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ASM420881v1

Organism name:
Limosilactobacillus fermentum (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: MTCC 5898
BioSample:
SAMN10868412
BioProject:
PRJNA520814
Submitter:
ICAR-National Dairy Research Institute
Date:
2019/02/18
Assembly type:
na
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_004208815.1 (latest)
RefSeq assembly accession:
GCF_004208815.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
BWA-Mem Version 0.7.12 v. September-2017
Expected final version:
yes
Reference guided assembly:
Lactobacillus fermentum IFO 3956/(GCA_000010145.1)
Genome coverage:
85.0x
Sequencing technology:
Illumina NextSeq

IDs: 2277311 [UID] 8537098 [GenBank] 8558318 [RefSeq]

See Genome Information for Limosilactobacillus fermentum

Pathogen Detection Resources

There are 341 assemblies for this organism

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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://www.ncbi.nlm.nih.gov/genome/annotation_prok/
Bacteria and source DNA available from Dr. Rajeev Kapila

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::10/14/2023 02:08:05
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::1,849
CDSs (total)::1,774
Genes (coding)::1,655
CDSs (with protein)::1,655
Genes (RNA)::75
rRNAs::5, 5, 5 (5S, 16S, 23S)
complete rRNAs::5, 5, 5 (5S, 16S, 23S)
tRNAs::57
ncRNAs::3
Pseudo Genes (total)::119
CDSs (without protein)::119
Pseudo Genes (ambiguous residues)::0 of 119
Pseudo Genes (frameshifted)::30 of 119
Pseudo Genes (incomplete)::63 of 119
Pseudo Genes (internal stop)::39 of 119
Pseudo Genes (multiple problems)::13 of 119
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,098,685
Total ungapped length1,784,950
Gaps between scaffolds0
Number of scaffolds1
Scaffold N502,098,685
Scaffold L501
Number of contigs309
Contig N5042,658
Contig L5011
Total number of chromosomes and plasmids1
Number of component sequences (WGS or clone)1

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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
Assembly Unit: Primary Assembly (GCF_004208825.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP035904.1=NZ_CP035904.1

Assembly statistics

MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
Chromosome 2,098,68511,784,9502,098,6853080

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Limosilactobacillus fermentumLimosilactobacillus fermentum

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_005341425.1Limosilactobacillus fermentumtype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_005341425.1Limosilactobacillus fermentumtype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.9392.4886.66
Best-match type98.9392.4886.66

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna