Genome assembly 7738_4#60

Actions
NCBI RefSeq assembly
GCF_001352215.1
Submitted GenBank assembly
GCA_001352215.1
Taxon
Staphylococcus aureus
Strain
USFL341
WGS project
CFRG01
Submitter
SC
Date
Apr 1, 2015

Assembly statistics

RefSeqGenBank
Genome size2.9 Mb2.9 Mb
Total ungapped length2.9 Mb2.9 Mb
Number of scaffolds4444
Scaffold N50304.8 kb304.8 kb
Scaffold L5044
Number of contigs4646
Contig N50304.8 kb304.8 kb
Contig L5044
GC percent32.532.5
Genome coverage100.0x100.0x
Assembly levelScaffoldScaffold

Sample details

BioSample ID
SAMEA1324601
Description
Staphylococcus aureus; Staphylococcus aureus
Submitter
EBI
ArrayExpress-Species
Staphylococcus aureus
ENA-CHECKLIST
ERC000011
ENA-FIRST-PUBLIC
2012-06-06T17:01:34Z
ENA-LAST-UPDATE
2018-03-09T09:55:41Z
External Id
SAMEA1324601
INSDC center name
SC
INSDC first public
2012-06-06T17:01:34Z
INSDC last update
2018-03-09T09:55:41Z
INSDC status
public
Submitter Id
USFL341-sc-2012-11-08T15:47:09Z-1351134
Collection date
Mar 1, 2011
Geographic location
USA: New York, Inwood
Host health state
disease
Isolation source
soft tissue
Sample name
USFL341-sc-2012-11-08T15:47:09Z-1351134
Scientific name
Staphylococcus aureus
Serovar
ST8
Host
Homo sapiens
Strain
USFL341
SRA
ERS093105
Models
Generic
Package
Generic.1.0
Submission date
2012-07-14T12:22:30.793
Publication date
2012-06-06T00:00:00.000
Last updated
2024-02-05T19:05:31.000

Additional genomes

Browse all Staphylococcus aureus genomes (102274)

BioProject

PRJEB2870

Staphylococcus aureus (USFL) study

Pathogen Detection Resource

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqSC
NameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)Annotation submitted by SC
DateNov 12, 2023Jul 23, 2015
Genes3,0092,797
Protein-coding2,8282,727
Software version6.6

About PGAP

The NCBI Prokaryotic Genome Annotation Pipeline (PGAP) uses multiple approaches to predict protein-coding and RNA genes and other functional elements directly from sequence.

Continue reading

Quality analysis

CheckM analysis (v1.2.2)

Completeness: 97.91% (26th Percentile)

Contamination: 0.39%

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Staphylococcus aureus CheckM marker set. For more information on CheckM, see Parks, et al. Genome Res (2015).

Taxonomy check

Taxonomy check status
OK
Best match status
species_match
Submitted organism name
Staphylococcus aureus
Submitted species name
Staphylococcus aureus

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_000330825.2GCA_000330825.2
Organism nameStaphylococcus aureus subsp. aureus DSM 20231Staphylococcus aureus
Type categorytypetype
ANI99.9%99.9%
Assembly coverage92.5%92.5%
Type assembly coverage98.06%98.06%

Chromosomes

Note: This scaffold-level genome assembly includes 44 scaffolds and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_001352215.1GCF_001352215.17738_4#60ScaffoldApr 1, 2015