Genome assembly ASM1935183v1

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NCBI RefSeq assembly
GCF_019351835.1
Submitted GenBank assembly
GCA_019351835.1
Taxon
Enterobacter roggenkampii
Strain
CORE_Ent3
WGS project
JAFFSO01
Submitter
Case Western Reserve University
Date
Jul 26, 2021

Assembly statistics

RefSeqGenBank
Genome size4.9 Mb4.9 Mb
Total ungapped length4.9 Mb4.9 Mb
Number of scaffolds145145
Scaffold N5081.1 kb81.1 kb
Scaffold L502121
Number of contigs162162
Contig N5068.3 kb68.3 kb
Contig L502424
GC percent5656
Genome coverage106.0x106.0x
Assembly levelScaffoldScaffold
View sequencesview RefSeq sequences

Sample details

BioSample ID
SAMN17928635
Description
Pathogen: clinical or host-associated sample from Enterobacter roggenkampii
Submitter
Case Western Reserve University
Strain
CORE_Ent3
Collected by
Michigan Medicine
Collection date
Apr 17, 2017
Geographic location
USA: Michigan
Host
Homo sapiens
Host disease
pneumonia
Isolation source
sputum
Latitude and longitude
43.6211 N 84.6824 W
Sample name
CORE_Ent3
Models
Pathogen.cl
Package
Pathogen.cl.1.0
Submission date
2021-02-16T21:29:07.917
Publication date
2021-07-27T18:41:02.477
Last updated
2021-07-27T18:41:02.477

Assembly methods

Sequencing technology
Illumina NextSeq
Comment
The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
Assembly method
CLC Genomics Workbench v. 20

Additional genomes

Browse all Enterobacter roggenkampii genomes (769)

BioProject

PRJNA699920

Colistin Resistance Enterobacterales

Pathogen Detection Resource

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameGCF_019351835.1-RS_2024_04_10NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateApr 10, 2024Feb 18, 2021
Genes4,8064,787
Protein-coding4,6054,609
Software version6.75.1

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: 98.99% (19th Percentile)

Contamination: 0.69%

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Enterobacter 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
Enterobacter roggenkampii
Submitted species name
Enterobacter roggenkampii

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_001729805.1GCA_001729805.1
Organism nameEnterobacter roggenkampiiEnterobacter roggenkampii
Type categorytypetype
ANI98.47%98.47%
Assembly coverage86.36%86.36%
Type assembly coverage86.26%86.26%

Chromosomes

Note: This scaffold-level genome assembly includes 145 scaffolds and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_019351835.1GCF_019351835.1ASM1935183v1ScaffoldJul 26, 2021