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Influenza A/H1N1pdm
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Influenza A/H1N1pdm
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GS_00HRCDW.1
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USA/GS_00HRCDW.1/2026-02-25
P. C. Gauger,
G. S. Silva,
M. Zeller &
K. Hu
University of Pennsylvania Center of Excellence for Influenza Research and Response (CEIRR), CEIRR Influenza Data Processing and Communication Center
Submission details
Submission ID
PZ411691.1.seg1/PZ411696.1.seg3/PZ411690.1.seg4/PZ411695.1.seg5/PZ411693.1.seg6/PZ411692.1.seg7/PZ411694.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-05-18 05:41:55 UTC
Date released
2026-05-18 05:42:37 UTC
INSDC
bioprojectAccession
PRJNA818275
INSDC accession seg1
PZ411691.1
INSDC accession seg3
PZ411696.1
INSDC accession seg4
PZ411690.1
INSDC accession seg5
PZ411695.1
INSDC accession seg6
PZ411693.1
INSDC accession seg7
PZ411692.1
INSDC accession seg8
PZ411694.1
NCBI release date
2026-05-15
Clade
Clade HA
unassigned
Sample details
Collection country
USA
Collection date
2026-02-25
Isolate name
A/swine/Nebraska/Q022047/2026
Host
Host
Sus scrofa
INSDC seg4
subtype_seg4
H1
INSDC seg6
subtype_seg6
N1
Alignment and QC
Length seg1
2280 (100%)
Total SNPs seg1
191
Length seg3
2151 (100%)
Total SNPs seg3
186
Length seg4
1695 (97.1%)
Total deleted nucs seg4
6
Total SNPs seg4
278
Length seg5
1497 (100%)
Total SNPs seg5
59
Length seg7
982 (100%)
Total SNPs seg7
29
Length seg8
838 (97.1%)
Total SNPs seg8
61
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
G
21
A
T
27
C
A
105
G
T
106
A
G
114
A
A
117
G
C
129
T
G
161
A
A
177
G
C
180
A
G
207
A
A
216
G
A
219
G
A
239
G
A
255
G
A
258
G
A
264
T
G
267
A
Show more
seg3
C
9
T
A
21
G
R
53
A
G
75
T
C
82
T
G
84
A
C
90
T
A
93
G
T
96
C
T
105
C
A
120
G
T
123
C
T
132
C
T
150
C
C
153
T
C
162
T
G
163
A
G
170
A
Show more
seg4
C
33
T
A
35
G
G
36
T
A
38
G
T
41
C
C
42
T
T
48
C
T
54
C
C
62
T
T
78
A
A
110
T
C
113
T
A
119
T
C
122
T
A
128
G
C
129
T
A
134
G
T
161
C
Show more
seg5
A
33
G
C
75
T
T
99
C
G
111
A
T
159
A
A
162
G
A
282
G
T
326
C
R
341
A
T
365
A
T
405
C
C
408
T
G
459
A
A
474
G
C
483
T
A
486
G
C
492
T
A
513
G
Show more
seg7
A
12
C
C
45
A
G
48
A
T
114
C
C
163
T
A
180
G
A
252
G
G
258
A
G
270
A
G
324
A
C
396
T
G
414
T
A
489
G
T
501
A
C
504
T
A
528
G
G
630
A
T
642
C
Show more
seg8
C
12
T
C
15
T
A
16
G
T
39
C
T
51
C
G
60
A
A
63
G
G
70
A
C
96
T
A
114
G
T
127
C
A
129
G
A
131
T
G
151
A
G
152
A
C
153
T
T
159
C
A
186
G
Show more
Deletions
seg4
444-449
Insertions
N/A
Amino acid substitutions
Substitutions 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:
L
3
I
HA1:
R
45
G
HA1:
V
47
K
HA1:
A
48
S
HA1:
H
51
Y
HA1:
I
61
L
HA1:
L
70
I
HA1:
S
71
L
HA1:
A
73
V
HA1:
P
83
S
HA1:
D
94
S
HA1:
I
96
T
HA1:
D
97
N
HA1:
R
113
K
HA1:
K
119
I
HA1:
T
120
E
HA1:
S
122
P
HA1:
S
128
Y
Show more
HA2
HA2:
E
29
D
HA2:
L
38
Q
HA2:
N
43
R
HA2:
E
47
G
HA2:
V
55
I
HA2:
I
56
V
HA2:
H
72
N
HA2:
K
75
R
HA2:
K
82
R
HA2:
I
91
V
HA2:
Y
110
F
HA2:
S
124
N
HA2:
K
127
R
HA2:
S
151
N
HA2:
D
158
N
HA2:
P
160
L
HA2:
A
166
S
HA2:
E
179
D
Show more
M1
M1:
A
227
T
M2
M2:
T
11
I
M2:
D
21
G
M2:
S
22
L
M2:
V
27
A
NEP
NEP:
M
6
V
NEP:
E
26
G
NEP:
S
37
A
NEP:
S
60
K
NEP:
M
83
V
NEP:
A
115
T
NP
NP:
D
53
E
NP:
I
109
T
NP:
X
114
E
NP:
L
122
Q
NP:
S
287
N
NP:
M
316
V
NP:
N
370
S
NP:
N
377
S
NP:
V
425
I
NP:
K
452
R
NS1
NS1:
M
6
V
NS1:
D
24
N
NS1:
K
44
I
NS1:
G
51
N
NS1:
S
73
F
NS1:
E
75
D
NS1:
L
77
I
NS1:
R
78
K
NS1:
V
84
A
NS1:
S
87
P
NS1:
S
91
A
NS1:
L
115
F
NS1:
L
119
M
NS1:
M
124
L
NS1:
V
129
I
NS1:
I
145
V
NS1:
V
157
I
NS1:
Y
171
N
Show more
PA
PA:
X
18
E
PA:
P
28
S
PA:
D
55
N
PA:
R
57
Q
PA:
I
85
T
PA:
F
105
L
PA:
I
118
V
PA:
S
186
G
PA:
T
208
K
PA:
K
213
R
PA:
P
224
S
PA:
N
254
S
PA:
K
256
Q
PA:
T
263
I
PA:
L
275
P
PA:
H
277
S
PA:
I
322
V
PA:
V
323
I
Show more
PA-X
PA-X:
X
18
E
PA-X:
P
28
S
PA-X:
D
55
N
PA-X:
R
57
Q
PA-X:
I
85
T
PA-X:
F
105
L
PA-X:
I
118
V
PA-X:
S
186
G
PA-X:
S
193
N
PA-X:
K
195
R
PA-X:
Q
200
R
PA-X:
L
205
S
PA-X:
R
206
K
PA-X:
Q
208
K
PA-X:
L
210
P
PA-X:
S
213
G
PA-X:
*
233
W
PB2
PB2:
S
36
T
PB2:
R
54
K
PB2:
D
60
E
PB2:
K
80
R
PB2:
A
184
T
PB2:
G
225
S
PB2:
V
292
I
PB2:
I
315
M
PB2:
V
356
I
PB2:
E
391
D
PB2:
C
409
R
PB2:
S
453
P
PB2:
N
456
S
PB2:
T
471
A
PB2:
K
482
R
PB2:
I
559
S
PB2:
V
560
L
PB2:
K
574
R
Show more
SigPep
SigPep:
V
6
L
SigPep:
Y
10
H
SigPep:
F
12
L
Deletions
HA1
HA1:125, HA1:126
Insertions
N/A
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