Supplemental Table S-7. High-confidence novel contigs and validations of their associations with annotated genes. Correlations were calculated as described in the text; coefficient are shown only if they are at least 0.75. "Y"" indicates validation of the predicted gene association; ""N"" indicates connection of the contig region with an annotated gene other than the predicted one." "cDNA sequence validations are shown whenever available; if expression was not correlated significantly with any annotated gene, the associated gene is the gene whose sequence appears in the same cDNA clone as the contig." "An entry of ""0"" in the associated gene column means that a cDNA was found that coutains sequence from the contig, but that cDNA does not appear to come from a functional RNA." "An entry of ""new gene"" in the associated gene column means that the contig sequence is found in a full-length cDNA that appears to come from a functional RNA, but does not correspond to any annotated gene." Contig name Chromosome contig start contig end contig length (bp) contributing transfrags contributing RNA sources "Source type (C = cells only, D = developmental series only, B = both)" Correlation coefficient associated gene contig position separation (bp) strand similarity FB v5.23 validation BDGP validating cDNA clone overlap between contig and cDNA sequence (bp) PE RNA-seq validation MB8 validation comment Contig_chr2L_10044 chr2L 14262929 14263498 569 17 14 B 0.93 wb 5' 24 ND Y Y Contig_chr2L_103 chr2L 222171 226002 3831 157 55 B Contig_chr2L_10644 chr2L 15063359 15064178 819 8 8 B 0.77 vig 3' 20 same Y Y Contig_chr2L_10986 chr2L 15499595 15499732 137 1 1 D Contig_chr2L_10987 chr2L 15500013 15500622 609 21 20 B Contig_chr2L_11307 chr2L 15952257 15953256 999 4 4 C 0.78 CG18063 5' 4602 same Contig_chr2L_11523 chr2L 16247496 16247937 441 30 30 B Contig_chr2L_11532 chr2L 16263564 16264045 481 28 28 B 0.88 crp 3' 16 same Y Y Contig_chr2L_11536 chr2L 16270740 16273490 2750 50 27 B Contig_chr2L_11537 chr2L 16273538 16276206 2668 81 44 B Contig_chr2L_11538 chr2L 16276316 16276692 376 12 12 B Contig_chr2L_11539 chr2L 16276778 16278668 1890 101 52 B Contig_chr2L_11710 chr2L 16508964 16509105 141 2 2 D Contig_chr2L_11804 chr2L 16603617 16603761 144 2 2 C 0.83 CG31815 5' 2184 same Contig_chr2L_11851 chr2L 16662031 16662651 620 8 8 B 0.87 CG42389 3' 19 same Y Y Contig_chr2L_11852 chr2L 16662748 16662940 192 27 27 B 0.77 CG42389 3' 736 same Y Contig_chr2L_11893 chr2L 16720003 16720751 748 33 31 B Contig_chr2L_11897 chr2L 16726152 16726803 651 15 15 B Contig_chr2L_11903 chr2L 16750123 16751901 1778 73 51 B CG17912 3' 514 514 MIP03431 627 Contig_chr2L_11904 chr2L 16752002 16753075 1073 81 55 B CG17912 3' 2393 2393 MIP03431 11 Contig_chr2L_11971 chr2L 16888482 16888865 383 55 55 B CG15133 5' 138 MIP19548 358 Contig_chr2L_1234 chr2L 1698900 1702666 3766 80 31 B 0.79 chinmo 3' 268 same Y Y Contig_chr2L_1237 chr2L 1716500 1716677 177 2 2 D Contig_chr2L_12433 chr2L 17474975 17475387 412 9 9 B 0.77 Aac11 3' 104 same Y Y Contig_chr2L_12434 chr2L 17490345 17491068 723 7 7 B Contig_chr2L_12505 chr2L 17603734 17603978 244 2 2 B 1 CG5559 3' 446 same Y Contig_chr2L_13281 chr2L 18532332 18532544 212 3 3 B 0.83 Pde11 3' 184 same Y Y Contig_chr2L_13319 chr2L 18571733 18572320 587 27 22 B 0.93 Pde11 5' 85 same Y Y Contig_chr2L_1341 chr2L 1884793 1884973 180 49 49 B 0.89 CG7337 5' 11 same Y Y Contig_chr2L_13440 chr2L 18763334 18763477 143 1 1 D Contig_chr2L_13465 chr2L 18787326 18787502 176 15 15 B 0.95 ham 5' 5022 same Y Contig_chr2L_13605 chr2L 19008698 19008841 143 1 1 D Contig_chr2L_13690 chr2L 19145851 19146038 187 2 2 D Contig_chr2L_13699 chr2L 19159769 19161533 1764 94 51 B 0.79 brat internal 0 mixed Contig_chr2L_138 chr2L 304054 304591 537 50 50 B 0.84 Pi3K21B 3' 99 same Y Y Contig_chr2L_139 chr2L 304677 304906 229 54 54 B 0.78 Pi3K21B 3' 722 same Y Contig_chr2L_13901 chr2L 19402591 19403043 452 8 8 B 0.78 CG17544 5' 4100 same Y N Contig_chr2L_13984 chr2L 19572232 19572413 181 2 2 D Contig_chr2L_13987 chr2L 19575641 19577078 1437 66 40 B 0.82 spi internal 0 mixed Y Contig_chr2L_13990 chr2L 19587142 19587450 308 55 55 B Contig_chr2L_14154 chr2L 19806911 19807213 302 7 7 B 0.75 CG13958 5' 20061 ND Contig_chr2L_14221 chr2L 19866202 19866454 252 4 4 B 0.81 CG10481 3' 23793 ND N Contig_chr2L_14299 chr2L 19941938 19944056 2118 122 51 B 0.81 CG13964 5' 1309 mixed Contig_chr2L_14309 chr2L 19950626 19951470 844 14 13 B 0.78 CG10481 5' 58097 mixed Contig_chr2L_14310 chr2L 19951692 19952385 693 78 54 B Contig_chr2L_14404 chr2L 20081768 20082271 503 12 11 B 0.96 fok 3' 17 same Y Y Contig_chr2L_14405 chr2L 20083351 20083529 178 4 4 B Contig_chr2L_1487 chr2L 2059319 2059688 369 16 16 B 0.79 CG4259 3' 68527 same Y IP03612 369 N Contig_chr2L_14870 chr2L 20748147 20750929 2782 73 51 B step 3' 990325 SD04448 859 Contig_chr2L_14910 chr2L 20799060 20799470 410 19 19 B Contig_chr2L_14911 chr2L 20799565 20801681 2116 92 44 B Contig_chr2L_14912 chr2L 20801822 20803208 1386 50 38 B Contig_chr2L_15250 chr2L 21314072 21314290 218 13 13 B 0.77 crc internal 0 same Y Y Contig_chr2L_15255 chr2L 21321510 21321739 229 3 3 C Contig_chr2L_15256 chr2L 21321831 21322583 752 4 4 C Contig_chr2L_1530 chr2L 2109611 2109758 147 5 5 B 0.76 CG4259 3' 18457 ND Contig_chr2L_15311 chr2L 21558318 21560084 1766 20 14 C 0.77 Ac3 5' 72515 mixed Contig_chr2L_15313 chr2L 21570237 21570692 455 11 11 C 0.78 Ac3 5' 61907 ND Contig_chr2L_15314 chr2L 21570906 21571784 878 24 24 B Contig_chr2L_15315 chr2L 21573671 21574163 492 2 2 B 0.76 Ac3 5' 58436 same MIP02948 206 Contig_chr2L_15342 chr2L 21628432 21629036 604 48 41 B Contig_chr2L_15343 chr2L 21629055 21629555 500 24 24 B Contig_chr2L_15346 chr2L 21632868 21633005 137 3 3 C Contig_chr2L_15360 chr2L 21652398 21652617 219 17 17 C 0.85 Ac3 3' 4431 mixed Contig_chr2L_15363 chr2L 21658233 21658461 228 4 4 C 0.96 cul-2 5' 291 same MIP06365 16 N Contig_chr2L_15364 chr2L 21659438 21659615 177 2 2 D Contig_chr2L_15365 chr2L 21663241 21663579 338 9 9 B 0.94 cul-2 3' 23 same Y Y Contig_chr2L_15367 chr2L 21664904 21665192 288 8 8 B 0.87 CG2225 internal 0 same Y Y Contig_chr2L_15412 chr2L 21746091 21746278 187 1 1 D step internal 0 MIP16918 126 Contig_chr2L_1543 chr2L 2127586 2128002 416 8 8 C 0.94 CG4259 3' 213 same Y Contig_chr2L_15566 chr2L 21909413 21909916 503 3 3 C 0.84 CG31600 3' 4524 ND Contig_chr2L_15571 chr2L 21917663 21918397 734 4 4 C 0.88 CG31600 5' 2361 ND Contig_chr2L_15572 chr2L 21918534 21919025 491 3 3 C 0.8 CG11629 5' 20273 ND Contig_chr2L_15573 chr2L 21919548 21919688 140 3 3 C 0.85 CG11629 5' 21287 ND Contig_chr2L_15578 chr2L 21923508 21924154 646 22 21 B 0.82 CG11629 5' 25247 ND Contig_chr2L_15584 chr2L 21929219 21929357 138 3 3 C 0.85 CG11629 5' 30958 ND N Contig_chr2L_15595 chr2L 21937719 21938481 762 55 55 B 0.76 CG11629 5' 39458 ND Contig_chr2L_15708 chr2L 22125451 22126142 691 49 48 B 0.88 CG3651 3' 309 mixed Y N Contig_chr2L_15749 chr2L 22180379 22180559 180 18 18 C 0.92 CG3635 internal 0 mixed Y Contig_chr2L_15760 chr2L 22191815 22192893 1078 25 14 C 0.81 CG42352 internal 0 mixed Y Contig_chr2L_15860 chr2L 22356742 22357788 1046 31 23 B 0.91 CG17018 internal 0 same MIP18541 144 Y Y Contig_chr2L_15861 chr2L 22360100 22360431 331 11 11 C 0.8 CG17018 internal 0 same Contig_chr2L_15882 chr2L 22426683 22426825 142 10 10 B 0.8 lt 5' 570 mixed Y Contig_chr2L_15883 chr2L 22427924 22428224 300 6 6 B Contig_chr2L_1594 chr2L 2227654 2228699 1045 10 8 B Contig_chr2L_16093 chr2L 22816167 22816949 782 23 21 B Contig_chr2L_16177 chr2L 22962628 22963615 987 39 31 B new gene LP09838 828 Contig_chr2L_16178 chr2L 22963712 22963930 218 9 9 B Contig_chr2L_2013 chr2L 2730475 2730761 286 11 11 B 0.8 CG31689 internal 0 same Y Contig_chr2L_2014 chr2L 2730987 2732151 1164 39 30 B 0.88 CG31689 internal 0 same Y Contig_chr2L_2016 chr2L 2732392 2733708 1316 17 12 B 0.94 CG31689 internal 0 same Contig_chr2L_2017 chr2L 2733809 2735386 1577 61 37 B 0.91 CG31689 internal 0 same Y Contig_chr2L_2025 chr2L 2753788 2753967 179 3 3 B Contig_chr2L_2026 chr2L 2754069 2755879 1810 91 50 B Contig_chr2L_2028 chr2L 2763631 2763921 290 13 13 B 0.82 CG3077 3' 146 mixed Y Contig_chr2L_2067 chr2L 2849299 2849714 415 10 10 B 0.99 CG3104 3' 18 ND Y Y Contig_chr2L_2072 chr2L 2857721 2858436 715 31 31 B Contig_chr2L_240 chr2L 479113 479342 229 1 1 D Contig_chr2L_247 chr2L 490965 491328 363 10 10 D ush 5' 32139 SD10668 363 Contig_chr2L_248 chr2L 491459 492880 1421 50 35 B 0.76 ush 5' 30587 same Contig_chr2L_249 chr2L 492970 493152 182 16 16 C Contig_chr2L_250 chr2L 493248 493396 148 12 12 C Contig_chr2L_252 chr2L 493933 494663 730 26 21 C Contig_chr2L_253 chr2L 494732 498349 3617 161 51 B Contig_chr2L_255 chr2L 500859 501930 1071 35 26 B Contig_chr2L_259 chr2L 508851 510734 1883 83 49 B 0.78 ush 5' 12733 mixed Y Contig_chr2L_260 chr2L 510841 512048 1207 35 25 B Contig_chr2L_261 chr2L 512258 516476 4218 141 53 B 0.77 ush 5' 6991 mixed Y Contig_chr2L_262 chr2L 516741 517372 631 33 32 B 0.75 ush 5' 6095 same Contig_chr2L_263 chr2L 517386 522083 4697 166 53 B Contig_chr2L_267 chr2L 525475 525811 336 4 4 D Contig_chr2L_273 chr2L 530619 531258 639 50 49 B 0.87 ush internal 0 same Contig_chr2L_274 chr2L 531351 531601 250 39 39 B 0.9 ush internal 0 same Contig_chr2L_2740 chr2L 3809087 3809307 220 15 15 B 0.93 l(2)k16918 3' 23 ND Y Y Contig_chr2L_2741 chr2L 3809394 3810535 1141 39 33 B 0.9 l(2)k16918 3' 330 same Y Y Contig_chr2L_281 chr2L 552490 552757 267 11 11 B 0.8 Ets21C 5' 36 same Y Y Contig_chr2L_3031 chr2L 4115073 4115385 312 6 6 B 0.94 ed 3' 14 same Y Y Contig_chr2L_3243 chr2L 4361861 4362231 370 6 6 B 0.97 Traf4 5' 318 ND Y Y Contig_chr2L_3244 chr2L 4364166 4364393 227 1 1 D Contig_chr2L_3245 chr2L 4364481 4365737 1256 3 3 B 0.99 Traf4 internal 0 ND Y Contig_chr2L_3775 chr2L 5260447 5260701 254 52 52 B Contig_chr2L_3818 chr2L 5315496 5315803 307 55 55 B Contig_chr2L_3822 chr2L 5326306 5326707 401 55 55 B 0.82 Bsg25D 5' 47748 same N Contig_chr2L_3980 chr2L 5540381 5540759 378 14 14 D Contig_chr2L_4260 chr2L 5972235 5972627 392 4 4 B 0.9 chic 3' 273 same RE52449 392 Y Y Contig_chr2L_4263 chr2L 5977324 5977546 222 45 45 B 0.81 chic internal 0 same Y Contig_chr2L_4264 chr2L 5977640 5979155 1515 59 44 B 0.82 chic internal 0 same Contig_chr2L_4267 chr2L 5987019 5987505 486 14 14 B Contig_chr2L_4271 chr2L 5990005 5990387 382 55 55 B 0.95 lid 3' 54 same Y Y Contig_chr2L_4290 chr2L 6045602 6045753 151 1 1 D Contig_chr2L_4293 chr2L 6053504 6053761 257 3 3 D Contig_chr2L_4520 chr2L 6331601 6331984 383 5 5 B 0.79 Gef26 3' 49 same Y Y Contig_chr2L_47 chr2L 85132 85464 332 5 5 C Contig_chr2L_4740 chr2L 6731347 6731479 132 2 2 D Contig_chr2L_4852 chr2L 6921975 6922117 142 13 13 B 0.8 Hrb27C internal 0 same Y Y Contig_chr2L_4855 chr2L 6926880 6927141 261 55 55 B 0.85 Hrb27C 3' 758 same Y Y Contig_chr2L_4864 chr2L 6968747 6969786 1039 42 33 B 0.79 snRNP70K 3' 39 mixed Y Y Contig_chr2L_4907 chr2L 7042231 7042465 234 2 2 C Contig_chr2L_4920 chr2L 7074926 7075716 790 20 18 B 0.95 Pvf2 internal 0 same Contig_chr2L_4926 chr2L 7083977 7084415 438 3 3 C 0.97 Pvf2 internal 0 same Y Contig_chr2L_523 chr2L 842729 843606 877 32 27 B Contig_chr2L_524 chr2L 843778 847238 3460 113 41 B Lsp1beta 5' 51409 LP18812 14 Contig_chr2L_525 chr2L 847309 847840 531 56 46 B Contig_chr2L_5251 chr2L 7423637 7425833 2196 86 52 B Contig_chr2L_526 chr2L 847925 849688 1763 76 46 B Lsp1beta 5' 48959 LP18812 10 Contig_chr2L_531 chr2L 865113 865327 214 3 3 C 0.9 aru internal 0 same Y Contig_chr2L_5725 chr2L 8175398 8175882 484 15 13 B Contig_chr2L_5734 chr2L 8218799 8218975 176 3 3 B Contig_chr2L_5735 chr2L 8226757 8227286 529 9 9 D Pvr internal 0 MIP03027 221 Contig_chr2L_5736 chr2L 8227361 8227590 229 1 1 D Pvr internal 0 IP16283 229 Contig_chr2L_5827 chr2L 8385194 8385337 143 1 1 D Contig_chr2L_5829 chr2L 8385826 8386048 222 7 7 D Contig_chr2L_5832 chr2L 8403699 8403880 181 6 6 D Contig_chr2L_5833 chr2L 8416066 8416473 407 22 22 B Contig_chr2L_5834 chr2L 8416557 8419360 2803 174 55 B Contig_chr2L_5836 chr2L 8420190 8420328 138 4 4 C Contig_chr2L_5837 chr2L 8420456 8422673 2217 130 52 B Contig_chr2L_6028 chr2L 8669442 8669781 339 35 35 B 0.81 Sema-1a 3' 2014 same Y Contig_chr2L_6040 chr2L 8699331 8699960 629 12 12 B Contig_chr2L_6370 chr2L 9126046 9126465 419 4 4 B 0.82 CG32982 internal 0 same Y Contig_chr2L_6415 chr2L 9176402 9176589 187 2 2 D Contig_chr2L_6416 chr2L 9176688 9176972 284 4 4 B Contig_chr2L_6495 chr2L 9246422 9246723 301 3 3 B Contig_chr2L_65 chr2L 116188 116408 220 6 6 B 0.9 CG13694 5' 71 mixed IP05472 220 Y Contig_chr2L_6702 chr2L 9491224 9491529 305 53 53 B Contig_chr2L_6791 chr2L 9613662 9614182 520 32 30 B Trx-2 internal 0 SD03042 520 Contig_chr2L_6841 chr2L 9683211 9684007 796 67 56 B 0.85 Pka-C1 3' 649 mixed Y Y Contig_chr2L_7070 chr2L 10004285 10004432 147 3 3 B 0.75 RpL13 3' 35790 same N Contig_chr2L_7230 chr2L 10392791 10393118 327 20 20 B Contig_chr2L_7235 chr2L 10428303 10428564 261 4 4 D Contig_chr2L_7460 chr2L 10756323 10756515 192 3 3 B Contig_chr2L_7619 chr2L 11032544 11032805 261 55 55 B Contig_chr2L_767 chr2L 1143510 1143937 427 12 12 B Contig_chr2L_777 chr2L 1174702 1174838 136 2 2 D Contig_chr2L_78 chr2L 159928 162410 2482 89 40 B 0.92 spen internal 0 mixed Y Contig_chr2L_8195 chr2L 11800649 11801132 483 31 30 B 0.84 crol internal 0 same Y Contig_chr2L_8196 chr2L 11801229 11802017 788 65 46 B 0.85 crol internal 0 same Contig_chr2L_8199 chr2L 11806405 11807121 716 72 46 B 0.76 crol internal 0 same Y Contig_chr2L_8200 chr2L 11807214 11807669 455 51 51 B 0.89 crol internal 0 mixed Contig_chr2L_8363 chr2L 12055625 12055799 174 2 2 C 0.81 JhI-21 internal 0 same Y Contig_chr2L_8661 chr2L 12407835 12408828 993 7 6 B 0.75 vir-1 internal 0 same Y Contig_chr2L_8662 chr2L 12409042 12409274 232 4 4 B 0.78 vir-1 internal 0 ND Contig_chr2L_8690 chr2L 12455621 12456417 796 3 3 B 0.89 bun 3' 160 same Y Y Contig_chr2L_8707 chr2L 12472177 12472865 688 35 33 B Contig_chr2L_8735 chr2L 12492804 12493762 958 63 44 B 0.91 bun internal 0 same Y IP17707 79 Y Y Contig_chr2L_8979 chr2L 12817073 12818398 1325 66 44 B 0.96 kek1 3' 532 same Y Contig_chr2L_8980 chr2L 12818553 12818898 345 4 4 B 0.98 kek1 3' 32 same Y Contig_chr2L_9475 chr2L 13550671 13551000 329 13 13 B 0.89 kuz internal 0 same Contig_chr2L_9571 chr2L 13638277 13638456 179 3 3 B 0.89 kuz 3' 39 same Y Y Contig_chr2L_9572 chr2L 13638508 13639043 535 29 29 B 0.82 kuz 3' 270 same Y Contig_chr2L_9757 chr2L 13898857 13899343 486 8 8 B 0.9 Smg5 3' 10 same Y Y Contig_chr2R_10034 chr2R 15337092 15338833 1741 47 29 B Contig_chr2R_10040 chr2R 15350307 15350450 143 2 2 C 0.87 par-1 internal 0 mixed Y Contig_chr2R_10041 chr2R 15350666 15351493 827 69 44 B 0.86 par-1 internal 0 same Y Contig_chr2R_10042 chr2R 15351588 15351774 186 2 2 D Contig_chr2R_10047 chr2R 15361716 15362021 305 6 6 B Contig_chr2R_10052 chr2R 15372032 15372610 578 2 2 D par-1 3' 54 GH13362 578 Contig_chr2R_1020 chr2R 1923308 1923840 532 14 14 B Contig_chr2R_1091 chr2R 2054086 2055474 1388 35 27 B 0.91 EcR internal 0 ND Y Contig_chr2R_1092 chr2R 2055665 2056208 543 14 14 B 0.85 EcR internal 0 ND Y Contig_chr2R_10932 chr2R 16484429 16484653 224 48 48 B 0 GM01586 224 intronic region; origin uncertain Contig_chr2R_11236 chr2R 16894220 16894812 592 1 1 D Contig_chr2R_11358 chr2R 17094603 17095094 491 56 55 B Contig_chr2R_1138 chr2R 2127510 2127966 456 54 54 B 0.94 bin3 3' 189 same Y Y Contig_chr2R_1139 chr2R 2130306 2130633 327 3 3 C 0.81 Pld internal 0 ND Y Contig_chr2R_11442 chr2R 17196532 17196755 223 44 44 B CG30387 internal 0 IP15286 223 Contig_chr2R_11469 chr2R 17262329 17265542 3213 122 50 B Contig_chr2R_12001 chr2R 17965230 17965617 387 10 10 B GlcT-1 5' 2070 LD24788 387 Contig_chr2R_12164 chr2R 18193157 18195444 2287 48 28 B Contig_chr2R_12166 chr2R 18195979 18196974 995 20 20 B Contig_chr2R_12168 chr2R 18197705 18198443 738 37 36 B Contig_chr2R_12220 chr2R 18265518 18265943 425 8 8 B Contig_chr2R_12239 chr2R 18287864 18289016 1152 38 34 B Contig_chr2R_12412 chr2R 18572520 18572991 471 19 18 B Contig_chr2R_12534 chr2R 18830672 18832158 1486 37 21 B new gene MIP06419 55 Contig_chr2R_13091 chr2R 19545685 19546299 614 13 13 B Contig_chr2R_13092 chr2R 19546907 19547637 730 42 35 B Pde8 internal 0 MIP06327 169 Contig_chr2R_13099 chr2R 19554836 19556296 1460 49 34 B Contig_chr2R_13100 chr2R 19556429 19556603 174 14 14 B Contig_chr2R_13101 chr2R 19556975 19557345 370 16 16 B Contig_chr2R_13260 chr2R 19933218 19933994 776 29 24 B Contig_chr2R_13262 chr2R 19949043 19949310 267 4 4 B Contig_chr2R_13397 chr2R 20196097 20197171 1074 50 41 B Contig_chr2R_13637 chr2R 20560388 20561000 612 31 27 B Mmp1 internal 0 MIP15906 451 Contig_chr2R_13713 chr2R 20655221 20655402 181 9 9 B CG16936 internal 0 MIP15314 181 Contig_chr2R_13817 chr2R 20769475 20769698 223 6 6 B Contig_chr2R_13820 chr2R 20774535 20774722 187 2 2 D CG34413 internal 0 MIP15431 132 Contig_chr2R_13840 chr2R 20807874 20809013 1139 44 31 B Contig_chr2R_13858 chr2R 20849374 20849842 468 9 9 B CG2765 internal 0 MIP21584 468 Contig_chr2R_13859 chr2R 20850910 20851981 1071 35 25 B Contig_chr2R_13868 chr2R 20878095 20878440 345 6 6 B Contig_chr2R_13880 chr2R 20898258 20898740 482 12 12 D Contig_chr2R_1490 chr2R 2758465 2759696 1231 69 42 B Contig_chr2R_1565 chr2R 2899942 2900389 447 22 22 B 0.81 Tsp42Ee internal 0 same Y Y Contig_chr2R_191 chr2R 403003 403408 405 36 36 B Contig_chr2R_1995 chr2R 3624841 3625030 189 47 47 B Contig_chr2R_2010 chr2R 3647717 3647858 141 46 46 B 0.77 CG12824 5' 30038 ND Contig_chr2R_2029 chr2R 3664920 3665706 786 45 40 B Contig_chr2R_2033 chr2R 3675646 3675790 144 45 45 B Contig_chr2R_2075 chr2R 3777527 3777750 223 32 32 B CG12159 3' 24784 MIP13269 83 Contig_chr2R_2197 chr2R 4019740 4019875 135 1 1 D Contig_chr2R_2201 chr2R 4030594 4030731 137 1 1 D Contig_chr2R_2216 chr2R 4061503 4062203 700 58 55 B 0.87 CG33087 5' 31820 mixed Y Y Contig_chr2R_224 chr2R 484380 484559 179 25 25 B Contig_chr2R_2262 chr2R 4113364 4113620 256 4 4 C 0.92 CG33087 3' 121 same Y Y Contig_chr2R_2546 chr2R 4490588 4492782 2194 70 43 B Contig_chr2R_2550 chr2R 4506827 4506960 133 49 49 B 0.91 Cirl internal 0 same GH07331 133 Contig_chr2R_2576 chr2R 4554037 4554184 147 2 2 B Contig_chr2R_2580 chr2R 4557435 4557919 484 49 42 B Contig_chr2R_2745 chr2R 4789187 4789522 335 14 14 B Contig_chr2R_2753 chr2R 4842685 4842949 264 1 1 D Contig_chr2R_2754 chr2R 4843490 4843632 142 10 10 B Contig_chr2R_2756 chr2R 4845089 4845542 453 36 35 B Contig_chr2R_2758 chr2R 4849151 4850275 1124 23 17 B babo internal 0 RE55648 1124 Contig_chr2R_2847 chr2R 5008537 5008721 184 7 7 B Contig_chr2R_2857 chr2R 5020391 5020539 148 3 3 B Contig_chr2R_2879 chr2R 5084285 5085386 1101 9 9 B 0.97 unpg internal 0 ND Contig_chr2R_3160 chr2R 5453714 5454246 532 55 55 B 0.76 Not1 3' 773 same Y Contig_chr2R_3161 chr2R 5454420 5454959 539 56 55 B Contig_chr2R_3165 chr2R 5466122 5466520 398 5 5 C 0.83 Not1 5' 137 same Y Contig_chr2R_3167 chr2R 5490491 5490713 222 2 2 D Contig_chr2R_328 chr2R 671587 671887 300 34 34 B Contig_chr2R_3356 chr2R 5755951 5756449 498 8 8 B 0.89 CG18446 5' 2528 same Contig_chr2R_3364 chr2R 5770820 5771000 180 1 1 D CG1513 internal 0 MIP02920 180 Contig_chr2R_340 chr2R 712630 712931 301 6 6 C Contig_chr2R_3527 chr2R 6000866 6001010 144 2 2 B Contig_chr2R_3528 chr2R 6001301 6001559 258 7 7 B Contig_chr2R_378 chr2R 789328 789739 411 9 9 B Contig_chr2R_3783 chr2R 6390519 6390985 466 54 51 B lola internal 0 GM09276 314 Contig_chr2R_3784 chr2R 6391088 6391580 492 52 52 B 0.78 lola internal 0 same Contig_chr2R_3785 chr2R 6391664 6391920 256 52 52 B 0.76 lola internal 0 same Contig_chr2R_3786 chr2R 6392016 6392322 306 4 4 B Contig_chr2R_3792 chr2R 6401133 6401446 313 51 51 B 0.85 lola internal 0 same Contig_chr2R_3793 chr2R 6401772 6402099 327 52 52 B Contig_chr2R_3800 chr2R 6413894 6414038 144 2 2 B 0.89 lola internal 0 same Y Contig_chr2R_3802 chr2R 6417127 6418135 1008 74 58 B Contig_chr2R_3803 chr2R 6418216 6418748 532 22 22 B Contig_chr2R_3830 chr2R 6443622 6444893 1271 3 3 C Contig_chr2R_3841 chr2R 6452181 6452331 150 3 3 C Contig_chr2R_3844 chr2R 6453907 6454125 218 18 18 B Contig_chr2R_3845 chr2R 6454220 6454736 516 55 54 B Contig_chr2R_3848 chr2R 6456401 6456689 288 13 13 B Contig_chr2R_3849 chr2R 6456943 6457082 139 1 1 D Contig_chr2R_3850 chr2R 6457751 6458046 295 16 16 B 0.85 psq internal 0 same Y Contig_chr2R_3851 chr2R 6458257 6459261 1004 44 39 B 0.83 psq internal 0 mixed Contig_chr2R_3866 chr2R 6470933 6471073 140 39 39 B Contig_chr2R_3867 chr2R 6471633 6471935 302 3 3 B Contig_chr2R_3887 chr2R 6493760 6494487 727 18 16 B Contig_chr2R_389 chr2R 811188 811643 455 20 14 C Contig_chr2R_3892 chr2R 6501057 6501199 142 1 1 D Contig_chr2R_3893 chr2R 6503872 6504459 587 37 35 B Contig_chr2R_3894 chr2R 6504557 6504736 179 50 50 B Contig_chr2R_4021 chr2R 6672201 6672340 139 2 2 B Contig_chr2R_4055 chr2R 6740891 6741392 501 25 24 B Contig_chr2R_4056 chr2R 6741676 6741856 180 1 1 D Contig_chr2R_4236 chr2R 6959548 6960472 924 66 56 B 0.85 luna internal 0 same Contig_chr2R_4240 chr2R 6963029 6964472 1443 76 50 B 0.85 luna internal 0 same Contig_chr2R_4242 chr2R 6967802 6968129 327 36 36 B 0.88 luna internal 0 ND Contig_chr2R_4243 chr2R 6968225 6968492 267 3 3 B 0.88 luna internal 0 ND Contig_chr2R_4244 chr2R 6968993 6969743 750 72 55 B 0.84 luna internal 0 same Contig_chr2R_4245 chr2R 6970052 6971773 1721 113 52 B 0.9 luna internal 0 same Contig_chr2R_4246 chr2R 6971862 6972154 292 8 8 C 0.82 luna internal 0 same Contig_chr2R_4247 chr2R 6972248 6979242 6994 204 57 B 0.86 luna internal 0 same MIP03057 371 Y N Contig_chr2R_4261 chr2R 6994023 6994281 258 5 5 D Contig_chr2R_4668 chr2R 7553369 7554491 1122 16 12 B Contig_chr2R_4819 chr2R 7780123 7780533 410 1 1 D Contig_chr2R_5018 chr2R 8048656 8048842 186 1 1 D Contig_chr2R_5019 chr2R 8050351 8050523 172 21 21 B prp8 internal 0 UT01590 113 Contig_chr2R_5021 chr2R 8057980 8058358 378 3 3 C 0.87 mir-281b 5' 290 mixed N Contig_chr2R_5079 chr2R 8163181 8163436 255 52 52 B Cam 3' 1051 HL01242 255 Contig_chr2R_5102 chr2R 8213855 8214040 185 17 17 B 0.81 garz 5' 139 same Y Y Contig_chr2R_5285 chr2R 8592679 8592822 143 1 1 D Contig_chr2R_5439 chr2R 8803856 8804070 214 2 2 D Contig_chr2R_5619 chr2R 9085029 9085564 535 11 11 B 0.88 CG33182 internal 0 same Y Y Y Contig_chr2R_5621 chr2R 9110745 9111071 326 39 39 B 0.8 Dp internal 0 mixed Y Contig_chr2R_564 chr2R 1147128 1147394 266 4 4 B Contig_chr2R_5692 chr2R 9217956 9218610 654 38 33 B Contig_chr2R_5693 chr2R 9218696 9221306 2610 122 60 B Contig_chr2R_5694 chr2R 9221397 9222641 1244 70 36 B Contig_chr2R_5695 chr2R 9222724 9224744 2020 123 55 B Contig_chr2R_5699 chr2R 9228188 9228639 451 19 16 B Contig_chr2R_5701 chr2R 9229635 9232192 2557 84 31 B Contig_chr2R_5792 chr2R 9334948 9335834 886 50 45 B 0.85 cnn internal 0 same Y Contig_chr2R_5829 chr2R 9376016 9376389 373 12 12 B 0.85 CG6016 internal 0 same SD07396 373 Contig_chr2R_5830 chr2R 9376601 9376847 246 4 4 B 0.76 CG6016 internal 0 same SD07396 246 Contig_chr2R_5831 chr2R 9376907 9377215 308 4 4 B 0.84 CG6016 internal 0 same SD07396 274 Y Contig_chr2R_6140 chr2R 9830960 9832161 1201 61 55 B 0 LD07701 909 intergenic region; origin unclear Contig_chr2R_6141 chr2R 9832241 9832855 614 58 54 B 0 LD07701 414 intergenic region; origin unclear Contig_chr2R_6142 chr2R 9832979 9834027 1048 104 58 B AGO1 3' 20 SD07515 1048 Contig_chr2R_6146 chr2R 9840147 9840290 143 1 1 D Contig_chr2R_6147 chr2R 9840796 9840940 144 55 55 B 0.89 AGO1 internal 0 same Y Contig_chr2R_6150 chr2R 9849967 9850618 651 29 26 B 0.82 Cp1 internal 0 mixed Y Contig_chr2R_6152 chr2R 9851115 9852056 941 60 45 B 0.78 Cp1 internal 0 mixed Y Contig_chr2R_6153 chr2R 9852152 9852641 489 3 2 C Contig_chr2R_6154 chr2R 9853003 9853382 379 15 15 B Contig_chr2R_6155 chr2R 9853429 9854117 688 27 26 B Contig_chr2R_6158 chr2R 9866940 9867432 492 47 46 B 0.79 RN-tre 3' 4885 same N Contig_chr2R_6193 chr2R 9899323 9899586 263 30 30 B Contig_chr2R_6212 chr2R 9913024 9913364 340 7 7 B Contig_chr2R_623 chr2R 1246248 1246434 186 8 8 B Contig_chr2R_6248 chr2R 9948106 9948947 841 30 27 B 0.88 Prosap 3' 37 same GM02923 841 Y Y Contig_chr2R_6305 chr2R 10023191 10023407 216 12 12 B Contig_chr2R_6320 chr2R 10064418 10064593 175 7 7 B 0.77 cg internal 0 same Y Contig_chr2R_6324 chr2R 10072602 10072945 343 26 26 B 0.88 CG30069 5' 379 same Y Contig_chr2R_6325 chr2R 10073039 10073182 143 3 3 C 0.98 CG30069 5' 142 same Y Y Contig_chr2R_6409 chr2R 10224761 10225093 332 27 27 B Contig_chr2R_6713 chr2R 10653172 10653351 179 3 3 C Contig_chr2R_6714 chr2R 10653434 10653820 386 37 37 B Contig_chr2R_6716 chr2R 10655888 10656336 448 18 18 B Contig_chr2R_6717 chr2R 10656392 10656653 261 23 23 B Contig_chr2R_6808 chr2R 10832889 10833575 686 10 10 B Contig_chr2R_6954 chr2R 11016747 11017054 307 17 17 B Contig_chr2R_7440 chr2R 11646605 11647931 1326 49 36 B 0.85 CG30089 internal 0 ND Y Contig_chr2R_7530 chr2R 11757556 11758599 1043 69 52 B 0.97 sli 3' 1577 same Y Contig_chr2R_7646 chr2R 11947331 11947790 459 55 55 B 0.79 CG8405 3' 359 same Y Contig_chr2R_7675 chr2R 11973135 11973517 382 4 4 B 0.84 Dg internal 0 same Y Contig_chr2R_7694 chr2R 12013448 12017616 4168 218 63 B 0.82 Aats-cys 5' 13039 mixed Contig_chr2R_7696 chr2R 12019519 12019655 136 1 1 D Contig_chr2R_7697 chr2R 12021403 12023424 2021 91 51 B 0.88 spin internal 0 same HL03834 1268 Y Contig_chr2R_7699 chr2R 12037540 12038642 1102 56 55 B 0.92 lbk 5' 13210 same Contig_chr2R_770 chr2R 1544015 1544388 373 11 11 B 0.8 l(2)NC136 3' 35 mixed MIP07457 373 Y Y Contig_chr2R_7706 chr2R 12044564 12044744 180 5 5 B Contig_chr2R_7721 chr2R 12092637 12092819 182 3 3 B mrj internal 0 IP17752 182 Contig_chr2R_7798 chr2R 12224762 12225019 257 15 15 B Contig_chr2R_8230 chr2R 12748010 12748223 213 15 15 B Contig_chr2R_8350 chr2R 12968831 12969382 551 15 15 B 0.77 CG30460 5' 69 same GH03995 523 Y Contig_chr2R_8599 chr2R 13249917 13250170 253 17 17 B 0.89 mbl internal 0 same Y Contig_chr2R_8640 chr2R 13309608 13309834 226 5 5 B Contig_chr2R_8654 chr2R 13339642 13339871 229 8 8 B 0.83 mthl3 internal 0 same Y Contig_chr2R_8690 chr2R 13423184 13423377 193 16 16 B 0.78 Rab4 5' 37202 mixed Contig_chr2R_8828 chr2R 13707743 13707875 132 21 21 B Contig_chr2R_8854 chr2R 13739029 13739291 262 3 3 B 0.79 CG30323 5' 1555 same Contig_chr2R_8856 chr2R 13741917 13742278 361 42 42 B Contig_chr2R_8858 chr2R 13756501 13757262 761 56 54 B Contig_chr2R_9084 chr2R 14033798 14034645 847 55 55 B 0.83 pAbp 3' 55 same Y Y Contig_chr2R_9086 chr2R 14041670 14042068 398 48 47 B 0.77 stau 5' 28333 mixed N Contig_chr2R_9087 chr2R 14044006 14044232 226 3 3 B lolal internal 0 MIP07390 226 Contig_chr2R_9089 chr2R 14044898 14045339 441 18 18 B lolal internal 0 MIP07390 441 Contig_chr2R_9091 chr2R 14051771 14052181 410 50 50 B 0.81 CG10915 3' 52 mixed Y Y Contig_chr2R_9256 chr2R 14242622 14244151 1529 94 56 B 0 GM04742 646 short stalled product of sbb Contig_chr2R_9257 chr2R 14244254 14244816 562 54 53 B 0 GM04742 510 short stalled product of sbb Contig_chr2R_9279 chr2R 14299579 14299757 178 2 2 B Contig_chr2R_9280 chr2R 14299915 14300181 266 15 15 B Contig_chr2R_9427 chr2R 14531059 14532358 1299 39 33 B 0.92 SP2637 internal 0 same Contig_chr2R_9428 chr2R 14532481 14532867 386 13 13 B 0.88 SP2637 internal 0 same Contig_chr2R_9429 chr2R 14532953 14533202 249 3 3 C 0.89 SP2637 internal 0 same Contig_chr2R_9431 chr2R 14534085 14535128 1043 50 40 B 0.93 SP2637 internal 0 same Contig_chr2R_9432 chr2R 14535224 14535662 438 20 20 B 0.8 SP2637 internal 0 same Contig_chr2R_9433 chr2R 14535908 14537260 1352 34 18 B 0.93 SP2637 internal 0 same Contig_chr2R_9434 chr2R 14537355 14537780 425 16 15 B 0.89 SP2637 internal 0 same Contig_chr2R_9436 chr2R 14538180 14539893 1713 54 37 B 0.93 SP2637 internal 0 same Y Contig_chr2R_9457 chr2R 14576172 14576828 656 19 16 B Contig_chr2R_9841 chr2R 15050624 15051234 610 20 20 B 0.86 ena 3' 500 same Y Y Contig_chr2R_9853 chr2R 15066471 15066845 374 31 31 B 0.77 CG7097 internal 0 same Y Y Contig_chr3L_10219 chr3L 13909501 13910192 691 4 4 B Contig_chr3L_10220 chr3L 13910375 13910842 467 37 37 B 0.76 Rgl internal 0 ND Contig_chr3L_10221 chr3L 13910928 13912009 1081 19 12 B 0.77 Rgl internal 0 ND Contig_chr3L_10276 chr3L 13996003 13996146 143 1 1 D Contig_chr3L_10282 chr3L 14030980 14031471 491 7 7 B 0.81 Hsc70Cb internal 0 mixed Y Contig_chr3L_10287 chr3L 14046197 14046536 339 52 52 B Contig_chr3L_10299 chr3L 14062125 14062610 485 12 12 B 0.88 CG6650 3' 34380 same Contig_chr3L_10300 chr3L 14063667 14064071 404 34 34 B 0.89 CG32138 3' 198 same Y Y Contig_chr3L_10301 chr3L 14064163 14064730 567 41 38 B 0.81 CG6650 3' 36418 same Contig_chr3L_10714 chr3L 14534324 14534469 145 2 2 B 0.92 CG9238 3' 164 same MIP07493 145 Y Y Contig_chr3L_10722 chr3L 14545173 14545743 570 6 6 C Contig_chr3L_10894 chr3L 14784443 14784631 188 26 26 B Contig_chr3L_10896 chr3L 14792563 14792936 373 54 54 B 0.79 CG9384 3' 31751 same N Contig_chr3L_11139 chr3L 15100637 15101022 385 48 48 B 0.79 CG6854 internal 0 mixed Contig_chr3L_1129 chr3L 1513612 1515335 1723 81 50 B 0.84 pUf68 5' 11014 mixed Contig_chr3L_1130 chr3L 1515422 1516725 1303 79 47 B 0.86 pUf68 5' 12824 mixed Contig_chr3L_1139 chr3L 1546411 1547009 598 19 17 B Contig_chr3L_1146 chr3L 1565571 1566140 569 14 13 B 0.86 pUf68 5' 62973 same Contig_chr3L_1147 chr3L 1567835 1568180 345 2 2 C 0.81 pUf68 5' 65237 mixed Contig_chr3L_11480 chr3L 15569048 15569343 295 29 29 B CG6498 internal 0 MIP12437 295 Contig_chr3L_11495 chr3L 15594570 15594710 140 5 5 D Contig_chr3L_11497 chr3L 15597706 15597900 194 2 2 C 0.79 RhoGAP71E internal 0 same Y Contig_chr3L_11498 chr3L 15598892 15599626 734 30 27 B 0.81 RhoGAP71E internal 0 same Y Contig_chr3L_11499 chr3L 15600319 15600536 217 2 2 B Contig_chr3L_11500 chr3L 15600652 15601170 518 57 50 B RhoGAP71E internal 0 LD07615 410 Contig_chr3L_11501 chr3L 15601258 15601784 526 28 26 B 0.92 RhoGAP71E 3' 1033 same LD07615 526 Y Contig_chr3L_11688 chr3L 15805546 15805726 180 3 3 C 0.8 CG6151 internal 0 same Y Y Contig_chr3L_11693 chr3L 15811745 15812757 1012 43 34 B Contig_chr3L_1170 chr3L 1592682 1593177 495 10 9 B 0.79 CG13917 5' 85 same MIP09489 433 Y Y Contig_chr3L_1171 chr3L 1600375 1600872 497 49 44 B 0.87 CG13917 3' 500 mixed Y Contig_chr3L_11822 chr3L 16015816 16016000 184 2 2 C Contig_chr3L_11835 chr3L 16035160 16035502 342 19 19 B Contig_chr3L_11837 chr3L 16036311 16036733 422 37 37 B Contig_chr3L_11838 chr3L 16036827 16037598 771 55 43 B Contig_chr3L_11847 chr3L 16045419 16045785 366 9 9 B 0.83 Mbs internal 0 same Contig_chr3L_11862 chr3L 16059962 16060141 179 2 2 D Contig_chr3L_11864 chr3L 16062053 16062190 137 2 2 C Contig_chr3L_11877 chr3L 16078807 16078946 139 2 2 D Contig_chr3L_12044 chr3L 16365707 16366049 342 4 4 B Contig_chr3L_12055 chr3L 16395921 16396055 134 2 2 C 0.82 fax 3' 332 same Y Contig_chr3L_12056 chr3L 16399081 16399724 643 23 20 B 0.86 fax internal 0 same Y Contig_chr3L_1212 chr3L 1688703 1689346 643 58 53 B 0.92 CG7991 5' 22793 ND Contig_chr3L_1213 chr3L 1689444 1689626 182 8 8 B Contig_chr3L_12196 chr3L 16615205 16615355 150 4 4 B 0.77 Abl 3' 106 same Y Y Contig_chr3L_12198 chr3L 16620321 16620461 140 7 7 B Contig_chr3L_12217 chr3L 16641683 16641862 179 7 7 B 0.79 Baldspot 3' 58 same Y Y Contig_chr3L_1225 chr3L 1698562 1698969 407 34 34 B CG7991 MIP23106 56 Contig_chr3L_12273 chr3L 16717103 16717330 227 2 2 B 0.86 Dab 3' 14 same Y Y Contig_chr3L_12315 chr3L 16785209 16785419 210 3 3 D CG9674 MIP15742 210 Contig_chr3L_12349 chr3L 16821579 16822119 540 20 19 B 0.86 CG13024 5' 17612 same Y Y Contig_chr3L_1241 chr3L 1714951 1715332 381 9 9 B 0.88 CG7991 3' 57 ND IP13959 381 Y Y Contig_chr3L_1242 chr3L 1720293 1720547 254 1 1 D Contig_chr3L_1243 chr3L 1723276 1723489 213 6 6 B 0.94 drpr internal 0 same Y Contig_chr3L_12439 chr3L 16963138 16963276 138 4 4 B 0.86 CG14060 5' 231 same Y Contig_chr3L_12462 chr3L 16995449 16995907 458 22 22 B Contig_chr3L_12464 chr3L 16996645 16997420 775 17 17 B 0.93 CG32167 3' 340 same Contig_chr3L_12465 chr3L 16998437 16998619 182 2 2 C 0.81 CG32167 5' 42 ND Y Contig_chr3L_1257 chr3L 1778778 1778958 180 1 1 D Contig_chr3L_1260 chr3L 1784169 1784772 603 35 32 B Contig_chr3L_12892 chr3L 17509177 17509328 151 1 1 D Contig_chr3L_12893 chr3L 17509383 17509527 144 4 4 B Contig_chr3L_12894 chr3L 17509629 17510132 503 48 48 B Contig_chr3L_12900 chr3L 17526571 17526832 261 6 6 B Contig_chr3L_12901 chr3L 17526997 17527263 266 2 2 C Contig_chr3L_12906 chr3L 17544028 17544893 865 62 56 B Contig_chr3L_12907 chr3L 17545022 17545169 147 1 1 D Contig_chr3L_12982 chr3L 17634502 17634954 452 28 28 B 0.76 Pep internal 0 same Y Contig_chr3L_12985 chr3L 17637700 17637881 181 3 3 D Contig_chr3L_12997 chr3L 17653907 17654655 748 22 17 B Contig_chr3L_13124 chr3L 17900468 17900937 469 2 2 C 0.94 Prestin 5' 5615 same MIP14411 413 Y Contig_chr3L_13722 chr3L 18743806 18744950 1144 34 30 B 0.95 ftz-f1 3' 64 same LD15303 101 Y Y Contig_chr3L_13733 chr3L 18757558 18757852 294 4 4 B 0.93 ftz-f1 internal 0 same Y Y Contig_chr3L_13734 chr3L 18758167 18759005 838 58 41 B 0.95 ftz-f1 internal 0 same Y Contig_chr3L_13774 chr3L 18793508 18793694 186 51 51 B ftz-f1 5' 1677 LD15303 186 Contig_chr3L_13775 chr3L 18793783 18794676 893 54 54 B 0.78 Rad9 3' 68468 mixed LD15303 212 N Contig_chr3L_13909 chr3L 19010154 19010562 408 43 43 B 0.84 nkd internal 0 ND Contig_chr3L_13916 chr3L 19017452 19019465 2013 49 25 B 0.76 nkd internal 0 ND Y Contig_chr3L_13936 chr3L 19045425 19046564 1139 17 17 B new gene MIP22670 367 Contig_chr3L_13937 chr3L 19046697 19047001 304 2 2 C Contig_chr3L_13940 chr3L 19048409 19049101 692 4 4 B Contig_chr3L_13941 chr3L 19049303 19050060 757 17 17 B Contig_chr3L_13942 chr3L 19050145 19051062 917 2 2 C Contig_chr3L_13943 chr3L 19051149 19051993 844 3 2 C Contig_chr3L_13944 chr3L 19052086 19052379 293 2 2 B Contig_chr3L_13995 chr3L 19135479 19135986 507 5 5 B 0.83 nkd 5' 97048 same N Contig_chr3L_14448 chr3L 19783444 19783859 415 17 17 B Contig_chr3L_14468 chr3L 19882119 19882263 144 52 52 B Contig_chr3L_14469 chr3L 19882353 19883973 1620 83 60 B Contig_chr3L_14470 chr3L 19884063 19884275 212 55 55 B Contig_chr3L_14473 chr3L 19889586 19889761 175 3 3 C Contig_chr3L_14475 chr3L 19896063 19896649 586 61 54 B Contig_chr3L_14477 chr3L 19898158 19898416 258 48 48 B Contig_chr3L_14480 chr3L 19899824 19902186 2362 40 26 B Contig_chr3L_14633 chr3L 20155326 20155550 224 6 6 B 0.86 CG32223 3' 6222 ND Contig_chr3L_14634 chr3L 20157452 20157826 374 2 2 C 0.92 CG32223 3' 3946 same Y Contig_chr3L_14635 chr3L 20158025 20158161 136 11 11 B 0.87 CG32223 3' 3611 same Contig_chr3L_14638 chr3L 20158785 20158931 146 2 2 C 0.84 CG32223 3' 2841 ND Contig_chr3L_14640 chr3L 20159427 20161416 1989 51 36 B 0.89 CG32223 3' 356 same Contig_chr3L_14641 chr3L 20162495 20162950 455 2 2 C 0.8 CG7385 5' 57958 ND Contig_chr3L_1466 chr3L 2150093 2150287 194 2 2 B 0.93 zormin 5' 4 ND Y Contig_chr3L_14668 chr3L 20190816 20191589 773 10 9 D Contig_chr3L_14673 chr3L 20228805 20228985 180 20 20 B Contig_chr3L_14682 chr3L 20241252 20241389 137 3 3 D Contig_chr3L_14736 chr3L 20390875 20391020 145 7 7 B Contig_chr3L_14737 chr3L 20391153 20391833 680 32 30 B 0.87 trbl internal 0 mixed Contig_chr3L_14741 chr3L 20397021 20399455 2434 68 30 B 0.79 CG33969 5' 10373 mixed Contig_chr3L_14742 chr3L 20399590 20400170 580 22 22 C Contig_chr3L_14763 chr3L 20462744 20463512 768 33 31 B CG32428 3' Y MIP06984 310 Contig_chr3L_14971 chr3L 20725707 20726047 340 36 36 B Contig_chr3L_151 chr3L 187217 188234 1017 62 53 B 0.77 CG7028 3' 19650 same Contig_chr3L_153 chr3L 207500 207722 222 33 33 B 0.75 Mtch 3' 21183 mixed IP20593 27 N Contig_chr3L_15448 chr3L 21417257 21417437 180 3 3 B 0.87 CG6014 3' 79 mixed Y Y Contig_chr3L_15490 chr3L 21489034 21489218 184 6 6 D Contig_chr3L_16064 chr3L 22299017 22300129 1112 40 27 B 0.98 Ten-m internal 0 same Y Contig_chr3L_16065 chr3L 22300185 22300490 305 7 7 D Contig_chr3L_16068 chr3L 22309825 22320330 10505 500 76 B 0.93 Ten-m internal 0 same Y Contig_chr3L_16069 chr3L 22320418 22322508 2090 86 44 B 0.91 Ten-m internal 0 same N Contig_chr3L_16070 chr3L 22322522 22322857 335 9 9 B 0.93 Ten-m internal 0 same N Contig_chr3L_16071 chr3L 22323809 22324294 485 33 32 B 0.91 Ten-m internal 0 same N Contig_chr3L_16072 chr3L 22324443 22325055 612 27 23 B 0.92 Ten-m internal 0 same Contig_chr3L_16073 chr3L 22325144 22329676 4532 183 54 B 0.96 Ten-m internal 0 same Y Contig_chr3L_16074 chr3L 22329768 22333015 3247 184 54 B 0.97 Ten-m internal 0 same Contig_chr3L_16075 chr3L 22333109 22333441 332 27 27 B 0.88 Ten-m internal 0 same Y Contig_chr3L_16087 chr3L 22363469 22363680 211 33 33 B 0.88 Ten-m internal 0 same Contig_chr3L_16090 chr3L 22366190 22383373 17183 748 100 B 0.96 Ten-m internal 0 mixed Y Contig_chr3L_16091 chr3L 22383500 22386157 2657 111 46 B 0.93 Ten-m internal 0 same Contig_chr3L_16092 chr3L 22386251 22388642 2391 141 57 B 0.92 Ten-m internal 0 same N Contig_chr3L_16093 chr3L 22388854 22392755 3901 189 55 B 0.95 Ten-m internal 0 same Y Contig_chr3L_16094 chr3L 22392773 22396989 4216 196 61 B 0.91 Ten-m internal 0 same Contig_chr3L_16095 chr3L 22397124 22399573 2449 134 51 B 0.77 Ten-m internal 0 same Contig_chr3L_16411 chr3L 22792682 22792903 221 3 3 D Contig_chr3L_16449 chr3L 22863634 22863938 304 12 12 B Contig_chr3L_16471 chr3L 22903682 22904613 931 28 27 B 0.92 CG12768 internal 0 same Y Contig_chr3L_1667 chr3L 2417890 2418431 541 45 45 B 0.78 CG32306 internal 0 same MIP13274 380 Y Contig_chr3L_167 chr3L 292210 292657 447 14 13 B Contig_chr3L_16789 chr3L 23530615 23530760 145 2 2 C Contig_chr3L_16871 chr3L 23671795 23672127 332 44 44 B Contig_chr3L_16910 chr3L 23723148 23723402 254 9 9 B Contig_chr3L_16994 chr3L 23864503 23864685 182 2 2 C Contig_chr3L_1709 chr3L 2465609 2465944 335 7 7 B CG32306 internal 0 RE17641 335 Contig_chr3L_17147 chr3L 24275088 24275378 290 2 2 C Contig_chr3L_17148 chr3L 24275673 24275989 316 3 3 C Contig_chr3L_1737 chr3L 2489277 2489777 500 34 32 B 0.89 CG1146 internal 0 same N Contig_chr3L_1748 chr3L 2510621 2510993 372 5 5 B Contig_chr3L_177 chr3L 305473 306125 652 46 39 B 0.76 fwd 3' 82 same Y Y Contig_chr3L_1785 chr3L 2554945 2555599 654 5 4 D Contig_chr3L_1792 chr3L 2564894 2565470 576 31 26 B Contig_chr3L_1812 chr3L 2586073 2586250 177 6 6 D Contig_chr3L_1813 chr3L 2589685 2589950 265 12 12 B 0.78 dos internal 0 ND Y Contig_chr3L_1814 chr3L 2591739 2591923 184 2 2 C Contig_chr3L_1818 chr3L 2608947 2609721 774 13 12 B 0.88 Pxn internal 0 same Y Contig_chr3L_1952 chr3L 2786060 2786453 393 26 26 B 0.79 CG2083 3' 1669 mixed Contig_chr3L_1975 chr3L 2820764 2821550 786 59 49 B 0.81 CG2083 5' 20634 same Y Contig_chr3L_199 chr3L 345951 346325 374 28 28 B Contig_chr3L_2 chr3L 22352 22729 377 5 5 B 0.8 mthl8 5' 218 ND Y Contig_chr3L_2055 chr3L 2871831 2872367 536 15 13 B 0.84 CG2083 5' 71701 ND N Contig_chr3L_2056 chr3L 2872466 2873130 664 42 35 B 0.77 CG2083 5' 72336 ND MIP08562 75 Contig_chr3L_2064 chr3L 2878336 2879167 831 37 32 B 0.82 CG2083 5' 78206 ND MIP08562 606 Contig_chr3L_2192 chr3L 3088799 3090389 1590 69 55 B Contig_chr3L_2208 chr3L 3114547 3115241 694 11 10 B 0.91 prominin-like 3' 94 same GM06505 682 Y Y Contig_chr3L_2211 chr3L 3117562 3117707 145 4 4 B 0.79 prominin-like internal 0 same Y Contig_chr3L_2218 chr3L 3127489 3127627 138 4 4 B 0.92 prominin-like internal 0 same Y Contig_chr3L_2235 chr3L 3154849 3155546 697 57 55 B Contig_chr3L_2242 chr3L 3225581 3225890 309 54 54 B 0.79 CG11505 internal 0 same Y Y Contig_chr3L_2244 chr3L 3232561 3235809 3248 24 16 B Contig_chr3L_2265 chr3L 3249527 3250998 1471 71 46 B Contig_chr3L_2312 chr3L 3313495 3313910 415 3 3 C Contig_chr3L_2315 chr3L 3336846 3336975 129 1 1 D Contig_chr3L_2336 chr3L 3370588 3371085 497 29 24 B Contig_chr3L_2345 chr3L 3387221 3387481 260 26 26 B Contig_chr3L_2372 chr3L 3411722 3412289 567 38 37 B 0.88 eIF5B 3' 16365 same Contig_chr3L_2373 chr3L 3412381 3412998 617 38 33 B 0.87 eIF5B 3' 15656 mixed Contig_chr3L_2374 chr3L 3413091 3413820 729 33 29 B 0.89 eIF5B 3' 14834 same Contig_chr3L_2375 chr3L 3414055 3414791 736 62 49 B 0.82 sty internal 0 same Contig_chr3L_2376 chr3L 3414890 3415798 908 59 50 B 0.78 sty internal 0 same Contig_chr3L_2377 chr3L 3415892 3416209 317 22 22 B 0.87 eIF5B 3' 12445 same Contig_chr3L_2378 chr3L 3416512 3416686 174 1 1 D Contig_chr3L_2476 chr3L 3508765 3509725 960 36 23 B 0.98 CG42324 3' 232 same Y Contig_chr3L_2477 chr3L 3509822 3510857 1035 39 30 B 0.95 CG42324 3' 1289 same Y Contig_chr3L_2527 chr3L 3553047 3553978 931 46 35 B 0.88 Eip63E internal 0 same Y Contig_chr3L_2528 chr3L 3554055 3555904 1849 134 55 B 0.86 Eip63E internal 0 mixed Y Contig_chr3L_2529 chr3L 3555995 3558306 2311 163 60 B 0.89 Eip63E internal 0 mixed Contig_chr3L_255 chr3L 448148 448289 141 1 1 D Contig_chr3L_258 chr3L 451859 452641 782 24 24 B 0.77 klar internal 0 same Y Contig_chr3L_259 chr3L 453711 454004 293 6 6 B 0.82 klar internal 0 same Y Contig_chr3L_265 chr3L 458127 458387 260 13 13 B 0.77 klar internal 0 same Contig_chr3L_266 chr3L 458514 458940 426 22 22 B 0.86 klar internal 0 same Contig_chr3L_2725 chr3L 3758362 3759210 848 46 43 B CG32264 internal 0 MIP17622 166 Contig_chr3L_2981 chr3L 4118565 4121793 3228 133 59 B 0.81 Chd64 internal 0 mixed Y Contig_chr3L_2982 chr3L 4123065 4123522 457 8 8 B Contig_chr3L_3018 chr3L 4193928 4194272 344 18 18 B 0.83 CG1308 5' 13 same MIP13930 160 Y Y Contig_chr3L_3030 chr3L 4224038 4224262 224 43 43 B 0.83 ImpL2 3' 437 same Y Contig_chr3L_3032 chr3L 4226249 4226428 179 2 2 D Contig_chr3L_3075 chr3L 4322477 4323206 729 16 13 B 0.82 Cip4 3' 314 same MIP16046 534 Y Y Contig_chr3L_3163 chr3L 4422703 4422840 137 2 2 B Contig_chr3L_323 chr3L 527369 527624 255 28 28 B Contig_chr3L_325 chr3L 529029 529351 322 15 15 B 0.83 klar internal 0 same Y Contig_chr3L_326 chr3L 529491 529715 224 10 10 C 0.75 klar internal 0 same Contig_chr3L_3277 chr3L 4592518 4594491 1973 94 57 B 0.84 Src64B 3' 23 same GM03914 1011 Y Y Contig_chr3L_329 chr3L 531525 533617 2092 43 23 B 0.81 klar internal 0 same Contig_chr3L_330 chr3L 533741 537387 3646 104 34 B 0.81 klar internal 0 mixed Y Contig_chr3L_331 chr3L 537484 538419 935 31 24 B 0.81 klar internal 0 same Contig_chr3L_335 chr3L 548309 549224 915 52 40 B 0.78 CG17180 3' 6162 mixed Contig_chr3L_336 chr3L 549318 551053 1735 61 34 B 0.75 klar 5' 8729 mixed Contig_chr3L_337 chr3L 551234 552084 850 38 38 B 0.8 CG17180 3' 9087 ND Contig_chr3L_344 chr3L 572684 572903 219 12 12 B Contig_chr3L_345 chr3L 576109 577260 1151 6 5 B 0.93 CG17090 3' 44 mixed Y Y Contig_chr3L_3491 chr3L 4786674 4787170 496 3 3 C 0.85 Gef64C internal 0 ND Contig_chr3L_3492 chr3L 4787252 4788722 1470 27 22 B 0.82 Gef64C internal 0 ND Contig_chr3L_3758 chr3L 5150694 5152035 1341 59 52 B Contig_chr3L_3759 chr3L 5152122 5152603 481 14 14 B Contig_chr3L_376 chr3L 622011 622351 340 4 4 C new gene SD03580 299 Contig_chr3L_3760 chr3L 5152759 5153380 621 12 11 B Contig_chr3L_3762 chr3L 5157163 5157345 182 7 7 B Contig_chr3L_3774 chr3L 5167196 5168081 885 50 45 B Contig_chr3L_3775 chr3L 5168352 5168897 545 8 8 B Contig_chr3L_3776 chr3L 5169073 5169759 686 18 18 B 0.76 Aats-ala-m 3' 26119 same Contig_chr3L_3777 chr3L 5169932 5170262 330 8 8 B Contig_chr3L_386 chr3L 629663 633278 3615 157 55 B Contig_chr3L_3862 chr3L 5240947 5241280 333 11 11 B 0.91 shep internal 0 same Y Contig_chr3L_390 chr3L 639589 641818 2229 101 53 B Contig_chr3L_3964 chr3L 5350123 5350300 177 3 3 D Contig_chr3L_402 chr3L 649557 649858 301 7 7 B 0.76 CG12030 internal 0 same Y Y Contig_chr3L_405 chr3L 659166 660167 1001 6 5 B 0.81 MED30 5' 4968 ND Contig_chr3L_406 chr3L 660396 661073 677 12 12 B 0.77 CG12030 3' 9083 ND Contig_chr3L_407 chr3L 661164 661776 612 8 8 B 0.75 CG12030 3' 9851 ND Contig_chr3L_4261 chr3L 5769006 5769276 270 4 4 B 0.83 Usp36 3' 58 same Y Y Contig_chr3L_4274 chr3L 5800585 5800884 299 11 11 B 0.82 S6k internal 0 same Y Contig_chr3L_4561 chr3L 6255165 6255470 305 4 4 B Contig_chr3L_491 chr3L 750703 750961 258 54 54 B 0.9 emc internal 0 same Contig_chr3L_4910 chr3L 6611394 6611770 376 9 9 B 0.91 CG8398 3' 109 same Y Y Contig_chr3L_4911 chr3L 6611862 6612198 336 19 19 B 0.85 CG8398 3' 577 ND Y Contig_chr3L_499 chr3L 755980 756477 497 48 48 B Contig_chr3L_504 chr3L 758760 760152 1392 45 38 B Contig_chr3L_506 chr3L 760670 761218 548 12 12 C Contig_chr3L_507 chr3L 761318 764957 3639 93 49 B Contig_chr3L_508 chr3L 765042 766524 1482 20 14 B Contig_chr3L_509 chr3L 766615 767988 1373 18 13 B Contig_chr3L_5113 chr3L 6846214 6846394 180 7 7 B Contig_chr3L_5201 chr3L 6944651 6944873 222 7 7 B 0.81 CG10077 internal 0 same Y Contig_chr3L_5209 chr3L 6968919 6969458 539 23 23 B 0.78 G-ialpha65A internal 0 same Contig_chr3L_522 chr3L 778418 779503 1085 59 54 B Contig_chr3L_541 chr3L 794751 797116 2365 38 20 B new gene SD01284 198 Contig_chr3L_542 chr3L 797198 797417 219 4 4 C new gene SD01284 219 Contig_chr3L_545 chr3L 802532 802839 307 13 13 B Contig_chr3L_546 chr3L 802929 803305 376 5 5 C Contig_chr3L_551 chr3L 808608 810032 1424 37 29 B Contig_chr3L_567 chr3L 830626 830804 178 2 2 B Contig_chr3L_569 chr3L 838896 839116 220 9 9 B CG13887 internal 0 MIP02562 13 Contig_chr3L_5735 chr3L 7779313 7779569 256 16 16 B Contig_chr3L_5746 chr3L 7786535 7786840 305 37 37 B 0.82 CG32369 internal 0 same Contig_chr3L_5758 chr3L 7802145 7802325 180 12 12 B new gene RE24931 180 Contig_chr3L_5759 chr3L 7802417 7802764 347 51 51 B 0.94 CG32369 5' 4911 same RE24931 347 Contig_chr3L_5788 chr3L 7833366 7833544 178 10 10 B Contig_chr3L_5804 chr3L 7847419 7847712 293 15 15 B 0.91 Pdp1 internal 0 same Y Y Contig_chr3L_5805 chr3L 7847844 7848149 305 53 53 B 0.76 Pdp1 internal 0 same Y Y Contig_chr3L_5833 chr3L 7868887 7869106 219 2 2 B Contig_chr3L_5834 chr3L 7869284 7869757 473 7 7 B Contig_chr3L_5837 chr3L 7871698 7872140 442 3 3 B Contig_chr3L_588 chr3L 893643 893932 289 35 35 B Contig_chr3L_589 chr3L 894021 894364 343 46 46 B Contig_chr3L_590 chr3L 894468 895429 961 55 54 B Contig_chr3L_5990 chr3L 8056855 8057117 262 4 4 C Contig_chr3L_6027 chr3L 8100163 8101281 1118 9 9 B 0.95 Ect4 internal 0 same Y Contig_chr3L_6156 chr3L 8339652 8340234 582 19 16 B new gene IP18247 582 Contig_chr3L_6192 chr3L 8414465 8414892 427 28 28 B 0.78 Cpr66Cb 3' 82766 mixed N Contig_chr3L_6200 chr3L 8431886 8432703 817 70 57 B 0.76 Unr 5' 100 same Y Y Contig_chr3L_6201 chr3L 8432954 8433143 189 50 50 B 0.84 CR32028 3' 18 same Y Y Contig_chr3L_6212 chr3L 8444141 8444318 177 8 8 B Contig_chr3L_6249 chr3L 8523326 8523502 176 7 7 B Contig_chr3L_6261 chr3L 8539897 8540411 514 53 48 B Contig_chr3L_6272 chr3L 8562224 8562950 726 57 42 B Contig_chr3L_6273 chr3L 8563079 8563337 258 6 6 B 0.76 rhea internal 0 same Contig_chr3L_6341 chr3L 8669505 8670196 691 15 14 B 0.9 h internal 0 same Y Contig_chr3L_6361 chr3L 8687670 8687934 264 3 3 C Contig_chr3L_6535 chr3L 8883426 8883649 223 1 1 D dally 3' 157 RH21780 223 Contig_chr3L_6644 chr3L 9060360 9062421 2061 79 57 B Contig_chr3L_6886 chr3L 9400737 9401211 474 25 19 B 0.78 CG4022 3' 61 same Y Y Contig_chr3L_7027 chr3L 9667885 9668883 998 65 52 B 0.82 fry internal 0 same Y Contig_chr3L_710 chr3L 1008716 1009084 368 13 13 B Contig_chr3L_7139 chr3L 9859488 9860254 766 15 15 B Contig_chr3L_7654 chr3L 10509536 10510844 1308 77 46 B 0.86 CG32062 internal 0 same Contig_chr3L_7817 chr3L 10669670 10670269 599 34 31 B Contig_chr3L_7831 chr3L 10679875 10680058 183 11 11 B Contig_chr3L_7999 chr3L 10867802 10867967 165 52 52 B 0.84 tna 3' 40 same Y Y Contig_chr3L_8223 chr3L 11173803 11174503 700 23 21 B 0.88 GlcAT-P internal 0 same Y Contig_chr3L_8224 chr3L 11174644 11175064 420 4 4 B 0.87 GlcAT-P internal 0 same Contig_chr3L_8230 chr3L 11180312 11180574 262 10 10 B Contig_chr3L_8236 chr3L 11184027 11185753 1726 13 13 B 0.86 GlcAT-P internal 0 same Y Contig_chr3L_8237 chr3L 11185853 11187383 1530 23 18 B 0.89 GlcAT-P internal 0 ND Contig_chr3L_8280 chr3L 11248677 11248963 286 55 55 B Contig_chr3L_8314 chr3L 11277761 11277943 182 25 25 B Contig_chr3L_8315 chr3L 11278181 11278312 131 6 6 C Contig_chr3L_8325 chr3L 11288056 11288201 145 10 10 B Contig_chr3L_8348 chr3L 11309795 11309937 142 2 2 C Contig_chr3L_8511 chr3L 11490717 11491478 761 58 48 B 0.91 chrb 3' 288 same GH09771 761 Y Y Contig_chr3L_8512 chr3L 11491547 11492110 563 48 48 B 0.88 chrb 3' 1118 same Y Y Contig_chr3L_8535 chr3L 11546235 11546369 134 37 37 B Contig_chr3L_8540 chr3L 11549945 11550508 563 22 22 B Contig_chr3L_8613 chr3L 11701226 11701374 148 3 3 D Contig_chr3L_8672 chr3L 11819842 11820028 186 1 1 D Contig_chr3L_9072 chr3L 12395751 12396280 529 13 13 B 0.75 CG32103 3' 325 same MIP06986 432 Y Contig_chr3L_9138 chr3L 12513273 12514059 786 55 40 B Contig_chr3L_976 chr3L 1350064 1350248 184 2 2 D Contig_chr3L_9838 chr3L 13487640 13488442 802 52 50 B 0.95 CG10741 internal 0 same Y Y Contig_chr3L_9839 chr3L 13488529 13488667 138 7 7 D Contig_chr3L_9840 chr3L 13489389 13491609 2220 88 44 B 0.92 CG10741 internal 0 same Y Y Contig_chr3L_9841 chr3L 13491847 13492387 540 24 24 B 0.82 CG10741 internal 0 same Contig_chr3L_9842 chr3L 13492482 13493855 1373 100 57 B 0.93 CG10741 internal 0 same Y Contig_chr3R_100 chr3R 229846 230108 262 11 11 D Contig_chr3R_10000 chr3R 14018328 14018720 392 53 53 B Ssdp 3' 1862 GM01352 335 Contig_chr3R_10001 chr3R 14019047 14020520 1473 51 39 B 0.76 Ssdp 3' 62 same GM01352 1221 Y Y Contig_chr3R_10032 chr3R 14071695 14071881 186 14 14 B Contig_chr3R_10034 chr3R 14075162 14075395 233 54 54 B Contig_chr3R_10035 chr3R 14075495 14075789 294 55 55 B Contig_chr3R_10057 chr3R 14108209 14108650 441 28 28 B Contig_chr3R_10110 chr3R 14232184 14232329 145 2 2 D Contig_chr3R_10115 chr3R 14240728 14241107 379 34 34 B 0.92 fru 3' 1208 same Contig_chr3R_10129 chr3R 14254655 14254799 144 19 19 B 0.82 fru internal 0 same Contig_chr3R_10155 chr3R 14285338 14285480 142 38 38 B Contig_chr3R_10545 chr3R 14745632 14745773 141 3 3 D Contig_chr3R_10546 chr3R 14747177 14747753 576 27 22 B 0.91 CG17836 internal 0 same Y Contig_chr3R_10547 chr3R 14748033 14749638 1605 53 31 B 0.89 CG17836 internal 0 same Y Contig_chr3R_10548 chr3R 14749959 14750189 230 2 2 C 0.85 CG17836 internal 0 same Y Contig_chr3R_10549 chr3R 14750278 14750576 298 37 37 B Contig_chr3R_10793 chr3R 15043129 15043425 296 2 2 B 0.82 vib 3' 41 same MIP08680 296 Y Y Contig_chr3R_10802 chr3R 15051484 15051627 143 5 5 C Contig_chr3R_1116 chr3R 1827718 1828807 1089 114 57 B Rm62 internal 0 GH06343 654 Contig_chr3R_1117 chr3R 1828900 1829116 216 1 1 D Contig_chr3R_11268 chr3R 15640192 15640573 381 2 2 B 0.91 bnl internal 0 same Contig_chr3R_11274 chr3R 15644829 15648990 4161 34 19 B 0.95 bnl internal 0 same Y Contig_chr3R_11275 chr3R 15649156 15649944 788 5 5 B 0.92 bnl internal 0 ND Contig_chr3R_11278 chr3R 15651489 15651633 144 11 11 B Contig_chr3R_11279 chr3R 15651960 15652420 460 16 16 B 0.88 bnl internal 0 ND Contig_chr3R_11280 chr3R 15652744 15652963 219 2 2 B 0.89 bnl internal 0 ND Contig_chr3R_11289 chr3R 15659465 15660101 636 6 6 B 0.83 bnl internal 0 mixed Contig_chr3R_11463 chr3R 15933849 15935087 1238 14 11 C 0.87 CG10887 5' 5574 ND Contig_chr3R_11555 chr3R 16078580 16079615 1035 3 3 D Contig_chr3R_11584 chr3R 16113361 16113928 567 8 8 B Contig_chr3R_11592 chr3R 16135078 16135374 296 5 5 D 0 RE22568 111 short stalled product of CG15684 Contig_chr3R_11789 chr3R 16361046 16361234 188 1 1 D MtnD 3' 507 IP02490 188 Contig_chr3R_11884 chr3R 16543789 16543926 137 20 20 B 0.78 H 3' 89152 ND Contig_chr3R_11911 chr3R 16583020 16584012 992 54 50 B 0.94 CG31195 3' 157 same Y MIP05539 992 Y Y Contig_chr3R_11930 chr3R 16608536 16608675 139 2 2 D Contig_chr3R_11944 chr3R 16624506 16625627 1121 37 23 B 0.92 CG17838 internal 0 same Y Y Contig_chr3R_11948 chr3R 16632515 16633707 1192 2 2 C 0.96 CG17838 3' 552 same Y Y Contig_chr3R_11949 chr3R 16633799 16633942 143 38 38 B 0.93 CG17838 3' 1836 same Y Y Contig_chr3R_11950 chr3R 16634211 16635447 1236 68 43 B 0.88 CG17838 3' 2248 mixed Y Y Contig_chr3R_12020 chr3R 16753366 16753975 609 19 17 B 0.8 CG5630 internal 0 same Y Y Contig_chr3R_12021 chr3R 16754118 16754375 257 5 5 B 0.81 CG5630 internal 0 same Y Contig_chr3R_12170 chr3R 17014714 17021298 6584 365 66 B 0.75 SNF4Agamma internal 0 same Y Y Contig_chr3R_12175 chr3R 17025555 17026099 544 26 26 B 0.77 SNF4Agamma internal 0 same Y Y Contig_chr3R_12188 chr3R 17038455 17038790 335 11 11 B Contig_chr3R_12276 chr3R 17199985 17200649 664 27 25 B Contig_chr3R_12374 chr3R 17328982 17329282 300 16 16 B 0.88 C15 internal 0 ND Contig_chr3R_12381 chr3R 17334249 17335443 1194 7 7 B 0.95 C15 internal 0 ND Contig_chr3R_12431 chr3R 17396701 17396962 261 52 52 B 0.89 InR 3' 1259 same Y Contig_chr3R_12432 chr3R 17397054 17397890 836 47 34 B 0.91 InR 3' 331 same Y Contig_chr3R_12433 chr3R 17398020 17398199 179 2 2 C 0.87 InR 3' 22 same Y Contig_chr3R_12635 chr3R 17638927 17639155 228 51 51 B Contig_chr3R_12644 chr3R 17645037 17645255 218 2 2 D Contig_chr3R_12667 chr3R 17676462 17676598 136 3 3 B 0.85 glec 3' 29 same RE22307 136 Y Y Contig_chr3R_12683 chr3R 17696883 17697369 486 7 7 B 0.95 CG31431 internal 0 same MIP21433 86 Y Y Contig_chr3R_12777 chr3R 17798068 17798596 528 20 19 B 0.96 Eip93F internal 0 same Contig_chr3R_12782 chr3R 17801031 17801302 271 4 4 C 0.95 Eip93F internal 0 same Y Y Contig_chr3R_13102 chr3R 18144803 18144947 144 1 1 D Contig_chr3R_13155 chr3R 18248719 18248936 217 1 1 D Contig_chr3R_13354 chr3R 18536624 18536921 297 55 55 B Contig_chr3R_13359 chr3R 18546438 18546965 527 55 55 B 0.77 Dcr-1 3' 12762 same LP24488 388 N Contig_chr3R_13367 chr3R 18580210 18580760 550 4 4 B 0.93 CG7029 internal 0 same Y Contig_chr3R_1349 chr3R 2177170 2177761 591 25 25 B Contig_chr3R_13645 chr3R 18882143 18882926 783 15 13 C 0.89 p53 5' 2339 mixed Contig_chr3R_13659 chr3R 18905277 18905839 562 2 2 C Contig_chr3R_13711 chr3R 18980795 18981464 669 40 39 B Contig_chr3R_13719 chr3R 18995540 18995794 254 11 11 B 0.86 CG13836 5' 32 same Y Y Contig_chr3R_13726 chr3R 18999262 19000603 1341 64 52 B 0.76 Ir 5' 3736 same Y Contig_chr3R_13727 chr3R 19000703 19001151 448 4 4 C Contig_chr3R_13784 chr3R 19085059 19085346 287 4 4 B Contig_chr3R_13806 chr3R 19115995 19116801 806 21 20 B 0.8 pnt 3' 25 same SD26148 135 Y Y Contig_chr3R_13818 chr3R 19133542 19134029 487 55 54 B 0.84 pnt internal 0 same Y Contig_chr3R_13829 chr3R 19154537 19158458 3921 142 47 B 0.9 pnt internal 0 mixed Contig_chr3R_13830 chr3R 19158585 19158801 216 35 35 B 0.9 pnt internal 0 mixed Contig_chr3R_13831 chr3R 19159111 19159258 147 7 7 B 0.77 pnt internal 0 mixed Contig_chr3R_13832 chr3R 19159415 19159758 343 29 29 B 0.93 pnt internal 0 same Contig_chr3R_13833 chr3R 19159928 19160509 581 32 26 B 0.9 pnt internal 0 same Contig_chr3R_13834 chr3R 19160602 19161015 413 17 17 B 0.95 pnt internal 0 same Contig_chr3R_13836 chr3R 19161533 19162578 1045 55 36 B 0.91 pnt internal 0 same Contig_chr3R_13837 chr3R 19162663 19163519 856 18 13 B 0.94 pnt internal 0 same Y Contig_chr3R_141 chr3R 304054 304275 221 22 22 B Contig_chr3R_14301 chr3R 19785475 19786516 1041 22 19 B Contig_chr3R_14318 chr3R 19810298 19810821 523 19 19 B Contig_chr3R_14339 chr3R 19844816 19845028 212 9 9 B Contig_chr3R_14389 chr3R 19928040 19928653 613 9 8 B 4EHP internal 0 MIP18429 107 Contig_chr3R_14390 chr3R 19928748 19928936 188 2 2 C Contig_chr3R_14443 chr3R 20089418 20089966 548 3 3 B Contig_chr3R_14453 chr3R 20101046 20101162 116 2 2 D Contig_chr3R_14478 chr3R 20133238 20133461 223 21 21 B Contig_chr3R_14639 chr3R 20383644 20383791 147 3 3 B Contig_chr3R_14641 chr3R 20384701 20384998 297 15 15 B 0.9 CG13624 3' 4 same Y Y Contig_chr3R_14672 chr3R 20419406 20419662 256 10 10 B 0.8 ash2 5' 56107 same Contig_chr3R_14673 chr3R 20419715 20420404 689 55 48 B 0.77 ash2 5' 55365 same Contig_chr3R_14678 chr3R 20427581 20427838 257 4 4 B Contig_chr3R_14680 chr3R 20428491 20430099 1608 71 45 B 0.76 mld internal 0 same Contig_chr3R_14690 chr3R 20440151 20441322 1171 13 11 B 0.82 mld internal 0 same Y Contig_chr3R_14698 chr3R 20460975 20462004 1029 67 48 B 0.78 CG13625 5' 50120 mixed N Contig_chr3R_14793 chr3R 20596057 20596817 760 55 51 B 0.93 CG13631 3' 207 same Y Contig_chr3R_14858 chr3R 20745828 20746004 176 3 3 B CG11168 internal 0 LD23637 176 Contig_chr3R_14975 chr3R 20976932 20977076 144 1 1 D Contig_chr3R_15032 chr3R 21072680 21072938 258 13 13 B Contig_chr3R_15207 chr3R 21344275 21344541 266 7 7 B 0.87 msi internal 0 same Y Contig_chr3R_15282 chr3R 21428217 21428535 318 9 9 B 0.88 msi 3' 74 same Y Y Contig_chr3R_15283 chr3R 21428865 21429257 392 37 37 B 0.78 msi 3' 722 same Contig_chr3R_15284 chr3R 21429323 21430099 776 58 46 B 0.81 msi 3' 1180 same Y Y Contig_chr3R_15312 chr3R 21464272 21464410 138 1 1 D Contig_chr3R_15314 chr3R 21464871 21465509 638 24 24 B 0.86 jigr1 internal 0 ND Y Y Contig_chr3R_15315 chr3R 21465715 21466375 660 19 16 B 0.88 jigr1 internal 0 ND Y Contig_chr3R_15621 chr3R 21910327 21910602 275 4 4 B 0.79 dys internal 0 same Y Contig_chr3R_15622 chr3R 21912784 21912923 139 4 4 C Contig_chr3R_15725 chr3R 22059093 22060536 1443 81 49 B 0.97 CG12290 3' 23 same Y Y Contig_chr3R_15908 chr3R 22266449 22266981 532 11 11 B 0.84 dei 5' 68 same Y Y Contig_chr3R_15960 chr3R 22325193 22325407 214 5 5 B Contig_chr3R_15989 chr3R 22362517 22363017 500 44 42 B Contig_chr3R_16047 chr3R 22424547 22424695 148 1 1 D Contig_chr3R_16050 chr3R 22428939 22429164 225 10 10 B 0.88 CG5467 internal 0 same Y Y Y Contig_chr3R_16292 chr3R 22694704 22694920 216 22 22 B Contig_chr3R_16372 chr3R 22775473 22775834 361 26 26 B 0.77 CG6330 3' 11 same RH29536 361 Y Y Contig_chr3R_16380 chr3R 22787203 22787423 220 10 10 B Contig_chr3R_16383 chr3R 22792687 22792829 142 2 2 D CG5521 internal 0 IP14290 142 Contig_chr3R_16777 chr3R 23387923 23390443 2520 101 59 B Contig_chr3R_16790 chr3R 23407239 23407382 143 1 1 D Contig_chr3R_17153 chr3R 23860758 23860902 144 2 2 C Contig_chr3R_17380 chr3R 24088450 24089109 659 10 9 B Contig_chr3R_17440 chr3R 24153523 24153783 260 11 11 B Contig_chr3R_1769 chr3R 2728834 2729264 430 2 2 B 0.97 Antp internal 0 ND MIP01437 100 N Contig_chr3R_1771 chr3R 2729764 2730180 416 7 7 B 0.82 Antp internal 0 ND MIP01437 392 N Contig_chr3R_1772 chr3R 2730274 2731269 995 27 23 B 0.92 Antp internal 0 ND MIP01437 130 N Contig_chr3R_1774 chr3R 2731692 2732063 371 2 2 D Contig_chr3R_1775 chr3R 2732237 2732455 218 3 3 D Contig_chr3R_17866 chr3R 24670381 24670527 146 3 3 C 0.82 Apc 5' 9 same Y Y Contig_chr3R_17880 chr3R 24679260 24679825 565 47 47 B 0.95 inx3 3' 12 same Y Y Contig_chr3R_17889 chr3R 24695496 24695905 409 16 16 B 0.92 CG31048 3' 156 same Y Y Contig_chr3R_17892 chr3R 24715901 24716119 218 3 3 B Contig_chr3R_17894 chr3R 24717798 24718290 492 17 17 B 0.86 Doa internal 0 same Y Contig_chr3R_17895 chr3R 24718426 24718842 416 18 18 B 0.81 Doa internal 0 same Y Contig_chr3R_17904 chr3R 24736925 24738111 1186 33 30 B 0.89 Doa internal 0 same MIP16990 1186 Y Contig_chr3R_17905 chr3R 24738238 24738384 146 1 1 D Doa internal 0 MIP16990 21 Contig_chr3R_17908 chr3R 24741138 24741506 368 10 10 B 0.91 Doa internal 0 same Y Contig_chr3R_17909 chr3R 24741654 24742139 485 22 22 B 0.88 Doa internal 0 same Y Contig_chr3R_17910 chr3R 24744720 24744855 135 29 29 B 0.87 Doa internal 0 same Y Contig_chr3R_17911 chr3R 24744929 24745143 214 6 6 B Contig_chr3R_1801 chr3R 2755948 2756291 343 7 7 B 0.78 Antp internal 0 ND Y Contig_chr3R_18065 chr3R 24932650 24933276 626 14 13 B 0.9 CG11873 3' 226 same Y Contig_chr3R_18116 chr3R 25040279 25041249 970 59 51 B CG31044 internal 0 MIP12403 166 Contig_chr3R_18117 chr3R 25041411 25042548 1137 69 44 B Contig_chr3R_18125 chr3R 25080238 25080531 293 13 13 B 0.76 stg internal 0 ND Y Contig_chr3R_18483 chr3R 25375484 25375631 147 5 5 B Contig_chr3R_18629 chr3R 25579491 25579747 256 27 27 B 0.92 CG1973 3' 162 same Y Y Contig_chr3R_18630 chr3R 25579878 25580101 223 12 12 B 0.81 CG1973 3' 549 mixed Y Contig_chr3R_18657 chr3R 25609869 25612039 2170 104 47 B 0.88 kay internal 0 mixed Y Contig_chr3R_18658 chr3R 25612136 25614016 1880 100 40 B 0.87 kay internal 0 same Contig_chr3R_18660 chr3R 25614621 25614928 307 55 55 B 0.79 kay internal 0 same Y Contig_chr3R_18661 chr3R 25615022 25615654 632 16 15 B 0.89 kay internal 0 same Y Y Contig_chr3R_18757 chr3R 25843751 25843936 185 4 4 B Contig_chr3R_18819 chr3R 25938618 25939274 656 56 55 B Contig_chr3R_18874 chr3R 26026515 26026975 460 8 8 B Contig_chr3R_18911 chr3R 26073410 26073623 213 2 2 C 0.86 CG9733 5' 985 ND Contig_chr3R_18914 chr3R 26075812 26075949 137 1 1 D Contig_chr3R_18940 chr3R 26106173 26107408 1235 64 37 B 0.86 hdc internal 0 mixed Contig_chr3R_18941 chr3R 26107498 26107786 288 20 20 B 0.83 hdc internal 0 same Contig_chr3R_18961 chr3R 26139171 26140224 1053 53 34 B Contig_chr3R_18962 chr3R 26140455 26141175 720 53 45 B Contig_chr3R_18963 chr3R 26141462 26143086 1624 74 47 B 0.78 hdc internal 0 mixed Contig_chr3R_18987 chr3R 26188008 26188981 973 62 53 B 0.84 hdc 3' 117 same Y Y Contig_chr3R_18988 chr3R 26189077 26192036 2959 111 58 B 0.91 hdc 3' 1186 same Y Contig_chr3R_19133 chr3R 26400269 26400563 294 7 7 B tmod internal 0 LD07593 294 Contig_chr3R_1927 chr3R 2900964 2901153 189 8 8 C Contig_chr3R_1928 chr3R 2901243 2902409 1166 41 27 B Contig_chr3R_19289 chr3R 26592320 26593517 1197 41 37 B 0.93 zfh1 internal 0 same Y Contig_chr3R_19290 chr3R 26593616 26595681 2065 111 49 B 0.9 zfh1 internal 0 same Y Y Contig_chr3R_19292 chr3R 26596457 26598851 2394 112 50 B 0.91 zfh1 internal 0 same Y Contig_chr3R_19294 chr3R 26600494 26601491 997 72 45 B 0.78 zfh1 internal 0 same Y Contig_chr3R_19295 chr3R 26601576 26603736 2160 128 53 B 0.87 zfh1 internal 0 same Contig_chr3R_19296 chr3R 26603803 26606983 3180 157 52 B 0.82 zfh1 internal 0 mixed Y Contig_chr3R_19299 chr3R 26613496 26614923 1427 27 18 B 0.85 zfh1 3' 597 mixed Y Contig_chr3R_19311 chr3R 26635124 26635388 264 7 7 B 0.84 CG31012 internal 0 ND Y Contig_chr3R_19627 chr3R 27047367 27047972 605 25 22 B 0.86 CG12054 internal 0 mixed Y Contig_chr3R_19741 chr3R 27196500 27196684 184 5 5 C 0.95 CG34347 3' 2 same Y Y Contig_chr3R_19917 chr3R 27425584 27426009 425 38 35 B Contig_chr3R_19918 chr3R 27428811 27428954 143 1 1 D Contig_chr3R_19919 chr3R 27429046 27434902 5856 158 55 B Contig_chr3R_20038 chr3R 27602936 27603852 916 30 28 B 0 RH55725 916 short stalled product of faf Contig_chr3R_20040 chr3R 27614275 27614454 179 15 15 B faf internal 0 MIP20638 72 Contig_chr3R_20042 chr3R 27615854 27616613 759 20 18 B Contig_chr3R_22 chr3R 41432 41587 155 45 45 B Contig_chr3R_2205 chr3R 3300263 3300520 257 11 11 B Contig_chr3R_2610 chr3R 3932016 3932556 540 40 40 B 0.83 puc internal 0 same Y Y Contig_chr3R_2622 chr3R 3954600 3954863 263 21 21 B Contig_chr3R_2805 chr3R 4190481 4190767 286 6 6 B CG42286 3' 46 MIP14348 286 Contig_chr3R_2826 chr3R 4205234 4206110 876 19 14 B 0.94 CG31462 3' 4656 same Contig_chr3R_2827 chr3R 4206203 4207577 1374 69 50 B 0.95 CG31462 3' 3189 mixed Contig_chr3R_2828 chr3R 4207756 4207942 186 17 17 B 0.94 CG31462 3' 2824 same Contig_chr3R_2829 chr3R 4208014 4208196 182 6 6 B 0.95 CG31462 3' 2570 same Contig_chr3R_2830 chr3R 4208295 4210761 2466 70 40 B 0.97 CG31462 3' 5 same Y Contig_chr3R_2917 chr3R 4288845 4288962 117 43 43 B Contig_chr3R_2968 chr3R 4323612 4323761 149 18 18 C Contig_chr3R_3164 chr3R 4642825 4643337 512 55 55 B 0.92 CG9821 3' 26 same LD18978 512 Y Y Contig_chr3R_3165 chr3R 4645159 4645521 362 20 19 B Contig_chr3R_3322 chr3R 4878896 4879204 308 6 6 D Contig_chr3R_3329 chr3R 4893653 4894868 1215 69 55 B 0.84 pum 3' 607 same GM06790 982 Y Y Contig_chr3R_333 chr3R 612296 612437 141 51 51 B Contig_chr3R_3330 chr3R 4894964 4895459 495 10 9 B 0.83 pum 3' 16 same Y Y Contig_chr3R_3333 chr3R 4902352 4903328 976 37 19 B 0.85 pum internal 0 ND Contig_chr3R_334 chr3R 612536 612716 180 20 20 B Contig_chr3R_3344 chr3R 4916352 4916491 139 6 6 C 0.83 pum internal 0 ND Contig_chr3R_3347 chr3R 4923884 4924334 450 39 39 B 0.88 pum internal 0 mixed Y Contig_chr3R_3384 chr3R 4977596 4980349 2753 134 48 B 0.92 pum internal 0 mixed Contig_chr3R_3385 chr3R 4980434 4980799 365 39 39 B 0.77 pum internal 0 same Y Contig_chr3R_3386 chr3R 4980891 4982595 1704 94 50 B 0.85 pum internal 0 same Contig_chr3R_346 chr3R 643739 644003 264 8 8 B 0.76 tacc 5' 68962 same N Contig_chr3R_3552 chr3R 5185216 5185473 257 55 55 B 0.8 CG33936 3' 62 same Y Y Contig_chr3R_3553 chr3R 5185571 5185925 354 53 53 B Contig_chr3R_3554 chr3R 5186020 5187569 1549 60 53 B Contig_chr3R_3555 chr3R 5187807 5188435 628 52 52 B Contig_chr3R_3556 chr3R 5188526 5188726 200 4 4 B Contig_chr3R_3590 chr3R 5244024 5244833 809 34 30 B Contig_chr3R_3591 chr3R 5244934 5245073 139 1 1 D Contig_chr3R_3596 chr3R 5254613 5257556 2943 139 54 B ps internal 0 MIP08390 408 Contig_chr3R_3597 chr3R 5258658 5259148 490 58 50 B 0.8 ps internal 0 same Y Contig_chr3R_3603 chr3R 5264822 5265738 916 69 51 B 0.79 ps internal 0 same Y Contig_chr3R_3604 chr3R 5265823 5266159 336 20 20 B 0.79 ps internal 0 same Contig_chr3R_3609 chr3R 5269356 5269615 259 7 7 B Contig_chr3R_3611 chr3R 5275212 5275821 609 7 6 B 0.9 ps 3' 22 same Y Y Contig_chr3R_3612 chr3R 5275913 5276528 615 57 52 B 0.88 ps 3' 723 same Y Y Contig_chr3R_3613 chr3R 5276816 5277056 240 52 52 B 0.82 ps 3' 1626 same Y Contig_chr3R_3614 chr3R 5277148 5278411 1263 56 53 B 0.87 ps 3' 1958 same Y Contig_chr3R_3656 chr3R 5326546 5327725 1179 48 35 B Contig_chr3R_3682 chr3R 5374087 5374972 885 56 56 B 0 LD20464 885 short stalled product of mura Contig_chr3R_3737 chr3R 5503885 5504024 139 1 1 D Contig_chr3R_3762 chr3R 5586935 5587600 665 27 26 B Contig_chr3R_3770 chr3R 5611291 5611467 176 2 2 B Contig_chr3R_3771 chr3R 5622886 5623180 294 2 2 D Contig_chr3R_3999 chr3R 5894580 5895423 843 32 31 B 0.84 nerfin-2 5' 1474 same Contig_chr3R_4006 chr3R 5908624 5910189 1565 47 39 B Contig_chr3R_4007 chr3R 5910326 5910938 612 38 34 B Contig_chr3R_4010 chr3R 5914565 5915844 1279 51 39 B Contig_chr3R_4036 chr3R 5959334 5959647 313 2 2 D Contig_chr3R_4158 chr3R 6138100 6138353 253 4 4 D Contig_chr3R_417 chr3R 736814 740539 3725 153 52 B Contig_chr3R_4170 chr3R 6187954 6188219 265 13 13 B Contig_chr3R_4403 chr3R 6412432 6412764 332 25 25 B 0.86 hth internal 0 ND Contig_chr3R_4405 chr3R 6413622 6414463 841 85 56 B 0.91 hth internal 0 ND Contig_chr3R_4408 chr3R 6416879 6417025 146 3 3 B 0.94 hth internal 0 ND Y Contig_chr3R_4572 chr3R 6724748 6726262 1514 34 26 B Contig_chr3R_5059 chr3R 7176421 7176909 488 27 27 B 0.99 KP78b 5' 2258 same Y LP21052 463 Y Contig_chr3R_5104 chr3R 7247728 7248068 340 25 25 B 0.82 CG5270 5' 49 same Y IP16114 76 Y Y Contig_chr3R_5223 chr3R 7390845 7392403 1558 51 35 B 0.79 CG6782 internal 0 same GH01923 1558 Y Contig_chr3R_5237 chr3R 7430076 7430255 179 9 9 B Contig_chr3R_524 chr3R 883097 883514 417 42 42 B Contig_chr3R_5307 chr3R 7576446 7578231 1785 56 55 B Contig_chr3R_5313 chr3R 7590727 7591145 418 38 38 B 0.95 l(3)neo38 3' 3190 same Y Contig_chr3R_5314 chr3R 7591216 7592063 847 59 51 B 0.97 l(3)neo38 3' 2272 mixed Y Contig_chr3R_5315 chr3R 7592184 7594280 2096 43 22 B 0.97 l(3)neo38 3' 55 same GM07658 2005 Y Y Contig_chr3R_5444 chr3R 7777629 7777850 221 2 2 D Contig_chr3R_5445 chr3R 7777983 7778202 219 7 7 B Contig_chr3R_5447 chr3R 7790560 7790930 370 26 26 B 0.82 CG12213 3' 82 mixed RE06638 370 Y Y Contig_chr3R_5451 chr3R 7803376 7803959 583 7 6 C Contig_chr3R_5500 chr3R 7894271 7894848 577 21 21 B 0.98 CG14741 3' 116 same Y Y Contig_chr3R_5718 chr3R 8194453 8194722 269 9 9 B 0.75 GstD1 internal 0 same Y Contig_chr3R_5896 chr3R 8530027 8530491 464 2 2 D Contig_chr3R_6109 chr3R 8810746 8810932 186 4 4 B 0.84 Paip2 3' 401 same MIP08219 186 Y Y Contig_chr3R_6111 chr3R 8838128 8838817 689 58 53 B 0.85 CtBP internal 0 same Y Contig_chr3R_6112 chr3R 8838904 8840447 1543 107 58 B 0.85 CtBP internal 0 mixed Contig_chr3R_6113 chr3R 8840524 8840979 455 46 46 B Contig_chr3R_6114 chr3R 8841083 8842533 1450 66 34 B 0.75 CtBP internal 0 mixed Y Y Contig_chr3R_6119 chr3R 8847885 8849439 1554 91 58 B Contig_chr3R_6123 chr3R 8852327 8852735 408 16 16 B Contig_chr3R_6379 chr3R 9202610 9203181 571 24 24 B Contig_chr3R_6596 chr3R 9460597 9460940 343 45 45 B sqd 3' 274 RE67311 26 Contig_chr3R_6600 chr3R 9469585 9469878 293 27 27 B Contig_chr3R_6604 chr3R 9479114 9479860 746 18 18 B 0.84 rin 3' 353 same Y Y Contig_chr3R_668 chr3R 1057096 1057357 261 9 9 B Contig_chr3R_674 chr3R 1069045 1069508 463 11 11 B 0.89 CG12163 internal 0 same GH01606 463 Y Contig_chr3R_688 chr3R 1095971 1096168 197 5 5 B l(3)82Fd 3' 2497 MIP07034 197 Contig_chr3R_6904 chr3R 9883225 9883357 132 1 1 D Contig_chr3R_6936 chr3R 9914030 9914677 647 47 47 B Contig_chr3R_7033 chr3R 10104660 10104810 150 6 6 B Contig_chr3R_7061 chr3R 10145609 10145873 264 2 2 B Contig_chr3R_7106 chr3R 10195124 10195303 179 36 36 B Contig_chr3R_7107 chr3R 10195437 10195773 336 53 53 B 0.9 NK7.1 internal 0 same Y Contig_chr3R_716 chr3R 1131702 1133134 1432 28 18 B 0.92 l(3)82Fd internal 0 mixed Y Contig_chr3R_7210 chr3R 10293954 10294100 146 19 19 B Contig_chr3R_7211 chr3R 10294190 10294525 335 54 54 B 0.81 cv-c internal 0 same Contig_chr3R_7214 chr3R 10298299 10298883 584 47 40 B 0.8 cv-c internal 0 ND Contig_chr3R_7338 chr3R 10468594 10469701 1107 62 56 B Contig_chr3R_7339 chr3R 10469905 10470307 402 51 51 B Contig_chr3R_7369 chr3R 10523482 10524232 750 25 21 B 0.76 CG33967 3' 20 same MIP08478 750 Y Y Contig_chr3R_7465 chr3R 10617348 10618055 707 67 47 B 0.84 CG3563 internal 0 same Contig_chr3R_7467 chr3R 10619648 10619906 258 10 10 B Contig_chr3R_7710 chr3R 10922379 10922562 183 2 2 C 0.81 CG6934 3' 14749 same Contig_chr3R_7775 chr3R 11069049 11069194 145 2 2 B 0.81 Hsc70-4 internal 0 same Y Contig_chr3R_7776 chr3R 11069243 11069843 600 23 23 B 0.83 Hsc70-4 internal 0 same Y Y Contig_chr3R_7918 chr3R 11329979 11330325 346 2 2 C Contig_chr3R_8249 chr3R 11785691 11786039 348 5 5 B 0.9 Sap47 3' 229 same Y MIP07082 348 Y Contig_chr3R_8265 chr3R 11821474 11821924 450 10 10 B 0.88 srp internal 0 same Y Contig_chr3R_8269 chr3R 11825798 11826014 216 3 3 D Contig_chr3R_8270 chr3R 11826649 11826874 225 5 5 B 0.82 srp internal 0 same Y Contig_chr3R_8271 chr3R 11827227 11827366 139 1 1 D Contig_chr3R_8477 chr3R 12079539 12079879 340 55 55 B Contig_chr3R_8505 chr3R 12119260 12119538 278 52 52 B Contig_chr3R_853 chr3R 1405086 1405356 270 4 4 B 0.75 ksr 5' 95479 same MIP13377 270 Contig_chr3R_8547 chr3R 12164734 12165708 974 34 25 B SF2 3' 141 GH05108 974 Contig_chr3R_8617 chr3R 12270716 12271827 1111 10 8 B Pak3 3' 641 GH26692 1099 Contig_chr3R_866 chr3R 1450364 1450503 139 1 1 D Contig_chr3R_868 chr3R 1464597 1464780 183 8 8 D Contig_chr3R_8779 chr3R 12463792 12464129 337 2 2 B 0.82 Fas1 internal 0 same Y Y Contig_chr3R_879 chr3R 1487887 1488067 180 1 1 D Contig_chr3R_888 chr3R 1511787 1512093 306 28 28 B 0.81 CG14674 5' 10411 same Y IP14819 138 Y Contig_chr3R_889 chr3R 1512447 1512677 230 3 3 C Contig_chr3R_9124 chr3R 12873509 12874008 499 13 13 B Contig_chr3R_9363 chr3R 13161558 13161740 182 26 26 B Contig_chr3R_9372 chr3R 13167602 13167778 176 5 5 B Contig_chr3R_9504 chr3R 13368598 13369049 451 4 4 B Contig_chr3R_9569 chr3R 13470381 13470600 219 17 17 B new gene MIP09718 191 Contig_chr3R_9570 chr3R 13470693 13470837 144 8 8 B new gene MIP09718 111 Contig_chr3R_9594 chr3R 13507004 13507429 425 45 45 B Contig_chr3R_9605 chr3R 13529309 13529766 457 52 51 B Contig_chr3R_99 chr3R 229190 229791 601 19 17 B 0.76 growl internal 0 mixed Y Y Contig_chr4_181 chr4 350653 350829 176 2 2 C Contig_chr4_212 chr4 408025 408280 255 3 3 B Contig_chr4_218 chr4 414466 414938 472 10 10 B 0.99 CG2052 5' 450 ND Y Contig_chr4_22 chr4 80807 81032 225 38 38 B Contig_chr4_26 chr4 83542 83764 222 8 8 B 0.86 pan 5' 6192 same Contig_chr4_263 chr4 489804 489947 143 47 47 B 0.77 pncr013:4 3' 480 same Y Y Contig_chr4_367 chr4 680633 680979 346 7 7 B Contig_chr4_376 chr4 707609 707824 215 46 46 B 0.76 CG11360 3' 813 same Y Contig_chr4_381 chr4 710993 711790 797 61 41 B 0.81 myoglianin 3' 100 mixed Y Y Contig_chr4_398 chr4 736059 736234 175 2 2 C Contig_chr4_492 chr4 899881 900033 152 4 4 C 0.84 unc-13 internal 0 mixed Y N Contig_chr4_506 chr4 925646 926726 1080 31 27 B 0.9 unc-13 5' 227 mixed SD15619 72 Y Contig_chr4_507 chr4 930073 930566 493 29 27 B 0.86 unc-13 5' 4654 same Contig_chr4_552 chr4 1031112 1031583 471 55 53 B Contig_chr4_96 chr4 202067 202564 497 34 34 B Contig_chrX_10068 chrX 12799239 12799472 233 23 23 B Contig_chrX_10366 chrX 13179538 13179682 144 2 2 B Contig_chrX_10438 chrX 13274214 13274694 480 35 35 B 0.94 Rbp1-like 3' 28 same Y Y Contig_chrX_10443 chrX 13282916 13283061 145 3 3 B Contig_chrX_10660 chrX 13558379 13558601 222 25 25 B Contig_chrX_10744 chrX 13715366 13715501 135 17 17 B Contig_chrX_10745 chrX 13715598 13715730 132 23 23 B Contig_chrX_10767 chrX 13745411 13746116 705 40 39 B 0.81 CG11071 3' 2016 same RH54729 705 Y Contig_chrX_10768 chrX 13746204 13748018 1814 60 30 B 0.83 CG11071 3' 114 same RH54729 1814 Y Y Contig_chrX_10783 chrX 13760169 13760972 803 42 41 B 0.82 CG32613 3' 83383 same Contig_chrX_10784 chrX 13761189 13761946 757 51 39 B 0.82 CG32613 3' 82409 same Contig_chrX_10785 chrX 13762079 13762743 664 41 39 B 0.86 CG32613 3' 81612 same Contig_chrX_10786 chrX 13762829 13763036 207 32 32 B 0.84 CG32613 3' 81319 same Contig_chrX_10787 chrX 13763124 13763415 291 38 38 B 0.89 CG32613 3' 80940 same LP16229 166 Contig_chrX_10915 chrX 13861875 13862175 300 39 39 B 0.87 CG32613 5' 511 same MIP06874 231 Y N Contig_chrX_10941 chrX 13879428 13879731 303 37 37 B 0.85 CG32613 5' 18064 same MIP06874 303 N Contig_chrX_10942 chrX 13880090 13880614 524 45 43 B 0.92 CG32613 5' 18726 same Contig_chrX_10945 chrX 13882502 13882888 386 30 30 B Contig_chrX_11086 chrX 14099540 14099805 265 12 12 B 0.92 l(1)G0469 internal 0 same Y Y Contig_chrX_1126 chrX 1507333 1507604 271 7 7 B 0.91 br internal 0 ND Y Contig_chrX_1127 chrX 1507999 1509903 1904 99 48 B 0.97 br internal 0 same Y Contig_chrX_1128 chrX 1509995 1514748 4753 140 54 B 0.96 br internal 0 mixed Y Contig_chrX_1129 chrX 1514846 1517356 2510 99 56 B 0.97 br internal 0 mixed Y Contig_chrX_1132 chrX 1519246 1519541 295 9 9 B 0.94 br internal 0 ND Contig_chrX_1133 chrX 1519626 1520294 668 21 20 B 0.94 br internal 0 ND Contig_chrX_1134 chrX 1520382 1520947 565 27 26 B 0.91 br internal 0 ND Contig_chrX_1135 chrX 1521046 1521697 651 9 8 B 0.92 br internal 0 ND Contig_chrX_1136 chrX 1521786 1522045 259 37 37 B 0.91 br internal 0 ND Y Contig_chrX_1137 chrX 1531686 1532869 1183 81 52 B 0.95 br internal 0 mixed Contig_chrX_1138 chrX 1532972 1534135 1163 35 28 B 0.95 br internal 0 same Contig_chrX_1139 chrX 1534733 1535607 874 28 20 B 0.93 br internal 0 mixed Contig_chrX_1140 chrX 1536164 1536498 334 36 36 B 0.93 br internal 0 mixed Contig_chrX_1141 chrX 1539227 1539481 254 8 8 B 0.97 br internal 0 mixed Y Y Contig_chrX_1142 chrX 1539576 1540104 528 15 15 B 0.96 br internal 0 mixed Y Y Contig_chrX_1143 chrX 1540187 1541064 877 66 49 B 0.95 br internal 0 mixed Y Contig_chrX_1144 chrX 1543686 1544133 447 24 24 B 0.97 br internal 0 same Y Contig_chrX_1145 chrX 1544232 1546297 2065 60 37 B 0.95 br internal 0 mixed Contig_chrX_11474 chrX 14580463 14581596 1133 24 20 B Contig_chrX_1150 chrX 1551821 1552311 490 14 13 B 0.88 br internal 0 mixed Contig_chrX_11515 chrX 14619964 14620195 231 15 15 B Contig_chrX_11516 chrX 14620275 14620619 344 21 21 B Contig_chrX_1152 chrX 1554338 1555539 1201 64 40 B 0.92 br 3' 376 mixed GM04775 728 Y Contig_chrX_1153 chrX 1555622 1555800 178 25 25 B 0.93 br 3' 1660 mixed GM04775 178 Y Contig_chrX_11537 chrX 14643320 14643540 220 7 7 B Contig_chrX_1154 chrX 1555884 1556582 698 35 35 B 0.91 br 3' 1922 mixed GM04775 698 Y Contig_chrX_1155 chrX 1556707 1558107 1400 59 43 B 0.86 br 3' 2745 mixed GM04775 122 Y Y Contig_chrX_1156 chrX 1558194 1558339 145 17 17 B 0.88 br 3' 4232 mixed Y Y Contig_chrX_11589 chrX 14718962 14719231 269 8 8 B Contig_chrX_11590 chrX 14719963 14720099 136 2 2 D Contig_chrX_11791 chrX 15031795 15032341 546 12 12 B Contig_chrX_11942 chrX 15191424 15191721 297 12 12 B Contig_chrX_11943 chrX 15191809 15191993 184 15 15 B Contig_chrX_11946 chrX 15192910 15193140 230 47 47 B Contig_chrX_11947 chrX 15193498 15194729 1231 73 48 B 0.83 CG15032 internal 0 mixed Y Contig_chrX_11954 chrX 15199793 15200120 327 25 25 B 0.95 CG15032 internal 0 same Y Contig_chrX_11962 chrX 15212220 15212910 690 12 12 B 0.83 gce 3' 422 same HL01770 690 Contig_chrX_12122 chrX 15448044 15448388 344 33 33 B 0.81 Ac13E 5' 31848 same Contig_chrX_12139 chrX 15487282 15487746 464 32 32 B 0.91 CG9220 5' 2321 same Contig_chrX_12146 chrX 15497914 15498301 387 27 27 B 0.9 sog 3' 302 ND Y Contig_chrX_12237 chrX 15607894 15608040 146 1 1 D Contig_chrX_12250 chrX 15698350 15698707 357 15 15 D Contig_chrX_12251 chrX 15699617 15700254 637 16 12 B 0.83 sd 5' 22 same Y Y Contig_chrX_12271 chrX 15715804 15715979 175 6 6 B Contig_chrX_12273 chrX 15719805 15720775 970 58 54 B 0.85 sd 3' 36 same Y Y Contig_chrX_12279 chrX 15756975 15757194 219 55 55 B 0.92 Gbeta13F 3' 56 same Y Y Contig_chrX_12280 chrX 15757277 15757814 537 55 55 B 0.75 Chc 5' 27770 mixed N Contig_chrX_12281 chrX 15758056 15758290 234 30 30 B Contig_chrX_12282 chrX 15758501 15759992 1491 118 57 B Contig_chrX_12500 chrX 16167862 16168010 148 6 6 C Contig_chrX_12506 chrX 16183443 16183705 262 2 2 D Contig_chrX_1251 chrX 1668693 1669292 599 44 35 B Contig_chrX_12517 chrX 16232963 16233806 843 11 11 B 0.88 Dsp1 3' 36 same SD05379 697 Y Y Contig_chrX_12545 chrX 16318531 16318677 146 18 18 B Contig_chrX_12546 chrX 16318831 16319932 1101 92 55 B Contig_chrX_12552 chrX 16331601 16332654 1053 45 37 B 0.76 sl 3' 81081 mixed N Contig_chrX_12557 chrX 16347155 16347843 688 57 55 B Rbp2 internal 0 RH12113 495 Contig_chrX_12558 chrX 16347978 16348167 189 55 55 B Contig_chrX_12566 chrX 16356422 16356645 223 19 19 B 0.95 para 3' 993 ND Contig_chrX_12650 chrX 16458554 16459007 453 52 52 B 0.86 CanA-14F 3' 499 same Y Y Contig_chrX_12651 chrX 16459288 16459473 185 53 53 B Contig_chrX_12780 chrX 16690180 16690406 226 2 2 D new gene SD23414 226 Contig_chrX_12781 chrX 16690508 16690650 142 1 1 D new gene SD23414 142 Contig_chrX_12898 chrX 16837271 16838111 840 57 55 B RhoGAP15B 5' 4784 MIP14765 179 Contig_chrX_13115 chrX 17134762 17135174 412 52 52 B Contig_chrX_1322 chrX 1746975 1747133 158 4 4 B Contig_chrX_13295 chrX 17350236 17350556 320 15 15 B 0.88 CG8557 3' 34 same Y Y Contig_chrX_1336 chrX 1796830 1797247 417 29 29 B 0.77 Edem1 3' 492 mixed IP05117 417 N Contig_chrX_1337 chrX 1797458 1797682 224 42 42 B new gene IP05117 224 Contig_chrX_13406 chrX 17447098 17447904 806 11 10 B 0.89 CG12432 5' 18447 ND Y Y Contig_chrX_13407 chrX 17448004 17448197 193 6 6 B 0.83 CG12432 5' 19353 ND Contig_chrX_13484 chrX 17561880 17562189 309 22 22 B Contig_chrX_13511 chrX 17604149 17604536 387 14 14 B 0.92 CG42270 5' 283 same Y Contig_chrX_13542 chrX 17632125 17633110 985 76 56 B 0.9 CG15816 5' 197 same Contig_chrX_13646 chrX 17769099 17769316 217 43 43 B Contig_chrX_14087 chrX 18265807 18265954 147 8 8 B Contig_chrX_14092 chrX 18270103 18270334 231 45 45 B Contig_chrX_14093 chrX 18270419 18271064 645 57 56 B Contig_chrX_14094 chrX 18271160 18271376 216 55 55 B Contig_chrX_1414 chrX 1917127 1917778 651 56 55 B Contig_chrX_1430 chrX 1935455 1935635 180 2 2 C Contig_chrX_14321 chrX 18527391 18527537 146 49 49 B Contig_chrX_14325 chrX 18534888 18535475 587 23 23 B Contig_chrX_14328 chrX 18536809 18537495 686 72 56 B Contig_chrX_14331 chrX 18539927 18541110 1183 44 35 B Contig_chrX_1439 chrX 1963758 1964390 632 38 33 B 0.81 CG4025 5' 6625 mixed N Contig_chrX_1440 chrX 1964641 1965212 571 16 15 B 0.82 CG4025 5' 5803 mixed Contig_chrX_1443 chrX 1975797 1976676 879 37 33 B 0.76 Unc-76 internal 0 ND Y Contig_chrX_1444 chrX 1976784 1980206 3422 135 52 B Contig_chrX_14444 chrX 18672410 18673062 652 26 21 B 0.78 CG6891 internal 0 same Y Contig_chrX_1448 chrX 1987169 1988030 861 53 49 B Unc-76 3' 40 GH10260 812 Contig_chrX_14482 chrX 18737718 18737860 142 8 8 B Contig_chrX_14484 chrX 18757919 18758208 289 53 53 B 0.94 CG34401 5' 1265 same Y Contig_chrX_14485 chrX 18758304 18758571 267 55 55 B 0.95 CG34401 5' 902 same Y Contig_chrX_14486 chrX 18758717 18759278 561 57 56 B 0.95 CG34401 5' 195 same Y Y Contig_chrX_1470 chrX 2010128 2010503 375 30 30 B 0.93 ph-d 3' 396 same MIP12539 375 Y Contig_chrX_1471 chrX 2010594 2010855 261 7 7 B 0.92 ph-d 3' 44 same MIP12539 261 Y Contig_chrX_14765 chrX 19042183 19043851 1668 39 24 B Contig_chrX_14769 chrX 19049405 19051246 1841 40 23 B 0.93 RhoGAP18B internal 0 same Contig_chrX_14771 chrX 19051579 19052509 930 79 55 B Contig_chrX_14830 chrX 19175433 19175885 452 10 10 B 0.79 CG8034 3' 668 same Y Contig_chrX_14852 chrX 19192117 19192293 176 48 48 B Contig_chrX_15051 chrX 19364588 19365719 1131 83 50 B 0.89 kek5 3' 491 same Y Contig_chrX_15057 chrX 19389691 19390225 534 4 4 B 0.8 Grip84 3' 65148 mixed Contig_chrX_15069 chrX 19411369 19412751 1382 57 41 B Contig_chrX_15123 chrX 19520658 19520882 224 5 5 C 0.89 Tao-1 5' 46816 mixed Contig_chrX_15124 chrX 19520980 19521727 747 60 49 B 0.9 Tao-1 5' 47138 mixed N Contig_chrX_15129 chrX 19553484 19553711 227 2 2 B 0.94 CG14223 3' 34 same IP20162 227 Y Y Contig_chrX_15132 chrX 19557552 19557999 447 20 20 B CG14223 5' 1997 IP20162 122 Contig_chrX_15139 chrX 19581333 19581513 180 54 54 B 0.79 CG14213 3' 46549 same N Contig_chrX_15144 chrX 19593307 19593658 351 55 55 B 0.93 Cdc42 3' 22 same MIP19333 336 Y Y Contig_chrX_15235 chrX 19724064 19725156 1092 65 53 B Contig_chrX_15236 chrX 19725249 19726867 1618 45 29 B jog 3' 505 LD06925 847 Contig_chrX_15259 chrX 19760503 19761031 528 93 56 B 0.76 CG32529 5' 1412 same Y Contig_chrX_15264 chrX 19769545 19770262 717 90 57 B Contig_chrX_15287 chrX 19791685 19792017 332 27 27 B 0.89 CG32529 internal 0 mixed Contig_chrX_1532 chrX 2119322 2119743 421 3 3 D Contig_chrX_1543 chrX 2175402 2175534 132 2 2 B Contig_chrX_1553 chrX 2183351 2183493 142 52 52 B Contig_chrX_1556 chrX 2184318 2184533 215 34 34 B Contig_chrX_15700 chrX 20340961 20341302 341 10 10 B Contig_chrX_15701 chrX 20341597 20342648 1051 22 19 B 0.87 RhoGAP19D 3' 8 same Y Y Contig_chrX_15743 chrX 20388708 20389624 916 52 50 B Contig_chrX_1594 chrX 2228257 2228720 463 20 18 B 0.86 phl internal 0 ND Contig_chrX_16198 chrX 20910284 20910469 185 1 1 D Contig_chrX_16689 chrX 21849282 21849570 288 13 13 B 0.81 CG14621 3' 265 mixed Y Contig_chrX_16691 chrX 21853510 21853888 378 11 11 B 0.77 CG14614 3' 216 same LD15927 52 Y Contig_chrX_16697 chrX 21865342 21865664 322 10 10 B 0.79 CG14619 internal 0 same AT11044 81 Y Y Contig_chrX_16699 chrX 21870516 21870688 172 3 3 C Contig_chrX_1695 chrX 2372432 2372610 178 34 34 B 0.86 trol internal 0 ND MIP20647 83 Y Y Contig_chrX_1704 chrX 2389272 2389497 225 4 4 B 0.89 trol internal 0 ND Y Contig_chrX_1732 chrX 2410535 2410875 340 25 25 B 0.92 trol internal 0 ND GM10545 340 Contig_chrX_1755 chrX 2439061 2439377 316 8 8 B 0.93 trol internal 0 ND Y Contig_chrX_1787 chrX 2481979 2482282 303 40 40 B 0.86 wds 3' 53 same Y Y Contig_chrX_1796 chrX 2492654 2493064 410 8 8 B 0.79 egh 3' 16 mixed Y Y Contig_chrX_1797 chrX 2511905 2512227 322 23 23 B 0.78 Tsp3A 3' 147 mixed MIP05777 187 Y Y Contig_chrX_1799 chrX 2521391 2521759 368 31 31 B Contig_chrX_1800 chrX 2528539 2528727 188 5 5 D Contig_chrX_1809 chrX 2536936 2537082 146 1 1 D Contig_chrX_1814 chrX 2541192 2542467 1275 93 53 B Contig_chrX_182 chrX 321821 322007 186 6 6 B Contig_chrX_1838 chrX 2569766 2570157 391 55 55 B sgg internal 0 RE68664 391 Contig_chrX_1839 chrX 2570254 2570478 224 54 54 B 0.77 sgg internal 0 same Y Contig_chrX_2021 chrX 2845921 2846185 264 8 8 B 0.85 rst 3' 55 ND Y Y Contig_chrX_2168 chrX 2993488 2993861 373 41 41 B 0.91 kirre 5' 250 same Y LD23922 66 Contig_chrX_220 chrX 409215 409594 379 47 47 B Contig_chrX_2213 chrX 3026872 3027129 257 23 23 B 0.93 kirre 3' 36 same Y Contig_chrX_2214 chrX 3027229 3027526 297 30 30 B 0.97 kirre 3' 393 same Y Contig_chrX_2215 chrX 3027618 3028636 1018 33 23 B 0.94 kirre 3' 782 same Y Contig_chrX_2409 chrX 3233393 3234286 893 68 51 B Contig_chrX_2410 chrX 3234377 3235178 801 50 49 B Contig_chrX_2411 chrX 3235286 3235547 261 37 37 B Contig_chrX_2456 chrX 3270397 3270682 285 6 6 B Contig_chrX_2465 chrX 3281766 3282308 542 5 5 B Contig_chrX_2575 chrX 3382966 3383372 406 15 14 B 0.88 CG10803 3' 25 same Y Y Contig_chrX_2576 chrX 3383472 3384169 697 40 37 B Contig_chrX_2578 chrX 3384476 3385004 528 36 36 B 0.78 CG10803 3' 1535 same Y Contig_chrX_2724 chrX 3578781 3579539 758 6 5 B Contig_chrX_2731 chrX 3584886 3585115 229 20 20 B Contig_chrX_2742 chrX 3595331 3595474 143 54 54 B 0.9 Mnt 3' 512 same Y Contig_chrX_2743 chrX 3595574 3597079 1505 102 58 B Contig_chrX_2815 chrX 3682533 3682775 242 46 46 B 0.78 Crg-1 5' 6121 ND Contig_chrX_2939 chrX 3848452 3848948 496 52 52 B Contig_chrX_3058 chrX 4000454 4000779 325 21 21 D Contig_chrX_3059 chrX 4001016 4001533 517 7 7 B 0.92 cib internal 0 same Y Y Contig_chrX_3060 chrX 4001871 4002168 297 4 4 B 0.89 cib internal 0 same Contig_chrX_3062 chrX 4011507 4011733 226 4 4 D Contig_chrX_3065 chrX 4020856 4022192 1336 25 24 B CG4857 3' 80 GM01206 353 Contig_chrX_3066 chrX 4022642 4022893 251 32 32 B CG4857 3' 1867 GM03003 251 Contig_chrX_314 chrX 511261 511406 145 1 1 D CG13366 internal 0 RE63495 98 Contig_chrX_318 chrX 513930 514068 138 7 7 B 0.98 CG13366 internal 0 same Y Contig_chrX_3286 chrX 4254897 4255082 185 2 2 C Contig_chrX_3288 chrX 4256569 4258394 1825 95 41 B 0.94 norpA 3' 82 same HL05775 1351 Y Y Contig_chrX_3296 chrX 4269738 4270613 875 21 20 B Contig_chrX_3297 chrX 4270790 4271166 376 4 4 C Contig_chrX_3303 chrX 4274679 4275110 431 3 3 B 0.76 CG12688 5' 395 ND Contig_chrX_3457 chrX 4440318 4440501 183 50 50 B 0.83 rb 5' 5649 same N N Contig_chrX_3743 chrX 4834058 4834317 259 15 15 B Contig_chrX_3753 chrX 4842308 4842494 186 5 5 C Contig_chrX_3896 chrX 4957655 4957841 186 4 4 B Contig_chrX_3903 chrX 4967671 4968375 704 65 51 B Contig_chrX_4224 chrX 5307139 5307789 650 102 57 B yu 3' 51 RE73736 650 Contig_chrX_4232 chrX 5323522 5324008 486 39 39 B Contig_chrX_4427 chrX 5592504 5592887 383 31 31 B 0.91 CG4096 5' 333 mixed Y Contig_chrX_4428 chrX 5592983 5593208 225 33 33 B 0.94 CG4096 5' 12 mixed Y Contig_chrX_4441 chrX 5609065 5609608 543 24 24 B 0.9 CG33080 internal 0 mixed Y Y Contig_chrX_4455 chrX 5628459 5628607 148 11 11 B 0.76 CG32758 internal 0 ND Contig_chrX_4525 chrX 5725940 5726320 380 51 51 B Contig_chrX_4588 chrX 5796173 5796634 461 6 6 B Contig_chrX_4591 chrX 5805962 5806431 469 30 30 B 0.85 CG12236 internal 0 same Y Y Contig_chrX_4823 chrX 6118385 6118602 217 20 20 B Contig_chrX_4826 chrX 6126236 6126569 333 53 53 B CG14446 3' 296 GH23165 292 Contig_chrX_4827 chrX 6126665 6127197 532 55 49 B CG14446 3' 1257 GH23165 532 Contig_chrX_4828 chrX 6127410 6128274 864 59 56 B 0.76 CG14446 3' 1470 same Y Contig_chrX_5078 chrX 6485149 6485332 183 41 41 B Contig_chrX_5136 chrX 6546151 6546630 479 18 18 B 0.86 CG3973 3' 20 same Y Y Contig_chrX_5137 chrX 6546738 6547022 284 14 14 B 0.9 CG3973 3' 607 mixed Y Contig_chrX_5192 chrX 6637420 6637671 251 10 10 B Contig_chrX_5265 chrX 6762845 6763110 265 15 15 B Contig_chrX_5272 chrX 6774578 6774999 421 54 51 B Contig_chrX_5273 chrX 6775346 6775608 262 35 35 B Contig_chrX_5459 chrX 6991324 6991612 288 7 7 B 0.76 Sxl internal 0 same Y Contig_chrX_5972 chrX 7502377 7502598 221 48 48 B 0.91 ct 5' 583 ND Y Contig_chrX_5973 chrX 7502693 7502873 180 42 42 B 0.86 ct 5' 308 ND Y Contig_chrX_6003 chrX 7527340 7527560 220 23 23 B 0.78 ct internal 0 same Contig_chrX_6009 chrX 7534285 7534824 539 13 13 B Contig_chrX_6053 chrX 7588102 7589403 1301 26 19 B 0.78 CHES-1-like internal 0 same Y Contig_chrX_6055 chrX 7589901 7590267 366 9 9 B 0.8 CHES-1-like internal 0 same Contig_chrX_6056 chrX 7590965 7592691 1726 35 24 B 0.78 CHES-1-like internal 0 mixed Contig_chrX_6058 chrX 7593103 7593753 650 12 12 B 0.82 CHES-1-like internal 0 same Contig_chrX_6059 chrX 7593857 7594712 855 27 21 B 0.75 CHES-1-like internal 0 same Y Contig_chrX_6060 chrX 7594780 7595836 1056 43 37 B 0.81 CHES-1-like internal 0 mixed Contig_chrX_6061 chrX 7595927 7596559 632 16 15 B 0.79 CHES-1-like internal 0 mixed Contig_chrX_6178 chrX 7794546 7794732 186 3 3 B Contig_chrX_6184 chrX 7811496 7811876 380 6 6 B 0.92 CG1514 3' 18 mixed Y Y Contig_chrX_6185 chrX 7811935 7812452 517 32 31 B 0.83 CG1514 3' 457 mixed Y Contig_chrX_6186 chrX 7816139 7817348 1209 97 55 B 0.77 CG10777 3' 803 same Y Contig_chrX_6187 chrX 7817444 7818064 620 66 54 B 0.84 CG10777 3' 87 same Y Contig_chrX_6188 chrX 7829937 7830163 226 36 36 B 0.77 CG1530 5' 839 same Y Contig_chrX_6194 chrX 7846491 7847057 566 8 8 B 0.75 CG1531 3' 213 same Y Y Y Contig_chrX_6203 chrX 7864579 7866142 1563 93 52 B Contig_chrX_6204 chrX 7866261 7867766 1505 31 20 B Contig_chrX_6267 chrX 7931960 7932212 252 22 22 B Contig_chrX_6269 chrX 7933050 7933660 610 55 55 B 0.84 fs(1)h 3' 316 same MIP08027 610 Y Y Contig_chrX_6274 chrX 7940802 7942191 1389 101 59 B Contig_chrX_6282 chrX 7954287 7954472 185 2 2 D Contig_chrX_6285 chrX 7956370 7956553 183 1 1 D Contig_chrX_6302 chrX 7990116 7990561 445 14 14 B 0.89 CG2258 3' 49 same Y Y Contig_chrX_6308 chrX 8003007 8003146 139 17 17 B 0.95 Gclc internal 0 same Contig_chrX_6312 chrX 8006228 8009350 3122 112 56 B 0.88 Gclc internal 0 mixed Y Contig_chrX_6313 chrX 8009686 8009911 225 3 3 D Contig_chrX_6319 chrX 8031113 8031479 366 7 7 B 0.78 Smox 3' 926 same Y Contig_chrX_6400 chrX 8139114 8139804 690 48 38 B 0.95 Trxr-1 internal 0 same Y Y Contig_chrX_6531 chrX 8303501 8303692 191 42 42 B Contig_chrX_6546 chrX 8324691 8325073 382 55 55 B 0.83 Trf2 3' 458 same Y Contig_chrX_6547 chrX 8325148 8325721 573 59 54 B Contig_chrX_6549 chrX 8326215 8327057 842 73 55 B Contig_chrX_6550 chrX 8331399 8331655 256 19 19 B Contig_chrX_6560 chrX 8349778 8349962 184 35 35 B Contig_chrX_6636 chrX 8444529 8444804 275 50 50 B 0.93 Nrg internal 0 same Y Y Y Contig_chrX_6658 chrX 8478991 8479136 145 4 4 B 0.82 Crag 5' 6950 same Contig_chrX_6663 chrX 8495354 8495569 215 2 2 D Contig_chrX_6918 chrX 8775900 8781267 5367 233 50 B Contig_chrX_6919 chrX 8781361 8782667 1306 75 41 B Contig_chrX_6920 chrX 8782757 8783795 1038 76 50 B Contig_chrX_6921 chrX 8783877 8785423 1546 71 37 B 0.78 Moe internal 0 same Y Contig_chrX_6922 chrX 8785978 8786117 139 4 4 B Contig_chrX_6923 chrX 8786252 8787780 1528 22 18 B 0.81 Moe internal 0 same Y Contig_chrX_6925 chrX 8791213 8791795 582 30 28 B 0.86 Moe internal 0 mixed Y Contig_chrX_6943 chrX 8815494 8815720 226 4 4 B 0 HL01742 226 intronic region; origin uncertain Contig_chrX_6944 chrX 8815812 8816382 570 28 26 B 0 HL01742 570 intronic region; origin uncertain Contig_chrX_7142 chrX 9016234 9016982 748 17 16 B Contig_chrX_7143 chrX 9017101 9017819 718 35 29 B 0.75 fend 3' 1346 same RH56795 305 Y Contig_chrX_7144 chrX 9017916 9018329 413 29 25 B 0.88 fend 3' 836 same RH56795 413 Y Contig_chrX_7145 chrX 9018473 9018646 173 49 49 B 0.91 fend 3' 519 ND RH56795 173 Y Contig_chrX_7169 chrX 9056232 9056891 659 10 9 C 0.82 CG6999 3' 72885 mixed N Contig_chrX_7175 chrX 9066105 9066946 841 81 57 B Contig_chrX_7176 chrX 9067174 9067389 215 42 42 B 0.81 mei-P26 3' 1464 same Contig_chrX_7178 chrX 9067907 9068079 172 53 53 B Contig_chrX_7195 chrX 9094266 9094484 218 2 2 B 0.89 su(r) internal 0 same Y Contig_chrX_7196 chrX 9094572 9094734 162 7 7 B 0.82 su(r) internal 0 ND Contig_chrX_7215 chrX 9141406 9141741 335 4 4 B 0.84 mxc 3' 1445 same N Contig_chrX_7219 chrX 9149118 9149378 260 53 53 B 0.98 CG17754 internal 0 mixed Y Y Contig_chrX_7220 chrX 9149475 9149623 148 2 2 C 0.92 CG17754 internal 0 same Y Y Contig_chrX_7257 chrX 9219138 9220314 1176 81 55 B Contig_chrX_7258 chrX 9220408 9220676 268 27 27 B Contig_chrX_7291 chrX 9250054 9250306 252 30 30 B Contig_chrX_7295 chrX 9253643 9253853 210 2 2 C 0.95 CG34352 3' 11 ND Y Y Contig_chrX_7538 chrX 9516263 9516477 214 1 1 D CG3003 internal 0 LD10978 211 Contig_chrX_7580 chrX 9560149 9561040 891 61 52 B Contig_chrX_7581 chrX 9561108 9561313 205 49 49 B Contig_chrX_7582 chrX 9561588 9562164 576 57 53 B Contig_chrX_7583 chrX 9562360 9562616 256 1 1 D Contig_chrX_7649 chrX 9636329 9636902 573 6 6 B 0.93 Sp1 internal 0 same Contig_chrX_7663 chrX 9649915 9650221 306 10 10 D Contig_chrX_8157 chrX 10250427 10250951 524 53 52 B 0.77 l(1)G0289 3' 252 mixed MIP09046 89 Y Contig_chrX_8166 chrX 10277282 10277614 332 4 4 C Contig_chrX_819 chrX 1109798 1110104 306 20 20 B 0.8 CG3638 3' 1007 ND Y Contig_chrX_8192 chrX 10302157 10302301 144 45 45 B 0.85 CG3638 3' 54 same Y Y Contig_chrX_820 chrX 1110275 1111057 782 58 40 B 0.85 CG3638 internal 0 same Y Contig_chrX_821 chrX 1115731 1116272 541 21 21 B Contig_chrX_8340 chrX 10479244 10479383 139 23 23 B 0.94 spri 5' 188 same MIP09847 139 Y Y Contig_chrX_8359 chrX 10514571 10514801 230 54 54 B Contig_chrX_837 chrX 1135904 1136200 296 6 6 B Contig_chrX_840 chrX 1142172 1142661 489 32 32 B Contig_chrX_841 chrX 1142958 1143484 526 9 9 B Contig_chrX_844 chrX 1144651 1144986 335 6 6 B Contig_chrX_8483 chrX 10657126 10657419 293 26 26 B 0.81 Tango5 internal 0 same Y N Contig_chrX_8485 chrX 10659937 10660933 996 38 26 B Contig_chrX_8487 chrX 10661242 10661630 388 17 17 B Contig_chrX_8496 chrX 10681300 10681435 135 2 2 C Contig_chrX_8499 chrX 10683483 10684569 1086 55 55 B 0.85 Imp 3' 5461 same Y Contig_chrX_8500 chrX 10684702 10686489 1787 119 57 B 0.75 sbr 3' 40293 same GM09444 635 N Contig_chrX_8501 chrX 10686581 10687481 900 59 55 B 0.9 Imp 3' 2549 mixed GM03661 900 Y Contig_chrX_8502 chrX 10687711 10688323 612 55 55 B 0.95 Imp 3' 1707 same Y Y Contig_chrX_8503 chrX 10688409 10688850 441 9 9 B 0.94 Imp 3' 1180 same RE19990 441 Y Y Contig_chrX_8543 chrX 10729082 10729339 257 42 42 B 0.77 Imp 5' 12267 same Contig_chrX_8544 chrX 10729475 10729846 371 53 53 B 0.77 Imp 5' 12660 same Contig_chrX_8545 chrX 10729942 10730129 187 40 40 B Contig_chrX_8546 chrX 10730272 10730453 181 22 22 B Contig_chrX_8558 chrX 10757841 10758069 228 1 1 D Contig_chrX_8578 chrX 10788813 10788955 142 2 2 C 0.93 CG1582 3' 14 same Y Y Contig_chrX_8705 chrX 10988766 10989064 298 26 26 B 0.77 CG2061 3' 69 same Y Y Contig_chrX_8708 chrX 11018201 11018752 551 28 27 B 0.9 CG11122 5' 570 same Y Contig_chrX_8709 chrX 11023513 11024082 569 57 55 B Contig_chrX_8712 chrX 11037811 11038079 268 2 2 B Contig_chrX_8722 chrX 11057252 11057438 186 8 8 B Contig_chrX_8723 chrX 11057548 11057845 297 55 55 B Contig_chrX_8724 chrX 11057931 11058414 483 55 54 B Contig_chrX_8855 chrX 11234129 11234312 183 4 4 B 0.83 CG34348 5' 173 same Y Y Contig_chrX_9105 chrX 11604536 11604708 172 42 42 B Contig_chrX_9112 chrX 11623913 11624058 145 1 1 D Contig_chrX_9148 chrX 11681419 11682222 803 40 32 B Contig_chrX_9157 chrX 11695167 11695305 138 36 36 B Contig_chrX_9160 chrX 11702878 11703055 177 28 28 B Contig_chrX_9161 chrX 11703146 11703322 176 48 48 B Contig_chrX_9164 chrX 11710866 11711231 365 49 49 B Contig_chrX_9174 chrX 11729763 11729904 141 3 3 B Contig_chrX_9175 chrX 11729996 11730488 492 54 53 B Contig_chrX_9176 chrX 11730625 11730806 181 55 55 B Contig_chrX_9177 chrX 11730894 11731037 143 40 40 B Contig_chrX_9407 chrX 12097538 12098111 573 12 12 B 0.82 Ten-a internal 0 same MIP03288 146 Y Y Contig_chrX_9412 chrX 12101313 12101661 348 20 20 B 0.85 Ten-a internal 0 ND Contig_chrX_9418 chrX 12107388 12107574 186 10 10 B 0.79 Ten-a internal 0 ND Contig_chrX_9420 chrX 12108213 12108515 302 20 20 B 0.86 Ten-a internal 0 ND Contig_chrX_9426 chrX 12113271 12114853 1582 75 43 B 0.83 Ten-a internal 0 ND Contig_chrX_9463 chrX 12143652 12144607 955 37 28 B 0.93 Ten-a internal 0 ND Y Contig_chrX_9471 chrX 12152411 12152682 271 23 23 B 0.9 Ten-a internal 0 ND Contig_chrX_9551 chrX 12226324 12227833 1509 89 41 B Contig_chrX_9552 chrX 12227967 12228526 559 63 45 B Contig_chrX_9650 chrX 12357618 12358089 471 27 27 B 0 IP09944 471 short stalled product of CG42258 Contig_chrX_9665 chrX 12371795 12372096 301 43 43 B Contig_chrX_9811 chrX 12551385 12551525 140 37 37 B 0.9 CkIalpha 3' 31 same Y Y Contig_chrX_9815 chrX 12555916 12557589 1673 133 59 B 0.85 CR33963 3' 1251 mixed Contig_chrX_9816 chrX 12557802 12558526 724 57 54 B 0.85 CR33963 3' 3137 mixed Contig_chrX_9817 chrX 12558621 12559394 773 61 55 B 0.83 CR33963 3' 3956 mixed Contig_chrX_9818 chrX 12559487 12560244 757 63 51 B 0.8 CR33963 3' 4822 same Contig_chrX_982 chrX 1369977 1370226 249 2 2 C Contig_chrX_983 chrX 1374557 1374698 141 2 2 C 0.75 CG14782 internal 0 same Contig_chrX_9834 chrX 12573786 12574029 243 55 55 B 0.88 Tis11 3' 50 same Y Y Contig_chrX_9835 chrX 12574123 12574689 566 63 54 B 0.85 Tis11 3' 387 same Y Y Contig_chrX_9836 chrX 12574797 12575665 868 89 54 B Contig_chrX_9837 chrX 12575758 12576301 543 53 53 B 0.77 Tis11 3' 2022 mixed Y Contig_chrX_9839 chrX 12578314 12579054 740 68 54 B Contig_chrX_9883 chrX 12622006 12622574 568 52 52 B Contig_chrX_9893 chrX 12628246 12628879 633 11 9 C Contig_chrX_9894 chrX 12629127 12630591 1464 56 40 B 0.84 Smr internal 0 mixed Contig_chrX_9896 chrX 12630988 12631214 226 30 30 B 0.77 Smr internal 0 ND Contig_chrX_9897 chrX 12631299 12632112 813 46 39 B 0.75 Smr internal 0 same Contig_chrX_9984 chrX 12725701 12726385 684 35 30 B 0.94 Pde9 5' 32 same Y Y