This is a demo instance. You can upload any data you like, including test data to try things out. You can find test data to upload in the example data repository. This instance should not be used for analysis.

PPD_00481XJ.1

Display Name: USA/PPD_00481XJ.1/2024-12-12
Fox, E. B.; Garrigues, J. M.; Green, N. M.

Submission details

Submission ID
PQ857765.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-01-19 09:38:46 UTC
Date released
2025-01-19 09:39:12 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-01-19 09:38insdc_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.1
Outbreak
hMPXV-1

Alignment and QC metrics

Completeness
85.98%
Length
194257
Total ambiguous nucs
4
Total deleted nucs
108
Total frame shifts
0
Total inserted nucs
51
Total SNPs
77
Total stop codons
0
Total unknown nucs
24757

Sample details

Earliest release date
2025-01-10
Collection country
USA
Collection date
2024-12-12
Collection date (lower bound)
2024-12-12
Collection date (upper bound)
2024-12-12
Isolate name
Monkeypox virus/Human/USA/CA-LACPHL-MA00721/2024

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession
PQ857765.1
NCBI release date
2025-01-10
NCBI update date
2025-01-10

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • G2591A
  • G3111A
  • G3522A
  • C3818T
  • C7771T
  • G11668A
  • G14000T
  • G16748A
  • G16767A
  • A18769G
  • G21723A
  • C23564T
  • G25661A
  • T28175C
  • G30367A
  • G31053A
  • G34459A
  • G37202A
    • Deletions
    133177-133186, 179078-179175
    Insertions
    ins_133281:NN, ins_133102:TTT, ins_174307:NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

    Amino acid mutations

    Mutations called relative to the NC_063383.1 reference

    Substitutions

    OPG002

  • OPG002:S54F

    • OPG003

  • OPG003:D264N

    • OPG025

  • OPG025:A423D

    • OPG029

  • OPG029:R108C

    • OPG047

  • OPG047:R48C

    • OPG053

  • OPG053:P78S

    • OPG056

  • OPG056:E125K

    • OPG057

  • OPG057:A290V
  • OPG057:E353K

    • 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

    • OPG176

  • OPG176:H221Y

    • OPG185

  • OPG185:T219I

    • OPG193

  • OPG193:L263F

    • OPG210

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

    Report an issue with this sequence or metadata

    Create GitHub issue