Salmonella Overview¶

This page provides an overview of the genus, including links to species-specific pages and general information.

Genus Species Count Summary¶

Breakdown of genomes filtered and retained by using these metrics:

species	original_count	filtered_out_count	final_count
Salmonella_enterica	644703	21033	623670
Salmonella_arizonae	1902	55	1847
Salmonella_bongori	170	11	159

📊 Download species counts table

Genus Summary Metrics¶

This section provides a summary of the metrics for the genus:

species	metric	lower_bounds	upper_bounds
Salmonella_arizonae	N50	69000	nan
Salmonella_arizonae	no_of_contigs	nan	210
Salmonella_arizonae	GC_Content	51	52
Salmonella_arizonae	Completeness	97	nan
Salmonella_arizonae	Contamination	nan	7
Salmonella_arizonae	Total_Coding_Sequences	4100	5500
Salmonella_arizonae	Genome_Size	4.4e+06	5.6e+06
Salmonella_enterica	N50	62000	nan
Salmonella_enterica	no_of_contigs	nan	200
Salmonella_enterica	GC_Content	51	53
Salmonella_enterica	Completeness	96	nan
Salmonella_enterica	Contamination	nan	8
Salmonella_enterica	Total_Coding_Sequences	4100	6000
Salmonella_enterica	Genome_Size	4.4e+06	5.9e+06
Salmonella_bongori	N50	33000	nan
Salmonella_bongori	no_of_contigs	nan	270
Salmonella_bongori	GC_Content	51	52
Salmonella_bongori	Completeness	97	nan
Salmonella_bongori	Contamination	nan	2
Salmonella_bongori	Total_Coding_Sequences	3900	4700

... and 1 more rows

📊 Download genus summary metrics table

Genus Visualizations¶

These plots show the main summary visualizations for this genus, including distributions of key genomic metrics such as genome size, GC content, number of contigs, and other relevant statistics. The boxplot for each species is based on the distribution (i.e. median, q1, q3, min and max) of the filtered genomes. The red line is the lower threshold and the blue line is the upper threshold. Use these plots to compare and explore the diversity and characteristics of genomes within this genus: