Osmani & D. Cadar

Bernhard Nocht Institute for Tropical Medicine, Virus Genomics and Evolution

Sample details

Collection date
2023
Sampling location
North Macedonia
Isolate name
Skopje-2795

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2024-08-27 12:11insdc_ingest_userOPEN
Data use terms URL

INSDC

INSDC accession L
INSDC accession M
INSDC accession S
NCBI release date
2024-07-06

Host

Host

Submission details

Submission ID
PP963971.1.L/PP963972.1.M/PP963973.1.S
Submitting group
Date submitted
2024-09-26 15:01:57 UTC
Date released
2024-09-26 15:22:15 UTC
Earliest release date
2024-07-06

Lineage

Segment S Lineage
V

Alignment and QC

Length L
11902 (67.9%)
# of SNPs L
867
# of inserted bases L
2
# of unknown bases L
3678
Length S
1480 (58.6%)
# of SNPs S
136
# of unknown bases S
501
Length M
5204 (81.2%)
# of SNPs M
895
# of inserted bases M
1
# of deleted bases M
3
# of unknown bases M
847

Nucleotide mutations

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

Substitutions

L

  • T65C
  • T67C
  • A72G
  • A73T
  • A91G
  • G93A
  • C100T
  • A109G
  • T131A
  • C148T
  • T151C
  • T154C
  • T160C
  • T163C
  • T202C
  • T229C
  • A240C
  • T253C

M

  • T40C
  • G50A
  • A51G
  • A61T
  • T67C
  • T68C
  • T71A
  • G76C
  • A80G
  • T83C
  • G84A
  • C85T
  • T86C
  • C92T
  • T100C
  • T102C
  • C103T
  • A108G

S

  • T49C
  • A50T
  • G54A
  • T79C
  • A81G
  • G99A
  • G100A
  • A109G
  • C115T
  • A121G
  • G134A
  • C142T
  • T157C
  • G171A
  • T175A
  • C178A
  • T182C
  • C187T
Deletions

M

333-335
Insertions

L

ins_11928:CG

M

ins_5179:G

Amino acid mutations

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

Substitutions

GPC

  • GPC:I3T
  • GPC:S4L
  • GPC:M6V
  • GPC:Y7C
  • GPC:A8F
  • GPC:C11Y
  • GPC:C15L
  • GPC:E19G
  • GPC:T20A
  • GPC:S23Q
  • GPC:H24P
  • GPC:E26A
  • GPC:D33N
  • GPC:M35T
  • GPC:T37A
  • GPC:D40T
  • GPC:N41S
  • GPC:P42Q

NP

  • NP:N9S
  • NP:R15K
  • NP:V27M
  • NP:S39N
  • NP:R45K
  • NP:A100S
  • NP:S109N
  • NP:T111A
  • NP:T124A
  • NP:G125N
  • NP:I246V
  • NP:R270K
  • NP:S301G
  • NP:A307P
  • NP:Y311F
  • NP:V327I
  • NP:G335W
  • NP:V436I

RdRp

  • RdRp:S6N
  • RdRp:S19T
  • RdRp:D55A
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67L
  • RdRp:I131M
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:I176M
  • RdRp:A202V
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:K218R
  • RdRp:S232F
  • RdRp:K275R
  • RdRp:I279V
  • RdRp:V352I
Deletions

GPC

GPC:77
Insertions
N/A

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