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ASM413708v1

Organism name:
Lichenibacterium ramalinae (a-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: RmlP001
BioSample:
SAMN09781800
BioProject:
PRJNA485057
Submitter:
Research Center of Biotechnology RAS
Date:
2019/02/04
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_004137085.1 (latest)
RefSeq assembly accession:
GCF_004137085.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
QYBC01
Assembly method:
SPAdes v. 3.11.1
Expected final version:
no
Genome coverage:
32x
Sequencing technology:
Illumina HiSeq

IDs: 2228501 [UID] 8396768 [GenBank] 8414268 [RefSeq]

See Genome Information for Lichenibacterium ramalinae

Pathogen Detection Resources

History (Show revision history)

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::09/12/2018 16:21:53
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,404
CDS (total)::5,342
Genes (coding)::5,223
CDS (coding)::5,223
Genes (RNA)::62
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::56
ncRNAs::3
Pseudo Genes (total)::119
Pseudo Genes (ambiguous residues)::1 of 119
Pseudo Genes (frameshifted)::33 of 119
Pseudo Genes (incomplete)::86 of 119
Pseudo Genes (internal stop)::18 of 119
Pseudo Genes (multiple problems)::17 of 119
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,801,291
Total ungapped length5,800,071
Gaps between scaffolds0
Number of scaffolds76
Scaffold N50216,247
Scaffold L5010
Number of contigs80
Contig N50216,247
Contig L5010
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)76

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Assembly Information

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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
unplaced5,801,291765,800,071216,24740

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Lichenibacterium ramalinaeLichenibacterium ramalinae

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_004137685.1Lichenibacterium minortype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type85.2543.1342.29

ANI result

Taxonomy check statusBest match statusComment
OKbelow-threshold-mismatchAssembly is the type-strain, mismatch is within genus and expected