Genome assembly ASM314565v1
- NCBI RefSeq assembly
- GCF_003145655.1
- Submitted GenBank assembly
- GCA_003145655.1
- Taxon
- Escherichia coli (E. coli)
- Strain
- Spr2013_WWKa_OUT_27
- WGS project
- NBDK01
- Submitter
- BIOTEC
- Date
- May 21, 2018
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 5.2 Mb | 5.2 Mb |
Total ungapped length | 5.2 Mb | 5.2 Mb |
Number of scaffolds | 161 | 161 |
Scaffold N50 | 79.9 kb | 79.9 kb |
Scaffold L50 | 21 | 21 |
Number of contigs | 181 | 181 |
Contig N50 | 79.9 kb | 79.9 kb |
Contig L50 | 21 | 21 |
GC percent | 51 | 51 |
Genome coverage | 10.0x | 10.0x |
Assembly level | Scaffold | Scaffold |
View sequences | view RefSeq sequences | view GenBank sequences |
Sample details
- BioSample ID
- SAMN06641851
- Description
- Pathogen: environmental/food/other sample from Escherichia coli
- Submitter
- BIOTEC
- Strain
- Spr2013_WWKa_OUT_27
- Sample type
- whole organism
- Geographic location
- Germany: Dresden-Kaditz
- Isolation source
- wastewater outflow
- Latitude and longitude
- 51.0707 N 13.6808 E
- Collection date
- Mar 27, 2013
- Sample name
- Spr2013_WWKa_OUT_27
- SRA
- SRS8730424
- Models
- Pathogen.env
- Package
- Pathogen.env.1.0
- Submission date
- 2017-03-24T10:37:04.540
- Publication date
- 2017-09-18T00:00:00.000
- Last updated
- 2021-06-05T07:09:51.295
Assembly methods
- Sequencing technology
- Illumina MiSeq
- Comment
- Bacteria and source DNA available from Thomas Berendonk.
- Assembly method
- ABySS v. 1.5.2
Additional genomes
Browse all Escherichia coli genomes (312177)BioProject
PRJNA380388E. coli genomes from wastewater treatment plant inflow and outflow
Pathogen Detection Resource
Publications
RefSeq microbial genomes database: new representation and annotation strategy
T Tatusova, et al.
Annotation details
RefSeq | |
---|---|
Provider | NCBI RefSeq |
Name | GCF_003145655.1-RS_2024_07_08 |
Date | Jul 8, 2024 |
Genes | 5,153 |
Protein-coding | 4,808 |
Software version | 6.7 |
View RefSeq annotation |
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 (v1.2.3)
Completeness: 98.63% (28th Percentile, dark blue bar)
Contamination: 2.74%
Completeness of Escherichia coli RefSeq assemblies
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Escherichia coli 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
- Escherichia coli
- Submitted species name
- Escherichia coli
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_000210475.1 | GCA_000210475.1 |
Organism name | Escherichia coli ETEC H10407 | Escherichia coli |
Type category | claderef | claderef |
ANI | 98.74% | 98.74% |
Assembly coverage | 84% | 84% |
Type assembly coverage | 81.48% | 81.48% |
Chromosomes
Note: This scaffold-level genome assembly includes 161 scaffolds and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_003145655.1 | GCF_003145655.1 | ASM314565v1 | Scaffold | May 21, 2018 |