Full Report

Send to:

Choose Destination

File
Clipboard
Collections

Download Assembly

Source database (GenBank or RefSeq) File type

ASM346508v1

Organism name:

Limosilactobacillus fermentum (firmicutes)

Taxonomy check:

Infraspecific name:

Strain: AF11-4-H

BioSample:

SAMN09734212

BioProject:

PRJNA482748

Submitter:

BGI

Date:

2018/09/06

Assembly type:

Assembly level:

Scaffold

Genome representation:

full

Excluded from RefSeq:

many frameshifted proteins

GenBank assembly accession:

GCA_003465085.1 (latest)

RefSeq assembly accession:

GCF_003465085.1 (suppressed)

RefSeq assembly and GenBank assembly identical:

yes

WGS Project:

QSAL01

Assembly method:

SPAdes v. 3.1.0

Expected final version:

yes

Genome coverage:

100x

Sequencing technology:

IonProton

IDs: 1922941 [UID] 7294898 [GenBank] 14362998 [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_003465085.1	=	GCF_003465085.1	ASM346508v1	Scaffold	Latest GenBank, RefSeq suppressed

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline 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::08/04/2018 02:30:08
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)::2,023
CDS (total)::1,958
Genes (coding)::1,412
CDS (coding)::1,412
Genes (RNA)::65
rRNAs::4, 3, 2 (5S, 16S, 23S)
complete rRNAs::1, 1 (5S, 16S)
partial rRNAs::3, 2, 2 (5S, 16S, 23S)
tRNAs::53
ncRNAs::3
Pseudo Genes (total)::546
Pseudo Genes (ambiguous residues)::0 of 546
Pseudo Genes (frameshifted)::476 of 546
Pseudo Genes (incomplete)::68 of 546
Pseudo Genes (internal stop)::35 of 546
Pseudo Genes (multiple problems)::32 of 546
##Genome-Annotation-Data-END##

Global statistics

Total sequence length	1,935,804
Total ungapped length	1,935,484
Gaps between scaffolds	0
Number of scaffolds	91
Scaffold N50	45,868
Scaffold L50	12
Number of contigs	92
Contig N50	45,868
Contig L50	12
Total number of chromosomes and plasmids	0
Number of component sequences (WGS or clone)	91

	ANI	Query coverage	Subject coverage
Declared type	99.25	87.36	88.74
Best-match type	99.25	87.36	88.74

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

ASM346508v1

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