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
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Ebola Sudan
Test organism (without alignment)
West Nile Virus
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LOC_000PKSH.1
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Display Name: Tajikistan/LOC_000PKSH.1/2023-05-23
J. D'Addiego,
M. Mullojanova,
T. Hikmatov,
F. Tishkova &
R. Hewson
Sample details
Collection date
2023-05-23
Collection date (lower bound)
2023-05-23
Collection date (upper bound)
2023-05-23
Earliest release date
2025-07-27
Collection country
Tajikistan
Isolate name
CCHFV_30_185
Data use terms
Data use terms
OPEN
✕
Data use terms history
Changed
User
Data use terms
2025-08-29 09:06
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
UK Health Security Agency, Research & Evaluation
INSDC
NCBI release date
2025-07-27
INSDC accession L
PV953859.1
INSDC accession M
PV953858.1
INSDC accession S
PV953857.1
Host
Host taxon id
176092
Host name scientific
Hyalomma anatolicum
Alignment and QC metrics L
Length L
12122
Total SNPs L
1395
Total inserted nucs L
49
Total deleted nucs L
12
Total ambiguous nucs L
246
Total unknown nucs L
300
Total frame shifts L
0
Completeness L
95.30%
Alignment and QC metrics M
Length M
4809
Total SNPs M
847
Total inserted nucs M
1
Total deleted nucs M
0
Total ambiguous nucs M
32
Total unknown nucs M
0
Total frame shifts M
0
Completeness M
89.00%
Alignment and QC metrics S
Length S
1671
Total SNPs S
205
Total inserted nucs S
2
Total deleted nucs S
1
Total ambiguous nucs S
37
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
97.67%
Submission details
Submission ID
PV953859.1.L/PV953858.1.M/PV953857.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-08-29 09:06:25 UTC
Date released
2025-08-29 09:11:43 UTC
Files
Annotations
LOC_000PKSH.1.embl
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
L
L:
A
35
G
L:
G
43
C
L:
C
48
T
L:
T
49
C
L:
T
66
G
L:
G
71
T
L:
A
72
T
L:
C
85
T
L:
G
93
A
L:
A
109
G
L:
G
112
A
L:
T
121
C
L:
T
131
A
L:
C
136
T
L:
T
151
C
L:
T
154
C
L:
T
157
C
L:
T
160
C
Show more
M
M:
T
542
G
M:
G
551
C
M:
T
554
C
M:
C
555
A
M:
T
557
A
M:
G
558
A
M:
G
559
A
M:
C
561
T
M:
T
566
A
M:
A
569
G
M:
A
570
G
M:
C
581
A
M:
T
582
G
M:
G
584
A
M:
G
585
A
M:
G
586
A
M:
A
587
T
M:
A
588
C
Show more
S
S:
T
48
C
S:
G
54
A
S:
A
61
G
S:
C
64
T
S:
G
67
A
S:
T
79
C
S:
G
99
A
S:
A
118
G
S:
C
142
T
S:
T
157
C
S:
C
166
T
S:
C
178
A
S:
T
182
C
S:
G
190
A
S:
G
196
A
S:
C
214
T
S:
C
217
T
S:
G
229
A
Show more
Deletions
L:59, L:11932-11935, L:11974-11978, L:12086, L:12087, S:1617
Insertions
ins_L:68:CTT, ins_L:11922:T, ins_L:11924:GTGTG, ins_L:11987:T, ins_L:11993:CG, ins_L:11995:G, ins_L:12044:YCTATTTTAGTCCA, ins_L:12055:CAT, ins_L:12062:C, ins_L:12108:YTGATTATTTCTAGGGTG, ins_M:5171:C, ins_S:1579:A, ins_S:1612:C
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
GPC
GPC:
P
155
T
GPC:
G
156
K
GPC:
P
157
S
GPC:
D
158
E
GPC:
T
160
A
GPC:
S
164
A
GPC:
G
165
N
GPC:
T
166
P
GPC:
G
167
E
GPC:
E
169
A
GPC:
S
171
I
GPC:
A
172
E
GPC:
T
173
N
GPC:
P
176
Q
GPC:
P
178
L
GPC:
V
179
A
GPC:
S
180
A
GPC:
N
181
S
Show more
NP
NP:
R
15
K
NP:
D
116
E
NP:
T
124
A
NP:
G
125
N
NP:
N
150
H
NP:
H
195
R
NP:
D
199
E
NP:
I
246
V
NP:
R
270
K
NP:
S
275
N
NP:
S
301
G
NP:
V
436
I
RdRp
RdRp:
S
6
N
RdRp:
S
19
T
RdRp:
Y
60
N
RdRp:
R
63
H
RdRp:
S
67
V
RdRp:
R
80
K
RdRp:
V
82
I
RdRp:
L
90
I
RdRp:
I
114
V
RdRp:
T
163
A
RdRp:
A
168
T
RdRp:
M
172
V
RdRp:
R
174
K
RdRp:
S
205
P
RdRp:
N
206
Y
RdRp:
K
275
R
RdRp:
I
279
V
RdRp:
V
352
I
Show more
Deletions
None
Insertions
None
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