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ASM1523455v1

Organism name:
Providencia alcalifaciens (enterobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: WMus003.1
BioSample:
SAMN16540228
BioProject:
PRJNA671681
Submitter:
King's College London
Date:
2020/11/04
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_015234555.1 (latest)
RefSeq assembly accession:
GCF_015234555.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JADGLZ01
Assembly method:
SPAdes v. 3.1.57
Expected final version:
yes
Genome coverage:
30x
Sequencing technology:
Illumina HiSeq

IDs: 8420561 [UID] 22916388 [GenBank] 22932038 [RefSeq]

See Genome Information for Providencia alcalifaciens

There are 52 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 19:31:49
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)::3,702
CDSs (total)::3,592
Genes (coding)::3,523
CDSs (with protein)::3,523
Genes (RNA)::110
rRNAs::8, 6, 9 (5S, 16S, 23S)
complete rRNAs::7, 1 (5S, 16S)
partial rRNAs::1, 5, 9 (5S, 16S, 23S)
tRNAs::78
ncRNAs::9
Pseudo Genes (total)::69
CDSs (without protein)::69
Pseudo Genes (ambiguous residues)::0 of 69
Pseudo Genes (frameshifted)::32 of 69
Pseudo Genes (incomplete)::20 of 69
Pseudo Genes (internal stop)::28 of 69
Pseudo Genes (multiple problems)::11 of 69
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,919,227
Total ungapped length3,919,227
Number of contigs66
Contig N50304,183
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)66

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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced3,919,227663,919,227304,18300

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Providencia alcalifaciensProvidencia alcalifaciens

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_900478095.1Providencia alcalifacienstype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_900478095.1Providencia alcalifacienstype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.0192.1389.31
Best-match type99.0192.1389.31

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna