U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM1774404v1

Organism name:
Tropicibacter sp. R15_0 (a-proteobacteria)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: R15_0
BioSample:
SAMN18440243
BioProject:
PRJNA698462
Submitter:
University of Konstanz
Date:
2021/04/04
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_017744045.1 (latest)
RefSeq assembly accession:
GCF_017744045.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAGHRD01
Assembly method:
SPAdes v. 3.11.1
Expected final version:
yes
Genome coverage:
136x
Sequencing technology:
Illumina HiSeq

IDs: 9731491 [UID] 26006788 [GenBank] 26073858 [RefSeq]

See Genome Information for Tropicibacter sp. R15_0

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::03/30/2021 14:33:55
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::5.1
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::4,962
CDSs (total)::4,910
Genes (coding)::4,871
CDSs (with protein)::4,871
Genes (RNA)::52
rRNAs::2, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
partial rRNAs::1 (5S)
tRNAs::44
ncRNAs::4
Pseudo Genes (total)::39
CDSs (without protein)::39
Pseudo Genes (ambiguous residues)::0 of 39
Pseudo Genes (frameshifted)::13 of 39
Pseudo Genes (incomplete)::20 of 39
Pseudo Genes (internal stop)::10 of 39
Pseudo Genes (multiple problems)::4 of 39
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,039,176
Total ungapped length5,039,176
Number of contigs39
Contig N50215,921
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)39

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
unplaced5,039,176395,039,176215,92100

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Tropicibacter sp. R15_0Tropicibacter sp. R15_0

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_004364805.1Pelagimonas phthalicicatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type95.2784.1886.82

ANI result

Taxonomy check statusBest match statusComment
Inconclusivebelow-threshold-mismatchna