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LOC_000YGLE.1
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Download FASTA
Download metadata TSV
Display Name: Pakistan/LOC_000YGLE.1/2023-08-30
M. Umair,
S. A. Haider,
Z. Jamal,
M. Ammar,
R. Hakim,
Q. Ali &
M. Salman
Sample details
Collection date
2023-08-30
Collection date (lower bound)
2023-08-30
Collection date (upper bound)
2023-08-30
Earliest release date
2023-12-26
Collection country
Pakistan
Isolate name
CCHF/NIHPAK-21/2023
Data use terms
Data use terms
OPEN
✕
Data use terms history
Changed
User
Data use terms
2025-10-22 14:40
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
National Institute of Health, Department of Virology
INSDC
NCBI release date
2023-12-26
INSDC accession L
OR964927.1
INSDC accession M
OR964938.1
INSDC accession S
OR964916.1
Host
Host taxon id
9606
Host name scientific
Homo sapiens
Alignment and QC metrics L
Length L
12146
Total SNPs L
1220
Total inserted nucs L
49
Total deleted nucs L
1
Total ambiguous nucs L
0
Total unknown nucs L
814
Total frame shifts L
0
Completeness L
93.19%
Alignment and QC metrics S
Length S
1648
Total SNPs S
169
Total inserted nucs S
1
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
96
Total frame shifts S
0
Completeness S
92.76%
Alignment and QC metrics M
Length M
5364
Total SNPs M
584
Total inserted nucs M
13
Total deleted nucs M
0
Total ambiguous nucs M
0
Total unknown nucs M
158
Total frame shifts M
1
Frame shifts M
GPC:420-1685(nt:1349-5147)
Completeness M
96.78%
Submission details
Submission ID
OR964927.1.L/OR964938.1.M/OR964916.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-10-22 14:40:13 UTC
Date released
2025-10-22 14:46:33 UTC
Lineage
Segment S Lineage
IV.1
Files
Annotations
LOC_000YGLE.1.embl
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
L
L:
G
23
T
L:
A
35
G
L:
C
63
G
L:
C
64
T
L:
T
65
C
L:
T
66
C
L:
G
69
A
L:
G
71
T
L:
G
88
A
L:
G
93
A
L:
A
109
G
L:
A
124
G
L:
T
131
A
L:
T
139
C
L:
T
154
C
L:
T
160
C
L:
C
208
T
L:
T
250
C
Show more
M
M:
C
82
T
M:
C
85
T
M:
T
86
C
M:
A
107
G
M:
A
117
G
M:
C
119
T
M:
C
120
T
M:
T
122
C
M:
C
126
T
M:
A
128
G
M:
T
137
C
M:
G
143
A
M:
A
146
G
M:
G
147
A
M:
A
169
G
M:
A
170
G
M:
G
175
A
M:
A
185
T
Show more
S
S:
A
50
G
S:
G
54
A
S:
G
67
A
S:
T
79
C
S:
G
99
A
S:
A
109
G
S:
A
118
G
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:
T
199
C
S:
C
208
T
S:
C
217
T
S:
G
229
A
S:
C
235
T
Show more
Deletions
L:12034
Insertions
ins_L:58:T, ins_L:11925:GT, ins_L:12055:ACAATTTC, ins_L:12083:ACTATTC, ins_L:12108:TTTATTATTTCTGGGGTGTGGGGGGAACGAT, ins_M:1348:A, ins_M:5219:C, ins_M:5366:TAAATCTTGAC, ins_S:1577:A
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
26
G
GPC:
K
31
N
GPC:
D
33
H
GPC:
T
34
V
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
GPC:
P
80
S
GPC:
G
85
K
GPC:
S
86
G
GPC:
P
88
S
GPC:
S
90
P
Show more
NP
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:
I
246
V
NP:
S
301
G
NP:
A
307
V
NP:
Q
405
L
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:
I
114
V
RdRp:
T
163
A
RdRp:
A
168
T
RdRp:
M
172
V
RdRp:
S
205
P
RdRp:
N
206
Y
RdRp:
K
275
R
RdRp:
I
279
V
RdRp:
I
505
T
RdRp:
A
508
V
RdRp:
G
762
E
Show more
Deletions
None
Insertions
None
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