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_0047CKZ.1

Display Name: Germany/PPD_0047CKZ.1/2024-09-01
Brinkmann, A.; Kohl, C.; Schrick, L.; Michel, J.; Schaade, L.; Nitsche, A.

Submission details

Submission ID
PQ419879.1
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
Robert Koch Institute, Centre for Biological Threats, Highly Pathogenic Viruses

Clade & Lineage

Clade
IIb
Lineage
F.1
Outbreak
hMPXV-1

Alignment states and QC metrics

Completeness
94.66%
Length
190622
Total ambiguous nucs
0
Total deleted nucs
94
Total frame shifts
0
Total inserted nucs
19
Total SNPs
83
Total stop codons
0
Total unknown nucs
4024

Sample details

Collection country
Germany
Collection date
2024-09
Collection date (lower bound)
2024-09-01
Collection date (upper bound)
2024-09-30
Isolate name
MPXV/Germany/2024/ON/RKI1128

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession
PQ419879.1
NCBI release date
2024-10-02
NCBI update date
2024-10-02

Nucleotide mutations

Substitutions

  • G1262A
  • G2591A
  • G3111A
  • G3522A
  • C3818T
  • G6850A
  • C7771T
  • G11668A
  • C12062T
  • G14000T
  • G15428A
  • G16748A
  • G16767A
  • A18769G
  • C20453T
  • G21723A
  • C23564T
  • G25661A
    • Deletions
    607-609, 133177-133186, 150551, 150560-150566, 179196-179267, 188351
    Insertions
    ins_173308:ATATATATATATATATA, ins_133134:NN

    Amino acid mutations

    Substitutions

    OPG001

  • OPG001:S105L

    • OPG002

  • OPG002:S54F

    • OPG003

  • OPG003:D264N

    • OPG023

  • OPG023:R280K

    • OPG025

  • OPG025:A423D

    • OPG029

  • OPG029:R108C

    • OPG042

  • OPG042:D53N

    • OPG047

  • OPG047:R48C

    • OPG053

  • OPG053:P78S

    • OPG056

  • OPG056:E125K

    • OPG057

  • OPG057:E353K

    • OPG064

  • OPG064:A503T

    • OPG071

  • OPG071:L108F

    • 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

    • OPG189

  • OPG189:D435N

    • OPG193

  • OPG193:L263F

    • OPG204

  • OPG204:E32K

    • OPG210

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