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ASM842046v1

Organism name:
Alistipes onderdonkii (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: BIOML-A37
BioSample:
SAMN11943152
Submitter:
Massachusetts Institute of Technology
Date:
2019/09/16
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • from large multi-isolate project
GenBank assembly accession:
GCA_008420465.1 (latest)
RefSeq assembly accession:
GCF_008420465.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
VVOP01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
no
Genome coverage:
208.668x
Sequencing technology:
Illumina NextSeq

IDs: 4583941 [UID] 13769268 [GenBank] 13929008 [RefSeq]

See Genome Information for Alistipes onderdonkii

There are 401 assemblies for this organism

See more

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
Annotation Date::09/12/2019 15:24:39
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.9
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::3,021
CDSs (total)::2,968
Genes (coding)::2,850
CDSs (with protein)::2,850
Genes (RNA)::53
rRNAs::2, 2, 1 (5S, 16S, 23S)
complete rRNAs::2, 1, 1 (5S, 16S, 23S)
partial rRNAs::1 (16S)
tRNAs::45
ncRNAs::3
Pseudo Genes (total)::118
CDSs (without protein)::118
Pseudo Genes (ambiguous residues)::0 of 118
Pseudo Genes (frameshifted)::48 of 118
Pseudo Genes (incomplete)::68 of 118
Pseudo Genes (internal stop)::20 of 118
Pseudo Genes (multiple problems)::15 of 118
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,538,454
Total ungapped length3,533,620
Gaps between scaffolds0
Number of scaffolds32
Scaffold N50653,691
Scaffold L503
Number of contigs47
Contig N50204,573
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)32

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
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
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced3,538,454323,533,620653,691150

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Alistipes onderdonkiiAlistipes 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 type97.9681.4582.06
Best-match type97.9681.4582.06

ANI result

Taxonomy check statusBest match statusComment
OKderived-species-matchna