Genome Analysis Software Site

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IMC G2B Setting Dialog for Sequence Lane

In the Setting dialog, Sequence Lane tab pane, change the settings such as the color and size of bases and amino acid characters in the feature lane of the main feature map.

The sequence (sequence) lane consists of 6 rows, each of which has a base sequence of the genome (regular chain, opposite strand) line by line as shown below, and in the coding region, the amino acid sequence is a forward chain and a reverse sequence each 3 frames It is.

Feature setting Tab Pane

Map Scale Parameters

Base Shift Left: From the pull-down menu, specify the number of scroll bases per scroll of the left scroll button or the scroll width with the screen width set to 1.

Base Shift Right: From the pull-down menu, specify the scroll base number per one click of the right scroll button or the scroll width with the screen width set to 1.

Interval of Scale: Specify the scale interval of the scale lane. You can select from Auto and Custom, and if you select Custom, you can specify the scale interval in base units.

Show Grid Line check box: When checked, vertical grid lines are displayed at tick marks on the array lane.

Font

Font Size: You can select the font size of the array character from the pull-down menu.

Draw Position of One Character Amino Acid Code

Forward Strand: On the amino acid display area of ​​the normal chain, specify the position in the codon where the one-letter amino acid code is displayed from the pull-down menu.

Reverse Strand: On the amino acid display region of the opposite chain, specify the position in the codon where the one-letter amino acid code is displayed from the pull-down menu.

Codon Setting

Show Start Codon check box: When checked, the position of the start codon candidate is displayed as a rectangle in the amino acid display area. The start codon is referenced from the applied Genetic Table. Click the color box to change the display color. In addition, color, transparency is different from the color specified in the color box.

Show Stop Codon check box: When checked, the position of the stop codon candidate is displayed as a rectangle in the amino acid display area. The stop codon is referenced from the applied Genetic Table. Click the color box to change the display color. In addition, color, transparency is different from the color specified in the color box.

Show Area that Stop Codon is not Found within Specified Bases check box: Fills the area with the color specified in the color box when there is no stop codon in the area that is equal to or more than the number of bases specified in the input field.

Show Amino Acid check box: When checked, the amino acid sequence when translating this area is displayed.

Nucleotide Sequence Color color box: Specify the base letter color of the sequence lane for each nucleotide code.

Amino Acid Color color box: For each amino acid code, specify the amino acid character color to be displayed in the amino acid display area of ​​the sequence lane.

Show Complementary Color check box: The background of the amino acid code to be checked is displayed in the specified color, and the characters themselves are displayed in complementary colors.

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