parsing sorted dmel-dere3-dna.gff to gff: dmel-dere3-algn.gff filters: skipsubseg=8069, joinoverlap=2287, minsizecut=59 Chr cover gaps n_inverts n_segs n_targets prob 2L 22081304 313274 9 195 63 3.45e-06 2R 20318747 434216 9 218 113 1.70e-08 3L 23537935 202062 12 233 98 1.08e-09 3R 27703871 194698 13 219 35 5.94e-14 4 1239639 39555 8 51 33 9.80e-10 X 21770085 449755 19 295 103 6.81e-07 Total 116651581 1633560 70 1211 445 7.25e-07 =========================================================================== chr x targets over 1% of 116651581 cover, from n=176 targets dere_caf051209:scaffold_4784 23217628 19.9% 3L 98.8% dere_caf051209:scaffold_4929 21580544 18.5% 2L 75.2% 2R 22.9% dere_caf051209:scaffold_4845 20489393 17.6% 2R 72.3% 2L 27.3% dere_caf051209:scaffold_4690 18738746 16.1% X 100.0% dere_caf051209:scaffold_4770 17458510 15.0% 3R 99.7% dere_caf051209:scaffold_4820 10197581 8.7% 3R 100.0% dere_caf051209:scaffold_4644 2472937 2.1% X 100.0% ---------------------------------------------------------------------------