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Source database (GenBank or RefSeq) File type

PDT000336902.1

Description:

NCBI Pathogen Detection Assembly PDT000336902.1

Organism name:

Enterococcus faecalis (firmicutes)

Taxonomy check:

Infraspecific name:

Strain: FSIS11809741

BioSample:

SAMN09489621

BioProject:

PRJNA292669

Submitter:

FDA

Date:

2020/11/10

Assembly type:

Assembly level:

Contig

Genome representation:

full

Excluded from RefSeq:

from large multi-isolate project

GenBank assembly accession:

GCA_015338965.1 (latest)

RefSeq assembly accession:

n/a

RefSeq assembly and GenBank assembly identical:

n/a

WGS Project:

AAXESX01

Assembly method:

SKESA v. 2.2

Expected final version:

Genome coverage:

93x

Sequencing technology:

ILLUMINA

IDs: 8473311 [UID] 23033398 [GenBank]

See Genome Information for Enterococcus faecalis

Pathogen Detection Resources

There are 8808 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_015338965.1	n/a	n/a	PDT000336902.1	Contig	Latest GenBank

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/
This draft WGS assembly was generated by running SKESA to generate a de-novo assembly. The de-novo assembly was then ... concatenated with contigs generated using a guided assembler using antimicrobial resistance genes as baits to comprehensively catalog the set of resistance genes in the isolate. Note, some parts of the contigs derived from the guided assembler may overlap de-novo contigs, and other guided assembler contigs. De-novo contigs can be differentiated from guided assembler contigs by their names , which include either 'denovo' or 'guided'.  more

Genome-Annotation-Data

##Genome-Annotation-Data-START##Annotation Date::06/27/2018 20:58:41
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Provider::NCBI
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Annotation Software revision::4.5
Genes (total)::3,140
CDS (total)::3,081
Genes (coding)::3,012
CDS (coding)::3,012
Genes (RNA)::59
rRNAs::1, 1, 3 (5S, 16S, 23S)
partial rRNAs::1, 1, 3 (5S, 16S, 23S)
tRNAs::50
ncRNAs::4
Pseudo Genes (total)::69
Pseudo Genes (ambiguous residues)::0 of 69
Pseudo Genes (frameshifted)::24 of 69
Pseudo Genes (incomplete)::30 of 69
Pseudo Genes (internal stop)::21 of 69
Pseudo Genes (multiple problems)::6 of 69
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length	3,016,831
Total ungapped length	3,016,831
Number of contigs	60
Contig N50	303,512
Contig L50	4
Total number of chromosomes and plasmids	0
Number of component sequences (WGS or clone)	60

	ANI	Query coverage	Subject coverage
Declared type	99.07	82.41	86.43
Best-match type	99.07	82.41	86.43

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PDT000336902.1

See Genome Information for Enterococcus faecalis

Pathogen Detection Resources

There are 8808 assemblies for this organism

History (Show revision history)

Comment

Genome-Annotation-Data

Global statistics

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Best-matching type-strain assembly for declared species

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Average Nucleotide Identity (ANI) data

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