Genome sc|0000444

Genomics

Accession

NCBI Assembly:GCA_000024465.1

Type

Metagenome-Assembled Genome (MAG)

Estimated Quality Metrics

• Completeness: 99.94%
• Contamination: 0.15%
• Quality: 99.19

Ribosomal and transfer RNA genes

• 1 16S rRNA (up to 100.0%)
• 1 23S rRNA (up to 100.0%)
• tRNAs for 19 amino acids

Sequencing depth

46.0 ×

Source

• BioSample: SAMN02603472

Other features

• G+C Content: 48.85%
• Coding Density: 91.12%
• Codon Table: 11
• N50: 2,753,527 bp
• Contigs: 1
• Largest Contig: 2,753,527 bp
• Assembly Length: 2,753,527 bp
• Ambiguous Assembly Fraction: 0.0%

Submitter comments

The information about genome coverage was received from the original authors via personal communication (see below). From: s-jkim@kordi.re.kr, Hyun-Myung Oh

Accoding to Dr. Kwon at kiost (kkkwon@kiost.ac.kr) abi 3730 xl sequencing coverage was 2x from 4,512-clone genomic library and the additional pyrosequencing runs were done 3 times.
I could not get raw reads from pyrosequencing, I expect not more that 100k reads per 454 run.

Since Macrogen reported tens of thounsand reads per 454 run, and they did it three times to get more than 40 phred score, the following calculation would make sense ! 

100k * 3 run * 400 bp / 2.7 Mbp = 44.44 x

So our final decision on the genomic coverage of the completeted genome of IMCC1322 should be 46 folds.

 

Automated checks

Complete

Sample Metadata

Date

Not detected

Location

Not detected

Toponym

Not detected

Environment

Not detected

Other

Not detected

Package

Ncbi Package: Generic.1.0

All retrieved samples

• SAMN02603472: Sample from Candidatus Puniceispirillum marinum IMCC1322

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Metadata retrieved 7 months ago