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Influenza A/H1N1pdm
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GSD_006363A.1
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USA/GSD_006363A.1/2026-02-28
R. S. Cox,
G. Goodwin,
J. Freeman,
G. Godfrey &
D. Hook
South Carolina Dept. of Public Health, South Carolina Dept. of Public Health
Submission details
Submission ID
PZ193347.1.seg4/PZ193365.1.seg5/PZ193359.1.seg6/PZ193353.1.seg7/PZ193371.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-04-22 05:18:29 UTC
Date released
2026-04-22 08:45:54 UTC
INSDC
bioprojectAccession
PRJNA1428227
biosampleAccession
SAMN56688487
INSDC accession seg4
PZ193347.1
INSDC accession seg5
PZ193365.1
INSDC accession seg6
PZ193359.1
INSDC accession seg7
PZ193353.1
INSDC accession seg8
PZ193371.1
NCBI release date
2026-03-24
SRA run accession
SRR37749299
Clade
Clade HA
D.3.1
Clade NA
D
Sample details
Collection country
USA
Collection subdivision level 1
South Carolina
Collection date
2026-02-28
Isolate name
A/South Carolina/SCPHL-FLU26-0103/2026
Host
Host
Homo sapiens
INSDC seg4
subtype_seg4
H1
INSDC seg6
subtype_seg6
N1
Alignment and QC
Length seg4
1701 (97.1%)
Total SNPs seg4
109
Length seg5
1497 (100%)
Total SNPs seg5
61
Length seg6
1410 (98.4%)
Total SNPs seg6
25
Length seg7
982 (100%)
Total SNPs seg7
32
Length seg8
838 (97.1%)
Total SNPs seg8
37
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
seg4
A
38
G
C
42
A
A
47
G
G
57
A
A
119
G
T
161
C
C
164
T
G
188
A
A
231
C
C
281
A
C
293
G
C
318
T
G
322
A
G
360
A
G
409
A
G
416
A
A
429
G
C
443
T
Show more
seg5
A
33
G
G
42
T
C
87
T
A
97
G
C
141
A
C
171
T
T
177
C
C
180
T
C
249
A
A
288
C
G
298
A
C
303
T
G
309
A
T
314
C
G
315
A
R
341
A
T
365
A
A
390
G
Show more
seg6
C
215
T
C
285
T
A
392
G
C
452
A
G
607
A
G
659
A
C
728
A
G
748
A
A
785
G
T
799
C
A
818
G
C
893
T
G
914
T
C
929
T
G
950
A
T
1016
C
A
1049
G
T
1151
C
Show more
seg7
G
48
A
G
75
A
T
123
C
C
124
A
C
163
T
G
238
A
G
258
A
A
293
G
G
306
A
G
339
A
G
342
A
C
375
A
T
432
C
G
441
T
G
492
A
C
507
A
A
574
G
C
622
A
Show more
seg8
C
6
A
C
42
T
C
54
T
T
99
C
G
105
C
C
108
A
T
159
C
G
163
A
C
192
T
C
204
T
A
226
T
A
238
G
G
250
A
C
264
T
C
268
A
C
315
T
A
367
G
A
375
T
Show more
Deletions
N/A
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:
K
54
Q
HA1:
S
74
R
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
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:
K
400
R
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:
V
178
I
NS1:
N
205
S
SigPep
SigPep:
L
8
M
SigPep:
A
13
T
Deletions
N/A
Insertions
N/A
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