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Status
PP_0010TBJ.1
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Display Name: USA/PP_0010TBJ.1/2024-10-02
Kath, C.;
Haw, M.;
Espinosa, A.;
Hacker, J.
Submission details
Submission ID
PQ781650.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-25 03:37:28 UTC
Date released
2024-12-25 03:37:57 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2024-12-25 03:37
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data
Authors
Author affiliations
CDPH, VRDL
INSDC
BioProject accession
PRJNA884422
INSDC accession
PQ781650.1
NCBI release date
2024-12-24
NCBI update date
2024-12-24
Clade & Lineage
Clade
IIb
Lineage
F.1
Outbreak
hMPXV-1
Alignment and QC metrics
Completeness
95.66%
Length
196279
Total ambiguous nucs
0
Total deleted nucs
115
Total frame shifts
0
Total inserted nucs
53
Total SNPs
93
Total stop codons
0
Total unknown nucs
7690
Sample details
Earliest release date
2024-12-24
Collection country
USA
Collection date
2024-10-02
Collection date (lower bound)
2024-10-02
Collection date (upper bound)
2024-10-02
Isolate name
hMpxV/USA/CA-CDPH-1M1000682/2024
Host
Host name - scientific
Homo sapiens
Host taxon ID
9606
Nucleotide mutations
Mutations called relative to the
NC_063383.1
reference
Substitutions
G
1262
A
G
2591
A
G
3111
A
G
3522
A
C
3818
T
G
5052
A
G
11668
A
G
14000
T
G
15428
A
A
18769
G
G
19834
A
C
20453
T
G
20669
A
G
21723
A
G
23100
A
C
23564
T
G
25661
A
T
28175
C
Show more
Deletions
733-735, 133177-133186, 179145-179243, 196699-196701
Insertions
ins_150585:G, ins_133122:NNN, ins_136554:ATC, ins_173394:NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
Amino acid mutations
Mutations called relative to the
NC_063383.1
reference
Substitutions
OPG001
OPG001:
S
105
L
OPG002
OPG002:
S
54
F
OPG003
OPG003:
D
264
N
OPG025
OPG025:
A
423
D
OPG034
OPG034:
P
58
S
OPG047
OPG047:
R
48
C
OPG053
OPG053:
P
78
S
OPG056
OPG056:
E
125
K
OPG057
OPG057:
E
353
K
OPG060
OPG060:
R
120
C
OPG071
OPG071:
L
108
F
OPG072
OPG072:
D
56
N
OPG085
OPG085:
V
156
I
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
OPG111
OPG111:
R
206
Q
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
OPG193
OPG193:
L
263
F
OPG200
OPG200:
S
56
F
OPG208
OPG208:
P
69
S
OPG210
OPG210:
D
209
N
OPG210:
P
722
S
OPG210:
M
1741
I
Deletions
None
Insertions
ins_OPG153:385:D
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