Proteome Comparison Service

Overview

The Proteome Comparison Service performs protein sequence-based genome comparison using bidirectional BLASTP. This service allows users to select up to eight genomes, either public or private, and compare them to a user-selected or supplied reference genome. The genome comparison result is displayed as an interactive circular genome view and are downloadable as a print-quality image or tabular comparison results.

The Proteome Comparison Service can be accessed from the Services Menu at the top of the PATRIC website page.

Parameters

Advanced parameters:

Minimum % coverage

Minimum percent sequence coverage of query and subject in blast. Use up or down arrows to change the value. The default value is 30%.

Blast e-value

Maximum blast e-value. A default value of 1e-5 is used if leave blank.

Minimum % identity

Minimum percent sequence identity of query and subject in blast. Use up or down arrows to change the value. The default value is 10%.

Output Folder

The workspace folder where results will be placed.

Output Name

Name used to uniquely identify results.

Reference Genome Selection

Select a reference genome from the genome list or a fasta file or a feature group. Only one reference is allowed.

Select a genome

Type or select a genome name from the genome list.

Or a fasta file

Select or upload an external genome file in protein fasta format.

Or a feature group

Select a feature group from the workspace to show comparison of specific proteins instead of all proteins in a genome.

Comparison Genomes Selection

Select up to total of 9 genomes from the genome list or fasta files or a feature groups and use the plus buttons to place the genomes to the table .

Select genome

Type or select a genome name from the genome list.

And/or select fasta file

Select or upload an external genome file in protein fasta format.

And/or select feature group

Select a feature group from the workspace.