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ASM210666v1

Organism name:
Salmonella enterica subsp. enterica serovar Thompson (enterobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: NY_FSL S10-1816
BioSample:
SAMN01902493
BioProject:
PRJNA183850
Submitter:
New York State Dept. of Health - Wadsworth Center
Date:
2017/04/24
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_002106665.1 (latest)
RefSeq assembly accession:
GCF_002106665.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
NBQP01
Assembly method:
SPAdes v. 3.6.0
Expected final version:
yes
Genome coverage:
136.247x
Sequencing technology:
Illumina MiSeq

IDs: 1078971 [UID] 4408178 [GenBank] 4413158 [RefSeq]

See Genome Information for Salmonella enterica

There are 532121 assemblies for this organism

See more

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::04/05/2017 15:03:52
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.1
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::4,788
CDS (total)::4,649
Genes (coding)::4,530
CDS (coding)::4,530
Genes (RNA)::139
rRNAs::8, 10, 26 (5S, 16S, 23S)
complete rRNAs::8 (5S)
partial rRNAs::10, 26 (16S, 23S)
tRNAs::84
ncRNAs::11
Pseudo Genes (total)::119
Pseudo Genes (ambiguous residues)::0 of 119
Pseudo Genes (frameshifted)::71 of 119
Pseudo Genes (incomplete)::41 of 119
Pseudo Genes (internal stop)::48 of 119
Pseudo Genes (multiple problems)::38 of 119
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,691,794
Total ungapped length4,691,794
Number of contigs60
Contig N50521,258
Contig L503
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)60

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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
unplaced4,691,794604,691,794521,25800

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Salmonella enterica subsp. enterica serovar ThompsonSalmonella enterica

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_001558355.2Salmonella entericatype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001558355.2Salmonella entericatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.0196.4591.39
Best-match type99.0196.4591.39

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna