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PPD_0049NA4.1

Display Name: USA/PPD_0049NA4.1/2025-03-18
Fox, E. B.; Garrigues, J. M.; Green, N. M.

Submission details

Submission ID
PV539220.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-04-18 14:50:11 UTC
Date released
2025-04-18 14:50:21 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-04-18 14:50insdc_ingest_userOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
Los Angeles County Department of Public Health, Los Angeles County Public Health Laboratories

Clade & Lineage

Clade
IIb
Lineage
F.2
Outbreak
hMPXV-1

Alignment and QC metrics

Completeness
96.11%
Frame shifts
OPG019:143(nt:8004-8008)
Length
197169
Total ambiguous nucs
0
Total deleted nucs
116
Total frame shifts
1
Total inserted nucs
76
Total SNPs
89
Total stop codons
0
Total unknown nucs
7662

Sample details

Earliest release date
2025-04-18
Collection country
USA
Collection date
2025-03-18
Collection date (lower bound)
2025-03-18
Collection date (upper bound)
2025-03-18
Isolate name
Monkeypox virus/Human/USA/CA-LACPHL-MA00725/2025

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession
PV539220.1
NCBI release date
2025-04-18
NCBI update date
2025-04-18

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • G1262A
  • G2591A
  • G3111A
  • G3522A
  • C3818T
  • G7224A
  • C7771T
  • G14000T
  • G15428A
  • A18769G
  • C20453T
  • G21723A
  • C22167T
  • C23564T
  • G25661A
  • T28175C
  • G30367A
  • G30579A
    • Deletions
    602-609, 8003, 179145-179243, 196610-196617
    Insertions
    ins_0:ATAAGTTTTAGTACATTAATATTAT, ins_197209:A, ins_157311:T, ins_173307:NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN, ins_133502:NNN

    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

    • OPG047

  • OPG047:R48C
  • OPG047:L206F

    • OPG053

  • OPG053:P78S

    • OPG056

  • OPG056:E125K

    • OPG057

  • OPG057:E353K

    • OPG062

  • OPG062:R59K

    • OPG071

  • OPG071:L108F

    • OPG072

  • OPG072:D56N

    • OPG092

  • OPG092:D196N

    • OPG093

  • OPG093:S30L
  • OPG093:E63K
  • OPG093:D88N

    • OPG094

  • OPG094:M142I

    • OPG098

  • OPG098:E162K

    • OPG105

  • OPG105:S734L

    • OPG109

  • OPG109:H740Y

    • OPG110

  • OPG110:E195K

    • OPG118

  • OPG118:G4E
  • OPG118:K606E

    • OPG136

  • OPG136:D98N

    • OPG138

  • OPG138:R94K

    • OPG139

  • OPG139:A17T

    • OPG145

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

    • OPG150

  • OPG150:S307L

    • OPG176

  • OPG176:H221Y

    • OPG188

  • OPG188:E12K

    • OPG193

  • OPG193:L263F

    • OPG198

  • OPG198:D94N

    • OPG210

  • OPG210:D209N
  • OPG210:P722S
  • OPG210:M1741I
    • Deletions
    OPG019:142
    Insertions
    None

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