Genome assembly ASM394092v1
- NCBI RefSeq assembly
- GCF_003940925.1
- Submitted GenBank assembly
- GCA_003940925.1
- Taxon
- Acinetobacter baumannii
- Strain
- AB_261
- WGS project
- RHYN01
- Submitter
- Washington University in St. Louis School of Medicine
- Date
- Dec 12, 2018
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 4 Mb | 4 Mb |
Total ungapped length | 4 Mb | 4 Mb |
Number of scaffolds | 87 | 87 |
Scaffold N50 | 120 kb | 120 kb |
Scaffold L50 | 13 | 13 |
Number of contigs | 100 | 100 |
Contig N50 | 120 kb | 120 kb |
Contig L50 | 13 | 13 |
GC percent | 39 | 39 |
Genome coverage | 115.0x | 115.0x |
Assembly level | Scaffold | Scaffold |
View sequences | view RefSeq sequences | view GenBank sequences |
Sample details
- BioSample ID
- SAMN10249060
- Description
- Microbe sample from Acinetobacter baumannii
- Submitter
- Washington University in St. Louis School of Medicine
- Strain
- AB_261
- Isolation source
- bedside rail in hospital intensive care unit
- Collection date
- 2016-02
- Geographic location
- Pakistan
- Sample type
- whole organism
- Relative week
- 4
- Collection room
- PAK-4
- Sample name
- AB_261
- SRA
- SRS5369431
- Models
- Microbe, viral or environmental
- Package
- Microbe.1.0
- Submission date
- 2018-10-16T18:54:06.680
- Publication date
- 2018-12-08T00:50:12.927
- Last updated
- 2019-09-10T14:10:23.157
Assembly methods
- Sequencing technology
- Illumina NextSeq
- Comment
- Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
- Assembly method
- SPAdes v. 3.11.0
Additional genomes
Browse all Acinetobacter baumannii genomes (34110)BioProject
PRJNA497126Pakistan and United States ICU transmission dynamics
Pathogen Detection Resource
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | NCBI |
Name | GCF_003940925.1-RS_2024_06_30 | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Jun 30, 2024 | Nov 14, 2018 |
Genes | 3,877 | 3,908 |
Protein-coding | 3,718 | 3,744 |
Software version | 6.7 | 4.6 |
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 readingQuality analysis
CheckM analysis (v1.2.2)
Completeness: 99.83% (76th Percentile)
Contamination: 0.25%
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Acinetobacter baumannii 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
- Acinetobacter baumannii
- Submitted species name
- Acinetobacter baumannii
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_016746035.1 | GCA_016746035.1 |
Organism name | Acinetobacter baumannii | Acinetobacter baumannii |
Type category | type | type |
ANI | 99.72% | 99.72% |
Assembly coverage | 95.61% | 95.61% |
Type assembly coverage | 97.34% | 97.34% |
Chromosomes
Note: This scaffold-level genome assembly includes 87 scaffolds and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_003940925.1 | GCF_003940925.1 | ASM394092v1 | Scaffold | Dec 12, 2018 |