Genome assembly ASM3889515v1
- Submitted GenBank assembly
- GCA_038895155.1
- Taxon
- Thermosphaera sp.
- Isolate
- SZTDM-1b_201709_bins_1
- WGS project
- JAWANV01
- Submitter
- The University of Texas at Austin
- Date
- Apr 30, 2024
Genome notes
NCBI has noted the following for this genome assembly. View definitions
- derived from metagenome
Assembly statistics
GenBank | |
---|---|
Genome size | 998.6 kb |
Total ungapped length | 998.3 kb |
Number of scaffolds | 135 |
Scaffold N50 | 9.4 kb |
Scaffold L50 | 36 |
Number of contigs | 138 |
Contig N50 | 8.8 kb |
Contig L50 | 37 |
GC percent | 46 |
Genome coverage | 280.3x |
Assembly level | Scaffold |
Sample details
- BioSample ID
- SAMN36038223
- Description
- MIMAG Metagenome-assembled Genome sample from Thermosphaera sp.
- Comment
- Keywords: GSC:MIxS;MIMAG:6.0
- Submitter
- Sun Yat-sen University
- Isolation source
- Hot spring sediment
- Collection date
- 2017-09
- Geographic location
- China: Tengchong county, Yunnan, SZTDM-1b pool
- Latitude and longitude
- 24.95 N 98.44 E
- Isolate
- SZTDM-1b_201709_bins_1
- Metagenomic
- 1
- Environmental-sample
- 1
- Sample type
- metagenomic assembly
- Metagenome source
- hot springs metagenome
- Depth
- Surface
- Elevation
- Unknown
- Broad-scale environmental context
- Hot spring
- Local-scale environmental context
- Hot spring sediment
- Environmental medium
- Hot spring sediment
- Derived from
- SAMN28867993
- Sample name
- Thermosphaera sp. SZTDM-1b_201709_bins_1
- Models
- MIMAG.sediment
- Package
- MIMAG.sediment.6.0
- Submission date
- 2023-06-29T08:41:12.980
- Publication date
- 2024-05-02T00:42:10.887
- Last updated
- 2024-05-02T00:42:10.887
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. 3.9.0
Additional genomes
Browse all Thermosphaera sp. genomes (29)Annotation details
GenBank | |
---|---|
Provider | NCBI |
Name | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Sep 30, 2023 |
Genes | 1,179 |
Protein-coding | 1,142 |
Software version | 6.6 |
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
- Thermosphaera sp.
- Submitted species name
- Thermosphaera sp.
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | n/a | GCA_000513855.1 |
Organism name | n/a | Desulfurococcus amylolyticus |
Type category | n/a | type |
ANI | n/a | 91.44% |
Assembly coverage | n/a | 0.63% |
Type assembly coverage | n/a | 0.48% |
Chromosomes
Note: This scaffold-level genome assembly includes 135 scaffolds and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_038895155.1 | n/a | ASM3889515v1 | Scaffold | Apr 30, 2024 |