PP_0015L11.1

Display Name: Ireland/PP_0015L11.1/2025-02-04
Carr, Michael; Fahey, Laura; Dean, Jonathan; Hare, Daniel; De Gascun, Cillian F.

Submission details

Submission ID
hMpxV/Ireland/NVRL-GIRL00011475/2025
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

INSDC

Bioproject accession
Biosample accession
INSDC accession

Clade & Lineage

Clade
IIb
Lineage
F.4
Outbreak
hMPXV-1

Alignment and QC metrics

Completeness
96.46%
Length
197171
Total ambiguous nucs
0
Total deleted nucs
38
Total frame shifts
0
Total inserted nucs
0
Total SNPs
79
Total stop codons
0
Total unknown nucs
6990

Sequencing

Depth of coverage
196
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
2025-02-04
Collection date (lower bound)
2025-02-04
Collection date (upper bound)
2025-02-04

Host

Host name scientific
Homo sapien

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • G1262A
  • G3111A
  • G3522A
  • C3818T
  • C7771T
  • G7862A
  • G14000T
  • G14118A
  • G15428A
  • A18769G
  • C20453T
  • G21394A
  • G21723A
  • C23564T
  • G25661A
  • T28175C
  • G30367A
  • G31053A
    • Deletions
    22197-22199, 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

    • OPG019

  • OPG019:D95N

    • OPG025

  • OPG025:H384Y
  • 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

    • 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
    OPG037:81
    Insertions
    None

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