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ASM901781v1

Organism name:
Phocaeicola vulgatus (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: BIOML-A63
BioSample:
SAMN11944186
Submitter:
Massachusetts Institute of Technology
Date:
2019/10/13
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • from large multi-isolate project
GenBank assembly accession:
GCA_009017815.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
WCZC01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
yes
Genome coverage:
8.077x
Sequencing technology:
Illumina NextSeq

IDs: 4883161 [UID] 14460098 [GenBank]

See Genome Information for Phocaeicola vulgatus

There are 1480 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::10/10/2019 02:47:16
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)::5,230
CDSs (total)::5,160
Genes (coding)::4,883
CDSs (with protein)::4,883
Genes (RNA)::70
rRNAs::3, 1, 1 (5S, 16S, 23S)
complete rRNAs::3, 1, 1 (5S, 16S, 23S)
tRNAs::63
ncRNAs::2
Pseudo Genes (total)::277
CDSs (without protein)::277
Pseudo Genes (ambiguous residues)::3 of 277
Pseudo Genes (frameshifted)::155 of 277
Pseudo Genes (incomplete)::104 of 277
Pseudo Genes (internal stop)::64 of 277
Pseudo Genes (multiple problems)::45 of 277
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,078,922
Total ungapped length5,066,550
Gaps between scaffolds0
Number of scaffolds923
Scaffold N508,253
Scaffold L50168
Number of contigs992
Contig N507,820
Contig L50183
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)923

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
unplaced5,078,9229235,066,5508,253690

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Phocaeicola vulgatusPhocaeicola vulgatus

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000012825.1Phocaeicola vulgatus ATCC 8482suspected-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000012825.1Phocaeicola vulgatussuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.0374.9273.51
Best-match type99.0374.9273.51

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna