clc, close all, clear all;
disp('Escherichia coli K_12 substr MG1655');
filename = 'J:\strains\Escherichia_coli_K_12_substr__MG1655\NC_000913.fna.txt';
DNA = fna2DNA(filename);
filename = 'J:\strains\Escherichia_coli_K_12_substr__MG1655\NC_000913.ffn.txt';
genes = ffn2genes(filename);
filename = 'J:\strains\Escherichia_coli_K_12_substr__MG1655\NC_000913.ptt.txt';
AGL = ptt2AGL(filename);
filename = 'J:\strains\Escherichia_coli_K_12_substr__MG1655\NC_000913.GeneMarkHMM-2.6r.txt';
GMGL = GM2GMGL(filename);
filename = 'J:\strains\Escherichia_coli_K_12_substr__MG1655\NC_000913.Glimmer3.txt';
GGL = G2GGL(filename);
clear filename;
save('MG1655.mat');
clear all;

disp('Escherichia coli O157H7');
filename = 'J:\strains\Escherichia_coli_O157H7\NC_002695.fna.txt';
DNA = fna2DNA(filename);
filename = 'J:\strains\Escherichia_coli_O157H7\NC_002695.ffn.txt';
genes = ffn2genes(filename);
filename = 'J:\strains\Escherichia_coli_O157H7\NC_002695.ptt.txt';
AGL = ptt2AGL(filename);
filename = 'J:\strains\Escherichia_coli_O157H7\NC_002695.GeneMarkHMM-2.6r.txt';
GMGL = GM2GMGL(filename);
filename = 'J:\strains\Escherichia_coli_O157H7\NC_002695.Glimmer3.txt';
GGL = G2GGL(filename);
clear filename;
save('O157H7.mat');
clear all;

disp('Bacillus Subtilis');
filename = 'J:\strains\Bacillus_Subtilis\NC_000964.fna.txt';
DNA = fna2DNA(filename);
filename = 'J:\strains\Bacillus_Subtilis\NC_000964.ffn.txt';
genes = ffn2genes(filename);
filename = 'J:\strains\Bacillus_Subtilis\NC_000964.ptt.txt';
AGL = ptt2AGL(filename);
filename = 'J:\strains\Bacillus_Subtilis\NC_000964.GeneMarkHMM-2.6r.txt';
GMGL = GM2GMGL(filename);
filename = 'J:\strains\Bacillus_Subtilis\NC_000964.Glimmer3.txt';
GGL = G2GGL(filename);
clear filename;
save('Bacillus_Subtilis.mat');
clear all;

disp('Salmonella Typhimurium LT2');
filename = 'J:\strains\Salmonella_Typhimurium_LT2\NC_003197.fna.txt';
DNA = fna2DNA(filename);
filename = 'J:\strains\Salmonella_Typhimurium_LT2\NC_003197.ffn.txt';
genes = ffn2genes(filename);
filename = 'J:\strains\Salmonella_Typhimurium_LT2\NC_003197.ptt.txt';
AGL = ptt2AGL(filename);
filename = 'J:\strains\Salmonella_Typhimurium_LT2\NC_003197.GeneMarkHMM-2.6r.txt';
GMGL = GM2GMGL(filename);
filename = 'J:\strains\Salmonella_Typhimurium_LT2\NC_003197.Glimmer3.txt';
GGL = G2GGL(filename);
clear filename;
save('Salmonella_Typhimurium_LT2.mat');
clear all;

disp('Staphylococcus Aureus Mu50');
filename = 'J:\strains\Staphylococcus_Aureus_Mu50\NC_002758.fna.txt';
DNA = fna2DNA(filename);
filename = 'J:\strains\Staphylococcus_Aureus_Mu50\NC_002758.ffn.txt';
genes = ffn2genes(filename);
filename = 'J:\strains\Staphylococcus_Aureus_Mu50\NC_002758.ptt.txt';
AGL = ptt2AGL(filename);
filename = 'J:\strains\Staphylococcus_Aureus_Mu50\NC_002758.GeneMarkHMM-2.6r.txt';
GMGL = GM2GMGL(filename);
filename = 'J:\strains\Staphylococcus_Aureus_Mu50\NC_002758.Glimmer3.txt';
GGL = G2GGL(filename);
clear filename;
save('Staphylococcus_Aureus_Mu50.mat');
clear all;