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ASM3873004v1

Organism name:
Salmonella enterica (enterobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: LSP 197/14
BioSample:
SAMN22160942
BioProject:
PRJNA769683
Submitter:
University of Oviedo
Date:
2024/04/29
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_038730045.1 (latest)
RefSeq assembly accession:
GCF_038730045.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAJCUI01
Assembly method:
Velvet v. 1.4.10
Expected final version:
yes
Genome coverage:
78x
Sequencing technology:
Illumina

IDs: 22471141 [UID] 57277338 [GenBank] 58076658 [RefSeq]

See Genome Information for Salmonella enterica

There are 536880 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 Date::10/18/2021 20:33:10
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Provider::NCBI
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Annotation Software revision::5.3
Genes (total)::5,052
CDSs (total)::4,903
Genes (coding)::4,776
CDSs (with protein)::4,776
Genes (RNA)::149
rRNAs::10, 17, 30 (5S, 16S, 23S)
complete rRNAs::10 (5S)
partial rRNAs::17, 30 (16S, 23S)
tRNAs::79
ncRNAs::13
Pseudo Genes (total)::127
CDSs (without protein)::127
Pseudo Genes (ambiguous residues)::0 of 127
Pseudo Genes (frameshifted)::41 of 127
Pseudo Genes (incomplete)::97 of 127
Pseudo Genes (internal stop)::23 of 127
Pseudo Genes (multiple problems)::30 of 127
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,963,422
Total ungapped length4,962,743
Gaps between scaffolds0
Number of scaffolds197
Scaffold N50324,887
Scaffold L506
Number of contigs213
Contig N50260,762
Contig L508
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)197

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
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced4,963,4221974,962,743324,887160

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Salmonella entericaSalmonella 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 type99.9694.8095.02
Best-match type99.9694.8095.02

ANI result

Taxonomy check statusBest match statusComment
OKderived-species-matchna