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PP_000RFKX.3
Version 3
PP_000RFKX.1
Previous version
PP_000RFKX.2
Previous version
PP_000RFKX.3
Latest version
All versions
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Display Name: North_Macedonia/PP_000RFKX.3/2023
G. Bosevska,
P. Emmerich,
R. von Possel,
E. G. Toth,
D. Osmani &
D. Cadar
Submission details
Submission ID
PP963971.1.L/PP963972.1.M/PP963973.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-10-29 17:10:51 UTC
Date released
2024-10-29 17:15:40 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2024-08-27 12:11
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data
Authors
Author affiliations
Bernhard Nocht Institute for Tropical Medicine, Virus Genomics and Evolution
Alignment and QC metrics L
Completeness L
68.06%
Length L
11902
Total ambiguous nucs L
0
Total deleted nucs L
19
Total frame shifts L
0
Total inserted nucs L
2
Total SNPs L
863
Total unknown nucs L
3678
Alignment and QC metrics M
Completeness M
82.30%
Length M
5204
Total ambiguous nucs M
0
Total deleted nucs M
62
Total frame shifts M
0
Total inserted nucs M
3
Total SNPs M
875
Total unknown nucs M
847
Alignment and QC metrics S
Completeness S
58.55%
Length S
1480
Total ambiguous nucs S
0
Total deleted nucs S
0
Total frame shifts S
0
Total inserted nucs S
0
Total SNPs S
136
Total unknown nucs S
501
Sample details
Earliest release date
2024-07-06
Collection country
North Macedonia
Collection date
2023
Collection date (lower bound)
2023-01-01
Collection date (upper bound)
2023-12-31
Isolate name
Skopje-2795
Host
Host name - scientific
Homo sapiens
Host taxon ID
9606
INSDC
INSDC accession L
PP963971.1
INSDC accession M
PP963972.1
INSDC accession S
PP963973.1
NCBI release date
2024-07-06
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
L
L:
A
91
G
L:
G
93
A
L:
C
100
T
L:
A
109
G
L:
T
131
A
L:
C
148
T
L:
T
151
C
L:
T
154
C
L:
T
160
C
L:
T
163
C
L:
T
202
C
L:
T
229
C
L:
A
240
C
L:
T
253
C
L:
T
254
A
L:
G
264
A
L:
C
265
T
L:
A
268
G
Show more
M
M:
T
40
C
M:
G
50
A
M:
A
51
G
M:
A
61
T
M:
T
67
C
M:
T
68
C
M:
T
71
A
M:
G
76
C
M:
A
80
G
M:
T
83
C
M:
G
84
A
M:
C
85
T
M:
T
86
C
M:
C
92
T
M:
T
100
C
M:
T
102
C
M:
C
103
T
M:
A
108
G
Show more
S
S:
T
49
C
S:
A
50
T
S:
G
54
A
S:
T
79
C
S:
A
81
G
S:
G
99
A
S:
G
100
A
S:
A
109
G
S:
C
115
T
S:
A
121
G
S:
G
134
A
S:
C
142
T
S:
T
157
C
S:
G
171
A
S:
T
175
A
S:
C
178
A
S:
T
182
C
S:
C
187
T
Show more
Deletions
L:50-53, L:59-73, M:318-323, M:5147-5155, M:5199-5215, M:5220, M:5223, M:5224, M:5232-5235, M:5239-5255, M:5281-5286
Insertions
ins_M:335:ACA, ins_L:11928:CG
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
GPC
GPC:
I
3
T
GPC:
S
4
L
GPC:
M
6
V
GPC:
Y
7
C
GPC:
A
8
F
GPC:
C
11
Y
GPC:
C
15
L
GPC:
E
19
G
GPC:
T
20
A
GPC:
S
23
Q
GPC:
H
24
P
GPC:
E
26
A
GPC:
D
33
N
GPC:
M
35
T
GPC:
T
37
A
GPC:
D
40
T
GPC:
N
41
S
GPC:
P
42
Q
Show more
NP
NP:
N
9
S
NP:
R
15
K
NP:
V
27
M
NP:
S
39
N
NP:
R
45
K
NP:
A
100
S
NP:
S
109
N
NP:
T
111
A
NP:
T
124
A
NP:
G
125
N
NP:
I
246
V
NP:
R
270
K
NP:
S
301
G
NP:
A
307
P
NP:
Y
311
F
NP:
V
327
I
NP:
G
335
W
NP:
V
436
I
RdRp
RdRp:
S
6
N
RdRp:
S
19
T
RdRp:
D
55
A
RdRp:
Y
60
N
RdRp:
R
63
H
RdRp:
S
67
L
RdRp:
I
131
M
RdRp:
M
172
V
RdRp:
R
174
K
RdRp:
I
176
M
RdRp:
A
202
V
RdRp:
S
205
P
RdRp:
N
206
Y
RdRp:
K
218
R
RdRp:
S
232
F
RdRp:
K
275
R
RdRp:
I
279
V
RdRp:
V
352
I
Show more
Deletions
GPC:77, GPC:105
Insertions
ins_GPC:114:T
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