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
Crimean-Congo Hemorrhagic Fever 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_004849S.1
Download
Download FASTA
Download metadata TSV
Display Name: Senegal/PPD_004849S.1/2022-08-01
Sene,
O.
Submission details
Submission ID
PP916049.1.L/PP894742.1.M/PP894739.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-01-22 09:27:21 UTC
Date released
2025-01-22 09:27:44 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2025-01-22 09:27
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data
Authors
Author affiliations
Institut Pasteur, Dakar, Virology
Alignment and QC metrics L
Completeness L
99.98%
Length L
12157
Total ambiguous nucs L
0
Total deleted nucs L
0
Total frame shifts L
0
Total inserted nucs L
52
Total SNPs L
300
Total unknown nucs L
0
Alignment and QC metrics M
Completeness M
100.00%
Length M
5368
Total ambiguous nucs M
0
Total deleted nucs M
0
Total frame shifts M
0
Total inserted nucs M
2
Total SNPs M
139
Total unknown nucs M
0
Alignment and QC metrics S
Completeness S
100.00%
Length S
1673
Total ambiguous nucs S
0
Total deleted nucs S
0
Total frame shifts S
0
Total inserted nucs S
1
Total SNPs S
133
Total unknown nucs S
0
Sample details
Earliest release date
2025-01-18
Collection country
Senegal
Collection date
2022-08
Collection date (lower bound)
2022-08-01
Collection date (upper bound)
2022-08-31
Host
Host name scientific
Hyalomma marginatum
Host taxon id
34627
INSDC
INSDC accession L
PP916049.1
INSDC accession M
PP894742.1
INSDC accession S
PP894739.1
NCBI release date
2025-01-18
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
L
L:
T
10
C
L:
T
62
C
L:
T
65
C
L:
T
70
C
L:
C
75
T
L:
G
93
A
L:
C
94
T
L:
G
130
T
L:
T
151
C
L:
C
244
T
L:
T
254
A
L:
G
286
A
L:
A
298
G
L:
C
313
T
L:
T
340
C
L:
C
343
T
L:
T
382
C
L:
A
409
G
Show more
M
M:
T
68
C
M:
A
70
G
M:
C
194
T
M:
C
217
T
M:
T
259
C
M:
C
269
T
M:
T
301
C
M:
C
320
T
M:
T
360
C
M:
A
377
G
M:
T
385
C
M:
C
426
T
M:
C
428
T
M:
C
431
T
M:
G
456
A
M:
C
460
T
M:
A
484
G
M:
C
581
T
Show more
S
S:
G
47
C
S:
A
50
G
S:
G
54
A
S:
G
67
A
S:
G
99
A
S:
G
100
A
S:
C
178
A
S:
T
181
C
S:
G
189
A
S:
T
199
C
S:
G
202
A
S:
G
229
A
S:
C
235
T
S:
A
247
G
S:
G
271
A
S:
C
295
T
S:
A
298
G
S:
A
322
G
Show more
Deletions
None
Insertions
ins_S:1577:A, ins_M:9:GA, ins_L:12093:ACCATTCATTTCA, ins_L:12096:TCATCGTCATCGTTATTATCTTGGGGTGTGGGGGGAACG
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
GPC
GPC:
P
42
L
GPC:
L
56
P
GPC:
L
70
S
GPC:
S
90
P
GPC:
V
98
A
GPC:
P
112
S
GPC:
A
122
T
GPC:
P
123
L
GPC:
N
131
S
GPC:
S
171
P
GPC:
Q
191
R
GPC:
L
216
P
GPC:
P
226
L
GPC:
H
238
S
GPC:
K
250
E
GPC:
Q
273
H
GPC:
G
336
R
GPC:
D
484
N
Show more
NP
NP:
R
15
K
NP:
R
45
K
NP:
K
91
R
NP:
T
124
A
NP:
G
125
N
NP:
L
179
Q
NP:
H
195
R
NP:
I
246
V
NP:
S
301
G
NP:
K
428
R
NP:
V
436
I
RdRp
RdRp:
S
6
N
RdRp:
Y
60
N
RdRp:
I
505
T
RdRp:
T
767
A
RdRp:
K
809
R
RdRp:
G
812
E
RdRp:
T
876
S
RdRp:
A
1038
T
RdRp:
G
1047
E
RdRp:
V
1228
I
RdRp:
N
1367
D
RdRp:
N
1514
S
RdRp:
M
1647
L
RdRp:
P
1660
T
RdRp:
T
1675
N
RdRp:
R
1676
K
RdRp:
I
1949
V
RdRp:
I
1996
V
Show more
Deletions
None
Insertions
None
Load sequences
Report an issue with this sequence or metadata
Create GitHub issue