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Aond_3.0

Organism name:
Alistipes onderdonkii subsp. vulgaris (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: JCM:32847
Infraspecific name:
Strain: 5NYCFAH2
BioSample:
SAMD00166234
BioProject:
PRJDB8150
Submitter:
Laboratory for Microbiome Sciences, Center for Integrative Medical Sciences, RIKEN
Date:
2019/06/12
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
GenBank assembly accession:
GCA_006542725.1 (latest)
RefSeq assembly accession:
GCF_006542725.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
Unicycler v. 0.4.6
Genome coverage:
470x
Sequencing technology:
Illumina MiSeq; PacBio Sequel

IDs: 3590651 [UID] 11597828 [GenBank] 11694418 [RefSeq]

See Genome Information for Alistipes onderdonkii

There are 423 assemblies for this organism

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History (Show revision history)

Comment

Annotated at DFAST https://dfast.nig.ac.jp/


The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::10/22/2023 02:29:17
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)::2,826
CDSs (total)::2,770
Genes (coding)::2,722
CDSs (with protein)::2,722
Genes (RNA)::56
rRNAs::2, 2, 2 (5S, 16S, 23S)
complete rRNAs::2, 2, 2 (5S, 16S, 23S)
tRNAs::47
ncRNAs::3
Pseudo Genes (total)::48
CDSs (without protein)::48
Pseudo Genes (ambiguous residues)::0 of 48
Pseudo Genes (frameshifted)::11 of 48
Pseudo Genes (incomplete)::31 of 48
Pseudo Genes (internal stop)::11 of 48
Pseudo Genes (multiple problems)::4 of 48
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,312,682
Total ungapped length3,312,682
Total number of chromosomes and plasmids1

Supplemental Content

PubMed articles for this assembly

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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_006542735.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome AP019738.1=NZ_AP019738.1

Assembly statistics

MoleculeTotal
Length
Chromosome 3,312,682

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Alistipes onderdonkii subsp. vulgarisAlistipes onderdonkii

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_006542645.1Alistipes onderdonkii subsp. vulgaristype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_006542645.1Alistipes onderdonkiitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type97.9588.0483.15
Best-match type97.9588.0483.15

ANI result

Taxonomy check statusBest match statusComment
OKsubspecies-matchna