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LOC_0019T1L.1
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Download FASTA
Download metadata TSV
Display Name: Pakistan/LOC_0019T1L.1/2024-05-02
M. Umair,
R. Hakim,
Z. Jamal &
M. Salman
Sample details
Collection date
2024-05-02
Collection date (lower bound)
2024-05-02
Collection date (upper bound)
2024-05-02
Earliest release date
2024-11-12
Collection country
Pakistan
Collection subdivision level 1
Punjab
Isolate name
CCHF/NIHPAK-7/2024
Data use terms
Data use terms
OPEN
✕
Data use terms history
Changed
User
Data use terms
2026-01-30 16:06
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
PQ523727.1
INSDC accession M
PQ523724.1
INSDC accession S
PQ523720.1
Host
Host taxon id
9606
Host name scientific
Homo sapiens
Alignment and QC metrics L
Length L
12144
Total SNPs L
1653
Total inserted nucs L
48
Total deleted nucs L
0
Total ambiguous nucs L
0
Total unknown nucs L
0
Total frame shifts L
0
Completeness L
99.90%
Total stop codons L
0
Alignment and QC metrics M
Length M
5339
Total SNPs M
127
Total inserted nucs M
0
Total deleted nucs M
0
Total ambiguous nucs M
0
Total unknown nucs M
0
Total frame shifts M
0
Completeness M
97.84%
Total stop codons M
0
Alignment and QC metrics S
Length S
1651
Total SNPs S
221
Total inserted nucs S
3
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
91.25%
Total stop codons S
0
Submission details
Submission ID
PQ523727.1.L/PQ523724.1.M/PQ523720.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-01-30 16:05:53 UTC
Date released
2026-01-30 16:11:12 UTC
Files
Annotations
LOC_0019T1L.1.embl
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
MH396653.1
&
OL774851.1
references
Substitutions
L
L:
G
23
T
L:
A
35
G
L:
G
43
T
L:
T
47
C
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
Show more
M
M:
G
56
A
M:
G
65
A
M:
A
74
T
M:
A
127
G
M:
G
145
A
M:
G
166
A
M:
C
224
T
M:
G
226
A
M:
T
242
C
M:
A
244
G
M:
A
266
G
M:
T
270
C
M:
T
278
A
M:
G
355
A
M:
C
375
T
M:
G
394
A
M:
A
416
G
M:
C
450
T
Show more
S
S:
T
16
A
S:
C
31
G
S:
T
63
C
S:
C
66
T
S:
A
93
G
S:
A
98
T
S:
A
102
G
S:
G
120
A
S:
C
126
T
S:
T
128
A
S:
C
138
A
S:
T
147
C
S:
C
150
T
S:
G
153
A
S:
T
156
C
S:
T
166
C
S:
A
173
G
S:
G
174
A
Show more
Deletions
None
Insertions
ins_L:58:T, ins_L:11917:CA, ins_L:12054:TACGATTTT, ins_L:12083:ACTATTC, ins_L:12108:TTTATTATTTCTGGGGTGTGGGGGGAACG, ins_S:0:CGT
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
MH396653.1
&
OL774851.1
references
Substitutions
GPC
GPC:
P
46
S
GPC:
T
60
A
GPC:
V
61
A
GPC:
S
64
T
GPC:
P
96
L
GPC:
T
110
A
GPC:
P
121
L
GPC:
T
122
I
GPC:
S
131
N
GPC:
Y
144
H
GPC:
G
167
D
GPC:
T
180
A
GPC:
L
208
I
GPC:
H
210
Q
GPC:
S
211
L
GPC:
P
220
S
GPC:
V
229
I
GPC:
S
231
Y
Show more
NP
NP:
Y
20
F
NP:
F
30
Y
NP:
K
45
R
NP:
V
83
A
NP:
D
116
E
NP:
A
124
S
NP:
Q
179
L
NP:
G
185
S
NP:
D
199
E
NP:
R
270
K
NP:
A
307
V
NP:
Q
405
L
NP:
R
428
K
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:
S
205
P
RdRp:
N
206
Y
RdRp:
I
223
V
RdRp:
K
275
R
RdRp:
I
279
V
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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