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LOC_000PNNN.1
Download
Download FASTA
Download metadata TSV
Display Name: Uganda/LOC_000PNNN.1/2017-08-18
S. Balinandi,
S. Whitmer,
S. Mulei,
L. Nyakarahuka,
A. Tumusiime,
J. Kyondo,
L. Mugisha,
M. Almberg,
J. Lutwama,
T. Shoemaker &
J. D. Klena
Sample details
Collection date
2017-08-18
Collection date (lower bound)
2017-08-18
Collection date (upper bound)
2017-08-18
Earliest release date
2021-09-19
Collection country
Uganda
Isolate name
201706462
Data use terms
Data use terms
OPEN
✕
Data use terms history
Changed
User
Data use terms
2025-12-05 17:43
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
CDC, VSPB
INSDC
NCBI release date
2021-09-19
INSDC accession L
MW464949.1
INSDC accession M
MW464950.1
INSDC accession S
MW464951.1
Host
Host taxon id
9606
Host name scientific
Homo sapiens
Alignment and QC metrics L
Length L
12071
Total SNPs L
2006
Total inserted nucs L
24
Total deleted nucs L
45
Total ambiguous nucs L
0
Total unknown nucs L
0
Total frame shifts L
0
Frame shifts L
[]
Completeness L
99.87%
Stop codons L
[]
Total stop codons L
0
Alignment and QC metrics M
Length M
5352
Total SNPs M
1558
Total inserted nucs M
89
Total deleted nucs M
69
Total ambiguous nucs M
0
Total unknown nucs M
0
Total frame shifts M
1
Frame shifts M
[{'cdsName': 'GPC', 'nucRel': {'begin': 81, 'end': 136}, 'nucAbs': [{'begin': 151, 'end': 206}], 'codon': {'begin': 20, 'end': 38}, 'gapsLeading': {'begin': 20, 'end': 20}, 'gapsTrailing': {'begin': 38, 'end': 42}}]
Completeness M
99.37%
Stop codons M
[]
Total stop codons M
0
Alignment and QC metrics S
Length S
1644
Total SNPs S
273
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
Frame shifts S
[]
Completeness S
98.27%
Stop codons S
[]
Total stop codons S
0
Submission details
Submission ID
MW464949.1.L/MW464950.1.M/MW464951.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-12-05 17:43:07 UTC
Date released
2025-12-05 17:50:05 UTC
Lineage
Segment S Lineage
II
Files
Annotations
LOC_000PNNN.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:
A
42
G
L:
G
43
T
L:
C
48
T
L:
A
53
G
L:
G
57
C
L:
C
59
T
L:
C
63
G
L:
T
65
C
L:
G
71
T
L:
A
72
G
L:
A
73
G
L:
C
82
A
L:
G
93
A
L:
A
109
G
L:
T
115
C
L:
T
131
A
Show more
M
M:
G
38
A
M:
T
40
C
M:
G
50
T
M:
A
51
G
M:
A
52
T
M:
G
56
T
M:
T
58
A
M:
T
59
G
M:
A
64
G
M:
T
65
A
M:
T
67
A
M:
T
68
G
M:
A
69
T
M:
A
70
G
M:
T
71
A
M:
G
76
T
M:
A
80
G
M:
C
82
T
Show more
S
S:
A
50
G
S:
G
54
A
S:
A
61
G
S:
C
64
T
S:
G
67
A
S:
A
78
C
S:
A
81
G
S:
A
85
G
S:
A
109
G
S:
A
118
G
S:
G
122
A
S:
A
124
C
S:
A
130
T
S:
G
136
A
S:
T
144
A
S:
C
154
T
S:
T
157
C
S:
C
166
T
Show more
Deletions
L:12020-12050, L:12086-12099, M:72, M:207-216, M:465-479, M:645-659, M:5263-5290
Insertions
ins_L:60:C, ins_L:11931:AT, ins_L:12108:ATTCACTTCAGTTTGATTATT, ins_M:151:CACCAATGGGATCAGTGCAAAT, ins_M:332:TTAATTGTCAGTGAAGCAACTTCTCCTAGC, ins_M:368:CCCACAACCCCAAGACCAAAC, ins_M:5200:ATGCTTTCCCGCTAAA, ins_S: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
K
GPC:
H
2
P
GPC:
I
3
M
GPC:
S
4
L
GPC:
L
5
W
GPC:
M
6
V
GPC:
A
8
F
GPC:
I
9
A
GPC:
L
12
Q
GPC:
Q
13
L
GPC:
C
15
W
GPC:
G
16
S
GPC:
L
17
E
GPC:
G
18
V
GPC:
E
19
G
GPC:
P
46
Q
GPC:
P
47
G
GPC:
V
48
P
Show more
NP
NP:
N
8
T
NP:
N
9
S
NP:
G
23
S
NP:
F
30
Y
NP:
D
116
G
NP:
T
124
A
NP:
G
125
N
NP:
H
195
R
NP:
D
199
E
NP:
I
246
V
NP:
R
270
K
NP:
S
275
N
NP:
I
277
V
NP:
S
301
G
NP:
A
307
P
NP:
Y
311
F
NP:
T
320
S
NP:
Q
370
E
NP:
V
436
I
RdRp
RdRp:
D
2
E
RdRp:
S
6
N
RdRp:
S
19
T
RdRp:
Y
60
N
RdRp:
S
67
E
RdRp:
R
80
K
RdRp:
V
82
I
RdRp:
E
87
D
RdRp:
I
114
V
RdRp:
I
131
L
RdRp:
T
163
A
RdRp:
R
166
K
RdRp:
A
168
T
RdRp:
M
172
V
RdRp:
R
174
K
RdRp:
S
201
G
RdRp:
A
202
S
RdRp:
S
205
P
Show more
Deletions
GPC:39-42, GPC:104-131, GPC:194-198
Insertions
ins_GPC:22:GI, ins_GPC:61:VGMTNAQVTTDDGSGESSTDPLIVSEATSPSPIISTQVQKAE
L (unaligned)
M (unaligned)
S (unaligned)
L (aligned)
M (aligned)
S (aligned)
Aligned amino acid sequences
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