Genome sc|0003617

Genomics

Accession

NCBI Assembly:GCF_000953015.1

Cultures

Strain sc|0038981

Type

Isolate Genome

Estimated Quality Metrics

• Completeness: 100.0%
• Contamination: 0.5%
• Quality: 97.5

Ribosomal and transfer RNA genes

• 2 16S rRNAs (up to 100.0%)
• 2 23S rRNAs (up to 100.0%)
• tRNAs for 20 amino acids

Sequencing depth

191.6 ×

Source

• BioSample: SAMEA3165956

Other features

• G+C Content: 44.5%
• Coding Density: 92.01%
• Codon Table: 11
• N50: 1,754,988 bp
• Contigs: 1
• Largest Contig: 1,754,988 bp
• Assembly Length: 1,754,988 bp
• Ambiguous Assembly Fraction: 0.0%

Submitter comments

Genome of a culture with very slow growth and low yield. DNA was amplified by MDA (RepliPHI kit) prior to sequencing. Sequencing was done with Illuminia MiSeq (PE150), assembly was done with A5-miseq. The genome was manually curated to a circular chromosome in Geneious 7.1.7 by repeated rounds of read mapping, primer design for contig ends and low-coverage regions and sanger sequencing. Completeness and contamination were assessed with CheckM, but as the genome consists of a circular chromosome, it should be complete without any contamination.

Automated checks

Complete

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Last modified 2 months ago

Sample Metadata

BioSample entries

• BioSample: SAMEA3165956

Date

Collection Date: 2012-08-14

Location

Geographic Location Latitude: 47° 18′ 36″ N

Geographic Location Longitude: 8° 34′ 48″ E

View map of sampling locations

Toponym

Geographic Location Country And Or Sea: Switzerland

Environment

Environment Biome: Freshwater

Environment Feature: Lake

Other

Temperature: 23.2

Geographic Location Depth: 5

Package

Ena Checklist: ERC000024

All retrieved samples

• SAMEA3165956: Freshwater Methylophilaceae isolate

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Metadata retrieved 3 months ago