OSfinder assumes that anchor files have the form shown below when two genomes (G1 and G2) are compared.
chrom_1 start_1 end_1 sign_1 chrom_2 start_2 end_2 sign_2
chrom_1 -- chromosome ID on genome G1 (int).
start_1 -- start coordinate on genome G1 (int).
end_1 -- end coordinate on genome G1 (int).
sign_1 -- orientation on genome G1 (char).
chrom_2 -- chromosome ID on genome G2 (int).
start_2 -- start coordinate on genome G2 (int).
end_2 -- end coordinate on genome G2 (int).
sign_2 -- orientation on genome G2 (char).
Example)
1 8040363 8040427 + 1 168782735 168782799 +
1 8847983 8848048 + 1 43731182 43731247 -
1 8849080 8849144 + 1 43730882 43730946 -
1 8876198 8876273 + 1 108267190 108267265 +
Note that Chromosome IDs, start coordinates and end coordinates must be integer. Thus, "X" and "Y" are not appropriate for chromosome ID. In our experiment, we used "-1", "-2", "-3", and "-4" instead of "X", "Y", "2a", "2b", respectively.
OSfinder assumes that anchor files have the form shown below when three genomes are compared.
20 55496602 55496695 + 10 31263560 31263653 + 1 16798400 16798493 +
20 55496602 55496695 + 10 31263560 31263653 + 1 192688819 192688912 +
20 55496602 55496695 + 10 31263560 31263653 + 1 228589428 228589521 +
20 55496602 55496694 + 10 31263560 31263652 + 1 166624290 166624382 -