BIOINFORMATICS MADE EASY/ChunLab,Inc. 1

Set the “Reference genome” here. Orthologs are displayed in the direction of Reference → Subject genome. In this case, Reference genome is the second column.

How to explore pairwise ortholog matrix

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BIOINFORMATICS MADE EASY/ChunLab,Inc. 2

Set the “Reference genome” here. Orthologs are displayed in the direction of Reference → Subject genome. In this case, Reference genome is the second column.

Set the “Data Type” or algorithm for ortholog detection. RBH (Reciprocal Best Hit) is protein-based whereas ORF-independent is DNA-based.

How to explore pairwise ortholog matrix

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BIOINFORMATICS MADE EASY/ChunLab,Inc. 3

Set the display option in cells. “Contig# begin” displays the index (starting from 1) of contigs of the genome and their begin-positions. “Bit score ratio (%)” displays how similar the sequences are between “Reference” and “Subject” genomes.

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How to explore pairwise ortholog matrix

BIOINFORMATICS MADE EASY/ChunLab,Inc. 4

Set the display option in cells. “Contig# begin” displays the index (starting from 1) of contigs of the genome and their begin-positions. “Bit score ratio (%)” displays how similar the sequences are between “Reference” and “Subject” genomes.

Click [Apply] button for applying parameters. The content of table will remain unchanged until this button is clicked.

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How to explore pairwise ortholog matrix