Genome assembly ASM1935183v1
- 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
RefSeq | GenBank | |
---|---|---|
Genome size | 4.9 Mb | 4.9 Mb |
Total ungapped length | 4.9 Mb | 4.9 Mb |
Number of scaffolds | 145 | 145 |
Scaffold N50 | 81.1 kb | 81.1 kb |
Scaffold L50 | 21 | 21 |
Number of contigs | 162 | 162 |
Contig N50 | 68.3 kb | 68.3 kb |
Contig L50 | 24 | 24 |
GC percent | 56 | 56 |
Genome coverage | 106.0x | 106.0x |
Assembly level | Scaffold | Scaffold |
View sequences | view 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
PRJNA699920Colistin Resistance Enterobacterales
Pathogen Detection Resource
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | NCBI |
Name | GCF_019351835.1-RS_2024_04_10 | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Apr 10, 2024 | Feb 18, 2021 |
Genes | 4,806 | 4,787 |
Protein-coding | 4,605 | 4,609 |
Software version | 6.7 | 5.1 |
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 readingQuality 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 organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_001729805.1 | GCA_001729805.1 |
Organism name | Enterobacter roggenkampii | Enterobacter roggenkampii |
Type category | type | type |
ANI | 98.47% | 98.47% |
Assembly coverage | 86.36% | 86.36% |
Type assembly coverage | 86.26% | 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_019351835.1 | GCF_019351835.1 | ASM1935183v1 | Scaffold | Jul 26, 2021 |