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ASM2568576v1

Organism name:
Pseudomonas sp. PDM13 (g-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: PDM13
BioSample:
SAMN15951352
BioProject:
PRJNA660495
Submitter:
University of Chicago
Date:
2022/10/13
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_025685765.1 (latest)
RefSeq assembly accession:
GCF_025685765.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAOTQU01
Assembly method:
SPAdes v. 3.13.0
Expected final version:
yes
Genome coverage:
25.090252x
Sequencing technology:
Illumina MiSeq

IDs: 14115441 [UID] 36678018 [GenBank] 36710648 [RefSeq]

See Genome Information for Pseudomonas sp. PDM13

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::10/05/2022 15:39:53
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::6,084
CDSs (total)::6,023
Genes (coding)::5,971
CDSs (with protein)::5,971
Genes (RNA)::61
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::54
ncRNAs::4
Pseudo Genes (total)::52
CDSs (without protein)::52
Pseudo Genes (ambiguous residues)::0 of 52
Pseudo Genes (frameshifted)::11 of 52
Pseudo Genes (incomplete)::43 of 52
Pseudo Genes (internal stop)::2 of 52
Pseudo Genes (multiple problems)::4 of 52
##Genome-Annotation-Data-END##

Global statistics

Total sequence length6,655,662
Total ungapped length6,655,662
Number of contigs68
Contig N50174,971
Contig L5013
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)68

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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced6,655,662686,655,662174,97100

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Pseudomonas sp. PDM13Pseudomonas sp. PDM13

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_026072635.1Pseudomonas solanitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type96.6287.9687.88

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna