PP_000T99L.2

USA/PP_000T99L.2
S. Hunt, N. Shashan, L. Tallon, L. Sadzewicz, K. Vavikolanu, A. Mehta, J. Aluvathingal, S. Nadendla, T. Myers, Y. Yan & H. Sichtig

US Food and Drug Administration, Center for Devices and Radiological Health

Sample details

Sampling location
USA (MD)
Isolate name
WRAIR 7-61

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2024-12-09 18:48insdc_ingest_userOPEN
Data use terms URL

Clade & Lineage

Clade
IIb
Outbreak
sh2017
Lineage
F.3

INSDC

INSDC accession
BioProject accession
BioSample accession
NCBI release date
2022-07-30
NCBI update date
2022-07-30
Raw reads accession

Host

Host

Submission details

Submission ID
OK573131.1
Submitting group
Date submitted
2025-02-03 15:01:44 UTC
Date released
2025-02-03 15:06:57 UTC
Earliest release date
2022-07-30

Alignment and QC

Length
1888 (33.7%)
# of SNPs
229
# of inserted bases
44
# of deleted bases
64555
# of frame shifts
13
Frame shifts
OPG064:380-738(nt:43685-44763),OPG066:6-13(nt:47392-47415),OPG066:28-133(nt:47031-47347),OPG066:164-176(nt:46903-46939),OPG066:200-202(nt:46825-46831),OPG066:225-226(nt:46752-46757),OPG066:243-260(nt:46649-46702),OPG068:7(nt:48217-48218),OPG068:13-28(nt:48237-48284),OPG068:34-37(nt:48299-48309),OPG068:47(nt:48338-48341),OPG068:53-112(nt:48356-48535),OPG068:126-568(nt:48574-49904)

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • T45184G
  • A45630G
  • A46619T
  • T46621A
  • A46623C
  • C46729A
  • T46736A
  • T46737G
  • T46739G
  • G46740A
  • G46743A
  • T46755A
  • T46768G
  • C46828A
  • T46846C
  • A46849C
  • G46852A
  • T46853G
Deletions

44764-45181, 45190-45627, 46628-46699, 46703-46727, 46745-46751, 46758-46765, 46775-46824, 46832-46844, 46856-46902, 46925-46929, 46940-46992, 46999-47030, 47036-47143, 47157-47168, 47204-47206, 47211-47282, 47309-47340, 47348-47358, 47369-47391, 47402-47412, 47416-47420, 47456-47490, 47508-47522, 47531-47537, 47548-47551, 47569-47580, 47620-47622, 47632-47656, 47668-47675, 47683,...
Insertions

ins_47446:GG, ins_47562:ATTGGT, ins_47605:CTCTCCT, ins_47608:TTTT, ins_47788:G, ins_47798:GGCTGTAG, ins_47859:CA, ins_48058:G, ins_48110:C, ins_48119:TCTCT, ins_48124:T, ins_48186:AATG, ins_48535:CT

Amino acid substitutions

Substitutions called relative to the NC_063383.1 reference

Substitutions

OPG064

  • OPG064:I90T
  • OPG064:N91I
  • OPG064:Y92K

OPG066

  • OPG066:M1P

OPG068

  • OPG068:M1K
  • OPG068:D2R
  • OPG068:F3L

OPG092

  • OPG092:Y133C
Deletions

OPG064

OPG064:96-379

OPG066

OPG066:4, OPG066:5, OPG066:14-22, OPG066:25-27, OPG066:134-163, OPG066:177-199, OPG066:203-224, OPG066:227-242

OPG068

OPG068:4-9, OPG068:29-33, OPG068:38-46, OPG068:48-50, OPG068:113-125
Insertions

OPG068

ins_OPG068:78:*QN*

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