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ASM901885v1

Organism name:
Phocaeicola vulgatus (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: BIOML-A11
BioSample:
SAMN11944134
BioProject:
PRJNA544527
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_009018855.1 (latest)
RefSeq assembly accession:
GCF_009018855.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
WCXC01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
yes
Genome coverage:
75.417x
Sequencing technology:
Illumina NextSeq

IDs: 4883641 [UID] 14461038 [GenBank] 14543908 [RefSeq]

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::10/09/2019 22:55:00
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)::4,652
CDSs (total)::4,578
Genes (coding)::4,349
CDSs (with protein)::4,349
Genes (RNA)::74
rRNAs::3, 2, 1 (5S, 16S, 23S)
complete rRNAs::3, 1, 1 (5S, 16S, 23S)
partial rRNAs::1 (16S)
tRNAs::66
ncRNAs::2
Pseudo Genes (total)::229
CDSs (without protein)::229
Pseudo Genes (ambiguous residues)::0 of 229
Pseudo Genes (frameshifted)::123 of 229
Pseudo Genes (incomplete)::108 of 229
Pseudo Genes (internal stop)::49 of 229
Pseudo Genes (multiple problems)::45 of 229
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,303,517
Total ungapped length5,302,398
Gaps between scaffolds0
Number of scaffolds78
Scaffold N50130,752
Scaffold L5012
Number of contigs89
Contig N50122,675
Contig L5013
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)78

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
unplaced5,303,517785,302,398130,752110

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 type99.0175.1377.15
Best-match type99.0175.1377.15

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna