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LOC_001GX3Y.1
Download
Download FASTA
Download metadata TSV
Display Name: Pakistan/LOC_001GX3Y.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
2026-02-09 21:05
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%
Total stop codons L
0
Alignment and QC metrics S
Length S
1648
Total SNPs S
168
Total inserted nucs S
0
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
96
Total frame shifts S
0
Completeness S
85.94%
Total stop codons S
0
Alignment and QC metrics M
Length M
5364
Total SNPs M
44
Total inserted nucs M
2
Total deleted nucs M
29
Total ambiguous nucs M
0
Total unknown nucs M
158
Total frame shifts M
1
Frame shifts M
GPC:420-1685(nt:1345-5143)
Completeness M
95.90%
Total stop codons M
0
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
2026-02-09 21:05:35 UTC
Date released
2026-02-09 21:09:52 UTC
Files
Annotations
LOC_001GX3Y.1.embl
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
MH396653.1
&
OL774851.1
references
Substitutions
L
G
23
T
A
35
G
C
63
G
C
64
T
T
65
C
T
66
C
G
69
A
G
71
T
G
88
A
G
93
A
A
109
G
A
124
G
T
131
A
T
139
C
T
154
C
T
160
C
C
208
T
T
250
C
Show more
M
G
65
A
C
375
T
G
394
A
A
416
G
T
424
C
G
480
A
T
518
C
G
529
A
T
584
C
C
616
T
A
626
G
G
634
A
A
640
G
C
649
A
C
718
A
C
720
T
T
729
C
T
738
C
Show more
S
T
16
A
C
31
G
T
63
C
A
84
G
A
93
G
A
98
T
A
102
G
C
150
T
G
153
A
T
156
C
T
166
C
A
173
G
G
174
A
A
186
G
C
192
T
C
201
T
G
231
A
A
252
C
Show more
Deletions
12034, 5348-5376
Insertions
ins_58:T, ins_11925:GT, ins_12055:ACAATTTC, ins_12083:ACTATTC, ins_12108:TTTATTATTTCTGGGGTGTGGGGGGAACGAT, ins_1344:A, ins_5215:C
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
MH396653.1
&
OL774851.1
references
Substitutions
GPC
GPC:
P
96
L
GPC:
T
110
A
GPC:
S
131
N
GPC:
Y
144
H
GPC:
S
166
P
GPC:
T
180
A
GPC:
H
210
Q
GPC:
S
211
L
GPC:
L
214
S
GPC:
M
217
T
GPC:
T
348
A
NP
NP:
Y
20
F
NP:
K
45
R
NP:
V
83
A
NP:
D
116
E
NP:
A
124
S
NP:
Q
179
L
NP:
A
307
V
NP:
Q
405
L
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
L (unaligned)
M (unaligned)
S (unaligned)
L (aligned)
M (aligned)
S (aligned)
Aligned amino acid sequences
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