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Influenza A/H1N1pdm
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GS_005CU27.1
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Display Name: USA/GS_005CU27.1/2021-05-07
J. Perkins,
A. Johnson,
K. Shiplett &
M. Prarat
Submission details
Submission ID
OQ737274.1.seg1/OQ737275.1.seg2/OQ737276.1.seg3/OQ737277.1.seg4/OQ737278.1.seg5/OQ737279.1.seg6/OQ737280.1.seg7/OQ737281.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-12-11 15:07:40 UTC
Date released
2025-12-11 16:47:23 UTC
Authors
Author affiliations
Ohio Animal Disease Diagnostic Laboratory, Animal Disease Diagnostic Laboratory
Clade
Clade HA
1
Alignment states and QC metrics seg1
Completeness seg1
99.91%
Frame shifts seg1
[]
Length seg1
2280
Total ambiguous nucs seg1
2
Total deleted nucs seg1
0
Total frame shifts seg1
0
Total inserted nucs seg1
0
Total SNPs seg1
166
Total unknown nucs seg1
0
Alignment states and QC metrics seg2
Completeness seg2
99.96%
Frame shifts seg2
[]
Length seg2
2274
Total ambiguous nucs seg2
1
Total deleted nucs seg2
0
Total frame shifts seg2
0
Total inserted nucs seg2
0
Total SNPs seg2
176
Total unknown nucs seg2
0
Alignment states and QC metrics seg3
Completeness seg3
99.95%
Frame shifts seg3
[]
Length seg3
2151
Total ambiguous nucs seg3
1
Total deleted nucs seg3
0
Total frame shifts seg3
0
Total inserted nucs seg3
0
Total SNPs seg3
156
Total unknown nucs seg3
0
Alignment states and QC metrics seg4
Completeness seg4
97.03%
Frame shifts seg4
[]
Length seg4
1701
Total ambiguous nucs seg4
1
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
154
Total unknown nucs seg4
0
Alignment states and QC metrics seg5
Completeness seg5
100.00%
Frame shifts seg5
[]
Length seg5
1497
Total ambiguous nucs seg5
0
Total deleted nucs seg5
0
Total frame shifts seg5
0
Total inserted nucs seg5
0
Total SNPs seg5
102
Total unknown nucs seg5
0
Alignment states and QC metrics seg7
Completeness seg7
100.00%
Frame shifts seg7
[]
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
19
Total unknown nucs seg7
0
Alignment states and QC metrics seg8
Completeness seg8
97.10%
Frame shifts seg8
[]
Length seg8
838
Total ambiguous nucs seg8
0
Total deleted nucs seg8
0
Total frame shifts seg8
0
Total inserted nucs seg8
0
Total SNPs seg8
67
Total unknown nucs seg8
0
Sample details
Collection country
USA
Collection subdivision level 1
Ohio
Collection date
2021-05-07
Isolate name
OH21-10886
Host
Host name scientific
Sus scrofa
Host taxon id
9823
INSDC
INSDC accession seg1
OQ737274.1
INSDC accession seg2
OQ737275.1
INSDC accession seg3
OQ737276.1
INSDC accession seg4
OQ737277.1
INSDC accession seg5
OQ737278.1
INSDC accession seg6
OQ737279.1
INSDC accession seg7
OQ737280.1
INSDC accession seg8
OQ737281.1
NCBI release date
2023-04-09
Alignment states and QC metrics seg6
Length seg6
1410
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
21
A
seg1:
A
98
G
seg1:
T
106
A
seg1:
A
117
G
seg1:
G
161
A
seg1:
A
182
G
seg1:
A
186
G
seg1:
A
222
G
seg1:
A
239
G
seg1:
A
258
G
seg1:
A
264
T
seg1:
G
267
A
seg1:
T
279
C
seg1:
T
321
C
seg1:
T
330
C
seg1:
T
345
C
seg1:
G
363
A
seg1:
G
372
A
Show more
seg2
seg2:
C
19
T
seg2:
A
33
G
seg2:
A
34
G
seg2:
A
45
G
seg2:
T
81
C
seg2:
G
120
A
seg2:
A
129
C
seg2:
C
147
T
seg2:
A
155
G
seg2:
A
159
G
seg2:
G
162
A
seg2:
C
174
T
seg2:
G
180
A
seg2:
T
186
G
seg2:
C
201
T
seg2:
G
225
A
seg2:
G
243
A
seg2:
T
264
C
Show more
seg3
seg3:
C
9
T
seg3:
R
53
A
seg3:
T
96
C
seg3:
A
120
G
seg3:
T
123
C
seg3:
T
132
C
seg3:
G
147
A
seg3:
T
150
C
seg3:
C
162
T
seg3:
G
170
A
seg3:
A
177
G
seg3:
A
183
C
seg3:
A
192
G
seg3:
C
201
T
seg3:
G
204
A
seg3:
A
213
G
seg3:
T
214
C
seg3:
C
250
A
Show more
seg4
seg4:
A
30
G
seg4:
T
41
C
seg4:
G
57
A
seg4:
T
89
C
seg4:
G
98
A
seg4:
A
110
T
seg4:
T
116
C
seg4:
T
161
C
seg4:
G
174
A
seg4:
A
175
C
seg4:
A
178
G
seg4:
G
179
A
seg4:
C
185
T
seg4:
G
205
A
seg4:
C
215
T
seg4:
T
219
C
seg4:
C
248
A
seg4:
A
252
C
Show more
seg5
seg5:
G
113
A
seg5:
T
159
G
seg5:
C
171
T
seg5:
G
174
A
seg5:
A
187
G
seg5:
G
195
A
seg5:
T
204
C
seg5:
T
213
C
seg5:
A
231
G
seg5:
G
251
A
seg5:
C
264
T
seg5:
A
276
T
seg5:
A
300
G
seg5:
A
306
G
seg5:
C
327
T
seg5:
R
341
A
seg5:
T
365
A
seg5:
C
378
T
Show more
seg7
seg7:
G
75
A
seg7:
G
89
A
seg7:
C
93
A
seg7:
T
117
A
seg7:
C
234
T
seg7:
C
327
T
seg7:
C
336
T
seg7:
G
480
A
seg7:
G
492
A
seg7:
C
497
T
seg7:
A
499
G
seg7:
G
555
T
seg7:
G
600
A
seg7:
A
690
G
seg7:
G
711
A
seg7:
G
741
A
seg7:
T
878
C
seg7:
G
883
A
seg7:
G
933
A
seg8
seg8:
C
12
T
seg8:
C
15
T
seg8:
A
16
G
seg8:
T
51
C
seg8:
G
60
A
seg8:
T
79
C
seg8:
C
108
T
seg8:
A
120
G
seg8:
T
127
C
seg8:
G
151
A
seg8:
C
153
T
seg8:
T
159
C
seg8:
C
192
T
seg8:
A
198
G
seg8:
C
204
T
seg8:
G
213
A
seg8:
A
215
G
seg8:
A
216
G
Show more
Deletions
None
Insertions
None
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:
D
35
T
HA1:
K
36
R
HA1:
R
45
K
HA1:
I
61
L
HA1:
P
83
S
HA1:
S
84
N
HA1:
D
86
E
HA1:
D
97
N
HA1:
D
127
E
HA1:
S
128
T
HA1:
N
129
D
HA1:
H
138
Y
HA1:
A
141
T
HA1:
K
142
R
HA1:
K
146
R
HA1:
I
149
V
HA1:
K
153
Q
HA1:
L
161
V
Show more
HA2
HA2:
V
18
I
HA2:
N
43
S
HA2:
E
47
G
HA2:
N
71
S
HA2:
N
117
T
HA2:
N
146
D
HA2:
T
147
M
M1
M1:
S
30
N
M1:
A
166
V
M1:
T
167
A
M2
M2:
R
18
K
M2:
S
64
P
M2:
S
82
N
NEP
NEP:
M
6
V
NEP:
S
37
A
NEP:
S
60
N
NEP:
M
83
V
NEP:
K
88
R
NEP:
A
89
T
NEP:
A
115
T
NP
NP:
R
38
K
NP:
D
53
E
NP:
I
63
V
NP:
S
84
N
NP:
X
114
E
NP:
L
122
Q
NP:
V
217
I
NP:
A
260
T
NP:
V
313
F
NP:
M
316
I
NP:
I
353
L
NP:
T
373
A
NP:
M
426
L
NP:
K
452
Q
NP:
N
473
S
NS1
NS1:
M
6
V
NS1:
G
51
S
NS1:
E
72
G
NS1:
R
78
K
NS1:
M
79
K
NS1:
I
81
T
NS1:
T
86
A
NS1:
S
91
A
NS1:
I
111
M
NS1:
L
119
I
NS1:
M
124
I
NS1:
V
129
I
NS1:
R
140
Q
NS1:
Y
171
N
NS1:
V
178
I
NS1:
V
194
G
NS1:
I
198
L
NS1:
N
205
D
Show more
PA
PA:
X
18
E
PA:
R
57
Q
PA:
I
85
T
PA:
I
118
V
PA:
T
151
I
PA:
S
186
G
PA:
K
204
R
PA:
K
213
R
PA:
P
224
S
PA:
N
254
S
PA:
R
262
K
PA:
L
275
P
PA:
H
277
S
PA:
K
312
N
PA:
V
323
I
PA:
M
336
L
PA:
R
356
K
PA:
G
388
S
Show more
PA-X
PA-X:
X
18
E
PA-X:
R
57
Q
PA-X:
I
85
T
PA-X:
I
118
V
PA-X:
T
151
I
PA-X:
S
186
G
PA-X:
K
195
R
PA-X:
N
204
D
PA-X:
R
206
K
PA-X:
L
210
P
PA-X:
S
213
G
PB1
PB1:
I
12
V
PB1:
M
40
I
PB1:
K
52
R
PB1:
V
113
I
PB1:
N
175
D
PB1:
Q
210
H
PB1:
L
212
M
PB1:
G
216
S
PB1:
I
298
L
PB1:
R
361
K
PB1:
I
364
L
PB1:
A
374
S
PB1:
K
379
R
PB1:
K
386
R
PB1:
K
387
R
PB1:
K
433
R
PB1:
I
435
T
PB1:
V
517
I
Show more
PB2
PB2:
K
33
R
PB2:
S
36
T
PB2:
R
54
K
PB2:
K
61
R
PB2:
K
80
R
PB2:
K
157
R
PB2:
A
184
T
PB2:
G
225
S
PB2:
V
292
I
PB2:
M
294
L
PB2:
I
315
M
PB2:
E
391
D
PB2:
C
409
R
PB2:
S
453
P
PB2:
N
456
S
PB2:
V
480
I
PB2:
I
559
S
PB2:
V
560
L
Show more
SigPep
SigPep:
I
4
V
SigPep:
A
13
T
Deletions
None
Insertions
None
Load sequences