ATCC® TSD-268™ | Lutispora saccharofermentans

Overview

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Quality Control

Organism Summary
Catalog Number	ATCC® TSD-268™
Strain Alias	m25
Isolation	Leachate from Hafod Quarry Landfill.
Tags	Type Strain
Biosafety Level	1
Type Strain	Yes

Assembly Summary
Date Published	June 3, 2024
Length	4,597,180 nt
Sequencing Technology	Illumina + Oxford Nanopore Hybrid Assembly
Number of Contigs	2 (0 Circularized)
N50	4,594,747 nt
%GC	40.13%

Annotations Summary
Number of CDS	4230
Number of Hypothetical Proteins	550
Number of tRNA	55
Number of 5s rRNA	5
Number of 16s rRNA	5
Number of 23s rRNA	5

Input Reads Summary
Oxford Nanopore Read Count	42,195
Oxford Nanopore Median Q Score	24
Illumina Read Count	9,955,664
Illumina Mean Coverage Depth	309.956×
Illumina Median Q Score	34

The following genomes have the greatest genomic similarity to this one (≥95% average nucleotide identity):

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	Taxonomic Name	ATCC Product Page	Strain Alias	Tags	Date Published	Length	Download

Displaying Genome

Sequencing Quality Control
Number of trimmed reads	9,955,664
Median Q score, all bases	34
Percent of median Q scores per cycle greater than 25	1%
Ambiguous content (% N bases)	0%

Assembly Quality Control
Estimated genome completeness	99.19%
Estimated genome contamination	6.99%
Illumina depth of coverage	309.956×
ONT depth of coverage	43.166×

Notes

While this genome does not pass our strict threshold for CheckM contamination, additional analysis indicates it is not contaminated. This bacterium was assembled, annotated, and curated using Oatmeal v2.0. See our technical documentation for further details: https://docs.onecodex.com/en/articles/5357065-assembly-qc-and-annotation-pipeline-versions