Genome assembly ASM394092v1

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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

RefSeqGenBank
Genome size4 Mb4 Mb
Total ungapped length4 Mb4 Mb
Number of scaffolds8787
Scaffold N50120 kb120 kb
Scaffold L501313
Number of contigs100100
Contig N50120 kb120 kb
Contig L501313
GC percent3939
Genome coverage115.0x115.0x
Assembly levelScaffoldScaffold
View sequencesview RefSeq sequencesview 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

PRJNA497126

Pakistan and United States ICU transmission dynamics

Pathogen Detection Resource

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameGCF_003940925.1-RS_2024_06_30NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateJun 30, 2024Nov 14, 2018
Genes3,8773,908
Protein-coding3,7183,744
Software version6.74.6

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 reading

Quality 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 organismBest match type-strain
Type assemblyGCA_016746035.1GCA_016746035.1
Organism nameAcinetobacter baumanniiAcinetobacter baumannii
Type categorytypetype
ANI99.72%99.72%
Assembly coverage95.61%95.61%
Type assembly coverage97.34%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_003940925.1GCF_003940925.1ASM394092v1ScaffoldDec 12, 2018