GenSpectrum
Influenza A/H5N1
Influenza A/H5N1
RSV-A
RSV B
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GS_001EGT2.1
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Display Name: GS_001EGT2.1/2024-11-07
Kirby,
M. K.; Steel,
J.; Garten,
R.; Davis,
T.; Dugan,
V.; Sheffield,
S.; Liddell,
J.; Frederick,
J. C.; Di,
H.; Radford,
K.; De La Cruz,
J.; Keong,
L.; Lacek,
K. A.; Shu,
B.; Molinar,
B.; Wright,
C.; Guevara,
H.; Pan,
C.-Y.; Morales,
C.; Wadford,
D.
Submission details
Submission ID
PQ686586.1.seg4/PQ686587.1.seg6
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-06 16:08:20 UTC
Date released
2024-12-06 16:08:28 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2024-12-06 16:08
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
PQ686586.1
INSDC accession seg6
PQ686587.1
NCBI release date
2024-12-06
Clade
Clade
2.3.4.4b
Alignment states and QC metrics seg4
Completeness seg4
91.99%
Length seg4
1735
Total ambiguous nucs seg4
0
Total deleted nucs seg4
3
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
173
Total unknown nucs seg4
119
Alignment states and QC metrics seg6
Completeness seg6
51.51%
Length seg6
752
Total ambiguous nucs seg6
1
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
0
Total SNPs seg6
75
Total unknown nucs seg6
0
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2024-11-07
Isolate name
EPI_ISL_19590701
Host
Host name scientific
Homo sapiens
Host taxon id
9606
Nucleotide mutations
Substitutions
seg4
seg4:
A
30
C
seg4:
C
54
T
seg4:
T
57
C
seg4:
C
63
T
seg4:
C
102
T
seg4:
G
114
A
seg4:
A
123
G
seg4:
T
141
C
seg4:
G
174
A
seg4:
T
183
C
seg4:
C
192
A
seg4:
T
198
C
seg4:
A
207
G
seg4:
T
216
A
seg4:
C
219
G
seg4:
G
225
A
seg4:
G
227
A
seg4:
A
228
G
Show more
seg6
seg6:
A
689
T
seg6:
C
690
T
seg6:
G
704
A
seg6:
A
716
T
seg6:
T
719
C
seg6:
T
731
C
seg6:
T
737
C
seg6:
T
740
C
seg6:
C
752
T
seg6:
T
761
C
seg6:
G
782
A
seg6:
A
791
G
seg6:
G
794
A
seg6:
A
797
G
seg6:
A
809
T
seg6:
T
812
C
seg6:
C
821
T
seg6:
T
825
A
Show more
Deletions
seg4:982-984
Insertions
None
Amino acid mutations
Substitutions
HA
HA:
K
3
N
HA:
R
69
K
HA:
N
88
R
HA:
K
98
R
HA:
S
100
N
HA:
D
104
G
HA:
D
110
S
HA:
F
111
L
HA:
L
120
M
HA:
T
124
I
HA:
S
139
P
HA:
D
142
E
HA:
A
143
T
HA:
S
145
L
HA:
V
147
M
HA:
S
149
A
HA:
H
154
Q
HA:
R
156
A
Show more
NA
NA:
M
258
I
NA:
L
269
M
NA:
E
287
D
NA:
T
289
M
NA:
V
321
I
NA:
G
336
S
NA:
V
338
M
NA:
S
339
P
NA:
P
340
S
NA:
N
366
S
NA:
G
382
E
NA:
A
395
E
NA:
I
418
M
NA:
S
434
N
NA:
D
460
G
Deletions
HA:321
Insertions
None
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