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ASM836371v1

Organism name:
Salmonella enterica subsp. enterica serovar Typhimurium (enterobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: RS31-1
BioSample:
SAMN12097911
BioProject:
PRJNA549805
Submitter:
Murdoch University
Date:
2019/09/09
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_008363715.1 (latest)
RefSeq assembly accession:
GCF_008363715.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
VHMK01
Assembly method:
SPAdes v. 3.10.1
Expected final version:
yes
Genome coverage:
100x
Sequencing technology:
Illumina MiSeq

IDs: 4556831 [UID] 13699678 [GenBank] 13723608 [RefSeq]

See Genome Information for Salmonella enterica

There are 526504 assemblies for this organism

See more

History (Show revision history)

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/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::06/25/2019 13:02:06
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.8
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::4,825
CDSs (total)::4,730
Genes (coding)::4,622
CDSs (with protein)::4,622
Genes (RNA)::95
rRNAs::5, 6, 4 (5S, 16S, 23S)
complete rRNAs::5, 1, 1 (5S, 16S, 23S)
partial rRNAs::5, 3 (16S, 23S)
tRNAs::69
ncRNAs::11
Pseudo Genes (total)::108
CDSs (without protein)::108
Pseudo Genes (ambiguous residues)::0 of 108
Pseudo Genes (frameshifted)::51 of 108
Pseudo Genes (incomplete)::52 of 108
Pseudo Genes (internal stop)::28 of 108
Pseudo Genes (multiple problems)::21 of 108
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,888,413
Total ungapped length4,888,413
Number of contigs47
Contig N50460,082
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)47

Supplemental Content

PubMed articles for this assembly

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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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced4,888,413474,888,413460,08200

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 type99.9398.8997.63
Best-match type99.9398.8997.63

ANI result

Taxonomy check statusBest match statusComment
OKderived-species-matchna