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ASM2518822v1

Organism name:
Pediococcus parvulus (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: CIRM-BIA 2166
BioSample:
SAMN10365596
BioProject:
PRJNA503586
Submitter:
Brigham Young University
Date:
2022/09/13
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_025188225.1 (latest)
RefSeq assembly accession:
GCF_025188225.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
RIKJ01
Assembly method:
Velvet v. 1.2.10
Expected final version:
yes
Reference guided assembly:
None
Genome coverage:
216x
Sequencing technology:
Illumina 2x125

IDs: 13770201 [UID] 35840678 [GenBank] 35932118 [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 Date::11/07/2018 00:12:34
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Provider::NCBI
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Annotation Software revision::4.6
Genes (total)::2,145
CDS (total)::2,078
Genes (coding)::2,012
CDS (coding)::2,012
Genes (RNA)::67
rRNAs::1, 1, 2 (5S, 16S, 23S)
complete rRNAs::1, 1 (5S, 16S)
partial rRNAs::2 (23S)
tRNAs::59
ncRNAs::4
Pseudo Genes (total)::66
Pseudo Genes (ambiguous residues)::0 of 66
Pseudo Genes (frameshifted)::34 of 66
Pseudo Genes (incomplete)::21 of 66
Pseudo Genes (internal stop)::18 of 66
Pseudo Genes (multiple problems)::6 of 66
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,101,180
Total ungapped length2,101,180
Number of contigs125
Contig N5053,547
Contig L5013
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)125

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
unplaced2,101,1801252,101,18053,54700

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 type98.9183.4388.00
Best-match type98.9183.4388.00

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna