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ASM164078v1

Organism name:
Pediococcus parvulus (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: 2.6
BioSample:
SAMN04958102
BioProject:
PRJNA320830
Submitter:
Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA)
Date:
2016/05/09
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_001640785.1 (latest)
RefSeq assembly accession:
GCF_001640785.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
LXND01
Assembly method:
CLC Genomics Workbench v. 6.0
Expected final version:
yes
Genome coverage:
1000.0x
Sequencing technology:
Illumina GAIIx

IDs: 737491 [UID] 3225918 [GenBank] 3408578 [RefSeq]

See Genome Information for Pediococcus parvulus

There are 8 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::05/06/2016 14:07:24
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::3.2
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,238
CDS (total)::2,171
Genes (coding)::2,066
CDS (coding)::2,066
Genes (RNA)::67
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
partial rRNAs::
tRNAs::60
ncRNAs::4
Pseudo Genes (total)::105
Pseudo Genes (ambiguous residues)::0 of 105
Pseudo Genes (frameshifted)::43 of 105
Pseudo Genes (incomplete)::53 of 105
Pseudo Genes (internal stop)::14 of 105
Pseudo Genes (multiple problems)::4 of 105
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,236,754
Total ungapped length2,236,754
Number of contigs115
Contig N5051,115
Contig L5014
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)115

Supplemental Content

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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
unplaced2,236,7541152,236,75451,11500

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Pediococcus parvulusPediococcus parvulus

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_014651215.1Pediococcus parvulustype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_014651215.1Pediococcus parvulustype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.1679.5689.34
Best-match type99.1679.5689.34

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna