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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Crimean-Congo Hemorrhagic Fever Virus
Crimean-Congo Hemorrhagic Fever Virus
Test Dummy Organism
Ebola Zaire
Test organism (without alignment)
West Nile Virus
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Status
LOC_000R924.1
Download FASTA
Display Name: Pakistan/LOC_000R924.1/2023-05-01
M. Umair,
S.A. Haider,
Z. Jamal,
M. Ammar,
R. Hakim,
Q. Ali,
M. Salman
Submission details
Submission ID
OR964924.1.L/OR964935.1.M/OR964913.1.S
Submitter
insdc_ingest_user
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-09-19 17:23:46 UTC
Date released
2024-09-19 17:26:28 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2024-09-19 17:23
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
National Institute of Health, Department of Virology
Alignment states and QC metrics L
Completeness L
99.86%
Frame shifts L
RdRp:792-795(nt:2450-2461)
Length L
12134
Total ambiguous nucs L
0
Total deleted nucs L
10
Total frame shifts L
1
Total inserted nucs L
52
Total SNPs L
1636
Total unknown nucs L
1
Alignment states and QC metrics M
Completeness M
97.07%
Length M
5336
Total ambiguous nucs M
0
Total deleted nucs M
0
Total frame shifts M
0
Total inserted nucs M
1
Total SNPs M
990
Total unknown nucs M
126
Alignment states and QC metrics S
Completeness S
98.98%
Length S
1656
Total ambiguous nucs S
0
Total deleted nucs S
0
Total frame shifts S
0
Total inserted nucs S
1
Total SNPs S
211
Total unknown nucs S
0
Sample details
Collection country
Pakistan
Collection date
2023-05-01
Isolate name
CCHF/NIHPAK-30/2023
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC
INSDC accession L
OR964924.1
INSDC accession M
OR964935.1
INSDC accession S
OR964913.1
NCBI release date
2023-12-26
Nucleotide mutations
Substitutions
L
L:
G
23
T
L:
A
35
G
L:
G
43
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:
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
Show more
M
M:
G
50
T
M:
G
56
A
M:
A
57
C
M:
A
70
G
M:
T
71
A
M:
A
80
G
M:
T
83
C
M:
G
84
T
M:
C
85
T
M:
T
86
C
M:
C
92
T
M:
C
96
T
M:
T
98
C
M:
T
100
C
M:
T
102
C
M:
T
105
C
M:
A
108
C
M:
A
112
G
Show more
S
S:
T
48
C
S:
G
54
A
S:
A
55
G
S:
A
61
G
S:
C
64
T
S:
G
67
A
S:
A
85
G
S:
G
91
A
S:
G
99
A
S:
T
157
C
S:
C
166
T
S:
C
178
A
S:
C
187
T
S:
G
190
A
S:
G
196
A
S:
A
209
G
S:
C
214
T
S:
C
217
T
Show more
Deletions
L:2449, L:11920-11924, L:12058, L:12059, L:12076, L:12083
Insertions
ins_S:1577:A, ins_M:5171:C, ins_L:2461:G, ins_L:12108:TGTGGGGG, ins_L:12098:TCATGTCCGTTTTATT, ins_L:58:T, ins_L:11917:CATTATC, ins_L:12064:GGTTAACCT, ins_L:12054:TACAATTTCT
Amino acid mutations
Substitutions
GPC
GPC:
H
2
Y
GPC:
I
3
T
GPC:
S
4
P
GPC:
M
6
L
GPC:
Y
7
C
GPC:
I
9
V
GPC:
Q
13
K
GPC:
C
15
W
GPC:
G
16
S
GPC:
E
19
G
GPC:
T
20
A
GPC:
S
23
P
GPC:
H
24
S
GPC:
R
28
Q
GPC:
N
30
S
GPC:
K
31
N
GPC:
T
32
A
GPC:
D
33
S
Show more
NP
NP:
R
15
K
NP:
S
52
G
NP:
S
65
A
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:
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:
L
94
Q
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
C
RdRp:
I
223
V
RdRp:
N
236
S
Show more
Deletions
None
Insertions
None
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