Pathoplexus
Organisms
Crimean-Congo Hemorrhagic Fever Virus
SeqSets
News
About
Docs
Login
Pathoplexus
Organisms
Crimean-Congo Hemorrhagic Fever Virus
Ebola Sudan
Ebola Zaire
HMPV
Measles Virus
Mpox Virus
RSV-A
RSV-B
West Nile Virus
SeqSets
News
About
Docs
Login
API docs
Governance
Funding
Contact
Status
Crimean-Congo Hemorrhagic Fever Virus
|
Browse data
Submit sequences
PP_000R9MZ.3
Version 3
PP_000R9MZ.1
Previous version
PP_000R9MZ.2
Previous version
PP_000R9MZ.3
Latest version
All versions
Download
Download FASTA
Download metadata TSV
Display Name: Pakistan/PP_000R9MZ.3/2022-05
M. Umair,
Z. Rehman,
M. Salman,
A. Ikram,
S. A. Haider,
M. Ammar,
Q. Ali,
R. Hakim &
S. Ansari
Sample details
Collection date
2022-05
Country
Pakistan
Isolate name
NIH-03
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
OP345193.1
INSDC accession M
OP345192.1
INSDC accession S
OP345191.1
NCBI release date
2022-10-02
Host
Host taxon ID
9606
Host name - scientific
Homo sapiens
Alignment and QC metrics L
Length L
11838
Completeness L
97.77%
# of SNPs L
1547
# of inserted bases L
0
# of deleted bases L
0
# of ambiguous bases L
0
# of unknown bases L
0
# of frame shifts L
0
# of stop codons L
0
Alignment and QC metrics M
Length M
5100
Completeness M
94.88%
# of SNPs M
1453
# of inserted bases M
45
# of deleted bases M
36
# of ambiguous bases M
0
# of unknown bases M
0
# of frame shifts M
0
# of stop codons M
0
Alignment and QC metrics S
Length S
1449
Completeness S
86.66%
# of SNPs S
168
# of inserted bases S
0
# 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
OP345193.1.L/OP345192.1.M/OP345191.1.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 17:15:40 UTC
Earliest release date
2022-10-02
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:
C
85
T
L:
G
88
A
L:
G
93
A
L:
A
109
G
L:
C
117
A
L:
A
124
G
L:
T
131
A
L:
T
139
C
L:
C
148
T
L:
T
151
C
L:
T
154
C
L:
T
160
C
L:
C
208
T
L:
T
218
C
L:
T
229
C
L:
T
250
C
L:
T
253
C
L:
T
254
A
Show more
M
M:
T
59
G
M:
G
60
T
M:
A
61
T
M:
A
64
C
M:
T
65
C
M:
T
68
C
M:
T
71
A
M:
G
73
C
M:
C
74
T
M:
G
76
T
M:
C
77
G
M:
A
78
C
M:
A
80
G
M:
C
82
T
M:
T
83
G
M:
G
84
A
M:
C
85
T
M:
A
90
T
Show more
S
S:
G
67
A
S:
T
79
C
S:
A
81
G
S:
G
99
A
S:
A
109
G
S:
A
118
G
S:
G
134
A
S:
C
166
T
S:
G
169
A
S:
T
172
C
S:
C
178
A
S:
T
182
C
S:
G
190
A
S:
G
196
A
S:
T
199
C
S:
C
208
T
S:
C
217
T
S:
G
229
A
Show more
Deletions
M:99-119, M:795-809
Insertions
ins_M:236:CCGTCAACAGACACTGCC, ins_M:320:CCCTCGGTTACCAACAAG, ins_M:470:GTCCCACAG
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
GPC
GPC:
M
1
I
GPC:
H
2
L
GPC:
I
3
Y
GPC:
S
4
Q
GPC:
M
6
F
GPC:
Y
7
W
GPC:
A
8
S
GPC:
I
9
G
GPC:
L
10
S
GPC:
C
11
G
GPC:
L
12
V
GPC:
Q
13
T
GPC:
L
14
S
GPC:
C
15
G
GPC:
L
17
G
GPC:
G
18
T
GPC:
E
19
N
GPC:
T
20
S
Show more
NP
NP:
N
9
S
NP:
R
15
K
NP:
V
27
M
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:
K
428
R
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:
A
202
V
RdRp:
S
205
P
RdRp:
N
206
Y
RdRp:
I
223
V
RdRp:
K
275
R
Show more
Deletions
GPC:176-210
Insertions
ins_GPC:77:VTNKDTSP, ins_GPC:229:STTGQTNPTTLETPPKTQTIQGQQTTTPVT
Load sequences
Report an issue with this sequence or metadata
Create GitHub issue