Genome assembly ASM2819926v1
- NCBI RefSeq assembly
- GCF_028199265.1
- Submitted GenBank assembly
- GCA_028199265.1
- Taxon
- Bacteroides xylanisolvens
- Strain
- G7_hRTP31088sv1_210526
- WGS project
- JAQKCY01
- Submitter
- Icahn School of Medicine
- Date
- Jan 28, 2023
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 6.3 Mb | 6.3 Mb |
Total ungapped length | 6.3 Mb | 6.3 Mb |
Number of scaffolds | 78 | 78 |
Scaffold N50 | 158 kb | 158 kb |
Scaffold L50 | 14 | 14 |
Number of contigs | 85 | 85 |
Contig N50 | 145.8 kb | 145.8 kb |
Contig L50 | 15 | 15 |
GC percent | 42 | 42 |
Genome coverage | 24.9x | 24.9x |
Assembly level | Scaffold | Scaffold |
View sequences | view RefSeq sequences |
Sample details
- BioSample ID
- SAMN31321081
- Description
- Microbe sample from Bacteroides xylanisolvens
- Submitter
- Icahn School of Medicine
- Strain
- G7_hRTP31088sv1_210526
- Host
- Homo sapiens
- Collection date
- May 26, 2021
- Geographic location
- USA
- Sample type
- whole organism
- Sample name
- Bacteroides_xylanisolvens_MSSM.hRTP31088sv1_210526_G7
- Models
- Microbe, viral or environmental
- Package
- Microbe.1.0
- Submission date
- 2022-10-17T16:24:16.811
- Publication date
- 2022-10-17T00:00:00.000
- Last updated
- 2022-10-17T16:24:16.811
Assembly methods
- Sequencing technology
- Illumina HiSeq
- Comment
- The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
- Assembly method
- SPAdes v. 3.10.1
Additional genomes
Browse all Bacteroides xylanisolvens genomes (366)BioProject
PRJNA880610Human gut microbiota Genome sequencing and assembly
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | NCBI |
Name | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Feb 26, 2024 | Jan 23, 2023 |
Genes | 5,000 | 4,996 |
Protein-coding | 4,837 | 4,859 |
Software version | 6.6 | 6.4 |
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
CheckM analysis (v1.2.2)
Completeness: 97.34% (27th Percentile)
Contamination: 1.43%
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Bacteroides xylanisolvens CheckM marker set. For more information on CheckM, see Parks, et al. Genome Res (2015).
Taxonomy check
- Taxonomy check status
- OK
- Best match status
- species_match
- Submitted organism name
- Bacteroides xylanisolvens
- Submitted species name
- Bacteroides xylanisolvens
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_000210075.1 | GCA_000210075.1 |
Organism name | Bacteroides xylanisolvens XB1A | Bacteroides xylanisolvens |
Type category | suspected_type | suspected_type |
ANI | 97.38% | 97.38% |
Assembly coverage | 67.06% | 67.06% |
Type assembly coverage | 72.29% | 72.29% |
Chromosomes
Note: This scaffold-level genome assembly includes 78 scaffolds and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_028199265.1 | GCF_028199265.1 | ASM2819926v1 | Scaffold | Jan 28, 2023 |