Genome assembly ERS608482_5
- 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
RefSeq | GenBank | |
---|---|---|
Genome size | 2.2 Mb | 2.2 Mb |
Total ungapped length | 2.2 Mb | 2.2 Mb |
Number of contigs | 287 | 287 |
Contig N50 | 9.9 kb | 9.9 kb |
Contig L50 | 64 | 64 |
GC percent | 0 | 50.5 |
Genome coverage | 8.0x | 8.0x |
Assembly level | Contig | Contig |
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
PRJEB31003Prokaryotic genomes for 2058 new species assembled from globally distributed human gut metagenomes
Annotation details
RefSeq | |
---|---|
Provider | NCBI RefSeq |
Name | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Jul 6, 2020 |
Genes | 1,993 |
Protein-coding | 1,881 |
Software version | 4.12 |
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 readingQuality 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 organism | Best 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_900758105.1 | GCF_900758105.1 | ERS608482_5 | Contig | Jun 26, 2020 |