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ASM346106v1

  • Anomalous assembly.
Organism name:
Ruminococcus sp. AF24-16 (firmicutes)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: AF24-16
BioSample:
SAMN09734460
BioProject:
PRJNA482748
Submitter:
BGI
Date:
2018/08/31
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Assembly anomaly:
contaminated, unverified source organism
Excluded from RefSeq:
  • contaminated
  • unverified source organism
GenBank assembly accession:
GCA_003461065.1 (latest)
RefSeq assembly accession:
GCF_003461065.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
QTWJ01
Assembly method:
SOAPdenovo v. 2
Expected final version:
yes
Genome coverage:
100x
Sequencing technology:
Illumina Hiseq

IDs: 1920911 [UID] 7290858 [GenBank] 7347998 [RefSeq]

See Genome Information for Ruminococcus sp. AF24-16

History (Show revision history)

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::08/09/2018 12:06:49
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::3,165
CDS (total)::3,091
Genes (coding)::2,958
CDS (coding)::2,958
Genes (RNA)::74
rRNAs::1, 6, 1 (5S, 16S, 23S)
complete rRNAs::1 (5S)
partial rRNAs::6, 1 (16S, 23S)
tRNAs::62
ncRNAs::4
Pseudo Genes (total)::133
Pseudo Genes (ambiguous residues)::3 of 133
Pseudo Genes (frameshifted)::42 of 133
Pseudo Genes (incomplete)::90 of 133
Pseudo Genes (internal stop)::20 of 133
Pseudo Genes (multiple problems)::20 of 133
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,355,062
Total ungapped length3,354,385
Gaps between scaffolds0
Number of scaffolds48
Scaffold N50194,630
Scaffold L506
Number of contigs82
Contig N50111,837
Contig L509
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)48

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
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced3,355,062483,354,385194,630340

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Ruminococcus sp. AF24-16Ruminococcus sp. AF24-16

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001312505.1Mediterraneibacter faecissuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type96.6170.1672.20

ANI result

Taxonomy check statusBest match statusComment
Inconclusivemismatchcoverage is less than 80%