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Crimean-Congo Hemorrhagic Fever Virus
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PP_000RE11.3
Version 3
PP_000RE11.1
Previous version
PP_000RE11.2
Previous version
PP_000RE11.3
Latest version
All versions
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Download FASTA
Download metadata TSV
Display Name: Pakistan/PP_000RE11.3/2023-09-25
M. Umair,
S. A. Haider,
Z. Jamal,
M. Ammar,
R. Hakim,
Q. Ali &
M. Salman
Sample details
Collection date
2023-09-25
Country
Pakistan
Isolate name
CCHF/NIHPAK-11/2023
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
Authors
Author affiliations
National Institute of Health, Department of Virology
INSDC
INSDC accession L
OR964931.1
INSDC accession M
OR964942.1
INSDC accession S
OR964920.1
NCBI release date
2023-12-26
Host
Host taxon ID
9606
Host name - scientific
Homo sapiens
Alignment and QC metrics L
Length L
12159
Completeness L
99.99%
# of SNPs L
1643
# of inserted bases L
51
# of deleted bases L
0
# of ambiguous bases L
0
# of unknown bases L
1
# of frame shifts L
0
# of stop codons L
0
Alignment and QC metrics M
Length M
5345
Completeness M
98.79%
# of SNPs M
1026
# of inserted bases M
1
# of deleted bases M
1
# of ambiguous bases M
0
# of unknown bases M
44
# of frame shifts M
0
# of stop codons M
0
Alignment and QC metrics S
Length S
1651
Completeness S
98.68%
# of SNPs S
232
# of inserted bases S
1
# of deleted bases S
0
# of ambiguous bases S
0
# of unknown bases S
0
# of frame shifts S
0
# of stop codons S
0
Submission details
Submission ID
OR964931.1.L/OR964942.1.M/OR964920.1.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
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
L
L:
T
10
C
L:
G
23
T
L:
A
35
G
L:
G
43
T
L:
C
48
T
L:
T
49
C
L:
C
63
G
L:
C
64
T
L:
T
65
C
L:
T
66
C
L:
T
68
C
L:
G
69
A
L:
G
71
C
L:
G
88
A
L:
G
93
A
L:
A
109
G
L:
C
117
A
L:
A
124
G
Show more
M
M:
G
50
T
M:
A
51
G
M:
G
56
A
M:
A
57
C
M:
A
70
G
M:
T
71
A
M:
T
72
C
M:
G
76
T
M:
A
80
G
M:
T
83
C
M:
C
85
T
M:
T
86
C
M:
A
90
G
M:
T
91
C
M:
C
92
T
M:
A
93
G
M:
T
98
C
M:
T
100
C
Show more
S
S:
A
50
G
S:
G
54
A
S:
G
76
A
S:
T
79
C
S:
A
85
G
S:
T
88
C
S:
G
91
A
S:
T
106
C
S:
A
109
G
S:
A
118
G
S:
A
121
G
S:
C
142
A
S:
T
144
A
S:
C
145
T
S:
A
148
G
S:
C
166
T
S:
G
169
A
S:
G
171
A
Show more
Deletions
M:5257
Insertions
ins_L:58:T, ins_L:11915:AA, ins_L:12054:TAAAATTTT, ins_L:12083:ACTATTC, ins_L:12108:TTTGTTATTTCTGGGGTGTGGGGGGAACGATT, ins_M:5170:G, ins_S:1574:T
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
GPC
GPC:
M
1
V
GPC:
I
3
T
GPC:
S
4
L
GPC:
M
6
V
GPC:
I
9
V
GPC:
L
10
F
GPC:
C
15
W
GPC:
G
16
S
GPC:
L
17
P
GPC:
E
19
G
GPC:
S
23
L
GPC:
H
24
S
GPC:
R
28
Q
GPC:
H
29
Y
GPC:
K
31
S
GPC:
D
33
S
GPC:
T
34
I
GPC:
M
35
T
Show more
NP
NP:
F
30
Y
NP:
S
39
N
NP:
V
83
A
NP:
S
109
N
NP:
D
116
E
NP:
T
124
S
NP:
G
125
N
NP:
D
199
E
NP:
V
205
I
NP:
I
246
V
NP:
S
301
G
NP:
A
307
V
NP:
E
322
D
NP:
Q
405
L
NP:
V
436
I
NP:
A
450
S
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:
E
203
D
RdRp:
S
205
P
RdRp:
N
206
Y
RdRp:
V
214
I
RdRp:
I
223
V
Show more
Deletions
None
Insertions
None
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