Genome assembly ERS608482_5

Actions
NCBI RefSeq assembly
GCF_900758105.1 (suppressed)
Submitted GenBank assembly
GCA_900758105.1
Taxon
Lachnospiraceae bacterium
Isolate
HGM11862
WGS project
CAAEQL01
Submitter
DOE JGI
Date
Jun 26, 2020

Genome notes

NCBI has noted the following for this genome assembly. View definitions

  • derived from metagenome
  • genus undefined

Assembly statistics

RefSeqGenBank
Genome size2.2 Mb2.2 Mb
Total ungapped length2.2 Mb2.2 Mb
Number of contigs287287
Contig N509.9 kb9.9 kb
Contig L506464
GC percent050.5
Genome coverage8.0x8.0x
Assembly levelContigContig

Sample details

BioSample ID
SAMEA5278882
Description
Human gut MAG #5 derived from sample ERS608482
Submitter
EBI
ENA-CHECKLIST
ERC000047
ENA-FIRST-PUBLIC
2019-01-29T17:02:53Z
ENA-LAST-UPDATE
2019-01-28T22:44:21Z
External Id
SAMEA5278882
INSDC center name
DOE JGI
INSDC first public
2019-01-29T17:02:53Z
INSDC last update
2019-01-28T22:44:21Z
INSDC status
public
Submitter Id
HGM11862
Assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
Assembly software
MegaHIT v1.1.1
Binning parameters
default
Binning software
MaxBin v2.2.4, MetaBAT v2.12.1, CONCOCT v0.4.0, DAS Tool v1.1.0
Collection date
Jan 1, 2018
Completeness score
75.5
Completeness software
CheckM v1.0.7
Contamination score
0.32
Broad-scale environmental context
human gut
Local-scale environmental context
human-associated habitat
Environmental medium
faeces
Geographic location
Austria
Geographic location (latitude)
47.516231
Geographic location (longitude)
14.550072
Investigation type
metagenome-assembled genome
Isolation source
human stool
Metagenomic source
408170
Project name
Global Human Gut MAGs
Sample derived from
SRS883293
Sample name
HGM11862
Scientific name
Lachnospiraceae bacterium
Sequencing method
Illumina HiSeq 2000
Taxonomic identity marker
multi-marker approach
SRA
ERS3086155
Models
Generic
Package
Generic.1.0
Submission date
2019-02-01T10:13:46.053
Publication date
2019-01-29T00:00:00.000
Last updated
2024-02-06T13:41:28.000

Additional genomes

Browse all Lachnospiraceae bacterium genomes (5166)

BioProject

PRJEB31003

Prokaryotic genomes for 2058 new species assembled from globally distributed human gut metagenomes

Annotation details

RefSeq
ProviderNCBI RefSeq
NameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateJul 6, 2020
Genes1,993
Protein-coding1,881
Software version4.12

About PGAP

The NCBI Prokaryotic Genome Annotation Pipeline (PGAP) uses multiple approaches to predict protein-coding and RNA genes and other functional elements directly from sequence.

Continue reading

Quality analysis

Taxonomy check

Taxonomy check status
Inconclusive
Best match status
low_coverage
Submitted organism name
Lachnospiraceae bacterium
Submitted species name
Lachnospiraceae bacterium

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assembly

n/a

GCA_001280875.1
Organism name

n/a

Sellimonas intestinalis
Type category

n/a

type
ANI

n/a

90.34%
Assembly coverage

n/a

0.68%
Type assembly coverage

n/a

0.48%

Chromosomes

Note: This contig-level genome assembly includes 287 contigs and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_900758105.1GCF_900758105.1ERS608482_5ContigJun 26, 2020