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ASM217683v1

Organism name:
Lactobacillus johnsonii (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: UMNLJ22
BioSample:
SAMN04573146
BioProject:
PRJNA316010
Submitter:
University of Minnesota
Date:
2017/06/08
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
GenBank assembly accession:
GCA_002176835.1 (latest)
RefSeq assembly accession:
GCF_002176835.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
CLC NGS Cell v. 2014
Expected final version:
yes
Genome coverage:
50.0x
Sequencing technology:
Illumina MiSeq; PacBio

IDs: 1123711 [UID] 4565308 [GenBank] 4583808 [RefSeq]

See Genome Information for Lactobacillus johnsonii

There are 963 assemblies for this organism

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History (Show revision history)

Comment

Bacteria and source DNA available from Timothy Johnson, joh04207@umn.edu.
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/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::03/05/2024 02:30:42
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)::1,989
CDSs (total)::1,888
Genes (coding)::1,779
CDSs (with protein)::1,779
Genes (RNA)::101
rRNAs::7, 7, 7 (5S, 16S, 23S)
complete rRNAs::7, 7, 7 (5S, 16S, 23S)
tRNAs::77
ncRNAs::3
Pseudo Genes (total)::109
CDSs (without protein)::109
Pseudo Genes (ambiguous residues)::0 of 109
Pseudo Genes (frameshifted)::63 of 109
Pseudo Genes (incomplete)::53 of 109
Pseudo Genes (internal stop)::40 of 109
Pseudo Genes (multiple problems)::37 of 109
CRISPR Arrays::3
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,042,390
Total ungapped length2,042,390
Total number of chromosomes and plasmids3

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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_002176845.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP021704.1=NZ_CP021704.1
Plasmid pUMNLJ22_1CP021705.1=NZ_CP021705.1
Plasmid pUMNLJ22_2CP021706.1=NZ_CP021706.1

Assembly statistics

MoleculeTotal
Length
All2,042,390
Chromosome 1,990,826
Plasmid pUMNLJ22_127,223
Plasmid pUMNLJ22_224,341

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Lactobacillus johnsoniiLactobacillus johnsonii

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000159355.1Lactobacillus johnsonii ATCC 33200type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000159355.1Lactobacillus johnsoniitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.0272.7783.83
Best-match type98.0272.7783.83

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna