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Influenza A/H1N1pdm
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GS_00GE0EW.1
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Display Name: Canada/GS_00GE0EW.1/2025-11-01
F. Maguire,
N. Waglechner,
P. Aftanas,
K. Katz,
R. Kozak,
H. Li,
X. Li,
C. Vermeiren,
E. Xiong &
S. Mubareka
Submission details
Submission ID
PX683255.1.seg1/PX683256.1.seg4/PX683257.1.seg5/PX683258.1.seg6/PX683259.1.seg7/PX683260.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-12-14 05:46:34 UTC
Date released
2025-12-14 05:47:41 UTC
Authors
Author affiliations
Shared Hospital Laboratory, Microbiology
INSDC
Bioproject accession
PRJNA1377212
INSDC accession seg1
PX683255.1
INSDC accession seg4
PX683256.1
INSDC accession seg5
PX683257.1
INSDC accession seg6
PX683258.1
INSDC accession seg7
PX683259.1
INSDC accession seg8
PX683260.1
NCBI release date
2025-12-11
Clade
Clade HA
6B.1A.5a.2a.1
Clade NA
D
Alignment states and QC metrics seg1
Completeness seg1
13.38%
Length seg1
338
Total ambiguous nucs seg1
0
Total deleted nucs seg1
0
Total frame shifts seg1
0
Total inserted nucs seg1
33
Total SNPs seg1
10
Total unknown nucs seg1
0
Alignment states and QC metrics seg4
Completeness seg4
50.06%
Length seg4
877
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
59
Total unknown nucs seg4
0
Alignment states and QC metrics seg5
Completeness seg5
63.53%
Length seg5
1235
Total ambiguous nucs seg5
1
Total deleted nucs seg5
0
Total frame shifts seg5
0
Total inserted nucs seg5
0
Total SNPs seg5
41
Total unknown nucs seg5
283
Alignment states and QC metrics seg6
Completeness seg6
81.30%
Length seg6
1236
Total ambiguous nucs seg6
0
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
0
Total SNPs seg6
20
Total unknown nucs seg6
71
Alignment states and QC metrics seg7
Completeness seg7
100.00%
Length seg7
1027
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
45
Total SNPs seg7
32
Total unknown nucs seg7
0
Alignment states and QC metrics seg8
Completeness seg8
100.00%
Length seg8
890
Total ambiguous nucs seg8
0
Total deleted nucs seg8
0
Total frame shifts seg8
0
Total inserted nucs seg8
27
Total SNPs seg8
35
Total unknown nucs seg8
0
Sample details
Collection country
Canada
Collection subdivision level 1
Toronto
Collection date
2025-11-01
Isolate name
A/Toronto/ON-SHL-FLUA-2025-00163/2025
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC seg4
Subtype seg4
H1
INSDC seg6
Subtype seg6
N1
Nucleotide mutations
Mutations called relative to the
NC_026438.1
,
NC_026435.1
,
NC_026437.1
,
CY121680.1
,
NC_026436.1
,
MW626056.1
,
NC_026431.1
&
NC_026432.1
references
Substitutions
seg1
seg1:
A
1998
G
seg1:
G
1999
A
seg1:
T
2082
C
seg1:
G
2091
A
seg1:
A
2109
G
seg1:
A
2151
T
seg1:
G
2163
A
seg1:
A
2184
G
seg1:
G
2191
A
seg1:
G
2265
A
seg4
seg4:
A
827
G
seg4:
G
837
A
seg4:
G
847
A
seg4:
A
849
G
seg4:
T
851
A
seg4:
T
865
C
seg4:
A
900
G
seg4:
A
911
G
seg4:
G
950
A
seg4:
A
954
G
seg4:
A
968
G
seg4:
A
974
G
seg4:
A
975
G
seg4:
A
986
G
seg4:
A
994
G
seg4:
T
1005
C
seg4:
A
1010
G
seg4:
A
1032
G
Show more
seg5
seg5:
C
249
A
seg5:
A
288
C
seg5:
G
298
A
seg5:
C
303
T
seg5:
G
309
A
seg5:
T
314
C
seg5:
G
315
A
seg5:
A
390
G
seg5:
T
402
C
seg5:
A
450
G
seg5:
G
459
A
seg5:
T
465
C
seg5:
C
471
T
seg5:
C
519
T
seg5:
A
522
G
seg5:
G
546
A
seg5:
G
549
A
seg5:
A
564
T
Show more
seg6
seg6:
C
275
A
seg6:
C
285
T
seg6:
A
392
G
seg6:
C
452
A
seg6:
G
607
A
seg6:
G
659
A
seg6:
C
728
A
seg6:
G
748
A
seg6:
A
785
G
seg6:
T
799
C
seg6:
A
818
G
seg6:
C
893
T
seg6:
G
914
T
seg6:
C
929
T
seg6:
G
950
A
seg6:
T
1016
C
seg6:
A
1049
G
seg6:
C
1187
T
seg6:
A
1193
G
seg6:
T
1229
C
seg7
seg7:
G
48
A
seg7:
G
75
A
seg7:
T
123
C
seg7:
C
124
A
seg7:
G
238
A
seg7:
G
258
A
seg7:
A
293
G
seg7:
G
306
A
seg7:
G
339
A
seg7:
G
342
A
seg7:
C
375
A
seg7:
T
432
C
seg7:
G
441
T
seg7:
G
492
A
seg7:
C
507
A
seg7:
T
552
C
seg7:
A
574
G
seg7:
C
622
A
Show more
seg8
seg8:
C
6
A
seg8:
C
42
T
seg8:
C
54
T
seg8:
T
99
C
seg8:
C
108
A
seg8:
T
159
C
seg8:
G
163
A
seg8:
C
192
T
seg8:
C
204
T
seg8:
A
226
T
seg8:
A
238
G
seg8:
G
250
A
seg8:
C
264
T
seg8:
C
268
A
seg8:
C
315
T
seg8:
A
367
G
seg8:
A
375
T
seg8:
A
391
G
Show more
Deletions
None
Insertions
ins_seg1:2280:TGTCGAATTGTTTAAAAACGACCTTGTTTCTAC, ins_seg7:0:AGCAAAAGCAGGTAGATGTTTAAAG, ins_seg7:982:AAAACTACCTTGTTTCTACT, ins_seg8:0:AGCRAAAGCAGGGTGACAAAAACATA, ins_seg8:863:T
Amino acid mutations
Mutations called relative to the
NC_026438.1
,
NC_026435.1
,
NC_026437.1
,
CY121680.1
,
NC_026436.1
,
MW626056.1
,
NC_026431.1
&
NC_026432.1
references
Substitutions
HA1
HA1:
A
256
T
HA1:
R
259
K
HA1:
N
260
E
HA1:
I
265
T
HA1:
T
277
A
HA1:
I
295
V
HA1:
K
302
E
HA1:
K
308
R
HA1:
I
321
V
HA2
HA2:
E
29
D
HA2:
I
45
V
HA2:
E
47
K
HA2:
I
91
V
HA2:
S
124
H
HA2:
I
133
T
HA2:
E
172
K
HA2:
E
179
D
HA2:
V
193
A
M1
M1:
L
42
I
M1:
V
80
I
M1:
K
98
R
M1:
M
192
V
M1:
Q
208
K
M1:
K
230
R
M2
M2:
R
18
K
M2:
D
21
G
M2:
S
23
N
M2:
I
28
T
NA
NA:
P
93
S
NA:
S
200
N
NA:
S
247
N
NA:
I
264
T
NA:
M
314
I
NEP
NEP:
D
2
E
NEP:
M
14
T
NEP:
N
29
S
NEP:
T
48
A
NEP:
M
83
I
NP
NP:
V
100
I
NP:
M
105
T
NP:
V
425
I
NS1
NS1:
D
2
E
NS1:
E
55
K
NS1:
T
76
S
NS1:
T
80
A
NS1:
V
84
I
NS1:
L
90
I
NS1:
I
123
V
NS1:
E
125
D
NS1:
K
131
E
NS1:
A
155
T
NS1:
P
164
S
NS1:
N
205
S
PB2
PB2:
V
667
I
PB2:
V
731
I
Deletions
None
Insertions
None
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