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Source database (GenBank or RefSeq) File type

ASM179922v1

Organism name:

Deltaproteobacteria bacterium RIFOXYD12_FULL_50_9 (d-proteobacteria)

Taxonomy check:

Inconclusive

BioSample:

SAMN04314632

BioProject:

PRJNA288027

Submitter:

Banfield Lab, University of California, Berkeley

Date:

2016/10/20

Assembly type:

Assembly level:

Scaffold

Genome representation:

full

Excluded from RefSeq:

derived from metagenome
genus undefined

GenBank assembly accession:

GCA_001799225.1 (latest)

RefSeq assembly accession:

n/a

RefSeq assembly and GenBank assembly identical:

n/a

WGS Project:

MGTA01

Assembly method:

IDBA_UD v. 06.01.2014s

Genome coverage:

10x

Sequencing technology:

Illumina HiSeq2000

IDs: 832531 [UID] 3555718 [GenBank]

See Genome Information for Deltaproteobacteria bacterium RIFOXYD12_FULL_50_9

Pathogen Detection Resources

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_001799225.1	n/a	n/a	ASM179922v1	Scaffold	Latest GenBank

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##Annotation Provider::NCBI
Annotation Date::09/08/2016 10:39:16
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::3.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::3,630
CDS (total)::3,582
Genes (coding)::2,763
CDS (coding)::2,763
Genes (RNA)::48
rRNAs::1, 1 (5S, 23S)
complete rRNAs::1 (5S)
partial rRNAs::1 (23S)
tRNAs::43
ncRNAs::3
Pseudo Genes (total)::819
Pseudo Genes (ambiguous residues)::466 of 819
Pseudo Genes (frameshifted)::115 of 819
Pseudo Genes (incomplete)::378 of 819
Pseudo Genes (internal stop)::6 of 819
Pseudo Genes (multiple problems)::144 of 819
CRISPR Arrays::5
##Genome-Annotation-Data-END##

Global statistics

Total sequence length	3,769,239
Total ungapped length	3,736,209
Gaps between scaffolds	0
Number of scaffolds	274
Scaffold N50	16,974
Scaffold L50	73
Number of contigs	978
Contig N50	6,458
Contig L50	178
Total number of chromosomes and plasmids	0
Number of component sequences (WGS or clone)	274

	ANI	Query coverage	Subject coverage
Declared type	na	na	na
Best-match type	89.16	0.03	0.03

Assembly

Genome Assembly

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ASM179922v1

See Genome Information for Deltaproteobacteria bacterium RIFOXYD12_FULL_50_9

Pathogen Detection Resources

History (Show revision history)

Comment

Genome-Annotation-Data

Global statistics

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Assembly Information

Related Information

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Global assembly definition

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Taxonomy Check Data

Declared organism

Best-matching type-strain assembly for declared species

Best-matching type-strain assembly

Average Nucleotide Identity (ANI) data

ANI result