JSON

Genome sc|0002357

Name

“Seribacter sulfatis”

Database

NCBI Assembly

Accession

GCA_964187635.1

Genomics

Accession
NCBI Assembly:GCA_964187635.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 94.2%
  • Contamination: 0.0%
  • Quality: 94.2
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 18 amino acids
Sequencing depth
8.1 ×
Source
Other features
  • G+C Content: 42.6%
  • Coding Density: 93.82%
  • Codon Table: 11
  • N50: 34,059 bp
  • Contigs: 122
  • Largest Contig: 94,596 bp
  • Assembly Length: 2,532,561 bp
  • Ambiguous Assembly Fraction: 0.0%
Submitter comments
  •  The GC content was assessed using anvio-8
  •  Completeness and redundancy values were determined using checkM v1.1.3
  •  The presence of tRNA elements was assessed using prokka v1.14.6
  •  The presence of rRNA fragments was assessed using prokka v1.14.6 and barrnap v0.9
  •  The sequencing depth of the MAG was assessed using samtools v1.17. Readmapping of the MAG was conducted against the metagenome from which it was recovered, and depth was determined using samtools coverage. The reported "mean depth" per contig was then averaged to get the depth of the entire MAG
Automated checks
Complete
Last modified about 1 month ago

Sample Metadata

BioSample entries
Date
Collection Date: 2016-03-31
Location
Lat Lon: 54.1841 N 7.9000 E
Geographic Location Latitude: 54.18
Geographic Location Longitude: 7.90
Toponym
Geo Loc Name: Atlantic Ocean: North Sea, Helgoland
Geographic Location Country And Or Sea: North Sea
Environment
Isolation Source: subsurface seawater from pelagic zone
Gold Ecosystem Classification: Environmental | Aquatic | Marine | Epipelagic | Unclassified
Broad Scale Environmental Context: marine biome
Local Environmental Context: marine pelagic biome
Environmental Medium: coastal sea water
Other
Depth: 1
Chlorophyll: 8.995
Package
Ena Checklist: ERC000024
Ncbi Submission Package: Metagenome.environmental.1.0
Biosamplemodel: Metagenome or environmental
All retrieved samples
Metadata retrieved about 1 month ago

Sequencing Experiments

Helgoland_Spring_Bloom_20160331_1


© 2022-2024 The SeqCode Initiative
  All information contributed to the SeqCode Registry is released under the terms of the Creative Commons Attribution (CC BY) 4.0 license