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ASM1523562v1

Organism name:
Ligilactobacillus murinus (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: 2_2BalbC1BO2_S2
BioSample:
SAMN16540176
BioProject:
PRJNA671681
Submitter:
King's College London
Date:
2020/11/04
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_015235625.1 (latest)
RefSeq assembly accession:
GCF_015235625.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JADGLU01
Assembly method:
SPAdes v. 3.1.4
Expected final version:
yes
Genome coverage:
30x
Sequencing technology:
Illumina HiSeq

IDs: 8421091 [UID] 22917448 [GenBank] 22931718 [RefSeq]

See Genome Information for Ligilactobacillus murinus

There are 1257 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 18:25:20
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)::2,474
CDSs (total)::2,406
Genes (coding)::2,322
CDSs (with protein)::2,322
Genes (RNA)::68
rRNAs::4, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
partial rRNAs::3 (5S)
tRNAs::59
ncRNAs::3
Pseudo Genes (total)::84
CDSs (without protein)::84
Pseudo Genes (ambiguous residues)::0 of 84
Pseudo Genes (frameshifted)::32 of 84
Pseudo Genes (incomplete)::49 of 84
Pseudo Genes (internal stop)::20 of 84
Pseudo Genes (multiple problems)::15 of 84
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,332,310
Total ungapped length2,332,216
Gaps between scaffolds0
Number of scaffolds224
Scaffold N5039,149
Scaffold L5018
Number of contigs226
Contig N5039,149
Contig L5018
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)224

Supplemental Content

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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
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
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced2,332,3102242,332,21639,14920

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Ligilactobacillus murinusLigilactobacillus murinus

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_001436015.1Ligilactobacillus murinus DSM 20452 = NBRC 14221suspected-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001436015.1Ligilactobacillus murinussuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type97.3474.7679.90
Best-match type97.3474.7679.90

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna