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Influenza A/H5N1
Influenza A/H5N1
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GS_001DYM0.1
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Display Name: GS_001DYM0.1/2024-10-30
Kirby,
M. K.; Steel,
J.; Garten,
R.; Davis,
T.; Dugan,
V.; DaSilva,
J.; Liddell,
J.; Frederick,
J. C.; Di,
H.; Sheffield,
S.; Radford,
K.; De La Cruz,
J.; Keong,
L.; Lacek,
K. A.; Shu,
B.; Lopez,
D.; Seliskar,
L.; Le,
H.; Cadiz,
V.; Hua,
C.; Hok,
S.; Millena,
S.
Submission details
Submission ID
PQ615336.1.seg4/PQ615331.1.seg6/PQ615333.1.seg7/PQ615332.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-11-21 13:24:26 UTC
Date released
2024-11-21 13:56:34 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2024-11-21 13:25
insdc_ingest_user
OPEN
Close
(history)
Authors
Author affiliations
Centers for Disease Control and Prevention, WHO Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Influenza Division
INSDC
Bioproject accession
PRJNA1095491
INSDC accession seg4
PQ615336.1
INSDC accession seg6
PQ615331.1
INSDC accession seg7
PQ615333.1
INSDC accession seg8
PQ615332.1
NCBI release date
2024-11-19
Clade
Clade
2.3.4.4b
Alignment states and QC metrics seg4
Completeness seg4
51.76%
Length seg4
908
Total ambiguous nucs seg4
0
Total deleted nucs seg4
3
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
85
Total unknown nucs seg4
0
Alignment states and QC metrics seg6
Completeness seg6
96.78%
Length seg6
1413
Total ambiguous nucs seg6
2
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
0
Total SNPs seg6
150
Total unknown nucs seg6
0
Alignment states and QC metrics seg7
Completeness seg7
97.37%
Length seg7
1000
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
0
Total SNPs seg7
64
Total unknown nucs seg7
0
Alignment states and QC metrics seg8
Completeness seg8
100.00%
Length seg8
866
Total ambiguous nucs seg8
0
Total deleted nucs seg8
11
Total frame shifts seg8
0
Total inserted nucs seg8
12
Total SNPs seg8
217
Total unknown nucs seg8
0
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2024-10-30
Isolate name
EPI_ISL_19531297
Host
Host name scientific
Homo sapiens
Host taxon id
9606
Nucleotide mutations
Substitutions
seg4
seg4:
A
855
G
seg4:
G
856
A
seg4:
A
872
G
seg4:
T
874
G
seg4:
T
885
C
seg4:
A
886
C
seg4:
C
888
T
seg4:
G
900
A
seg4:
T
909
C
seg4:
A
913
G
seg4:
G
915
A
seg4:
G
918
T
seg4:
C
927
T
seg4:
C
942
T
seg4:
C
954
T
seg4:
C
957
T
seg4:
C
966
T
seg4:
T
984
C
Show more
seg6
seg6:
G
35
A
seg6:
T
43
C
seg6:
G
69
A
seg6:
A
78
G
seg6:
T
80
C
seg6:
T
90
C
seg6:
A
92
G
seg6:
C
122
T
seg6:
T
125
C
seg6:
T
134
C
seg6:
G
137
A
seg6:
C
150
T
seg6:
A
155
G
seg6:
G
156
C
seg6:
T
179
C
seg6:
T
185
C
seg6:
A
191
G
seg6:
A
212
G
Show more
seg7
seg7:
A
25
G
seg7:
A
76
G
seg7:
G
112
A
seg7:
A
127
G
seg7:
C
142
T
seg7:
A
196
G
seg7:
A
205
G
seg7:
G
268
A
seg7:
T
275
C
seg7:
A
279
G
seg7:
A
285
C
seg7:
T
292
C
seg7:
T
301
C
seg7:
T
307
C
seg7:
G
310
A
seg7:
T
316
C
seg7:
C
320
T
seg7:
A
322
G
Show more
seg8
seg8:
G
9
A
seg8:
A
30
T
seg8:
C
34
G
seg8:
T
50
C
seg8:
T
53
C
seg8:
A
55
T
seg8:
A
59
T
seg8:
C
65
T
seg8:
A
66
G
seg8:
A
68
C
seg8:
A
69
C
seg8:
A
71
C
seg8:
G
74
A
seg8:
T
76
G
seg8:
C
78
T
seg8:
T
83
A
seg8:
A
84
C
seg8:
T
85
C
Show more
Deletions
seg4:1054-1056, seg8:36-38, seg8:90, seg8:93, seg8:181, seg8:239-242, seg8:494
Insertions
ins_seg8:28:TGT, ins_seg8:510:C, ins_seg8:865:C, ins_seg8:221:GAGG, ins_seg8:176:G, ins_seg8:79:TG
Amino acid mutations
Substitutions
HA
HA:
A
279
T
HA:
E
284
G
HA:
L
285
V
HA:
N
289
H
HA:
M
298
V
HA:
R
326
K
HA:
T
336
N
HA:
Q
338
L
HA:
R
341
K
HA:
Q
429
K
HA:
K
499
R
HA:
N
515
K
HA:
M
527
V
HA:
V
539
A
HA:
V
549
M
M2
M2:
E
14
G
M2:
K
18
N
M2:
V
28
I
M2:
I
51
V
M2:
R
61
G
M2:
D
88
N
NA
NA:
I
8
T
NA:
V
17
I
NA:
I
20
V
NA:
H
44
Y
NA:
A
46
P
NA:
V
67
I
NA:
N
71
S
NA:
T
76
A
NA:
K
78
Q
NA:
A
81
T
NA:
V
99
I
NA:
H
100
Y
NA:
H
155
Y
NA:
T
188
I
NA:
M
258
I
NA:
L
269
M
NA:
E
287
D
NA:
T
289
M
Show more
NS2
NS2:
I
6
V
NS2:
T
7
L
NS2:
Q
14
M
NS2:
E
22
G
NS2:
V
26
E
NS2:
R
37
S
NS2:
I
40
L
NS2:
S
48
A
NS2:
M
49
V
NS2:
N
60
S
NS2:
A
63
G
NS2:
T
64
K
NS2:
N
67
G
NS2:
E
68
Q
NS2:
A
81
E
NS2:
C
83
V
NS2:
N
85
H
NS2:
I
86
R
Show more
Deletions
HA:344
Insertions
None
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