PP_000T6NW.1

USA/PP_000T6NW.1
N. Shashan, J. Makarenko, 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
USA-2003

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
A

INSDC

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

Submission details

Submission ID
OK573042.1
Submitting group
Date submitted
2024-12-09 18:47:55 UTC
Date released
2024-12-09 18:50:44 UTC
Earliest release date
2022-07-30

Alignment and QC

Length
881 (20.8%)
# of SNPs
127
# of inserted bases
1
# of deleted bases
40099
# of frame shifts
8
Frame shifts
OPG072:27-28(nt:54546-54552),OPG072:65-96(nt:54660-54757),OPG073:15-42(nt:55018-55099),OPG073:97-103(nt:54834-54853),OPG074:380-408(nt:55903-55990),OPG074:479-574(nt:55405-55691),OPG074:607-629(nt:55240-55307),OPG074:653-662(nt:55142-55171)

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • T54522A
  • A54550T
  • T54663A
  • A54669T
  • A54675G
  • T54737G
  • C54738T
  • T54744A
  • A54809G
  • T54810A
  • G54819A
  • G54820T
  • A54822T
  • T54826G
  • C54828G
  • G54835A
  • C54836T
  • T54838G
Deletions

54526-54545, 54553-54592, 54596-54659, 54676-54733, 54748-54807, 54830-54833, 54872-54880, 54913-54948, 54955-54957, 54968-55017, 55043-55063, 55077-55091, 55100-55118, 55137-55141, 55150-55166, 55172-55176, 55188-55239, 55245-55253, 55266-55292, 55308-55315, 55326-55404, 55421-55438, 55448-55510, 55539-55544, 55557-55581, 55590-55681, 55692-55822, 55842-55902, 55926-55938,...
Insertions

ins_54853:C

Amino acid substitutions

Substitutions called relative to the NC_063383.1 reference

Substitutions

OPG072

  • OPG072:L18H

OPG073

  • OPG073:L3R
  • OPG073:N5I
  • OPG073:F88I
  • OPG073:T89K
  • OPG073:K90L
  • OPG073:T92V
  • OPG073:G93Y
  • OPG073:R105K
  • OPG073:I106N

OPG074

  • OPG074:D258I
  • OPG074:D260N
  • OPG074:L261A
  • OPG074:L275A
  • OPG074:E276A
  • OPG074:L431K
  • OPG074:S432G
  • OPG074:*666D

OPG084

  • OPG084:N675Y
Deletions

OPG072

OPG072:20-26, OPG072:29-64

OPG073

OPG073:9-14, OPG073:43-83, OPG073:104

OPG074

OPG074:279-379, OPG074:409-428, OPG074:436-478, OPG074:575-606, OPG074:630-652, OPG074:663, OPG074:664
Insertions
N/A

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