PP_000T65X.1

USA/PP_000T65X.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
None
Lineage
None

INSDC

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

Submission details

Submission ID
OK573025.1
Submitting group
Date submitted
2024-12-09 18:47:55 UTC
Date released
2024-12-09 18:50:13 UTC
Earliest release date
2022-07-30

Alignment and QC

Length
2032 (8.5%)
# of SNPs
150
# of inserted bases
57
# of deleted bases
14787
# of frame shifts
9
# of stop codons
2
Frame shifts
OPG056:271-292(nt:38160-38226),OPG056:318-330(nt:38045-38085),OPG056:342-364(nt:37944-38012),OPG056:371-389(nt:37868-37925),OPG056:395-415(nt:37792-37852),OPG056:424-427(nt:37755-37765),OPG056:453-458(nt:37663-37679),OPG056:472-485(nt:37582-37621),OPG056:493-636(nt:37127-37558)
Stop Codons
OPG056:214,OPG056:303

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • C36732T
  • T37110C
  • A37559G
  • T37565C
  • T37606A
  • A37607G
  • T37611G
  • T37614G
  • A37617G
  • T37620C
  • A37621G
  • C37632G
  • T37634A
  • A37637C
  • G37638C
  • G37639C
  • T37641G
  • G37664A
Deletions

37568-37581, 37586-37603, 37622-37628, 37643-37662, 37680-37698, 37703-37726, 37739-37744, 37748-37754, 37766, 37767, 37784-37791, 37823-37836, 37841, 37853-37862, 37892, 37893, 37919-37921, 37926, 37927, 37940-37943, 37961-37966, 37975-37980, 38019-38044, 38057-38073, 38093-38125, 38132-38134, 38144-38159, 38165, 38189-38193, 38212, 38213, 38227-38297, 38324-52763
Insertions

ins_37558:GCCGGCGGAG, ins_37612:CAG, ins_37867:CTGG, ins_37885:GAC, ins_37907:CCAACT, ins_37970:GG, ins_38004:GCACGCGCGCTACACTGA, ins_38012:GCGTGTGC, ins_38085:G, ins_38197:GA

Amino acid substitutions

Substitutions called relative to the NC_063383.1 reference

Substitutions

OPG055

  • OPG055:A118T

OPG056

  • OPG056:L209Q
  • OPG056:W210R
  • OPG056:R212G
  • OPG056:I213T
  • OPG056:S214*
  • OPG056:S216T
  • OPG056:I239H
  • OPG056:P240H
  • OPG056:Y241E
  • OPG056:M242W
  • OPG056:I243G
  • OPG056:W303*
  • OPG056:K304T
  • OPG056:A369Q
  • OPG056:S390H
  • OPG056:P391H
Deletions

OPG056

OPG056:247-270, OPG056:293-297, OPG056:305-317, OPG056:331-341, OPG056:365, OPG056:370, OPG056:392-394, OPG056:416, OPG056:417, OPG056:420-423, OPG056:428-452, OPG056:459-471, OPG056:486-489
Insertions

OPG056

ins_OPG056:400:N, ins_OPG056:492:LRR

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