SV# Chr_5p Chr_coord_5p_start Chr_coord_5p_end Chr_3p Chr_coord_3p_start Chr_coord_3p_end repName Reads_collapsed avg_del_len RefGen_3prime Refgen_5prime RefGen_Avg Coverage_Ratio size Chr_5p Chr_coord_5p classification_5p comment_5p Chr_mid Chr_coord_mid classification_mid comment_mid Chr_3p Chr_coord_3p classification_3p comment_3p depletion_code loci_code libname 1 chr2L 3785481 3785489 chr2L 3786217 3786225 4 736 2.5 5.0 3.8 0.8 744 chr2L 3785481 3` UTR CG31960 + chr2L 3785853 exon CG31958 + chr2L 3786225 exon CG31958 + chr2L_4_3785001 chr2L_3785001 OreR-Dark 2 chr2L 3839098 3839099 chr2L 23069842 23069843 Quasimodo 4 19230744 10.0 3.5 6.8 0.5 19230745 chr2L 3839098 3` UTR slp2 + chr2L 13454470 intron CG42784 + chr2L 23069843 intron CR43242 + chr2L_4_13450001 chr2L_13450001 OreR-Dark 3 chr2L 16850399 16850404 chr2L 16857178 16857183 5 6778 3.5 5.0 4.2 1.0 6784 chr2L 16850399 intron CG31810 - chr2L 16853791 exon CG31809 - chr2L 16857183 intron CG31809 - chr2L_5_16850001 chr2L_16850001 OreR-Dark 4 chr2R 964171 964177 chr2R 973820 973826 5 9648 6.0 0.0 3.0 1.2 9655 chr2R 964171 intergenic not near genes chr2R 968998 intergenic not near genes chr2R 973826 intergenic not near genes chr2R_5_965001 chr2R_965001 OreR-Dark 5 chr2R 4825123 4825123 chr2R 22311215 22311217 4 17486094 6.5 7.5 7.0 0.5 17486094 chr2R 4825123 intergenic not near genes chr2R 13568170 intergenic not near genes chr2R 22311217 intron wdp - chr2R_4_13565001 chr2R_13565001 OreR-Dark 6 chr3L 18198929 18198931 chr3L 24821492 24821494 5 6622563 0.0 2.5 1.2 2.3 6622565 chr3L 18198929 intergenic not near genes chr3L 21510212 intron M6 + chr3L 24821494 intergenic not near genes chr3L_5_21510001 chr3L_21510001 OreR-Dark 7 chr3L 20525229 20525230 chr3L 24821493 24821494 4 4296264 8.0 3.0 5.5 0.6 4296265 chr3L 20525229 intron CG4825 - chr3L 22673362 intron CG14457 + chr3L 24821494 intergenic not near genes chr3L_4_22670001 chr3L_22670001 OreR-Dark 8 chr3L 4341332 4341332 chr3L 21448027 21448027 5 17106695 11.5 6.5 9.0 0.5 17106695 chr3L 4341332 intron Cip4 - chr3L 12894680 3` UTR CG14118 + chr3L 21448027 3` UTR Syx7 + chr3L_5_12890001 chr3L_12890001 OreR-Dark 9 chr3R 7773344 7773344 chr3R 7890532 7890532 6 117188 5.5 8.0 6.8 0.8 117188 chr3R 7773344 intergenic not near genes chr3R 7831938 intron CG34384 + chr3R 7890532 intron mRpS9 - chr3R_6_7830001 chr3R_7830001 OreR-Dark 10 chr3R 8339246 8339247 chr3R 21907534 21907535 5 13568289 6.0 8.5 7.2 0.6 13568289 chr3R 8339246 intergenic not near genes chr3R 15123390 intron CG42788 - chr3R 21907535 intergenic CG6678 + chr3R_5_15120001 chr3R_15120001 OreR-Dark 11 chr3R 4384588 4384590 chr3R 9340969 9340973 6 4956381 10.0 5.5 7.8 0.7 4956385 chr3R 4384588 intron Cont + chr3R 6862780 intergenic not near genes chr3R 9340973 intron CG45050 + chr3R_6_6860001 chr3R_6860001 OreR-Dark 12 chr3R 21520144 21520150 chr3R 21520198 21520199 4 52 0.0 2.0 1.0 2.0 55 chr3R 21520144 intergenic not near genes chr3R 21520172 intergenic not near genes chr3R 21520199 intergenic not near genes chr3R_4_21520001 chr3R_21520001 OreR-Dark 13 chr3R 13741556 13741560 chr3R 22548323 22548327 4 8806767 1.5 6.0 3.8 0.8 8806771 chr3R 13741556 intron CG34383 + chr3R 18144942 intergenic not near genes chr3R 22548327 intergenic AdipoR - chr3R_4_18140001 chr3R_18140001 OreR-Dark 14 chr3R 17357120 17357122 chr3R 24389957 24389959 4 7032837 8.0 3.0 5.5 0.6 7032839 chr3R 17357120 intron beat-IIa - chr3R 20873540 3` UTR TotC + chr3R 24389959 intron CG5768 - chr3R_4_20870001 chr3R_20870001 OreR-Dark 15 chr3R 27725599 27725604 chr3R 27731001 27731001 I-element 4 5401 2.0 1.5 1.8 1.4 5402 chr3R 27725599 intergenic not near genes chr3R 27728300 intergenic not near genes chr3R 27731001 intergenic not near genes chr3R_4_27725001 chr3R_27725001 OreR-Dark 16 chr3R 21907534 21907535 chr3R 28831799 28831802 6 6924266 11.0 5.5 8.2 0.7 6924268 chr3R 21907534 intergenic CG6678 + chr3R 25369668 intron Fur1 - chr3R 28831802 intron WASp - chr3R_6_25365001 chr3R_25365001 OreR-Dark 17 chrX 7082890 7082892 chrX 13057297 13057299 7 5974407 1.5 2.0 1.8 2.5 5974409 chrX 7082890 intron Sxl - chrX 10070094 intron CG15312 - chrX 13057299 intron rad + chrX_7_10070001 chrX_10070001 OreR-Dark 18 chrX 11109417 11109417 chrX 12946233 12946234 4 1836817 2.5 4.5 3.5 0.9 1836817 chrX 11109417 intron Hsp60 + chrX 12027826 exon Usp7 - chrX 12946234 3` UTR fne + chrX_4_12025001 chrX_12025001 OreR-Dark 19 chrX 13347099 13347102 chrX 13347195 13347203 4 98 2.5 7.5 5.0 0.7 104 chrX 13347099 intergenic not near genes chrX 13347151 intergenic not near genes chrX 13347203 intergenic not near genes chrX_4_13345001 chrX_13345001 OreR-Dark 20 chrX 2912171 2912174 chrX 14985241 14985244 8 12073070 3.5 3.0 3.2 1.9 12073073 chrX 2912171 intron kirre + chrX 8948708 intron rdgA + chrX 14985244 intron eag + chrX_8_8945001 chrX_8945001 OreR-Dark