PP_000RFKX.2

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

Sample details

Collection date
2023
Country
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

Authors

Author affiliations
Bernhard Nocht Institute for Tropical Medicine, Virus Genomics and Evolution

INSDC

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

Host

Host taxon ID
Host name - scientific
Homo sapiens

Alignment and QC metrics L

Length L
11902
Completeness L
67.91%
# of SNPs L
867
# of inserted bases L
2
# of deleted bases L
0
# of ambiguous bases L
0
# of unknown bases L
3678
# of frame shifts L
0
# of stop codons L
0

Alignment and QC metrics M

Length M
5204
Completeness M
81.23%
# of SNPs M
895
# of inserted bases M
1
# of deleted bases M
3
# of ambiguous bases M
0
# of unknown bases M
847
# of frame shifts M
0
# of stop codons M
0

Alignment and QC metrics S

Length S
1480
Completeness S
58.55%
# of SNPs S
136
# of inserted bases S
0
# of deleted bases S
0
# of ambiguous bases S
0
# of unknown bases S
501
# of frame shifts S
0
# of stop codons S
0

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

Nucleotide mutations

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

Substitutions

L

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

    • M

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

    • S

  • S:T49C
  • S:A50T
  • S:G54A
  • S:T79C
  • S:A81G
  • S:G99A
  • S:G100A
  • S:A109G
  • S:C115T
  • S:A121G
  • S:G134A
  • S:C142T
  • S:T157C
  • S:G171A
  • S:T175A
  • S:C178A
  • S:T182C
  • S:C187T
    • Deletions
    M:333-335
    Insertions
    ins_L:11928:CG, ins_M: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:77
    Insertions
    None

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