GenSpectrum
Influenza A/H1N1pdm
Influenza B/Victoria
Influenza A/H1N1pdm
Influenza A/H3N2
Influenza A/H5N1
Influenza A
Influenza B
RSV-A
RSV B
Browse
Loculus
Browse
Docs
API docs
GS_00D6PJH.1
Download
Download FASTA
Download metadata TSV
Display Name: USA/GS_00D6PJH.1/2025-02-03
Gruner,
W. E.; Muehleman,
D. M.; Fries,
A. C.; Hanson,
J. F.; Kramer,
D. L.; Demarcus,
L. S.; Wasik,
P. M.; Robbins,
A. S.; Macias,
E. A.; Garcia,
J. M.; Renkas,
M. C.; Hartless,
T. R.; Hardy,
J.
Submission details
Submission ID
PV261815.1.seg1/PV261482.1.seg4/PV261633.1.seg5/PV261584.1.seg6/PV261534.1.seg7/PV261688.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-03-12 01:38:14 UTC
Date released
2025-03-12 01:38:31 UTC
Authors
Author affiliations
United States Air Force School of Aerospace Medicine Public Health Submission Group, 711th Human Performance Wing
Clade
Clade ha
6B.1A.5a.2a
Clade na
C.5.3.1
Alignment states and QC metrics seg1
Completeness seg1
100.00%
Length seg1
2280
Total ambiguous nucs seg1
0
Total deleted nucs seg1
0
Total frame shifts seg1
0
Total inserted nucs seg1
0
Total SNPs seg1
84
Total unknown nucs seg1
0
Alignment states and QC metrics seg4
Completeness seg4
97.09%
Length seg4
1701
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
100
Total unknown nucs seg4
0
Alignment states and QC metrics seg5
Completeness seg5
100.00%
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
60
Total unknown nucs seg5
0
Alignment states and QC metrics seg6
Completeness seg6
98.39%
Length seg6
1410
Total ambiguous nucs seg6
0
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
0
Total SNPs seg6
19
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
26
Total unknown nucs seg7
0
Alignment states and QC metrics seg8
Completeness seg8
97.10%
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
35
Total unknown nucs seg8
0
Sample details
Collection country
USA
Collection subdivision level 1
Washington
Collection date
2025-02-03
Isolate name
USAFSAM-15411
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC
INSDC accession seg1
PV261815.1
INSDC accession seg4
PV261482.1
INSDC accession seg5
PV261633.1
INSDC accession seg6
PV261584.1
INSDC accession seg7
PV261534.1
INSDC accession seg8
PV261688.1
NCBI release date
2025-03-11
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
18
G
seg1:
A
90
C
seg1:
A
96
G
seg1:
A
108
G
seg1:
A
132
G
seg1:
A
138
G
seg1:
G
161
A
seg1:
A
174
G
seg1:
G
198
A
seg1:
T
201
C
seg1:
A
225
G
seg1:
C
242
T
seg1:
A
243
G
seg1:
C
285
A
seg1:
A
291
G
seg1:
C
309
T
seg1:
A
441
G
seg1:
C
450
T
Show more
seg4
seg4:
C
42
A
seg4:
A
47
G
seg4:
G
57
A
seg4:
C
64
T
seg4:
A
119
G
seg4:
T
161
C
seg4:
C
164
T
seg4:
G
188
A
seg4:
G
221
A
seg4:
A
231
C
seg4:
A
240
G
seg4:
C
293
A
seg4:
G
311
A
seg4:
T
320
C
seg4:
G
322
A
seg4:
G
338
T
seg4:
G
360
A
seg4:
G
416
A
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:
G
192
A
seg5:
C
249
A
seg5:
T
252
C
seg5:
A
288
C
seg5:
G
298
A
seg5:
G
309
A
seg5:
T
314
C
seg5:
G
315
A
seg5:
R
341
A
seg5:
T
365
A
Show more
seg6
seg6:
G
130
A
seg6:
A
144
G
seg6:
G
163
A
seg6:
C
232
T
seg6:
T
413
C
seg6:
C
452
A
seg6:
G
607
A
seg6:
A
785
G
seg6:
T
799
C
seg6:
A
818
G
seg6:
C
893
T
seg6:
G
914
T
seg6:
T
1016
C
seg6:
A
1049
G
seg6:
C
1187
T
seg6:
A
1193
G
seg6:
G
1365
A
seg6:
T
1403
C
seg6:
G
1415
T
seg7
seg7:
G
75
A
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:
A
348
G
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
seg7:
G
660
A
seg7:
T
663
C
Show more
seg8
seg8:
C
6
A
seg8:
C
42
T
seg8:
C
54
T
seg8:
C
57
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
238
G
seg8:
G
250
A
seg8:
C
264
T
seg8:
C
268
A
seg8:
C
315
T
seg8:
G
363
A
seg8:
A
367
G
seg8:
A
375
T
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:
K
54
Q
HA1:
I
57
V
HA1:
S
74
R
HA1:
S
84
N
HA1:
D
97
N
HA1:
T
120
A
HA1:
N
129
D
HA1:
K
130
N
HA1:
N
156
K
HA1:
L
161
I
HA1:
S
162
N
HA1:
K
163
Q
HA1:
S
164
T
HA1:
I
166
V
HA1:
K
169
Q
HA1:
S
183
P
HA1:
S
185
I
HA1:
A
186
T
Show more
HA2
HA2:
E
47
K
HA2:
I
91
V
HA2:
S
124
N
HA2:
I
133
V
HA2:
E
172
K
HA2:
E
179
D
HA2:
I
183
T
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:
D
21
G
M2:
S
23
N
NA
NA:
G
41
E
NA:
I
46
V
NA:
S
52
N
NA:
A
75
V
NA:
S
200
N
NA:
I
264
T
NA:
V
453
M
NA:
K
469
N
NEP
NEP:
D
2
E
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
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:
N
205
S
PB2
PB2:
R
54
K
PB2:
M
66
I
PB2:
T
81
M
PB2:
D
195
N
PB2:
G
225
S
PB2:
R
293
K
PB2:
R
299
K
PB2:
V
344
M
PB2:
I
354
L
PB2:
S
387
N
PB2:
S
453
T
PB2:
L
475
M
PB2:
V
667
I
PB2:
V
731
I
SigPep
SigPep:
L
8
M
SigPep:
A
13
T
SigPep:
A
15
V
Deletions
None
Insertions
None
Load sequences