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ASM204288v1

Organism name:
Citrobacter portucalensis (enterobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: A60
BioSample:
SAMN06214708
BioProject:
PRJNA369027
Submitter:
Faculty of Pharmacy, University of Porto
Date:
2017/03/20
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_002042885.1 (latest)
RefSeq assembly accession:
GCF_002042885.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
MVFY01
Assembly method:
SPAdes v. 3.9.0
Expected final version:
no
Genome coverage:
100.0x
Sequencing technology:
Illumina MiSeq

IDs: 1039301 [UID] 4254998 [GenBank] 4274778 [RefSeq]

See Genome Information for Citrobacter portucalensis

There are 262 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::02/15/2017 18:14:20
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.0
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::4,827
CDS (total)::4,723
Genes (coding)::4,597
CDS (coding)::4,597
Genes (RNA)::104
rRNAs::5, 9, 5 (5S, 16S, 23S)
complete rRNAs::5 (5S)
partial rRNAs::9, 5 (16S, 23S)
tRNAs::76
ncRNAs::9
Pseudo Genes (total)::126
Pseudo Genes (ambiguous residues)::0 of 126
Pseudo Genes (frameshifted)::67 of 126
Pseudo Genes (incomplete)::32 of 126
Pseudo Genes (internal stop)::51 of 126
Pseudo Genes (multiple problems)::23 of 126
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,916,306
Total ungapped length4,916,306
Number of contigs40
Contig N50297,971
Contig L506
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)40

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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
unplaced4,916,306404,916,306297,97100

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Citrobacter portucalensisCitrobacter portucalensis

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000312465.1Citrobacter freundiitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type94.7084.8183.37

ANI result

Taxonomy check statusBest match statusComment
OKbelow-threshold-mismatchAssembly is the type-strain, mismatch is within genus and expected