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ASM348060v1

  • Anomalous assembly.
Organism name:
Ruminococcus sp. AM28-41 (firmicutes)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: AM28-41
BioSample:
SAMN09736382
BioProject:
PRJNA482748
Submitter:
BGI
Date:
2018/09/06
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Assembly anomaly:
contaminated
Excluded from RefSeq:
  • contaminated
GenBank assembly accession:
GCA_003480605.1 (latest)
RefSeq assembly accession:
GCF_003480605.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
QUJJ01
Assembly method:
SOAPdenovo v. 2
Expected final version:
yes
Genome coverage:
100x
Sequencing technology:
Illumina Hiseq

IDs: 1930681 [UID] 7310478 [GenBank] 7362598 [RefSeq]

See Genome Information for Ruminococcus sp. AM28-41

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::08/10/2018 01:06:03
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)::4,057
CDS (total)::3,995
Genes (coding)::3,736
CDS (coding)::3,736
Genes (RNA)::62
rRNAs::1, 3, 1 (5S, 16S, 23S)
complete rRNAs::1 (5S)
partial rRNAs::3, 1 (16S, 23S)
tRNAs::53
ncRNAs::4
Pseudo Genes (total)::259
Pseudo Genes (ambiguous residues)::19 of 259
Pseudo Genes (frameshifted)::69 of 259
Pseudo Genes (incomplete)::181 of 259
Pseudo Genes (internal stop)::31 of 259
Pseudo Genes (multiple problems)::38 of 259
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,297,211
Total ungapped length4,295,771
Gaps between scaffolds0
Number of scaffolds89
Scaffold N5099,600
Scaffold L5014
Number of contigs158
Contig N5077,659
Contig L5020
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)89

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
unplaced4,297,211894,295,77199,600690

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Ruminococcus sp. AM28-41Ruminococcus sp. AM28-41

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_025148125.1Blautia wexleraesuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type91.8050.4146.22

ANI result

Taxonomy check statusBest match statusComment
Inconclusivebelow-threshold-mismatchna