Full Report

Send to:

Choose Destination

File
Clipboard
Collections

Download Assembly

Source database (GenBank or RefSeq) File type

ASM286326v1

Organism name:: Limosilactobacillus fermentum (firmicutes)
Taxonomy check:: OK
Infraspecific name:: Strain: UMB0187
BioSample:: SAMN08193695
BioProject:: PRJNA316969
Submitter:: Loyola University Chicago
Date:: 2018/01/04
Assembly type:: na
Assembly level:: Scaffold
Genome representation:: full
GenBank assembly accession:: GCA_002863265.1 (latest)
RefSeq assembly accession:: GCF_002863265.1 (latest)
RefSeq assembly and GenBank assembly identical:: yes
WGS Project:: PKKD01
Assembly method:: Velvet v. 1.2
Expected final version:: yes
Genome coverage:: 167.34x
Sequencing technology:: Illumina HiSeq

IDs: 1511441 [UID] 5842418 [GenBank] 5861438 [RefSeq]

See Genome Information for Limosilactobacillus fermentum

Pathogen Detection Resources

There are 341 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_002863265.1	=	GCF_002863265.1	ASM286326v1	Scaffold	Latest GenBank, Latest RefSeq

Comment

Bacteria available from Alan J Wolfe.
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::12/22/2017 14:50:36
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,044
CDS (total)::1,978
Genes (coding)::1,811
CDS (coding)::1,811
Genes (RNA)::66
rRNAs::5, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
partial rRNAs::4 (5S)
tRNAs::56
ncRNAs::3
Pseudo Genes (total)::167
Pseudo Genes (ambiguous residues)::0 of 167
Pseudo Genes (frameshifted)::51 of 167
Pseudo Genes (incomplete)::101 of 167
Pseudo Genes (internal stop)::45 of 167
Pseudo Genes (multiple problems)::30 of 167
CRISPR Arrays::3
##Genome-Annotation-Data-END##

Global statistics

Total sequence length	1,969,291
Total ungapped length	1,967,343
Gaps between scaffolds	0
Number of scaffolds	117
Scaffold N50	40,979
Scaffold L50	17
Number of contigs	126
Contig N50	34,455
Contig L50	19
Total number of chromosomes and plasmids	0
Number of component sequences (WGS or clone)	117

	ANI	Query coverage	Subject coverage
Declared type	99.46	87.06	89.89
Best-match type	99.46	87.06	89.89

Assembly

Genome Assembly

Result Filters

Organism group

Status

Assembly level

RefSeq category

Exclude

Annotation status

Taxonomy check status

Relation to type material

Assembly type

Sequence release date

Custom date range

Contig N50

Custom range

Scaffold N50

Custom range

Additional filters

Download Assembly

ASM286326v1

See Genome Information for Limosilactobacillus fermentum

Pathogen Detection Resources

There are 341 assemblies for this organism

History (Show revision history)

Comment

Genome-Annotation-Data

Global statistics

Supplemental Content

Access the data

Assembly Information

Related Information

Recent activity

Global assembly definition

Assembly statistics

Assembly QA

Taxonomy Check Data

Declared organism

Best-matching type-strain assembly for declared species

Best-matching type-strain assembly

Average Nucleotide Identity (ANI) data

ANI result