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ASM429180v1

Organism name:
Salmonella enterica subsp. enterica serovar Typhimurium (enterobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: sg_BAA711b
BioSample:
SAMN08848597
BioProject:
PRJNA448475
Submitter:
SCELSE, Nanyang Technological University, Singapore
Date:
2019/02/22
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_004291805.1 (latest)
RefSeq assembly accession:
GCF_004291805.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
QASW01
Assembly method:
SPAdes v. 3.1
Expected final version:
yes
Genome coverage:
374x
Sequencing technology:
Illumina HiSeq

IDs: 2315761 [UID] 8637248 [GenBank] 8640608 [RefSeq]

See Genome Information for Salmonella enterica

Pathogen Detection Resources

There are 525275 assemblies for this organism

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History (Show revision history)

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/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::04/12/2018 04:38:35
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.5
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,399
CDS (total)::5,270
Genes (coding)::5,052
CDS (coding)::5,052
Genes (RNA)::129
rRNAs::9, 13, 11 (5S, 16S, 23S)
complete rRNAs::7 (5S)
partial rRNAs::2, 13, 11 (5S, 16S, 23S)
tRNAs::80
ncRNAs::16
Pseudo Genes (total)::218
Pseudo Genes (ambiguous residues)::0 of 218
Pseudo Genes (frameshifted)::81 of 218
Pseudo Genes (incomplete)::128 of 218
Pseudo Genes (internal stop)::49 of 218
Pseudo Genes (multiple problems)::36 of 218
CRISPR Arrays::3
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,048,946
Total ungapped length5,048,714
Gaps between scaffolds0
Number of scaffolds117
Scaffold N50157,803
Scaffold L5011
Number of contigs118
Contig N50157,803
Contig L5011
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)117

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Assembly Information

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
unplaced5,048,9461175,048,714157,80310

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Salmonella enterica subsp. enterica serovar TyphimuriumSalmonella enterica

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000006945.2Salmonella enterica subsp. enterica serovar Typhimurium str. LT2type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000006945.2Salmonella entericatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.9194.1395.98
Best-match type99.9194.1395.98

ANI result

Taxonomy check statusBest match statusComment
OKderived-species-matchna