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ASM348050v1

  • Anomalous assembly.
Organism name:
Ruminococcus sp. AM29-12LB (firmicutes)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: AM29-12LB
BioSample:
SAMN09736393
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_003480505.1 (latest)
RefSeq assembly accession:
GCF_003480505.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
QUJH01
Assembly method:
SOAPdenovo v. 2
Expected final version:
yes
Genome coverage:
100x
Sequencing technology:
Illumina Hiseq

IDs: 1930631 [UID] 7310378 [GenBank] 7362038 [RefSeq]

See Genome Information for Ruminococcus sp. AM29-12LB

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 00:54:47
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)::3,870
CDS (total)::3,813
Genes (coding)::3,585
CDS (coding)::3,585
Genes (RNA)::57
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1 (5S)
partial rRNAs::1, 1 (16S, 23S)
tRNAs::50
ncRNAs::4
Pseudo Genes (total)::228
Pseudo Genes (ambiguous residues)::17 of 228
Pseudo Genes (frameshifted)::55 of 228
Pseudo Genes (incomplete)::153 of 228
Pseudo Genes (internal stop)::40 of 228
Pseudo Genes (multiple problems)::35 of 228
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,082,344
Total ungapped length4,081,776
Gaps between scaffolds0
Number of scaffolds152
Scaffold N5058,186
Scaffold L5023
Number of contigs198
Contig N5053,336
Contig L5026
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)152

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
unplaced4,082,3441524,081,77658,186460

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Ruminococcus sp. AM29-12LBRuminococcus sp. AM29-12LB

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 type97.6573.5664.08

ANI result

Taxonomy check statusBest match statusComment
Inconclusivemismatchcoverage is less than 80%