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GS_0023NG6.1
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Display Name: Kenya/GS_0023NG6.1/2025-01-16
S. K. Langat,
S. Kageha,
V. Jeza,
G. Pilarowski,
A. Nyunja,
V. Ofula,
P. E. Oluniyi,
J. Gil,
N. Ogada,
L. Gande,
J. Thiiru,
S. Okeyo,
P. Bulia,
J. Amugongo,
C. M. Tato,
F. Mutuku,
S. Khamadi,
J. Lutomiah &
S. Limbaso
Submission details
Submission ID
PV717358.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-06-30 20:19:15 UTC
Date released
2025-06-30 20:58:34 UTC
Authors
Author affiliations
Kenya Medical Research Institute (KEMRI), Centre for Virus Research
Clade & Lineage
Clade
1III_A.2
Alignment states and QC metrics
Completeness
99.43%
Length
10653
Total ambiguous nucs
0
Total deleted nucs
21
Total frame shifts
0
Total inserted nucs
0
Total SNPs
856
Total unknown nucs
0
Sample details
Collection country
Kenya
Collection date
2025-01-16
Isolate name
TUM_F17
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC
INSDC accession
PV717358.1
NCBI release date
2025-06-07
NCBI update date
2025-06-07
Nucleotide mutations
Mutations called relative to the
NC_001477.1
reference
Substitutions
A
112
G
T
171
G
T
208
C
T
230
A
T
244
C
T
274
C
G
302
A
C
328
T
G
340
A
G
349
A
A
355
G
A
363
G
T
368
C
T
397
C
C
412
T
T
442
C
C
443
T
C
451
A
Show more
Deletions
10296-10311, 10318-10322
Insertions
None
Amino acid mutations
Mutations called relative to the
NC_001477.1
reference
Substitutions
C
C:
V
26
G
C:
L
46
M
C:
G
70
S
C:
N
90
S
E
E:
D
37
N
E:
T
88
A
E:
I
114
L
E:
T
161
I
E:
K
203
E
E:
I
293
T
E:
M
297
V
E:
F
337
I
E:
S
339
T
E:
A
369
T
E:
V
380
I
E:
V
428
M
E:
I
436
V
E:
I
439
V
NS1
NS1:
V
89
I
NS1:
V
93
A
NS1:
S
94
N
NS1:
A
98
T
NS1:
V
128
T
NS1:
N
139
D
NS1:
N
146
D
NS1:
I
162
V
NS1:
V
178
M
NS1:
K
227
R
NS1:
D
278
N
NS1:
H
290
R
NS1:
T
307
I
NS1:
K
324
R
NS1:
K
347
R
NS2A
NS2A:
I
15
V
NS2A:
L
41
F
NS2A:
T
44
I
NS2A:
A
64
V
NS2A:
K
67
R
NS2A:
R
82
K
NS2A:
V
106
I
NS2A:
A
147
T
NS2A:
V
155
I
NS2A:
F
159
L
NS2A:
H
162
D
NS2A:
I
171
V
NS2A:
L
199
F
NS2B
NS2B:
K
55
R
NS2B:
I
106
V
NS3
NS3:
E
43
D
NS3:
A
91
T
NS3:
A
112
T
NS3:
R
185
K
NS3:
V
221
I
NS3:
Y
349
H
NS3:
V
384
I
NS3:
V
452
A
NS4A
NS4A:
R
76
K
NS4A:
I
89
M
NS4A:
A
93
V
NS4B
NS4B:
A
18
V
NS4B:
A
19
V
NS4B:
A
27
T
NS4B:
V
31
I
NS4B:
K
212
R
NS5
NS5:
I
34
M
NS5:
L
123
I
NS5:
K
130
R
NS5:
I
181
V
NS5:
V
270
I
NS5:
K
364
R
NS5:
A
365
P
NS5:
R
378
K
NS5:
E
559
Q
NS5:
N
585
S
NS5:
A
616
V
NS5:
T
635
N
NS5:
P
636
S
NS5:
V
642
A
NS5:
K
647
E
NS5:
T
651
V
NS5:
I
669
T
NS5:
F
881
Y
prM
prM:
S
15
T
prM:
T
59
A
prM:
E
72
D
prM:
K
118
R
Deletions
None
Insertions
None
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