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Status
PP_002KGDK.1
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Download FASTA
Download metadata TSV
Display Name: USA/PP_002KGDK.1/2025-02-11
Paull,
J.; Messer,
K.; Adams,
G.; Nabatanzi,
D.; Dobbins,
S.; Tomkins-Tinch,
C.; Mboowa,
G.; Luebbert,
L.; Worby,
C.; Wewior,
N.; Samani,
P.; DeRuff,
K.; Blumenstiel,
B.; Moreno,
G.; Earl,
A.; Gnirke,
A.; MacInnis,
B.; Sabeti,
P.; Lemieux,
J.; Park,
D.
Submission details
Submission ID
PV484788.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-05-22 14:45:40 UTC
Date released
2025-05-22 15:32:26 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2025-05-22 14:45
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data
Authors
Author affiliations
Broad Institute of MIT and Harvard, Infectious Disease and Microbiome Program
INSDC
BioProject accession
PRJNA1052714
BioSample accession
SAMN47859477
INSDC accession
PV484788.1
Raw reads accession
SRR33051176
NCBI release date
2025-04-14
NCBI update date
2025-04-14
Alignment and QC metrics
Completeness
99.42%
Frame shifts
G:227-237(nt:6923-6957)
Length
13233
Total ambiguous nucs
0
Total deleted nucs
49
Total frame shifts
1
Total inserted nucs
9
Total SNPs
1066
Total unknown nucs
0
Sample details
Earliest release date
2025-04-14
Collection subdivision level 1
Massachusetts
Collection country
USA
Collection date
2025-02-11
Collection date (lower bound)
2025-02-11
Collection date (upper bound)
2025-02-11
Isolate name
HMPV/human/USA/MA-Broad_MGH-23538/2025
Host
Host name - scientific
Homo sapiens
Host taxon ID
9606
Lineage
Lineage
A2.2.1
Nucleotide mutations
Mutations called relative to the
NC_039199.1
reference
Substitutions
T
70
C
G
81
A
T
102
A
A
117
G
G
126
A
T
129
C
T
138
A
G
144
A
A
186
G
G
195
A
A
204
G
G
208
A
C
213
T
T
259
C
A
264
G
G
276
A
G
291
A
G
313
A
Show more
Deletions
4692-4719, 6224, 6903-6922
Insertions
ins_13280:TTAAAA, ins_6964:A, ins_7130:G, ins_6951:T
Amino acid mutations
Mutations called relative to the
NC_039199.1
reference
Substitutions
F
F:
R
82
K
F:
A
185
D
F:
F
258
I
F:
G
294
E
F:
S
466
N
F:
T
504
S
F:
N
539
S
G
G:
T
10
A
G:
V
34
I
G:
K
54
T
G:
M
55
I
G:
N
58
T
G:
E
63
G
G:
S
69
T
G:
M
71
T
G:
S
74
I
G:
R
75
K
G:
P
78
S
G:
V
80
I
G:
T
82
I
G:
D
83
Y
G:
S
85
P
G:
T
87
I
G:
S
89
P
G:
S
90
N
Show more
L
L:
I
75
V
L:
V
79
I
L:
K
162
R
L:
V
182
I
L:
I
245
M
L:
V
331
A
L:
W
390
L
L:
T
429
N
L:
K
496
T
L:
E
540
G
L:
D
546
E
L:
V
654
I
L:
S
769
R
L:
V
772
I
L:
I
861
V
L:
R
951
K
L:
R
957
K
L:
A
960
T
Show more
M
M:
I
23
V
M:
N
66
S
M2-1
M2-1:
S
121
N
M2-1:
V
130
I
M2-1:
E
170
D
M2-1:
T
183
I
M2-2
M2-2:
E
18
D
M2-2:
H
35
Q
M2-2:
D
37
E
M2-2:
S
49
F
M2-2:
E
59
K
N
N:
A
57
T
N:
V
92
T
N:
I
103
V
P
P:
G
31
S
P:
V
46
I
P:
A
59
T
P:
P
64
L
P:
T
78
I
P:
I
82
V
P:
A
85
T
P:
V
88
I
P:
V
214
I
P:
S
239
N
P:
S
242
T
P:
P
277
L
P:
T
280
I
P:
D
282
E
P:
S
284
N
SH
SH:
S
9
N
SH:
K
14
E
SH:
V
33
A
SH:
L
44
F
SH:
K
71
E
SH:
S
73
L
SH:
S
74
P
SH:
N
87
D
SH:
Q
92
H
SH:
S
96
R
SH:
N
103
D
SH:
A
105
V
SH:
S
108
K
SH:
N
115
S
SH:
S
132
L
SH:
T
135
S
SH:
K
136
E
SH:
T
137
I
Show more
Deletions
G:220-226
Insertions
None
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