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
Ebola Sudan
Test organism (without alignment)
West Nile Virus
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LOC_000P6KA.1
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Download FASTA
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Display Name: Uganda/LOC_000P6KA.1/1967
D'Addiego,
J.; Shah,
S.; Elaldi,
N.; Allen,
D.; Hewson,
R.
Submission details
Submission ID
PP735372.1.L/PP735371.1.M/PP735370.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-23 19:47:50 UTC
Date released
2024-12-23 19:52:19 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2024-12-23 19:47
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
UK Health Security Agency, Research & Evaluation
Alignment states and QC metrics L
Completeness L
41.18%
Length L
5062
Total ambiguous nucs L
22
Total deleted nucs L
0
Total frame shifts L
0
Total inserted nucs L
0
Total SNPs L
819
Total unknown nucs L
54
Alignment states and QC metrics M
Completeness M
56.80%
Frame shifts M
GPC:453-454(nt:1448-1453),GPC:1300-1308(nt:3990-4015)
Length M
3055
Total ambiguous nucs M
7
Total deleted nucs M
9
Total frame shifts M
2
Total inserted nucs M
9
Total SNPs M
699
Total unknown nucs M
0
Alignment states and QC metrics S
Completeness S
89.41%
Length S
1483
Total ambiguous nucs S
3
Total deleted nucs S
20
Total frame shifts S
0
Total inserted nucs S
5
Total SNPs S
231
Total unknown nucs S
0
Sample details
Earliest release date
2024-10-26
Collection country
Uganda
Collection date
1967
Collection date (lower bound)
1967-01-01
Collection date (upper bound)
1967-12-31
Isolate name
CCHFV_Semunya
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC
INSDC accession L
PP735372.1
INSDC accession M
PP735371.1
INSDC accession S
PP735370.1
NCBI release date
2024-10-26
Nucleotide mutations
Substitutions
L
L:
A
247
C
L:
T
250
C
L:
T
254
A
L:
A
262
G
L:
C
265
T
L:
C
271
T
L:
G
274
A
L:
T
275
G
L:
G
277
A
L:
G
301
A
L:
G
315
A
L:
A
316
G
L:
G
320
A
L:
C
325
T
L:
C
326
T
L:
G
328
A
L:
C
332
T
L:
A
337
C
Show more
M
M:
T
1271
C
M:
C
1274
T
M:
A
1277
C
M:
C
1283
T
M:
C
1286
G
M:
C
1292
T
M:
C
1306
T
M:
G
1310
A
M:
T
1312
C
M:
C
1313
T
M:
T
1314
G
M:
T
1315
A
M:
A
1319
G
M:
A
1328
C
M:
G
1332
C
M:
A
1337
G
M:
T
1349
C
M:
C
1350
A
Show more
S
S:
A
78
C
S:
A
81
G
S:
A
85
G
S:
G
91
A
S:
A
109
G
S:
A
118
G
S:
A
121
G
S:
G
122
A
S:
A
124
T
S:
C
145
T
S:
C
151
T
S:
C
154
T
S:
T
157
C
S:
C
166
T
S:
T
175
C
S:
T
182
C
S:
G
184
T
S:
G
196
A
Show more
Deletions
M:1454, M:1455, M:1461-1463, M:2583-2585, M:4016, S:1509-1513, S:1539-1553
Insertions
ins_S:1516:GTCAC, ins_M:2564:ACA, ins_M:3989:W, ins_M:1447:GAAAG
Amino acid mutations
Substitutions
GPC
GPC:
I
398
M
GPC:
A
405
V
GPC:
I
407
T
GPC:
F
408
D
GPC:
R
412
S
GPC:
V
414
L
GPC:
L
420
I
GPC:
H
431
L
GPC:
V
433
S
GPC:
I
445
T
GPC:
V
449
I
GPC:
E
457
N
GPC:
I
461
M
GPC:
K
474
R
GPC:
T
480
A
GPC:
F
482
I
GPC:
D
484
N
GPC:
V
498
T
Show more
NP
NP:
N
8
T
NP:
N
9
S
NP:
G
23
S
NP:
D
116
G
NP:
T
124
A
NP:
G
125
N
NP:
H
195
R
NP:
D
199
E
NP:
I
246
V
NP:
R
270
K
NP:
S
275
G
NP:
I
277
V
NP:
S
301
G
NP:
A
307
P
NP:
Y
311
F
NP:
T
320
S
NP:
Q
370
E
NP:
V
436
I
RdRp
RdRp:
Y
60
N
RdRp:
S
67
A
RdRp:
R
80
K
RdRp:
V
82
I
RdRp:
E
87
D
RdRp:
I
114
V
RdRp:
I
131
L
RdRp:
I
157
M
RdRp:
T
163
A
RdRp:
R
166
K
RdRp:
A
168
T
RdRp:
M
172
V
RdRp:
R
174
K
RdRp:
I
176
M
RdRp:
S
201
G
RdRp:
A
202
S
RdRp:
S
205
P
RdRp:
N
206
Y
Show more
Deletions
GPC:455
Insertions
None
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