PP_0015KY7.1

Display Name: Ireland/PP_0015KY7.1/2024-09-11
Michael Carr, Laura Fahey, Jonathan Dean, Daniel Hare & Cillian F. De Gascun

Submission details

Submission ID
hMpxV/Ireland/NVRL-GIRL00068595/2024
Submitting group
Date submitted
2025-05-06 12:10:18 UTC
Date released
2025-05-06 12:11:21 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-05-06 12:10lfaheyOPEN
Data use terms URL

Authors

Author affiliations
National Virus Reference Laboratory, UCD Ireland

INSDC

BioProject accession
BioSample accession
GCA accession
INSDC accession

Clade & Lineage

Clade
IIb
Lineage
F.4
Outbreak
hMPXV-1

Alignment and QC metrics

Completeness
96.64%
Length
196767
Total ambiguous nucs
0
Total deleted nucs
35
Total frame shifts
0
Total inserted nucs
0
Total SNPs
77
Total stop codons
0
Total unknown nucs
6218

Sequencing

Depth of coverage
200
Sequencing date
2025-02-05
Sequencing instrument
Oxford Nanopore GridION
Sequencing protocol
Genomes were generated through amplicon sequencing of 2500 bp amplicons with Molecular Biology Systems primers. The ARTIC fieldbioinformatics pipeline was used to generate consensus genomes. Analysis was repeated twice, once with the top of reference fasta cut off and once with the bottom of consensus fasta cut off, in order to overcome tandem repeats at either end of the genome.

Sample details

Earliest release date
2025-05-06
Collection subdivision level 1
Ireland
Collection subdivision level 2
na
Collection country
Ireland
Collection date
2024-09-11
Collection date (lower bound)
2024-09-11
Collection date (upper bound)
2024-09-11

Host

Host name - scientific
Homo sapien

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • G1262A
  • G3111A
  • G3522A
  • C3818T
  • C7771T
  • G14000T
  • G15428A
  • A18769G
  • C20453T
  • G21394A
  • G21723A
  • C23564T
  • G25661A
  • T28175C
  • G30367A
  • G31053A
  • C34277T
  • G34459A
    • Deletions
    133177-133186, 150586-150602, 196610-196617
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_063383.1 reference

    Substitutions

    OPG001

  • OPG001:S105L

    • OPG003

  • OPG003:D264N

    • OPG025

  • OPG025:A423D

    • OPG037

  • OPG037:S347F

    • OPG047

  • OPG047:R48C

    • OPG053

  • OPG053:P78S

    • OPG056

  • OPG056:E125K

    • OPG057

  • OPG057:E353K

    • OPG071

  • OPG071:L108F

    • OPG072

  • OPG072:D56N

    • OPG092

  • OPG092:D196N

    • OPG093

  • OPG093:S30L
  • OPG093:D88N

    • OPG094

  • OPG094:M142I

    • OPG098

  • OPG098:E162K

    • OPG109

  • OPG109:H740Y

    • OPG113

  • OPG113:H218Y

    • OPG118

  • OPG118:K606E

    • OPG121

  • OPG121:E172K

    • OPG136

  • OPG136:D98N

    • OPG139

  • OPG139:A17T

    • OPG145

  • OPG145:E62K
  • OPG145:E435K

    • OPG148

  • OPG148:G312S

    • OPG150

  • OPG150:S307L

    • OPG175

  • OPG175:S29L

    • OPG176

  • OPG176:H221Y

    • OPG193

  • OPG193:L263F

    • OPG209

  • OPG209:S30L

    • OPG210

  • OPG210:D209N
  • OPG210:P722S
  • OPG210:M1741I
    • Deletions
    None
    Insertions
    None

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