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LOC_001EHYR.1
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Download FASTA
Download metadata TSV
Display Name: Pakistan/LOC_001EHYR.1/2024-07-12
M. Umair,
R. Hakim,
Z. Jamal &
M. Salman
Sample details
Collection date
2024-07-12
Collection date (lower bound)
2024-07-12
Collection date (upper bound)
2024-07-12
Earliest release date
2024-11-12
Collection country
Pakistan
Collection subdivision level 1
Punjab
Isolate name
CCHF/NIHPAK-37/2024
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
2024-11-12
INSDC accession L
PQ523728.1
INSDC accession M
PQ523725.1
INSDC accession S
PQ523721.1
Host
Host taxon id
9606
Host name scientific
Homo sapiens
Alignment and QC metrics L
Length L
12140
Total SNPs L
1631
Total inserted nucs L
47
Total deleted nucs L
0
Total ambiguous nucs L
0
Total unknown nucs L
0
Total frame shifts L
0
Completeness L
99.88%
Total stop codons L
0
Alignment and QC metrics M
Length M
5345
Total SNPs M
1562
Total inserted nucs M
48
Total deleted nucs M
30
Total ambiguous nucs M
0
Total unknown nucs M
0
Total frame shifts M
0
Completeness M
99.27%
Total stop codons M
0
Alignment and QC metrics S
Length S
1655
Total SNPs S
213
Total inserted nucs S
1
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
98.92%
Total stop codons S
0
Submission details
Submission ID
PQ523728.1.L/PQ523725.1.M/PQ523721.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-02-09 21:05:33 UTC
Date released
2026-02-09 21:12:49 UTC
Lineage
Segment S Lineage
IV.2
Files
Annotations
LOC_001EHYR.1.embl
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
L
G
23
T
A
35
G
G
43
T
T
49
C
C
63
G
C
64
T
T
65
C
T
66
C
T
68
C
G
69
A
G
71
C
C
85
T
G
88
A
G
93
A
A
109
G
C
117
A
A
124
G
T
131
A
Show more
M
G
50
C
A
51
G
A
52
T
G
56
T
T
58
A
T
59
A
T
65
A
C
66
T
T
67
C
A
69
G
A
70
T
T
71
G
T
72
A
G
76
A
A
80
G
C
81
T
C
82
T
T
83
G
Show more
S
T
48
C
G
54
A
A
61
G
C
64
T
G
67
A
G
99
A
A
118
G
C
142
T
T
157
C
C
166
T
G
169
A
C
178
A
T
182
C
C
217
T
G
229
A
C
235
T
T
250
A
G
262
A
Show more
Deletions
795-809, 5172-5186
Insertions
ins_58:T, ins_11917:CA, ins_12053:CTAC, ins_12086:CTACTATTCCAC, ins_12108:TTTATTATTTCTGGGGTGTGGGGGGAAC, ins_236:CCGTCAACAGACACTGCC, ins_313:CACTGATCCCTC, ins_457:CAACTCGCCTACACT, ins_5202:CA, ins_5248:C, ins_1581:C
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
GPC
GPC:
M
1
S
GPC:
H
2
M
GPC:
I
3
L
GPC:
S
4
L
GPC:
L
5
T
GPC:
M
6
N
GPC:
Y
7
F
GPC:
A
8
I
GPC:
I
9
L
GPC:
L
10
C
GPC:
C
11
Q
GPC:
Q
13
F
GPC:
L
14
W
GPC:
C
15
S
GPC:
L
17
S
GPC:
E
19
V
GPC:
H
21
S
GPC:
S
23
G
Show more
NP
NP:
R
15
K
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:
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:ESSTDPSVTNKDTSP, ins_GPC:229:NTTGQTYPTTLETSPKTQMIQGQQTTTPVT
L (unaligned)
M (unaligned)
S (unaligned)
L (aligned)
M (aligned)
S (aligned)
Aligned amino acid sequences
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