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Influenza A/H1N1pdm
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GS_00GDW5L.1
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Display Name: Canada/GS_00GDW5L.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
PX671913.1.seg1/PX671914.1.seg3/PX671915.1.seg4/PX671916.1.seg5/PX671917.1.seg6/PX671918.1.seg7/PX671919.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-12-13 05:42:12 UTC
Date released
2025-12-13 05:42:47 UTC
Authors
Author affiliations
Shared Hospital Laboratory, Microbiology
INSDC
Bioproject accession
PRJNA1377212
INSDC accession seg1
PX671913.1
INSDC accession seg3
PX671914.1
INSDC accession seg4
PX671915.1
INSDC accession seg5
PX671916.1
INSDC accession seg6
PX671917.1
INSDC accession seg7
PX671918.1
INSDC accession seg8
PX671919.1
NCBI release date
2025-12-09
Clade
Clade HA
6B.1A.5a.2a.1
Clade NA
D
Alignment states and QC metrics seg1
Completeness seg1
16.97%
Length seg1
622
Total ambiguous nucs seg1
0
Total deleted nucs seg1
0
Total frame shifts seg1
0
Total inserted nucs seg1
0
Total SNPs seg1
14
Total unknown nucs seg1
235
Alignment states and QC metrics seg3
Completeness seg3
8.65%
Length seg3
222
Total ambiguous nucs seg3
0
Total deleted nucs seg3
0
Total frame shifts seg3
0
Total inserted nucs seg3
0
Total SNPs seg3
5
Total unknown nucs seg3
36
Alignment states and QC metrics seg4
Completeness seg4
80.54%
Length seg4
1411
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
97
Total unknown nucs seg4
0
Alignment states and QC metrics seg5
Completeness seg5
100.00%
Length seg5
1542
Total ambiguous nucs seg5
0
Total deleted nucs seg5
0
Total frame shifts seg5
0
Total inserted nucs seg5
45
Total SNPs seg5
59
Total unknown nucs seg5
0
Alignment states and QC metrics seg6
Completeness seg6
98.33%
Length seg6
1410
Total ambiguous nucs seg6
1
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
0
Total SNPs seg6
24
Total unknown nucs seg6
0
Alignment states and QC metrics seg7
Completeness seg7
100.00%
Length seg7
982
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
0
Total SNPs seg7
32
Total unknown nucs seg7
0
Alignment states and QC metrics seg8
Completeness seg8
100.00%
Length seg8
863
Total ambiguous nucs seg8
0
Total deleted nucs seg8
0
Total frame shifts seg8
0
Total inserted nucs seg8
0
Total SNPs seg8
36
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-2025-00036/2025
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:
G
1527
A
seg1:
C
1545
T
seg1:
G
1614
A
seg1:
T
1620
C
seg1:
T
1899
C
seg1:
C
1902
T
seg1:
G
1908
A
seg1:
G
1935
A
seg1:
C
1974
T
seg1:
A
1998
G
seg1:
G
1999
A
seg1:
T
2082
C
seg1:
G
2091
A
seg1:
A
2109
G
seg3
seg3:
C
1299
T
seg3:
A
1312
G
seg3:
C
1314
A
seg3:
C
1410
T
seg3:
C
1449
T
seg4
seg4:
C
318
T
seg4:
G
322
A
seg4:
G
360
A
seg4:
G
409
A
seg4:
G
416
A
seg4:
A
429
G
seg4:
C
443
T
seg4:
A
456
G
seg4:
A
461
T
seg4:
C
480
T
seg4:
T
485
C
seg4:
C
487
A
seg4:
A
496
G
seg4:
T
512
C
seg4:
A
515
G
seg4:
A
524
G
seg4:
T
539
A
seg4:
A
542
G
Show more
seg5
seg5:
A
33
G
seg5:
G
42
T
seg5:
C
87
T
seg5:
A
97
G
seg5:
C
141
A
seg5:
C
171
T
seg5:
T
177
C
seg5:
C
180
T
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:
R
341
A
seg5:
T
365
A
seg5:
A
390
G
Show more
seg6
seg6:
C
285
T
seg6:
A
392
G
seg6:
T
413
C
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:
T
830
C
seg6:
C
893
T
seg6:
G
914
T
seg6:
C
929
T
seg6:
G
950
A
seg6:
T
1016
C
seg6:
A
1049
G
Show more
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
354
T
seg7:
C
375
A
seg7:
T
432
C
seg7:
G
441
T
seg7:
G
492
A
seg7:
C
507
A
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:
C
153
T
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
Show more
Deletions
None
Insertions
ins_seg5:0:GGGTAGATAATCACTCAATGAGTGACATCGAAGCC, ins_seg5:1497:AGAAAAATAC
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:
P
83
S
HA1:
S
84
N
HA1:
D
97
N
HA1:
R
113
K
HA1:
T
120
A
HA1:
N
129
D
HA1:
K
130
N
HA1:
P
137
S
HA1:
A
139
D
HA1:
K
142
R
HA1:
N
156
K
HA1:
L
161
I
HA1:
S
162
N
HA1:
K
163
Q
HA1:
S
164
T
HA1:
S
183
P
HA1:
S
185
I
HA1:
A
186
T
Show more
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
NA:
V
453
M
NA:
K
469
N
NEP
NEP:
D
2
E
NEP:
M
14
T
NEP:
N
29
S
NEP:
T
48
A
NEP:
M
83
I
NP
NP:
E
14
D
NP:
I
33
V
NP:
V
100
I
NP:
M
105
T
NP:
X
114
E
NP:
L
122
Q
NP:
I
136
L
NP:
V
217
I
NP:
V
425
I
NP:
S
498
N
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
PA
PA:
I
438
V
PB2
PB2:
V
667
I
Deletions
None
Insertions
None
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