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ASM1774377v1

Organism name:
Shimia sp. R9_1 (a-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: R9_1
BioSample:
SAMN18440253
BioProject:
PRJNA698462
Submitter:
University of Konstanz
Date:
2021/04/04
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_017743775.1 (latest)
RefSeq assembly accession:
GCF_017743775.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAGHRN01
Assembly method:
SPAdes v. 3.11.1
Expected final version:
yes
Genome coverage:
200x
Sequencing technology:
Illumina HiSeq

IDs: 9731361 [UID] 26006528 [GenBank] 26060068 [RefSeq]

See Genome Information for Shimia sp. R9_1

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 14:13:36
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)::4,171
CDSs (total)::4,115
Genes (coding)::4,094
CDSs (with protein)::4,094
Genes (RNA)::56
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::50
ncRNAs::3
Pseudo Genes (total)::21
CDSs (without protein)::21
Pseudo Genes (ambiguous residues)::0 of 21
Pseudo Genes (frameshifted)::10 of 21
Pseudo Genes (incomplete)::9 of 21
Pseudo Genes (internal stop)::7 of 21
Pseudo Genes (multiple problems)::3 of 21
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,432,319
Total ungapped length4,432,319
Number of contigs19
Contig N50969,412
Contig L502
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)19

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
unplaced4,432,319194,432,319969,41200

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Shimia sp. R9_1Shimia sp. R9_1

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001458175.1Shimia marinatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type83.1431.1934.58

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna