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ASM328655v1

Organism name:
Aerococcus loyolae (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: UMB7480
BioSample:
SAMN08895455
BioProject:
PRJNA316969
Submitter:
Loyola University Chicago
Date:
2018/07/02
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_003286555.1 (latest)
RefSeq assembly accession:
GCF_003286555.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
QMHM01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
yes
Genome coverage:
214.83x
Sequencing technology:
Illumina MiSeq

IDs: 1785021 [UID] 6751728 [GenBank] 6819358 [RefSeq]

See Genome Information for Aerococcus loyolae

There are 14 assemblies for this organism

See more

History (Show revision history)

Comment

Bacteria available from Alan J Wolfe, awolfe@luc.edu.
Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline 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::06/27/2018 15:16:37
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.5
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,096
CDS (total)::2,031
Genes (coding)::1,995
CDS (coding)::1,995
Genes (RNA)::65
rRNAs::4, 1, 1 (5S, 16S, 23S)
complete rRNAs::4, 1, 1 (5S, 16S, 23S)
tRNAs::55
ncRNAs::4
Pseudo Genes (total)::36
Pseudo Genes (ambiguous residues)::6 of 36
Pseudo Genes (frameshifted)::12 of 36
Pseudo Genes (incomplete)::13 of 36
Pseudo Genes (internal stop)::9 of 36
Pseudo Genes (multiple problems)::4 of 36
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,205,693
Total ungapped length2,205,271
Gaps between scaffolds0
Number of scaffolds135
Scaffold N5094,561
Scaffold L507
Number of contigs146
Contig N5094,561
Contig L507
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)135

Supplemental Content

PubMed articles for this assembly

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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
unplaced2,205,6931352,205,27194,561110

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Aerococcus loyolaeAerococcus loyolae

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_002871915.2Aerococcus loyolaetype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_002871915.2Aerococcus loyolaetype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.3687.3394.67
Best-match type99.3687.3394.67

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna