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ASM910811v1

Organism name:
Phocaeicola vulgatus (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: BIOML-A88
BioSample:
SAMN11944211
BioProject:
PRJNA544527
Submitter:
Massachusetts Institute of Technology
Date:
2019/10/15
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • from large multi-isolate project
GenBank assembly accession:
GCA_009108115.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
WDAB01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
yes
Genome coverage:
21.107x
Sequencing technology:
Illumina NextSeq

IDs: 4928041 [UID] 14553858 [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 15:35:52
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)::4,781
CDSs (total)::4,707
Genes (coding)::4,464
CDSs (with protein)::4,464
Genes (RNA)::74
rRNAs::4, 2, 2 (5S, 16S, 23S)
complete rRNAs::4, 2 (5S, 16S)
partial rRNAs::2 (23S)
tRNAs::64
ncRNAs::2
Pseudo Genes (total)::243
CDSs (without protein)::243
Pseudo Genes (ambiguous residues)::0 of 243
Pseudo Genes (frameshifted)::127 of 243
Pseudo Genes (incomplete)::110 of 243
Pseudo Genes (internal stop)::57 of 243
Pseudo Genes (multiple problems)::46 of 243
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,394,324
Total ungapped length5,393,467
Gaps between scaffolds0
Number of scaffolds139
Scaffold N50111,905
Scaffold L5018
Number of contigs149
Contig N50111,905
Contig L5018
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)139

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
unplaced5,394,3241395,393,467111,905100

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 type99.0173.8477.15
Best-match type99.0173.8477.15

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna