U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM1485168v1

Organism name:
Pseudomonas sp. PDM05 (g-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: PDM05
BioSample:
SAMN15951399
BioProject:
PRJNA660495
Submitter:
University of Chicago
Date:
2020/10/05
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_014851685.1 (latest)
RefSeq assembly accession:
GCF_014851685.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JACVAC01
Assembly method:
SPAdes v. 3.13.0
Expected final version:
yes
Genome coverage:
58.385823x
Sequencing technology:
Illumina MiSeq

IDs: 8226371 [UID] 22461438 [GenBank] 22473438 [RefSeq]

See Genome Information for Pseudomonas sp. PDM05

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::09/03/2020 19:30:12
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.12
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::5,487
CDSs (total)::5,412
Genes (coding)::5,362
CDSs (with protein)::5,362
Genes (RNA)::75
rRNAs::4, 1, 6 (5S, 16S, 23S)
complete rRNAs::3, 1 (5S, 16S)
partial rRNAs::1, 6 (5S, 23S)
tRNAs::60
ncRNAs::4
Pseudo Genes (total)::50
CDSs (without protein)::50
Pseudo Genes (ambiguous residues)::0 of 50
Pseudo Genes (frameshifted)::15 of 50
Pseudo Genes (incomplete)::37 of 50
Pseudo Genes (internal stop)::8 of 50
Pseudo Genes (multiple problems)::9 of 50
##Genome-Annotation-Data-END##

Global statistics

Total sequence length6,029,231
Total ungapped length6,029,231
Number of contigs69
Contig N50317,945
Contig L506
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)69

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
unplaced6,029,231696,029,231317,94500

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Pseudomonas sp. PDM05Pseudomonas sp. PDM05

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_004682055.1Pseudomonas kairouanensistype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type88.9775.6268.03

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna