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PPD_0047WGN.1

Display Name: USA/PPD_0047WGN.1/2024-10-21
Kath, C.; Haw, M.; Espinosa, A.; Hacker, J.

Submission details

Submission ID
PQ781668.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-25 03:48:18 UTC
Date released
2024-12-25 03:48:49 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-25 03:48insdc_ingest_userOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
CDPH, VRDL

INSDC

Bioproject accession
PRJNA884422
INSDC accession
PQ781668.1
NCBI release date
2024-12-24
NCBI update date
2024-12-24

Clade & Lineage

Clade
IIb
Lineage
F.2
Outbreak
hMPXV-1

Alignment and QC metrics

Completeness
97.83%
Frame shifts
OPG197:20-101(nt:169726-169972)
Length
196339
Total ambiguous nucs
0
Total deleted nucs
117
Total frame shifts
1
Total inserted nucs
51
Total SNPs
82
Total stop codons
0
Total unknown nucs
3479

Sample details

Earliest release date
2024-12-24
Collection country
USA
Collection date
2024-10-21
Collection date (lower bound)
2024-10-21
Collection date (upper bound)
2024-10-21
Isolate name
hMpxV/USA/CA-CDPH-1M1000701/2024

Host

Host name scientific
Homo sapiens
Host taxon id
9606

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • G1262A
  • G2591A
  • G3111A
  • G3522A
  • C3818T
  • C7771T
  • G13264A
  • G14000T
  • G15428A
  • A18769G
  • C20453T
  • G21723A
  • C22167T
  • C23564T
  • G25661A
  • T28175C
  • G30367A
  • G34459A
    • Deletions
    683-685, 133177-133186, 169724, 169725, 179145-179243, 196756-196758
    Insertions
    ins_132967:CT, ins_133120:NNN, ins_173381:NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

    Amino acid mutations

    Mutations called relative to the NC_063383.1 reference

    Substitutions

    OPG001

  • OPG001:S105L

    • OPG002

  • OPG002:S54F

    • OPG003

  • OPG003:D264N

    • OPG025

  • OPG025:A423D

    • OPG053

  • OPG053:P78S

    • OPG056

  • OPG056:E125K

    • OPG057

  • OPG057:E353K

    • OPG068

  • OPG068:D370N

    • OPG071

  • OPG071:L108F

    • OPG072

  • OPG072:D56N

    • OPG092

  • OPG092:D196N

    • OPG093

  • OPG093:S30L
  • OPG093:D88N

    • OPG094

  • OPG094:M142I

    • OPG098

  • OPG098:E162K

    • OPG105

  • OPG105:S734L

    • OPG109

  • OPG109:H740Y

    • OPG118

  • OPG118:K606E

    • OPG136

  • OPG136:D98N

    • OPG139

  • OPG139:A17T

    • OPG145

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

    • OPG150

  • OPG150:S307L

    • OPG176

  • OPG176:H221Y

    • OPG188

  • OPG188:E12K

    • OPG193

  • OPG193:L263F

    • OPG204

  • OPG204:E324K

    • OPG210

  • OPG210:D209N
  • OPG210:P722S
  • OPG210:M1741I
    • Deletions
    OPG197:19
    Insertions
    None

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