PP_0014AKA.1

Display Name: Portugal/PP_0014AKA.1/2025-01-07
Sobral, Daniel; Cordeiro, Rita; Coelho, Luis; Ferreira, Rita; Borges, Vitor; Gomes, Joao Paulo

Submission details

Submission ID
Monkeypox/PT0839/2025
Submitting group
Genomics and Bioinformatics Unit @ INSA, Portugal
Date submitted
2025-03-03 17:24:31 UTC
Date released
2025-03-03 17:28:52 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-03-03 17:24daniel.sobralOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
Instituto Nacional de Saude Doutor Ricardo Jorge (INSA), Portugal

INSDC

Bioproject accession
PRJEB53055
Biosample accession
SAMEA117788765
INSDC accession
OZ239954.1
Raw reads accession
ERR14673163

Clade & Lineage

Clade
IIb
Lineage
F.2
Outbreak
hMPXV-1

Alignment and QC metrics

Completeness
92.51%
Frame shifts
OPG176:174-241(nt:150328-150531)
Length
197220
Total ambiguous nucs
0
Total deleted nucs
89
Total frame shifts
1
Total inserted nucs
100
Total SNPs
84
Total stop codons
0
Total unknown nucs
14765

Sample details

Earliest release date
2025-03-03
Collection country
Portugal
Collection date
2025-01-07
Collection date (lower bound)
2025-01-07
Collection date (upper bound)
2025-01-07

Host

Host name common
Human
Host name scientific
Homo sapiens
Host taxon id
9606

Sequencing

Sequencing date
2025-02-28
Sequencing instrument
Illumina NextSeq 550
Sequencing protocol
dx.doi.org/10.17504/protocols.io.5qpvob1nbl4o/v4

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • G1262A
  • G2591A
  • G3111A
  • G3522A
  • C3818T
  • A18769G
  • G19458A
  • C20453T
  • G21723A
  • C22167T
  • C23564T
  • G25661A
  • T28175C
  • G30367A
  • G31053A
  • G34459A
  • G37202A
  • G38360A
    • Deletions
    133177-133186, 150327, 169769-169774, 179172-179243
    Insertions
    ins_0:NNNNNNNNN, ins_197209:NNNNNNNNN, ins_133102:TT, ins_136554:ATC, ins_150585:G, ins_174076:NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

    Amino acid mutations

    Mutations called relative to the NC_063383.1 reference

    Substitutions

    OPG001

  • OPG001:S105L

    • OPG002

  • OPG002:S54F

    • OPG003

  • OPG003:D264N

    • OPG034

  • OPG034:S183L

    • OPG047

  • OPG047:R48C

    • OPG053

  • OPG053:P78S

    • OPG056

  • OPG056:E125K

    • OPG057

  • OPG057:E353K

    • OPG064

  • OPG064:E623K

    • OPG071

  • OPG071:L108F

    • OPG072

  • OPG072:D56N

    • OPG092

  • OPG092:D196N

    • OPG093

  • OPG093:S30L
  • OPG093:D88N

    • OPG094

  • OPG094:M142I

    • OPG098

  • OPG098:E162K

    • OPG104

  • OPG104:S67F

    • OPG105

  • OPG105:S734L

    • OPG109

  • OPG109:H740Y

    • OPG118

  • OPG118:G4E
  • OPG118:K606E

    • OPG136

  • OPG136:D98N

    • OPG139

  • OPG139:A17T

    • OPG145

  • OPG145:E62K
  • OPG145:R243Q
  • OPG145:E435K

    • OPG150

  • OPG150:S307L

    • OPG188

  • OPG188:E12K

    • OPG193

  • OPG193:L263F

    • OPG204

  • OPG204:T332I

    • OPG208

  • OPG208:S91L

    • OPG210

  • OPG210:D209N
  • OPG210:P722S
  • OPG210:M1741I
    • Deletions
    OPG197:34, OPG197:35
    Insertions
    ins_OPG153:385:D

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