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ASM201232v1

Organism name:
Clostridium perfringens (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: Del1
BioSample:
SAMN06252079
BioProject:
PRJNA363042
Submitter:
USDA-ARS
Date:
2017/03/03
Assembly type:
na
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_002012325.1 (latest)
RefSeq assembly accession:
GCF_002012325.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
Celera Assembler v. Oct-2016; CLC Genomics Workbench v. V. 9.5.1
Expected final version:
yes
Genome coverage:
300.0x
Sequencing technology:
Illumina HiSeq

IDs: 1015911 [UID] 4168158 [GenBank] 4177388 [RefSeq]

See Genome Information for Clostridium perfringens

Pathogen Detection Resources

There are 1876 assemblies for this organism

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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://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::03/05/2024 01:49:08
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::3,664
CDSs (total)::3,535
Genes (coding)::3,446
CDSs (with protein)::3,446
Genes (RNA)::129
rRNAs::10, 10, 10 (5S, 16S, 23S)
complete rRNAs::10, 10, 10 (5S, 16S, 23S)
tRNAs::95
ncRNAs::4
Pseudo Genes (total)::89
CDSs (without protein)::89
Pseudo Genes (ambiguous residues)::0 of 89
Pseudo Genes (frameshifted)::52 of 89
Pseudo Genes (incomplete)::27 of 89
Pseudo Genes (internal stop)::23 of 89
Pseudo Genes (multiple problems)::11 of 89
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,810,896
Total ungapped length3,810,796
Gaps between scaffolds0
Number of scaffolds5
Scaffold N503,559,163
Scaffold L501
Number of contigs5
Contig N503,559,063
Contig L501
Total number of chromosomes and plasmids5
Number of component sequences (WGS or clone)5

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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
Assembly Unit: Primary Assembly (GCF_002012335.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP019576.1=NZ_CP019576.1
Plasmid pDel1_1CP019577.1=NZ_CP019577.1
Plasmid pDel1_2CP019578.1=NZ_CP019578.1
Plasmid pDel1_4CP019580.1=NZ_CP019580.1
Plasmid pDle1_3CP019579.1=NZ_CP019579.1

Assembly statistics

MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
All3,810,89653,810,7963,559,16310
Chromosome 3,559,16313,559,0633,559,16310
Plasmid pDel1_182,596182,59682,59600
Plasmid pDel1_269,827169,82769,82700
Plasmid pDel1_449,728149,72849,72800
Plasmid pDle1_349,582149,58249,58200

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Clostridium perfringensClostridium perfringens

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_016027375.1Clostridium perfringenstype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_016027375.1Clostridium perfringenstype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.9180.2691.16
Best-match type98.9180.2691.16

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna