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ASM857187v1

Organism name:
Phocaeicola dorei (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: BIOML-A17
BioSample:
SAMN11943443
BioProject:
PRJNA544527
Submitter:
Massachusetts Institute of Technology
Date:
2019/09/18
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • annotation fails completeness check
GenBank assembly accession:
GCA_008571875.1 (latest)
RefSeq assembly accession:
GCF_008571875.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
VVZN01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
no
Genome coverage:
118.339x
Sequencing technology:
Illumina NextSeq

IDs: 4658271 [UID] 13924218 [GenBank] 13992408 [RefSeq]

See Genome Information for Phocaeicola dorei

There are 343 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::09/13/2019 17:49:57
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)::3,721
CDSs (total)::3,671
Genes (coding)::3,510
CDSs (with protein)::3,510
Genes (RNA)::50
rRNAs::3, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
partial rRNAs::2 (5S)
tRNAs::42
ncRNAs::3
Pseudo Genes (total)::161
CDSs (without protein)::161
Pseudo Genes (ambiguous residues)::0 of 161
Pseudo Genes (frameshifted)::73 of 161
Pseudo Genes (incomplete)::89 of 161
Pseudo Genes (internal stop)::43 of 161
Pseudo Genes (multiple problems)::39 of 161
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,473,208
Total ungapped length4,473,106
Gaps between scaffolds0
Number of scaffolds84
Scaffold N50118,756
Scaffold L5013
Number of contigs88
Contig N50118,344
Contig L5014
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)84

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
unplaced4,473,208844,473,106118,75640

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Phocaeicola doreiPhocaeicola dorei

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_013009555.1Phocaeicola doreitype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_013009555.1Phocaeicola doreitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.3586.1768.52
Best-match type99.3586.1768.52

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna