Customize misa.ini file to modify parameters of SSRs identification

This option will open the misa.ini file in a text editor to allow you to modify the parameters of microssatellites identification. The misa.ini file is like bellow

definition(unit_size,min_repeats):                   1-10 2-6 3-5 4-5 5-5 6-5
interruptions(max_difference_between_2_SSRs):        100

• The first line of this file indicates the definitions of the unit to be considerated as a microssatelite. The first number refers to the number of nucleotides and the second number refers to the minimum value of repeat of that unit to be considerated as a microssatelite

Example bellow indicates that MISA will considerate as microssatelite a pair of nucleotides that repeats at least six times in tandem.:

2-6

• The second line of this file indicates the maximum number of nucleotides between two microssatellites, refering to compound microssatellites.

Example:

    100

After edit the file, you just have to hit CTRL+S to save the changes. See MISA documentation to learn more about this file. The new misa.ini file will be saved in the working folder. It will be moved to misa.ini.custom folder after you run any analysis using it.