view test-data/te.gtf @ 1:bf4ee2810759 draft

"planemo upload for repository https://github.com/mhammell-laboratory/TEtranscripts commit de0508a070ac11901c5c4cb9caffea85f0c889fb"
author iuc
date Thu, 16 Jul 2020 08:04:29 -0400
parents 2dfbcb88d16a
children
line wrap: on
line source

chr4	dm3_rmsk	exon	343119	348355	.	+	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup2"; family_id "Gypsy"; class_id "LTR";
chr4	dm3_rmsk	exon	954243	955152	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup25"; family_id "CR1"; class_id "LINE";
chr4	dm3_rmsk	exon	1281301	1285200	.	-	.	gene_id "TART"; transcript_id "TART_dup3"; family_id "telomeric"; class_id "LINE";
chr4	dm3_rmsk	exon	1298748	1302519	.	-	.	gene_id "HETA"; transcript_id "HETA_dup2"; family_id "telomeric"; class_id "LINE";
chr4	dm3_rmsk	exon	1325146	1336223	.	-	.	gene_id "TART"; transcript_id "TART_dup10"; family_id "telomeric"; class_id "LINE";
chr4	dm3_rmsk	exon	1338128	1349150	.	-	.	gene_id "TART"; transcript_id "TART_dup15"; family_id "telomeric"; class_id "LINE";
chrU	dm3_rmsk	exon	191398	191854	.	+	.	gene_id "BURDOCK_I"; transcript_id "BURDOCK_I_dup3"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	276311	276724	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup5"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	276725	281011	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup7"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	357869	358422	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup58"; family_id "CR1"; class_id "LINE";
chrU	dm3_rmsk	exon	444361	445162	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup10"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	445163	445576	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup8"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	560147	564265	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup5"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	585727	586749	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup7"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	923349	923833	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR"; family_id "LTR"; class_id "LTR";
chrU	dm3_rmsk	exon	923724	930674	.	-	.	gene_id "DM412"; transcript_id "DM412_dup20"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	930358	930842	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup1"; family_id "LTR"; class_id "LTR";
chrU	dm3_rmsk	exon	977434	977847	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup9"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	977848	984017	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup11"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1068318	1074427	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup12"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1145421	1151606	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup14"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1183521	1184031	.	-	.	gene_id "DNAREP1_DM"; transcript_id "DNAREP1_DM_dup737"; family_id "Penelope"; class_id "LINE";
chrU	dm3_rmsk	exon	1210262	1212598	.	-	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup7"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1217990	1220370	.	-	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup8"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1223765	1226146	.	-	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup9"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1293346	1293758	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup12"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1293759	1298196	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup15"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1308708	1311586	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup17"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1420117	1423754	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup22"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1443400	1449972	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup15"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1572762	1573180	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup24"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1722014	1722692	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup27"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1781498	1782154	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup10"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1805831	1807913	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup29"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1881961	1886692	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup29"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1886693	1887052	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup16"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1896226	1896818	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup28"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	1902819	1903411	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup29"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	2048219	2050481	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup35"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	2051056	2057160	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup36"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	2092493	2094999	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup152"; family_id "CR1"; class_id "LINE";
chrU	dm3_rmsk	exon	2247039	2253619	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup25"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	2328705	2329297	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup30"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	2472019	2472186	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup48"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	2581052	2581507	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup31"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	2691771	2694411	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup51"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	3096181	3099337	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup53"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	3312718	3313508	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup27"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	3371327	3372261	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup61"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	3503665	3504199	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup69"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	3578157	3578336	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup4"; family_id "Copia"; class_id "LTR";
chrU	dm3_rmsk	exon	3625425	3626082	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup20"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	3770053	3770709	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup22"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	3777432	3777737	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup40"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	3837334	3839552	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup76"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	4015850	4017758	.	+	.	gene_id "TART_B1"; transcript_id "TART_B1_dup3"; family_id "telomeric"; class_id "LINE";
chrU	dm3_rmsk	exon	4116367	4117555	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup48"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	4126825	4127440	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup28"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	4236892	4237987	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup83"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	4345607	4346049	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup83"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	4838081	4838523	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup59"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	5189745	5189910	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup237"; family_id "CR1"; class_id "LINE";
chrU	dm3_rmsk	exon	5190657	5191171	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup93"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	5475097	5476840	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup62"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	5524199	5524856	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup36"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	5553424	5553622	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup8"; family_id "Copia"; class_id "LTR";
chrU	dm3_rmsk	exon	5690556	5690753	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup9"; family_id "Copia"; class_id "LTR";
chrU	dm3_rmsk	exon	5767489	5772171	.	+	.	gene_id "TART_B1"; transcript_id "TART_B1_dup7"; family_id "telomeric"; class_id "LINE";
chrU	dm3_rmsk	exon	5951132	5951685	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup99"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	5977542	5978155	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup4"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	6001421	6002602	.	-	.	gene_id "DOC3_DM"; transcript_id "DOC3_DM_dup51"; family_id "Jockey"; class_id "LINE";
chrU	dm3_rmsk	exon	6086408	6086991	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup45"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	6179002	6180525	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup103"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	6224902	6228880	.	+	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup42"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	6309683	6309880	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup12"; family_id "Copia"; class_id "LTR";
chrU	dm3_rmsk	exon	6473514	6473693	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup13"; family_id "Copia"; class_id "LTR";
chrU	dm3_rmsk	exon	6628271	6628930	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup41"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	6677331	6677601	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup70"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	6731465	6734022	.	+	.	gene_id "TART_B1"; transcript_id "TART_B1_dup11"; family_id "telomeric"; class_id "LINE";
chrU	dm3_rmsk	exon	6945365	6947093	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup111"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	6987604	6988260	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup42"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7126511	7127835	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup114"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7264880	7267505	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup116"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7308561	7309535	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup119"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7329574	7329736	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup81"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7332248	7332896	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup122"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7332960	7334528	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup124"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7487018	7487473	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup111"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7519432	7520276	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup127"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7748631	7750155	.	+	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup78"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7828761	7829083	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup132"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7881322	7881911	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup48"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	7907279	7907794	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup135"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8033433	8034022	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup51"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8137658	8137976	.	+	.	gene_id "TIRANT_I"; transcript_id "TIRANT_I_dup20"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8244488	8244933	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup113"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8371984	8372439	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup115"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8374715	8375214	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup144"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8427074	8427271	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup15"; family_id "Copia"; class_id "LTR";
chrU	dm3_rmsk	exon	8523917	8524479	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup55"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8639171	8640550	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup91"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8647157	8647861	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup306"; family_id "CR1"; class_id "LINE";
chrU	dm3_rmsk	exon	8711610	8712130	.	+	.	gene_id "Gypsy_DS"; transcript_id "Gypsy_DS_dup11"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8720854	8721046	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup107"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8721047	8721460	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup29"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8731513	8731702	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup17"; family_id "Copia"; class_id "LTR";
chrU	dm3_rmsk	exon	8772055	8772757	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup157"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8809472	8809792	.	-	.	gene_id "TIRANT_I"; transcript_id "TIRANT_I_dup23"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	8899308	8899741	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup62"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9007353	9007909	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup42"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9013996	9014409	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup30"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9014410	9014542	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup110"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9043750	9044112	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup31"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9044113	9044332	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup111"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9194346	9194700	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup63"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9280618	9281548	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup176"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9409569	9410084	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup4"; family_id "LTR"; class_id "LTR";
chrU	dm3_rmsk	exon	9409769	9410183	.	+	.	gene_id "DM412"; transcript_id "DM412_dup60"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9423981	9424974	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup181"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9466785	9467907	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup183"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9476659	9477397	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup68"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9480221	9480307	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup69"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9549357	9549872	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup7"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9693207	9693297	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup120"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9693298	9693711	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup32"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9841738	9842180	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup125"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9890510	9891080	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup9"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9917593	9917947	.	-	.	gene_id "DM412"; transcript_id "DM412_dup62"; family_id "Gypsy"; class_id "LTR";
chrU	dm3_rmsk	exon	9917630	9918110	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup5"; family_id "LTR"; class_id "LTR";
chrU	dm3_rmsk	exon	9931601	9932153	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup196"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	10820	12794	.	+	.	gene_id "TAHRE"; transcript_id "TAHRE_dup104"; family_id "telomeric"; class_id "LINE";
chrX	dm3_rmsk	exon	19112	19196	.	+	.	gene_id "TAHRE"; transcript_id "TAHRE_dup105"; family_id "telomeric"; class_id "LINE";
chrX	dm3_rmsk	exon	189895	197508	.	-	.	gene_id "DM412"; transcript_id "DM412_dup64"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	445510	453014	.	+	.	gene_id "DM412"; transcript_id "DM412_dup65"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	706355	706755	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup33"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	706756	710761	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup122"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	927440	935019	.	+	.	gene_id "DM412"; transcript_id "DM412_dup66"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	1251868	1253278	.	-	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup17"; family_id "I"; class_id "LINE";
chrX	dm3_rmsk	exon	1825142	1831621	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup57"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	1849398	1854645	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup49"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	3073073	3079644	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup58"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	3387608	3395852	.	-	.	gene_id "ROO_I"; transcript_id "ROO_I_dup129"; family_id "Pao"; class_id "LTR";
chrX	dm3_rmsk	exon	3395853	3396280	.	-	.	gene_id "ROO_LTR"; transcript_id "ROO_LTR_dup45"; family_id "Pao"; class_id "LTR";
chrX	dm3_rmsk	exon	3495547	3495974	.	-	.	gene_id "ROO_LTR"; transcript_id "ROO_LTR_dup47"; family_id "Pao"; class_id "LTR";
chrX	dm3_rmsk	exon	3508115	3508542	.	-	.	gene_id "ROO_LTR"; transcript_id "ROO_LTR_dup49"; family_id "Pao"; class_id "LTR";
chrX	dm3_rmsk	exon	3880951	3881464	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup6"; family_id "LTR"; class_id "LTR";
chrX	dm3_rmsk	exon	3881355	3888326	.	-	.	gene_id "DM412"; transcript_id "DM412_dup67"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	3888013	3888526	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup7"; family_id "LTR"; class_id "LTR";
chrX	dm3_rmsk	exon	4051980	4052393	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup36"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	4052394	4058543	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup124"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	4722487	4728965	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup197"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	5285684	5286482	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup126"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	5286483	5286896	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup39"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	5418929	5420968	.	+	.	gene_id "DM412"; transcript_id "DM412_dup68"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	5420945	5422734	.	+	.	gene_id "DM412"; transcript_id "DM412_dup69"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	6065672	6066329	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup74"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	6066330	6072388	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup125"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	6072389	6073046	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup75"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	6340461	6344677	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup128"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	6344678	6345091	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup41"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	9693025	9699191	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup129"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	9699192	9699605	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup43"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	9989251	9989664	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup44"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	9989665	9994170	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup130"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	10032303	10032783	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup8"; family_id "LTR"; class_id "LTR";
chrX	dm3_rmsk	exon	10032470	10039372	.	+	.	gene_id "DM412"; transcript_id "DM412_dup70"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	10039263	10039743	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup9"; family_id "LTR"; class_id "LTR";
chrX	dm3_rmsk	exon	10419160	10419572	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup46"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	10419573	10425740	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup132"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	11206576	11213009	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup51"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	11527919	11534087	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup133"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	11534088	11534501	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup50"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	12608970	12609026	.	-	.	gene_id "ROO_I"; transcript_id "ROO_I_dup330"; family_id "Pao"; class_id "LTR";
chrX	dm3_rmsk	exon	14052861	14056866	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup135"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	14056867	14057280	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup52"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	14446249	14452816	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup59"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	19030640	19031120	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup10"; family_id "LTR"; class_id "LTR";
chrX	dm3_rmsk	exon	19030807	19035865	.	+	.	gene_id "DM412"; transcript_id "DM412_dup71"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	19037021	19037501	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup11"; family_id "LTR"; class_id "LTR";
chrX	dm3_rmsk	exon	19691843	19698056	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup198"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	19927404	19927817	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup57"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	19927818	19929771	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup140"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21329782	21335151	.	-	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup19"; family_id "I"; class_id "LINE";
chrX	dm3_rmsk	exon	21395076	21395730	.	-	.	gene_id "ROO_I"; transcript_id "ROO_I_dup450"; family_id "Pao"; class_id "LTR";
chrX	dm3_rmsk	exon	21421820	21423555	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup146"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21423556	21423969	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup60"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21512181	21519806	.	-	.	gene_id "DM412"; transcript_id "DM412_dup74"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21519811	21524347	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup54"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21547758	21549716	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup201"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21549795	21551471	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup202"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21552015	21558368	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup204"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21580844	21582367	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup207"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21586806	21587822	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup208"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21604473	21610607	.	-	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup71"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21615912	21617588	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup210"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21642451	21643491	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup213"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	21644907	21645298	.	-	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup76"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	22022378	22022791	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup62"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	22022792	22027540	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup147"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	22175530	22176216	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup150"; family_id "Gypsy"; class_id "LTR";
chrX	dm3_rmsk	exon	22176217	22176630	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup66"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	2112686	2119254	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup63"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	2565593	2566006	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup74"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	2566007	2569028	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup159"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	2772653	2773066	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup76"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	2773067	2776969	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup161"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	4662398	4668884	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup64"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	4973719	4973842	.	-	.	gene_id "S2_DM"; transcript_id "S2_DM_dup7"; family_id "Tc1"; class_id "DNA";
chr2L	dm3_rmsk	exon	4973823	4973927	.	-	.	gene_id "S2_DM"; transcript_id "S2_DM_dup8"; family_id "Tc1"; class_id "DNA";
chr2L	dm3_rmsk	exon	7977135	7977547	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup78"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	7977548	7983640	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup164"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	8594934	8601102	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup165"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	8601103	8601516	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup81"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	10593415	10599983	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup65"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	10876598	10877011	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup82"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	10877012	10883182	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup166"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	12067385	12067798	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup84"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	12067799	12073965	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup167"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	12781859	12782516	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup77"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	12782517	12788586	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup128"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	12788587	12789244	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup78"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	13449518	13450176	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup79"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	13450177	13456236	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup129"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	13456237	13456895	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup80"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	14984971	14991457	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup66"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	15586465	15586878	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup86"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	15586879	15593045	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup168"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	15683783	15684440	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup81"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	15684441	15686758	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup130"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	15718780	15719437	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup82"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	15719438	15721755	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup131"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	15726912	15727569	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup83"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	16154206	16160372	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup169"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	16160373	16160787	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup89"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	17144903	17151477	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup67"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	19147425	19147838	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup90"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	19147839	19153988	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup170"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	19658198	19664770	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup68"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	20156132	20156835	.	-	.	gene_id "POGO"; transcript_id "POGO_dup19"; family_id "Pogo"; class_id "DNA";
chr2L	dm3_rmsk	exon	20157736	20158439	.	-	.	gene_id "POGO"; transcript_id "POGO_dup20"; family_id "Pogo"; class_id "DNA";
chr2L	dm3_rmsk	exon	20835864	20836522	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup84"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	21406236	21406838	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup123"; family_id "Gypsy"; class_id "LTR";
chr2L	dm3_rmsk	exon	22786818	22788162	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup218"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	29494	29691	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup23"; family_id "Copia"; class_id "LTR";
chr2R	dm3_rmsk	exon	33561	33757	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup24"; family_id "Copia"; class_id "LTR";
chr2R	dm3_rmsk	exon	37627	37795	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup25"; family_id "Copia"; class_id "LTR";
chr2R	dm3_rmsk	exon	62686	66864	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup221"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	290249	291158	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup460"; family_id "CR1"; class_id "LINE";
chr2R	dm3_rmsk	exon	320405	321649	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup138"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	333623	334869	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup142"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	352453	354318	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup144"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	1208416	1208645	.	-	.	gene_id "DNAREP1_DM"; transcript_id "DNAREP1_DM_dup2748"; family_id "Penelope"; class_id "LINE";
chr2R	dm3_rmsk	exon	1268080	1274651	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup84"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	1275172	1281362	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup63"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	1316559	1318957	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup536"; family_id "CR1"; class_id "LINE";
chr2R	dm3_rmsk	exon	1469711	1470864	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup547"; family_id "CR1"; class_id "LINE";
chr2R	dm3_rmsk	exon	2204690	2208130	.	-	.	gene_id "Copia2_I"; transcript_id "Copia2_I_dup101"; family_id "Copia"; class_id "LTR";
chr2R	dm3_rmsk	exon	2218252	2224794	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup227"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	2254749	2254934	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup27"; family_id "Copia"; class_id "LTR";
chr2R	dm3_rmsk	exon	2261767	2261952	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup28"; family_id "Copia"; class_id "LTR";
chr2R	dm3_rmsk	exon	2840244	2846730	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup86"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	3150161	3156328	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup210"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	3156329	3156741	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup106"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	3994550	3994963	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup107"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	3994964	3998866	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup211"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	7304683	7305764	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup88"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	9616211	9622776	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup89"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	10972539	10972952	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup110"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	10972953	10979116	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup215"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	15957285	15958055	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup90"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	17039987	17040847	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup94"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	19417152	19424670	.	-	.	gene_id "DM412"; transcript_id "DM412_dup82"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	19801877	19809443	.	-	.	gene_id "DM412"; transcript_id "DM412_dup83"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	20034646	20035128	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup13"; family_id "LTR"; class_id "LTR";
chr2R	dm3_rmsk	exon	20035019	20041999	.	-	.	gene_id "DM412"; transcript_id "DM412_dup84"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	20041684	20042166	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup14"; family_id "LTR"; class_id "LTR";
chr2R	dm3_rmsk	exon	20064814	20072241	.	-	.	gene_id "DM412"; transcript_id "DM412_dup85"; family_id "Gypsy"; class_id "LTR";
chr2R	dm3_rmsk	exon	20535163	20542666	.	-	.	gene_id "DM412"; transcript_id "DM412_dup86"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	403154	409321	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup216"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	409322	409735	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup115"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	1047407	1054568	.	-	.	gene_id "DM412"; transcript_id "DM412_dup87"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	1054555	1055161	.	-	.	gene_id "DM412"; transcript_id "DM412_dup88"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	1219647	1220216	.	+	.	gene_id "DM412"; transcript_id "DM412_dup89"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	1220203	1227326	.	+	.	gene_id "DM412"; transcript_id "DM412_dup90"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	4328954	4335856	.	+	.	gene_id "DM412"; transcript_id "DM412_dup91"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	5292308	5292965	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup97"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	5292966	5299027	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup149"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	5299028	5299685	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup98"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	7370471	7370884	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup117"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	7370885	7371685	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup217"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	7787281	7793447	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup219"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	7793448	7793861	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup120"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	7880360	7881722	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup228"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	9070082	9070595	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup17"; family_id "LTR"; class_id "LTR";
chr3L	dm3_rmsk	exon	9070282	9077180	.	+	.	gene_id "DM412"; transcript_id "DM412_dup92"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	9077071	9077584	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup18"; family_id "LTR"; class_id "LTR";
chr3L	dm3_rmsk	exon	9123704	9127416	.	-	.	gene_id "DM412"; transcript_id "DM412_dup93"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	9526908	9534410	.	+	.	gene_id "DM412"; transcript_id "DM412_dup94"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	11557936	11565503	.	+	.	gene_id "DM412"; transcript_id "DM412_dup95"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	13260258	13260342	.	-	.	gene_id "ROO_I"; transcript_id "ROO_I_dup1029"; family_id "Pao"; class_id "LTR";
chr3L	dm3_rmsk	exon	14818714	14825517	.	+	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup66"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	15418565	15419184	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup96"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	16609665	16610078	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup121"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	16610079	16614098	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup220"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	17510135	17517635	.	-	.	gene_id "DM412"; transcript_id "DM412_dup96"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	17912044	17912904	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup97"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	18704339	18709588	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup67"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	19813441	19813921	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup19"; family_id "LTR"; class_id "LTR";
chr3L	dm3_rmsk	exon	19813812	19820779	.	-	.	gene_id "DM412"; transcript_id "DM412_dup97"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	19820466	19820946	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup20"; family_id "LTR"; class_id "LTR";
chr3L	dm3_rmsk	exon	20327933	20328517	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup132"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	20334190	20334783	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup133"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	20583219	20583700	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup12"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	21236884	21244408	.	+	.	gene_id "DM412"; transcript_id "DM412_dup98"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	22754546	22759914	.	+	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup40"; family_id "I"; class_id "LINE";
chr3L	dm3_rmsk	exon	22797386	22803956	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup99"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	22806024	22812083	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup158"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	22983017	22983430	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup124"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	22983431	22989521	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup228"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23150298	23150955	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup106"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23150956	23157025	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup159"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23157026	23157683	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup107"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23159066	23159723	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup108"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23159724	23165793	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup160"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23165794	23166451	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup109"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23296135	23297324	.	-	.	gene_id "DMRT1B"; transcript_id "DMRT1B_dup239"; family_id "R1"; class_id "LINE";
chr3L	dm3_rmsk	exon	23309691	23310346	.	-	.	gene_id "PROTOP_B"; transcript_id "PROTOP_B_dup304"; family_id "P"; class_id "DNA";
chr3L	dm3_rmsk	exon	23365825	23372408	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup100"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23378792	23385373	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup101"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23415043	23418949	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup230"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23464990	23466103	.	+	.	gene_id "Gypsy3_I"; transcript_id "Gypsy3_I_dup62"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23492288	23496191	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup235"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23566127	23571153	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup236"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23665822	23667053	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup239"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23667051	23667540	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup240"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23771950	23772323	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup171"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	23800784	23802508	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup669"; family_id "CR1"; class_id "LINE";
chr3L	dm3_rmsk	exon	23877394	23877591	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup29"; family_id "Copia"; class_id "LTR";
chr3L	dm3_rmsk	exon	23881877	23882073	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup30"; family_id "Copia"; class_id "LTR";
chr3L	dm3_rmsk	exon	23906997	23908404	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup691"; family_id "CR1"; class_id "LINE";
chr3L	dm3_rmsk	exon	23968584	23969241	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup115"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	24131239	24137265	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup168"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	24190735	24191392	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup119"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	24195937	24196594	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup120"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	24265766	24272339	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup111"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	24402882	24408921	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup174"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	24467900	24472283	.	+	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup114"; family_id "Gypsy"; class_id "LTR";
chr3L	dm3_rmsk	exon	24512256	24513726	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup746"; family_id "CR1"; class_id "LINE";
chr3R	dm3_rmsk	exon	85005	91064	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup175"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	3557455	3562699	.	+	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup82"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	3917683	3919320	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup276"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	3919321	3919734	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup135"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	4694573	4694985	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup136"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	4694986	4697176	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup277"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	4723998	4724411	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup138"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	4724412	4724498	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup279"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	5130941	5137128	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup243"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	6022729	6023142	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup140"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	6023143	6027676	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup283"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	6167799	6173891	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup285"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	6173892	6174304	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup143"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	6892543	6896548	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup287"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	6896549	6896962	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup145"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	8294200	8294397	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup31"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8295389	8295558	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup32"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8299366	8299535	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup35"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8300958	8301127	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup37"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8302550	8302719	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup39"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8303884	8304053	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup40"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8305497	8305666	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup42"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8308326	8308495	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup45"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8313462	8313631	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup48"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8316291	8316460	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup51"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	8325323	8325492	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup53"; family_id "Copia"; class_id "LTR";
chr3R	dm3_rmsk	exon	10928275	10928755	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup21"; family_id "LTR"; class_id "LTR";
chr3R	dm3_rmsk	exon	10934859	10935305	.	-	.	gene_id "DM412"; transcript_id "DM412_dup107"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	10934992	10935472	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup22"; family_id "LTR"; class_id "LTR";
chr3R	dm3_rmsk	exon	11426941	11427422	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup23"; family_id "LTR"; class_id "LTR";
chr3R	dm3_rmsk	exon	11427313	11434238	.	-	.	gene_id "DM412"; transcript_id "DM412_dup108"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	11433924	11434405	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup24"; family_id "LTR"; class_id "LTR";
chr3R	dm3_rmsk	exon	13334998	13342488	.	+	.	gene_id "DM412"; transcript_id "DM412_dup109"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	13859073	13865652	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup114"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	16340057	16340908	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup116"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	19677352	19683927	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup117"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	22043124	22047018	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup289"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	22047019	22047431	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup147"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	22384740	22390952	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup245"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	22966292	22973844	.	+	.	gene_id "DM412"; transcript_id "DM412_dup110"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	23701891	23708060	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup290"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	24425799	24425915	.	-	.	gene_id "LINEJ1_DM"; transcript_id "LINEJ1_DM_dup144"; family_id "Jockey"; class_id "LINE";
chr3R	dm3_rmsk	exon	24590095	24596647	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup246"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	26201316	26208883	.	+	.	gene_id "DM412"; transcript_id "DM412_dup111"; family_id "Gypsy"; class_id "LTR";
chr3R	dm3_rmsk	exon	27495986	27496134	.	-	.	gene_id "DNAREP1_DM"; transcript_id "DNAREP1_DM_dup4623"; family_id "Penelope"; class_id "LINE";
chrXHet	dm3_rmsk	exon	92917	93113	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup55"; family_id "Copia"; class_id "LTR";
chrXHet	dm3_rmsk	exon	98805	99001	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup56"; family_id "Copia"; class_id "LTR";
chrXHet	dm3_rmsk	exon	104691	104887	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup57"; family_id "Copia"; class_id "LTR";
chrXHet	dm3_rmsk	exon	110576	110772	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup58"; family_id "Copia"; class_id "LTR";
chrXHet	dm3_rmsk	exon	116461	116657	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup59"; family_id "Copia"; class_id "LTR";
chrXHet	dm3_rmsk	exon	122349	122545	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup60"; family_id "Copia"; class_id "LTR";
chrXHet	dm3_rmsk	exon	128221	128417	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup61"; family_id "Copia"; class_id "LTR";
chrXHet	dm3_rmsk	exon	132522	132719	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup62"; family_id "Copia"; class_id "LTR";
chrYHet	dm3_rmsk	exon	79707	80691	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup771"; family_id "CR1"; class_id "LINE";
chrYHet	dm3_rmsk	exon	181984	182181	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup64"; family_id "Copia"; class_id "LTR";
chrYHet	dm3_rmsk	exon	314592	317225	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup252"; family_id "Gypsy"; class_id "LTR";
chrYHet	dm3_rmsk	exon	321875	324507	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup254"; family_id "Gypsy"; class_id "LTR";
chrYHet	dm3_rmsk	exon	338562	339218	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup134"; family_id "Gypsy"; class_id "LTR";
chr2LHet	dm3_rmsk	exon	22078	22201	.	+	.	gene_id "DNAREP1_DM"; transcript_id "DNAREP1_DM_dup4748"; family_id "Penelope"; class_id "LINE";
chr2LHet	dm3_rmsk	exon	237708	243077	.	+	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup49"; family_id "I"; class_id "LINE";
chr2LHet	dm3_rmsk	exon	319022	322935	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup263"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	321363	324230	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup266"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	396896	397012	.	-	.	gene_id "HELENA"; transcript_id "HELENA_dup3"; family_id "Jockey"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	401410	401722	.	+	.	gene_id "Gypsy_I"; transcript_id "Gypsy_I_dup117"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	412537	413738	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup825"; family_id "CR1"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	422796	423997	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup827"; family_id "CR1"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	579626	585667	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup272"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	711188	717988	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup87"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	845370	850300	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup278"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	906168	912510	.	+	.	gene_id "TABOR_I"; transcript_id "TABOR_I_dup14"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1070316	1070759	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup200"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1096471	1097123	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup138"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1097124	1102831	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup193"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1103201	1103853	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup139"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1103854	1109562	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup195"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1109932	1110584	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup140"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1430601	1435981	.	-	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup57"; family_id "I"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	1578556	1579063	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup142"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1595646	1595867	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup143"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1662407	1663532	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup925"; family_id "CR1"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	1671374	1671829	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup207"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1732318	1732515	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup66"; family_id "Copia"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1756050	1757426	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup931"; family_id "CR1"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	1759026	1763079	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup283"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1766744	1767869	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup934"; family_id "CR1"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	1829805	1830461	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup148"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	1937252	1938427	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup287"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2126851	2127507	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup150"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2205238	2211812	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup155"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2266184	2266380	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup959"; family_id "CR1"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	2266388	2267371	.	-	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup172"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2271200	2271396	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup960"; family_id "CR1"; class_id "LINE";
chr2RHet	dm3_rmsk	exon	2576017	2576497	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup29"; family_id "LTR"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2576388	2583339	.	-	.	gene_id "DM412"; transcript_id "DM412_dup120"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2583026	2583506	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup30"; family_id "LTR"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2620135	2626569	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup294"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2649149	2649806	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup151"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	2876877	2877347	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup214"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	3240766	3242314	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup353"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	3242315	3242729	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup169"; family_id "Gypsy"; class_id "LTR";
chr2RHet	dm3_rmsk	exon	3277824	3279072	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup223"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	354910	357822	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup220"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	483329	484050	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1079"; family_id "CR1"; class_id "LINE";
chr3LHet	dm3_rmsk	exon	509933	513445	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup302"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	549647	552049	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup223"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	792236	794266	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1098"; family_id "CR1"; class_id "LINE";
chr3LHet	dm3_rmsk	exon	823538	825639	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1102"; family_id "CR1"; class_id "LINE";
chr3LHet	dm3_rmsk	exon	956253	956909	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup163"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	957266	962595	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup240"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	983668	986473	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup315"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1030809	1031465	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup167"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1151071	1155572	.	+	.	gene_id "Gypsy_I"; transcript_id "Gypsy_I_dup153"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1160221	1165073	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup319"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1373023	1377857	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup320"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1538514	1544203	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup323"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1683469	1684123	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup173"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1690175	1690811	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup174"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1737851	1738507	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup175"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1744573	1744770	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup67"; family_id "Copia"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1774179	1777159	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup106"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	1923212	1923837	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup177"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	2034838	2037212	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup329"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	2119474	2126010	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup330"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	2197643	2198319	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1188"; family_id "CR1"; class_id "LINE";
chr3LHet	dm3_rmsk	exon	2228211	2230060	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup332"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	2388150	2391546	.	-	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup87"; family_id "I"; class_id "LINE";
chr3LHet	dm3_rmsk	exon	2493951	2500000	.	-	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup178"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	2501208	2501456	.	-	.	gene_id "ACCORD2_I"; transcript_id "ACCORD2_I_dup230"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	2523539	2528337	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup334"; family_id "Gypsy"; class_id "LTR";
chr3LHet	dm3_rmsk	exon	2529719	2534595	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup336"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	103505	104162	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup181"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	115978	118430	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1232"; family_id "CR1"; class_id "LINE";
chr3RHet	dm3_rmsk	exon	168333	168746	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup185"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	168747	173788	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup414"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	174269	174682	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup186"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	174683	177140	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup416"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	235339	236750	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1237"; family_id "CR1"; class_id "LINE";
chr3RHet	dm3_rmsk	exon	391520	393355	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup345"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	621179	625027	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1258"; family_id "CR1"; class_id "LINE";
chr3RHet	dm3_rmsk	exon	708787	710560	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup266"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	714932	715949	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup269"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	735903	736888	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1270"; family_id "CR1"; class_id "LINE";
chr3RHet	dm3_rmsk	exon	1048132	1048714	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup201"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	1274333	1279708	.	+	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup92"; family_id "I"; class_id "LINE";
chr3RHet	dm3_rmsk	exon	1391501	1397669	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup430"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	1397670	1398083	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup194"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	1725207	1725866	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup189"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	1969336	1971537	.	-	.	gene_id "Gypsy_I"; transcript_id "Gypsy_I_dup201"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	1976195	1976261	.	-	.	gene_id "DM176_I"; transcript_id "DM176_I_dup171"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	1976257	1976371	.	-	.	gene_id "DM176_I"; transcript_id "DM176_I_dup172"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	2012595	2015484	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup357"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	2132247	2132697	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup294"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	2137589	2140535	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1362"; family_id "CR1"; class_id "LINE";
chr3RHet	dm3_rmsk	exon	2152093	2154363	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1364"; family_id "CR1"; class_id "LINE";
chr3RHet	dm3_rmsk	exon	2162807	2163464	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup191"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	2166224	2169074	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup287"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	2174172	2174747	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup193"; family_id "Gypsy"; class_id "LTR";
chr3RHet	dm3_rmsk	exon	2502594	2502988	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup217"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	263872	264250	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup197"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	417914	418576	.	-	.	gene_id "Baggins1"; transcript_id "Baggins1_dup329"; family_id "LOA"; class_id "LINE";
chrUextra	dm3_rmsk	exon	490459	490644	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup69"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	534429	535172	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup455"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	558971	559475	.	+	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup207"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	561513	561682	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup70"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	632088	632637	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup219"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	666562	666767	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup456"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	748847	750174	.	+	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup193"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	781576	782842	.	+	.	gene_id "TART"; transcript_id "TART_dup264"; family_id "telomeric"; class_id "LINE";
chrUextra	dm3_rmsk	exon	1105430	1106023	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup207"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1136603	1137798	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup295"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1206989	1207411	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup382"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1207512	1207872	.	-	.	gene_id "DM412"; transcript_id "DM412_dup150"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1207558	1208072	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup34"; family_id "LTR"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1214193	1214388	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup71"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1263999	1264196	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup72"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1283624	1283793	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup74"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1337297	1338164	.	+	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup199"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1479272	1479814	.	+	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup115"; family_id "I"; class_id "LINE";
chrUextra	dm3_rmsk	exon	1491307	1491476	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup76"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1553696	1553892	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1507"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	1558560	1558972	.	+	.	gene_id "Baggins1"; transcript_id "Baggins1_dup350"; family_id "LOA"; class_id "LINE";
chrUextra	dm3_rmsk	exon	1566550	1567649	.	-	.	gene_id "TART"; transcript_id "TART_dup297"; family_id "telomeric"; class_id "LINE";
chrUextra	dm3_rmsk	exon	1634074	1634271	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup77"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1674843	1675634	.	+	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup206"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1682961	1683896	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup339"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1802357	1803441	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup392"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1874696	1875287	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup224"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	1943630	1944699	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup398"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2168853	2169605	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup404"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2169603	2169894	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup405"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2270032	2270229	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup80"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2275702	2275899	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup81"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2295331	2295528	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup82"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2329835	2330219	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup227"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2548657	2549227	.	+	.	gene_id "TART_B1"; transcript_id "TART_B1_dup92"; family_id "telomeric"; class_id "LINE";
chrUextra	dm3_rmsk	exon	2553740	2553861	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup218"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2559253	2560254	.	+	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup229"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2623068	2624066	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup427"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2821009	2821596	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup436"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2822098	2822482	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup438"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2826450	2827057	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup440"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	2892734	2893715	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup443"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3035810	3036529	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1570"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	3052810	3053324	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup237"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3058643	3059056	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup209"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3059057	3059176	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup495"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3129560	3129757	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup84"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3203233	3203707	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup26"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3343187	3343846	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup226"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3457873	3458356	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup227"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3535293	3536032	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1586"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	3577563	3578217	.	+	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup124"; family_id "I"; class_id "LINE";
chrUextra	dm3_rmsk	exon	3619388	3619704	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup228"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	3922644	3923216	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup350"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4113357	4113963	.	-	.	gene_id "POGO"; transcript_id "POGO_dup58"; family_id "Pogo"; class_id "DNA";
chrUextra	dm3_rmsk	exon	4221101	4221566	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup379"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4268697	4269186	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup497"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4308781	4308977	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1604"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	4331740	4332657	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup499"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4344371	4344921	.	-	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup265"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4362616	4363106	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup380"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4372298	4372494	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1605"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	4506984	4507430	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup237"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4534961	4535282	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup509"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4643605	4644074	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup239"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4649981	4650177	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1615"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	4667366	4667714	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup513"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4743405	4743601	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup86"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4770443	4770927	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup240"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4799955	4800151	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1616"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	4806564	4807465	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup517"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4834620	4835060	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup518"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	4903649	4904547	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup520"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5002630	5003323	.	+	.	gene_id "DM412"; transcript_id "DM412_dup163"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5199146	5199460	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup255"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5410456	5410970	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup35"; family_id "LTR"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5419739	5420020	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup258"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5467623	5467819	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup87"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5468267	5469145	.	+	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup157"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5525509	5525875	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup249"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5566323	5566520	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup88"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5639085	5639356	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup27"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5645896	5646768	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1631"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	5871695	5872156	.	-	.	gene_id "ROVER-I_DM"; transcript_id "ROVER-I_DM_dup287"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5894742	5895604	.	-	.	gene_id "TART"; transcript_id "TART_dup471"; family_id "telomeric"; class_id "LINE";
chrUextra	dm3_rmsk	exon	5939997	5940317	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup256"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5968183	5968380	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup90"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5973645	5974503	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup551"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	5989011	5989803	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup552"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6006291	6007150	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup553"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6057681	6057850	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup91"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6214785	6215147	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup28"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6275627	6276474	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup556"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6356315	6356488	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup92"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6415169	6415678	.	+	.	gene_id "TIRANT_I"; transcript_id "TIRANT_I_dup109"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6477616	6478058	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup259"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6596063	6596902	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup566"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6726414	6727249	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup574"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6731093	6731592	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1651"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	6777120	6777571	.	-	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup257"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6817033	6817865	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup411"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6841514	6842113	.	-	.	gene_id "Stalker2_I"; transcript_id "Stalker2_I_dup170"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6903682	6904071	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup261"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6907402	6907941	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup584"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6920422	6921251	.	+	.	gene_id "DM412"; transcript_id "DM412_dup170"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	6992859	6993661	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup412"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7102128	7102952	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup593"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7150450	7150988	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup30"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7235015	7235497	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup263"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7315986	7316645	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup600"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7334043	7334240	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup95"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7370695	7370891	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1665"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	7446279	7446798	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup606"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7507585	7508242	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup265"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7588853	7588998	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup267"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7616213	7617024	.	+	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup342"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7702096	7702404	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup269"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7734930	7735285	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup31"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7900550	7901354	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup428"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	7922267	7922830	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup272"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8078372	8078451	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1684"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	8250902	8251698	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup550"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8271783	8272323	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup636"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8290345	8291138	.	-	.	gene_id "TART_B1"; transcript_id "TART_B1_dup139"; family_id "telomeric"; class_id "LINE";
chrUextra	dm3_rmsk	exon	8314031	8314435	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup260"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8459459	8459943	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup39"; family_id "LTR"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8459627	8460144	.	+	.	gene_id "DM412"; transcript_id "DM412_dup172"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8478977	8479082	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup553"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8479083	8479496	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup219"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8532787	8533222	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup435"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8560978	8561767	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup645"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8590054	8590223	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup100"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8734305	8735091	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup557"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8806116	8806901	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup654"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8833870	8834362	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup276"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8872012	8872417	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup277"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	8926762	8926958	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1699"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	9061442	9062185	.	-	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup356"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9101936	9102517	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup659"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9118656	9118814	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup559"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9118815	9119228	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup222"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9136851	9137035	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup101"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9250524	9251301	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup662"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9351400	9351889	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1706"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	9487421	9487729	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup282"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9580526	9581298	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup669"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9771332	9772101	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup672"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9849567	9849768	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup281"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9856519	9856717	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup286"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9861728	9862489	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup673"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9899335	9899815	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup33"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9935491	9935857	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup34"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9935858	9935990	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup35"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	9994442	9995207	.	-	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup282"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	10381383	10382143	.	-	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup286"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	10486351	10487110	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup697"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	10539624	10540301	.	+	.	gene_id "DM412"; transcript_id "DM412_dup184"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	10543476	10543672	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup107"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	10619983	10620180	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup108"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11073586	11074338	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup714"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11164747	11165497	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup574"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11167300	11168050	.	+	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup143"; family_id "I"; class_id "LINE";
chrUextra	dm3_rmsk	exon	11320396	11321145	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup721"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11379012	11379760	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup725"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11560510	11560996	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup298"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11582535	11583278	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup733"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11648555	11649291	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup735"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11729718	11730462	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup740"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11747463	11748207	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup580"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11766055	11766797	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup490"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11916285	11917027	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup747"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	11919657	11920399	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup748"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12017406	12018147	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup752"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12023632	12023801	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup109"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12084875	12085287	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup228"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12085288	12085501	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup582"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12111673	12112413	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup758"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12170543	12170736	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup110"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12210874	12211613	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup759"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12320847	12321585	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup585"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12392963	12393700	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup765"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12445757	12446494	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup766"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12468359	12469095	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup768"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12502676	12503268	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup772"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12574033	12574537	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup494"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12608080	12608347	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup229"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12608348	12608815	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup586"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12746217	12746386	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup111"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12761216	12761385	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup112"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12762629	12763363	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup781"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12791845	12792001	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup588"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12792002	12792415	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup230"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	12801853	12802586	.	-	.	gene_id "DM412"; transcript_id "DM412_dup191"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13003552	13003917	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup231"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13003918	13004284	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup590"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13012838	13013035	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup113"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13031417	13031757	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup301"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13090101	13090449	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup41"; family_id "LTR"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13095090	13095821	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup790"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13145823	13146552	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup792"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13195854	13196413	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup304"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13203200	13203369	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup114"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13359258	13359976	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup527"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13368369	13369097	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup801"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13513532	13514102	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup38"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13568026	13568291	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup232"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13568292	13568753	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup593"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13689617	13690340	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup811"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13699538	13700264	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup596"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13863890	13864605	.	+	.	gene_id "DM412"; transcript_id "DM412_dup198"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13898531	13898702	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup309"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	13912672	13913280	.	+	.	gene_id "Gypsy6_I"; transcript_id "Gypsy6_I_dup312"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14161352	14162074	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup545"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14234569	14235290	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup835"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14420512	14420954	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup39"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14429265	14429985	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup839"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14480972	14481691	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup841"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14585098	14585815	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup555"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14641608	14642326	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup844"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14643246	14643964	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup845"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14801198	14801911	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup40"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	14918063	14918779	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup853"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15010326	15011041	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup564"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15128635	15129292	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup317"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15145715	15146429	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup860"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15182390	15182946	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup319"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15320001	15320714	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup867"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15336281	15336994	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup869"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15411173	15411820	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup322"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15612583	15612802	.	+	.	gene_id "POGO"; transcript_id "POGO_dup66"; family_id "Pogo"; class_id "DNA";
chrUextra	dm3_rmsk	exon	15640191	15640901	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup883"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15724535	15725245	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup884"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	15812893	15813373	.	+	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup278"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16121328	16121525	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup120"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16144641	16144838	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup121"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16219727	16220433	.	-	.	gene_id "NOMAD_I"; transcript_id "NOMAD_I_dup280"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16354882	16355051	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup122"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16419763	16420468	.	+	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup41"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16443943	16444408	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup42"; family_id "LTR"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16450018	16450214	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1790"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	16453089	16453509	.	+	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup544"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16529332	16529408	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup237"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16529409	16530033	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup622"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16837298	16837913	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup42"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16862996	16863696	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup915"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	16992168	16992869	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup920"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	17001792	17002493	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup922"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	17027456	17028157	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup43"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	17221404	17221817	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup238"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	17221818	17221904	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup626"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	17530604	17530896	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup316"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	17768434	17768846	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup240"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	17768847	17768942	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup630"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	17786236	17786432	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1803"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	17913642	17913836	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup334"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	18148886	18149054	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup123"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	18492386	18493072	.	+	.	gene_id "Copia2_I"; transcript_id "Copia2_I_dup423"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	18536680	18537370	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup636"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	18578603	18579293	.	-	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup637"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	18870829	18871517	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup974"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	18899228	18899915	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup977"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	18907108	18907779	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup642"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19142583	19143269	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup989"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19144944	19145630	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup990"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19208740	19209153	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup242"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19209154	19209331	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup644"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19226168	19226623	.	+	.	gene_id "T412LTR"; transcript_id "T412LTR_dup43"; family_id "LTR"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19328097	19328776	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup997"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19335638	19335834	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1810"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	19460722	19460965	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup322"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19573658	19574297	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup344"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19604935	19605408	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup345"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19610833	19611098	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup323"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19663660	19664337	.	-	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1813"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	19695763	19696445	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1009"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19749726	19750030	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup347"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19824016	19824697	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1015"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19851352	19852032	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1017"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	19870877	19871557	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup656"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20052745	20053274	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1021"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20105098	20105612	.	-	.	gene_id "T412LTR"; transcript_id "T412LTR_dup44"; family_id "LTR"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20323731	20324408	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1032"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20430184	20430860	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1042"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20446501	20447177	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1043"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20459710	20460257	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup354"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20463595	20464152	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup355"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20573012	20573133	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup652"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20573134	20573546	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup244"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20694709	20694754	.	+	.	gene_id "POGO"; transcript_id "POGO_dup68"; family_id "Pogo"; class_id "DNA";
chrUextra	dm3_rmsk	exon	20737713	20737995	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup357"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20784536	20785205	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1053"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20898322	20898891	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup45"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20977865	20978433	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup363"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20980680	20980850	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup328"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	20984041	20984712	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup676"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21106789	21107460	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1063"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21131266	21131362	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup364"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21377241	21377401	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1839"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	21461959	21462128	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup126"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21528691	21529097	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1078"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21631573	21631769	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup332"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21636942	21637608	.	+	.	gene_id "IVK_DM"; transcript_id "IVK_DM_dup163"; family_id "I"; class_id "LINE";
chrUextra	dm3_rmsk	exon	21640777	21641443	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1082"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21664856	21665217	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup333"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21711341	21711989	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1086"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21758994	21759541	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup369"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21826284	21826949	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1088"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21882187	21882851	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1090"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21885247	21885911	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1091"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	21912022	21912686	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup689"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22126822	22127485	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1101"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22131406	22131601	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup375"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22207714	22208376	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1105"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22239760	22240422	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1106"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22596021	22596680	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup46"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22630198	22630856	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1112"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22784344	22784756	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup251"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22784757	22784859	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup668"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22831953	22832331	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup380"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	22994621	22995276	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1122"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	23057337	23057991	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1124"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	23066397	23066815	.	-	.	gene_id "DM412B_LTR"; transcript_id "DM412B_LTR_dup47"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	23173643	23174205	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1132"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	23303172	23303787	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup383"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	23336267	23336919	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1135"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	23443874	23444070	.	+	.	gene_id "DMCR1A"; transcript_id "DMCR1A_dup1862"; family_id "CR1"; class_id "LINE";
chrUextra	dm3_rmsk	exon	23444078	23444448	.	-	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup536"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	23847780	23847903	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup385"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	23991993	23992531	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup386"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	24009236	24009433	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup128"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	24345996	24346636	.	+	.	gene_id "Gypsy12_LTR"; transcript_id "Gypsy12_LTR_dup545"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	24360836	24361477	.	+	.	gene_id "QUASIMODO_I"; transcript_id "QUASIMODO_I_dup723"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	24576989	24577527	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup341"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	24811648	24812150	.	+	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup391"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	25197241	25197870	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1185"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	25294542	25294915	.	+	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup342"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	25304648	25305061	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup253"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	25305062	25305121	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup679"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	25319135	25319332	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup129"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	25431843	25432469	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1194"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	25722607	25722945	.	+	.	gene_id "TIRANT_I"; transcript_id "TIRANT_I_dup139"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	25919521	25919667	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup130"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	26246267	26246681	.	+	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup255"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	26246682	26246789	.	+	.	gene_id "DM297_I"; transcript_id "DM297_I_dup682"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	26305984	26306164	.	-	.	gene_id "QUASIMODO_LTR"; transcript_id "QUASIMODO_LTR_dup396"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	26399753	26400360	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1224"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	26779758	26780354	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1237"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	26821013	26821485	.	-	.	gene_id "Gypsy4_I"; transcript_id "Gypsy4_I_dup648"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	27117304	27117501	.	-	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup132"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	27229943	27230524	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1247"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	27234053	27234637	.	+	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1248"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	27886616	27886879	.	-	.	gene_id "IDEFIX_LTR"; transcript_id "IDEFIX_LTR_dup350"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	27905485	27905571	.	-	.	gene_id "DM297_I"; transcript_id "DM297_I_dup690"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	27905572	27905891	.	-	.	gene_id "DM297_LTR"; transcript_id "DM297_LTR_dup262"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	28209068	28209265	.	+	.	gene_id "Copia2_LTR_DM"; transcript_id "Copia2_LTR_DM_dup133"; family_id "Copia"; class_id "LTR";
chrUextra	dm3_rmsk	exon	28715167	28715519	.	+	.	gene_id "TABOR_I"; transcript_id "TABOR_I_dup112"; family_id "Gypsy"; class_id "LTR";
chrUextra	dm3_rmsk	exon	28866030	28866253	.	+	.	gene_id "SAR_DM"; transcript_id "SAR_DM_dup7047"; family_id "Satellite"; class_id "Satellite";
chrUextra	dm3_rmsk	exon	28961580	28961826	.	-	.	gene_id "STALKER4_I"; transcript_id "STALKER4_I_dup1265"; family_id "Gypsy"; class_id "LTR";