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Crimean-Congo Hemorrhagic Fever Virus
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PP_000RDTH.3
Version 3
PP_000RDTH.1
Previous version
PP_000RDTH.2
Previous version
PP_000RDTH.3
Latest version
All versions
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Download FASTA
Download metadata TSV
Pakistan/PP_000RDTH.3/2023-04-20
M. Umair,
S. A. Haider,
Z. Jamal,
M. Ammar,
R. Hakim,
Q. Ali &
M. Salman
National Institute of Health, Department of Virology
Sample details
Collection date
2023-04-20
Sampling location
Pakistan
Isolate name
CCHF/NIHPAK-22/2023
Data use terms
Data use terms
OPEN
✕
Data use terms history
Changed
User
Data use terms
2024-08-27 12:11
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data
INSDC
INSDC accession L
OR964923.1
INSDC accession M
OR964934.1
INSDC accession S
OR964912.1
NCBI release date
2023-12-26
Host
Host
Homo sapiens
Submission details
Submission ID
OR964923.1.L/OR964934.1.M/OR964912.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-10-29 17:10:51 UTC
Date released
2024-10-29 17:16:10 UTC
Earliest release date
2023-12-26
Lineage
Segment S Lineage
IV.1
Alignment and QC
Length L
12107 (99.7%)
# of SNPs L
1636
# of inserted bases L
18
# of unknown bases L
13
Length S
1594 (95.2%)
# of SNPs S
209
# of inserted bases S
1
# of unknown bases S
1
Length M
5290 (96.5%)
# of SNPs M
620
# of inserted bases M
2
# of unknown bases M
108
# of frame shifts M
1
Frame shifts M
GPC:1291-1685(nt:3963-5147)
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
L
G
23
T
A
35
G
G
43
T
T
49
C
C
63
G
C
64
T
T
65
C
T
66
C
T
68
C
G
69
A
G
71
C
C
85
T
G
88
A
G
93
A
A
109
G
C
117
A
A
124
G
T
131
A
Show more
M
C
82
T
C
85
T
A
107
G
A
117
G
C
119
T
C
120
T
T
122
C
A
128
G
G
131
A
T
137
C
G
143
A
A
146
G
G
147
A
C
153
A
T
155
C
T
159
C
A
169
G
A
170
G
Show more
S
A
50
G
G
54
A
G
67
A
T
79
C
A
81
G
G
99
A
A
109
G
A
118
G
C
166
T
G
169
A
T
172
C
C
178
A
T
182
C
G
190
A
G
196
A
T
199
C
C
208
T
C
217
T
Show more
Deletions
N/A
Insertions
L
ins_58:T, ins_11914:GC, ins_12054:TACAATTT, ins_12083:ACTATTC
M
ins_3962:T, ins_5238:N
S
ins_1584:C
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
GPC
GPC:
I
9
V
GPC:
L
10
F
GPC:
E
19
K
GPC:
H
21
N
GPC:
S
23
P
GPC:
E
26
G
GPC:
R
28
E
GPC:
K
31
N
GPC:
D
33
H
GPC:
T
34
V
GPC:
M
35
L
GPC:
G
39
D
GPC:
N
41
S
GPC:
P
42
Q
GPC:
S
44
P
GPC:
S
53
P
GPC:
I
54
V
GPC:
L
56
P
Show more
NP
NP:
N
9
S
NP:
R
15
K
NP:
V
83
A
NP:
D
116
E
NP:
T
124
S
NP:
G
125
N
NP:
H
195
R
NP:
D
199
E
NP:
I
246
V
NP:
R
270
K
NP:
S
301
G
NP:
A
307
V
NP:
E
322
D
NP:
Q
405
L
NP:
V
436
I
RdRp
RdRp:
S
6
N
RdRp:
A
14
D
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:
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:
I
223
V
RdRp:
N
236
S
RdRp:
D
264
N
Show more
Deletions
N/A
Insertions
N/A
L (unaligned)
M (unaligned)
S (unaligned)
L (aligned)
M (aligned)
S (aligned)
Aligned amino acid sequences
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