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ASM1483661v1

Organism name:
Sporosarcina quadrami (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: Sa2YVA2
BioSample:
SAMN15803255
BioProject:
PRJNA543206
Submitter:
Quadram Institutte
Date:
2020/09/30
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_014836615.1 (latest)
RefSeq assembly accession:
GCF_014836615.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JACSQN01
Assembly method:
SPAdes v. 3.13.1
Expected final version:
no
Genome coverage:
83x
Sequencing technology:
Illumina NextSeq

IDs: 8218891 [UID] 22430178 [GenBank] 22443228 [RefSeq]

See Genome Information for Sporosarcina quadrami

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::08/27/2020 11:36:20
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)::3,552
CDSs (total)::3,495
Genes (coding)::3,465
CDSs (with protein)::3,465
Genes (RNA)::57
rRNAs::3, 3, 3 (5S, 16S, 23S)
complete rRNAs::2, 1 (5S, 16S)
partial rRNAs::1, 2, 3 (5S, 16S, 23S)
tRNAs::41
ncRNAs::7
Pseudo Genes (total)::30
CDSs (without protein)::30
Pseudo Genes (ambiguous residues)::0 of 30
Pseudo Genes (frameshifted)::8 of 30
Pseudo Genes (incomplete)::16 of 30
Pseudo Genes (internal stop)::9 of 30
Pseudo Genes (multiple problems)::3 of 30
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,576,489
Total ungapped length3,576,489
Number of contigs43
Contig N50216,341
Contig L507
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)43

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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
unplaced3,576,489433,576,489216,34100

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Sporosarcina quadramiSporosarcina quadrami

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_033304615.1Sporosarcina oncorhynchitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type82.1753.6355.11

ANI result

Taxonomy check statusBest match statusComment
OKbelow-threshold-mismatchAssembly is the type-strain, mismatch is within genus and expected