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PPD_0047EKX.1

Display Name: USA/PPD_0047EKX.1/2024-09-01
Taki, F.; Akhter, S.; Amin, H.; Bologna, J.; De La Cruz, N.; Olsen, A.; Chowdhury, M.; Chen, X.; Polanco, M.; Omoregie, E.; Siemetzki-Kapoor, U.

Submission details

Submission ID
PQ520560.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-09 19:13:47 UTC
Date released
2024-12-09 19:28:57 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-09 19:14insdc_ingest_userOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
NYC Department of Health and Mental Hygiene, Public Health Laboratory

INSDC

Bioproject accession
PRJNA949682
INSDC accession
PQ520560.1
NCBI release date
2024-10-28
NCBI update date
2024-10-28

Clade & Lineage

Clade
IIb
Lineage
F.1
Outbreak
hMPXV-1

Alignment states and QC metrics

Completeness
97.39%
Length
195660
Total ambiguous nucs
0
Total deleted nucs
10
Total frame shifts
0
Total inserted nucs
0
Total SNPs
89
Total stop codons
0
Total unknown nucs
3615

Sample details

Collection subdivision level 1
NY, New York City
Collection country
USA
Collection date
2024-09
Collection date (lower bound)
2024-09-01
Collection date (upper bound)
2024-09-30
Isolate name
NY-NYCPHL-0001386

Host

Host name scientific
Homo sapiens
Host taxon id
9606

Nucleotide mutations

Substitutions

  • G1262A
  • G2591A
  • G3111A
  • G3522A
  • C3818T
  • C7771T
  • G11668A
  • G14000T
  • G15428A
  • A18769G
  • C20453T
  • G21723A
  • G23100A
  • C23564T
  • G25661A
  • T28175C
  • G30367A
  • G31053A
    • Deletions
    133177-133186
    Insertions
    None

    Amino acid mutations

    Substitutions

    OPG001

  • OPG001:S105L

    • OPG002

  • OPG002:S54F

    • OPG003

  • OPG003:D264N

    • OPG025

  • OPG025:A423D

    • OPG047

  • OPG047:R48C

    • OPG053

  • OPG053:P78S

    • OPG056

  • OPG056:E125K

    • OPG057

  • OPG057:E353K

    • OPG071

  • OPG071:L108F
  • OPG071:E856K

    • OPG072

  • OPG072:D56N

    • OPG092

  • OPG092:D196N

    • OPG093

  • OPG093:S30L
  • OPG093:D88N

    • OPG094

  • OPG094:M142I

    • OPG098

  • OPG098:E162K

    • OPG105

  • OPG105:S734L

    • OPG109

  • OPG109:H740Y

    • OPG117

  • OPG117:S297L

    • OPG118

  • OPG118:K606E

    • OPG136

  • OPG136:D98N

    • OPG139

  • OPG139:A17T

    • OPG145

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

    • OPG150

  • OPG150:S307L

    • OPG176

  • OPG176:H221Y

    • OPG181

  • OPG181:S70L

    • OPG193

  • OPG193:L263F

    • OPG210

  • OPG210:E136K
  • OPG210:D209N
  • OPG210:P722S
  • OPG210:M1741I
    • Deletions
    None
    Insertions
    None