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.
X
Pathoplexus
Mpox Virus
Crimean-Congo Hemorrhagic Fever Virus
Ebola Sudan
Ebola Zaire
Mpox Virus
West Nile Virus
Browse
Submit
SeqSets
News
About
Docs
Login
Loculus
Browse
Submit
SeqSets
News
About
Docs
Login
API docs
Governance
Contact
Status
PPD_0047CEA.1
Download
Download FASTA
Download metadata TSV
Display Name: USA/PPD_0047CEA.1/2024-09-06
Heibeck,
N.
Submission details
Submission ID
PQ388220.1
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
Changed
User
Data Use Terms
2024-12-09 19:14
insdc_ingest_user
OPEN
Close
(history)
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 Department of Public Health Laboratory
Clade & Lineage
Clade
IIb
Lineage
F.1
Outbreak
hMPXV-1
Alignment states and QC metrics
Completeness
97.18%
Length
194271
Total ambiguous nucs
3
Total deleted nucs
108
Total frame shifts
0
Total inserted nucs
49
Total SNPs
82
Total stop codons
0
Total unknown nucs
2679
Sample details
Collection country
USA
Collection date
2024-09-06
Collection date (lower bound)
2024-09-06
Collection date (upper bound)
2024-09-06
Isolate name
Monkeypox virus/Human/USA/CA-LACPHL-MA00678/2024
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC
INSDC accession
PQ388220.1
NCBI release date
2024-10-02
NCBI update date
2024-10-02
Nucleotide mutations
Substitutions
G
2591
A
G
3111
A
G
3522
A
C
3818
T
C
7771
T
G
11668
A
G
14000
T
G
15428
A
G
16748
A
G
16767
A
A
18769
G
C
20453
T
G
21723
A
C
23564
T
G
25661
A
T
28175
C
G
30367
A
G
31053
A
Show more
Deletions
133177-133186, 179078-179175
Insertions
ins_133102:TTT, ins_174066:NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
Amino acid mutations
Substitutions
OPG002
OPG002:
S
54
F
OPG003
OPG003:
D
264
N
OPG025
OPG025:
A
423
D
OPG029
OPG029:
R
108
C
OPG047
OPG047:
R
48
C
OPG053
OPG053:
P
78
S
OPG056
OPG056:
E
125
K
OPG057
OPG057:
E
353
K
OPG071
OPG071:
L
108
F
OPG072
OPG072:
D
56
N
OPG092
OPG092:
D
196
N
OPG093
OPG093:
S
30
L
OPG093:
D
88
N
OPG094
OPG094:
M
142
I
OPG098
OPG098:
E
162
K
OPG105
OPG105:
S
734
L
OPG109
OPG109:
H
740
Y
OPG117
OPG117:
S
297
L
OPG118
OPG118:
K
606
E
OPG136
OPG136:
D
98
N
OPG139
OPG139:
A
17
T
OPG145
OPG145:
E
62
K
OPG145:
R
243
Q
OPG145:
E
435
K
OPG150
OPG150:
S
307
L
OPG176
OPG176:
H
221
Y
OPG185
OPG185:
T
219
I
OPG193
OPG193:
L
263
F
OPG210
OPG210:
D
209
N
OPG210:
A
308
T
OPG210:
P
722
S
OPG210:
M
1741
I
Deletions
None
Insertions
None
Load sequences