This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.
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Loculus
Crimean-Congo Hemorrhagic Fever Virus
Crimean-Congo Hemorrhagic Fever Virus
Test Dummy Organism
Test organism (without consensus sequences)
Ebola Sudan
Test organism (without alignment)
West Nile Virus
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LOC_000PBBN.1
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Display Name: Greece/LOC_000PBBN.1/1975
D'Addiego,
J.; Shah,
S.; Elaldi,
N.; Allen,
D.; Hewson,
R.
Submission details
Submission ID
PP735375.1.L/PP735373.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-03-11 18:18:53 UTC
Date released
2025-03-11 18:23:22 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2025-03-11 18:18
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
UK Health Security Agency, Research & Evaluation
Alignment and QC metrics L
Completeness L
41.65%
Frame shifts L
RdRp:768-771(nt:2376-2387),RdRp:778-781(nt:2406-2419),RdRp:786-789(nt:2432-2442)
Length L
5062
Total ambiguous nucs L
19
Total deleted nucs L
23
Total frame shifts L
3
Total inserted nucs L
23
Total SNPs L
1095
Total unknown nucs L
0
Alignment and QC metrics S
Completeness S
90.25%
Length S
1498
Total ambiguous nucs S
8
Total deleted nucs S
41
Total frame shifts S
0
Total inserted nucs S
1
Total SNPs S
260
Total unknown nucs S
21
Sample details
Earliest release date
2024-10-26
Collection country
Greece
Collection date
1975
Collection date (lower bound)
1975-01-01
Collection date (upper bound)
1975-12-31
Isolate name
CCHFV_AP92
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC
INSDC accession L
PP735375.1
INSDC accession S
PP735373.1
NCBI release date
2024-10-26
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
L
L:
T
253
C
L:
T
254
A
L:
A
262
G
L:
G
264
A
L:
C
266
A
L:
C
271
T
L:
G
272
A
L:
G
274
A
L:
T
275
A
L:
G
277
A
L:
G
285
A
L:
G
289
A
L:
T
292
C
L:
C
295
T
L:
C
296
T
L:
A
297
T
L:
A
298
G
L:
G
301
T
Show more
S
S:
T
79
C
S:
A
81
G
S:
T
88
C
S:
G
91
T
S:
A
92
C
S:
A
109
G
S:
A
118
G
S:
A
130
G
S:
C
154
A
S:
C
160
T
S:
C
166
T
S:
G
169
A
S:
G
171
A
S:
T
175
G
S:
C
178
G
S:
T
181
C
S:
G
190
A
S:
T
198
A
Show more
Deletions
L:2375, L:2388, L:2389, L:2401-2405, L:2420-2423, L:2443-2447, L:2453-2455, L:3172-3174, S:1544-1569, S:1579-1586, S:1597-1603
Insertions
ins_S:1572:G, ins_L:2391:CAC, ins_L:3178:GCA, ins_L:2413:CTACTT, ins_L:2431:GAGCCCGAAAG
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
NP
NP:
N
9
S
NP:
E
12
D
NP:
M
13
L
NP:
S
39
N
NP:
F
48
Y
NP:
F
73
Y
NP:
A
100
T
NP:
G
101
S
NP:
V
117
I
NP:
T
124
S
NP:
G
125
S
NP:
V
141
I
NP:
A
146
T
NP:
V
163
L
NP:
M
164
V
NP:
S
165
P
NP:
L
179
I
NP:
V
198
I
Show more
RdRp
RdRp:
Y
60
N
RdRp:
R
63
H
RdRp:
L
64
I
RdRp:
E
66
K
RdRp:
S
67
T
RdRp:
R
70
Q
RdRp:
Q
74
L
RdRp:
E
75
D
RdRp:
R
80
K
RdRp:
K
91
Q
RdRp:
L
94
S
RdRp:
A
122
T
RdRp:
S
124
N
RdRp:
D
135
E
RdRp:
I
157
V
RdRp:
F
161
L
RdRp:
T
165
A
RdRp:
E
167
G
Show more
Deletions
RdRp:767, RdRp:776, RdRp:777, RdRp:782, RdRp:783, RdRp:790, RdRp:791
Insertions
None
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