ATCC® BAA-3239™ | Escherichia coli

Overview

Genome Browser

Related Genomes

Quality Control

Assembly Summary
Date Published	September 13, 2024
Length	5,685,989 nt
Sequencing Technology	Illumina + Oxford Nanopore Hybrid Assembly
Number of Contigs	6 (3 Circularized)
Assembly Level	Chromosome
N50	4,486,678 nt
%GC	50.62%

Organism Summary
Name	ATCC® BAA-3239™
Isolation	Romaine lettuce
Biosafety Level	2
Type Strain	No

Annotations Summary
Number of CDS	5,574
Number of Hypothetical Proteins	359
Number of tRNA	106
Number of 5s rRNA	8
Number of 16s rRNA	7
Number of 23s rRNA	7

Input Reads Summary
Oxford Nanopore Read Count	50,636
Oxford Nanopore Median Q Score	34
Illumina Read Count	8,078,078
Illumina Mean Coverage Depth	208.393×
Illumina Median Q Score	34

Sequencing Quality Control

Quality control statistics on Illumina sequencing data.

4 out of 4 passed

PassedNumber of trimmed reads8,078,078

PassedMedian Q score, all bases34

PassedPercent of median Q scores per cycle greater than 25100%

PassedAmbiguous content (% N bases)0%

Assembly Quality Control

Metrics assessing the assembly quality

3 out of 3 passed

PassedEstimated genome completeness99.97%

PassedEstimated genome contamination0.46%

PassedAverage depth of coverage208.393×

Notes

This bacterium was assembled, annotated, and curated using Oatmeal v2.1. See our technical documentation for further details: https://docs.onecodex.com/en/articles/5357065-assembly-qc-and-annotation-pipeline-versions

Escherichia coli (ATCC® BAA-3239™)