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BCW_3848

Organism name:
Listeria monocytogenes (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: NRRL B-33370
BioSample:
SAMN03277697
BioProject:
PRJNA203445
Submitter:
University of California at Davis
Date:
2016/10/12
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_001760125.1 (latest)
RefSeq assembly accession:
GCF_001760125.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
MKNM01
Assembly method:
ABySS v. 1.5.2
Expected final version:
yes
Genome coverage:
43.0x
Sequencing technology:
Illumina HiSeq

IDs: 812741 [UID] 3505388 [GenBank] 3516488 [RefSeq]

See Genome Information for Listeria monocytogenes

There are 60405 assemblies for this organism

See more

History (Show revision history)

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::10/03/2016 15:35:38
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::3.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,840
CDS (total)::2,780
Genes (coding)::2,764
CDS (coding)::2,764
Genes (RNA)::60
rRNAs::3, 2, 3 (5S, 16S, 23S)
complete rRNAs::3, 2, 3 (5S, 16S, 23S)
partial rRNAs::
tRNAs::48
ncRNAs::4
Pseudo Genes (total)::16
Pseudo Genes (ambiguous residues)::1 of 16
Pseudo Genes (frameshifted)::9 of 16
Pseudo Genes (incomplete)::6 of 16
Pseudo Genes (internal stop)::3 of 16
Pseudo Genes (multiple problems)::2 of 16
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,874,158
Total ungapped length2,873,840
Gaps between scaffolds0
Number of scaffolds6
Scaffold N501,470,516
Scaffold L501
Number of contigs10
Contig N50691,701
Contig L502
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)6

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
unplaced2,874,15862,873,8401,470,51640

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Listeria monocytogenesListeria monocytogenes

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_013625995.1Listeria monocytogenescladeref

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_013625995.1Listeria monocytogenescladeref

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.6494.3796.06
Best-match type98.6494.3796.06

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna