U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM1523506v1

Organism name:
Lactobacillus johnsonii (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: 19428wE2_CC3
BioSample:
SAMN16540202
BioProject:
PRJNA671681
Submitter:
King's College London
Date:
2020/11/04
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_015235065.1 (latest)
RefSeq assembly accession:
GCF_015235065.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JADGKX01
Assembly method:
SPAdes v. 3.1.30
Expected final version:
yes
Genome coverage:
30x
Sequencing technology:
Illumina HiSeq

IDs: 8420811 [UID] 22916888 [GenBank] 22931358 [RefSeq]

See Genome Information for Lactobacillus johnsonii

There are 961 assemblies for this organism

See more

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/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::10/30/2020 17:18:59
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.13
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,875
CDSs (total)::1,804
Genes (coding)::1,747
CDSs (with protein)::1,747
Genes (RNA)::71
rRNAs::7, 1, 1 (5S, 16S, 23S)
complete rRNAs::7, 1, 1 (5S, 16S, 23S)
tRNAs::59
ncRNAs::3
Pseudo Genes (total)::57
CDSs (without protein)::57
Pseudo Genes (ambiguous residues)::0 of 57
Pseudo Genes (frameshifted)::24 of 57
Pseudo Genes (incomplete)::26 of 57
Pseudo Genes (internal stop)::9 of 57
Pseudo Genes (multiple problems)::2 of 57
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,925,316
Total ungapped length1,925,316
Number of contigs101
Contig N5091,157
Contig L508
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)101

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced1,925,3161011,925,31691,15700

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 type96.8479.2586.06
Best-match type96.8479.2586.06

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna