PP_000T85V.1

USA/PP_000T85V.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
OK573093.1
Submitting group
Date submitted
2024-12-09 18:47:55 UTC
Date released
2024-12-09 18:51:14 UTC
Earliest release date
2022-07-30

Alignment and QC

Length
447 (72.5%)
# of SNPs
49
# of deleted bases
142532
# of frame shifts
8
# of stop codons
1
Frame shifts
OPG045:53-68(nt:29060-29106),OPG045:130-131(nt:28872-28876),OPG046:50-58(nt:29558-29582),OPG047:135-138(nt:30783-30792),OPG047:253-254(nt:30435-30440),OPG047:331-346(nt:30159-30204),OPG047:413-442(nt:29871-29958),OPG047:473-483(nt:29746-29778)
Stop Codons
OPG047:225

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • A28624G
  • A28815C
  • C28926G
  • A28928T
  • G29102C
  • T29104G
  • G29329A
  • T29331C
  • A29335G
  • T29356C
  • A29359T
  • A29361T
  • G29363T
  • T29365G
  • G29366C
  • A29369G
  • A29374T
  • G29375T
Deletions

28032-28128, 28136-28617, 28723-28812, 28819-28871, 28877-28922, 28933-29059, 29065-29098, 29107-29221, 29230-29325, 29337-29354, 29377-29394, 29406-29557, 29565-29579, 29583-29628, 29633-29722, 29741-29776, 29779-29863, 29869, 29870, 29882-29914, 29921-29955, 29959-29963, 29974-30108, 30115-30158, 30167-30199, 30205-30208, 30221-30313, 30328-30434, 30441-30453, 30461-30562,...
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_063383.1 reference

Substitutions

OPG046

  • OPG046:I2L
  • OPG046:L119F

OPG047

  • OPG047:A99C
  • OPG047:L206F
  • OPG047:K208Q
  • OPG047:N209H
  • OPG047:S217Y
  • OPG047:H222T
  • OPG047:N223L
  • OPG047:V224N
  • OPG047:K225*
  • OPG047:Y311P
  • OPG047:A317I
  • OPG047:N319R
  • OPG047:N329I
Deletions

OPG045

OPG045:69-129, OPG045:132-180

OPG046

OPG046:3-49, OPG046:59-116

OPG047

OPG047:104-134, OPG047:139-202, OPG047:211-215, OPG047:226-252, OPG047:255-308, OPG047:330, OPG047:347-412, OPG047:443-472
Insertions

OPG046

ins_OPG046:104:NTKIHAR

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