Cytology	Observed or estimated sequence coordinates	Symbol	Stocks


*Genes (mapped to the sequence)* [Export into hitlist]
93E4-93E9,93E4-93E5,93E4-93E5,93E4-93E5,93E4-93E5,93E1-93E3,93E4-93E5,93E1-93E3,93E-93E,93E-93E	3R:21570248..21619321	InR	69 stocks
93E9-93F1,93E8-93E9,93E-93E,93E-93E,93E-93E,86C3-86C4	3R:21620304..21660871	E2f1	69 stocks
93E9-93E9	3R:21621879..21622021	mir-998	3 stocks
93E9-93E9	3R:21622497..21622571	mir-11	5 stocks
93E10-93E10	3R:21632705..21633322	asRNA:CR46055	FBst0303241
93E11-93E11	3R:21638652..21639088	lncRNA:CR46056
93F1-93F1	3R:21646301..21646603	lncRNA:CR46057
93F1-93F2	3R:21661186..21662972	Archease	6 stocks

*Genes (mapped, but not to the sequence)* [Export into hitlist]
81-100	3R:3461351..32068446	cant	2 stocks
81-100	3R:3461351..32068446	l(3)cl-R3	2 stocks
86C-100F	3R:10473726..32068446	mei-P44
93C3-93F14	3R:21172900..22019295	l(3)93DFb
93C3-93F14	3R:21172900..22019295	l(3)93DFi
93C3-93F14	3R:21172900..22019295	E(Egfr)C22	FBst0305944
93C3-93F14	3R:21172900..22019295	l(3)93DFe
93C3-93F14	3R:21172900..22019295	l(3)93DFa
93C3-93F14	3R:21172900..22019295	l(3)93DFh
93C3-93F14	3R:21172900..22019295	l(3)93DFd
93C3-93F14	3R:21172900..22019295	l(3)93DFc
93C3-93F14	3R:21172900..22019295	l(3)93DFg
93C3-93F14	3R:21172900..22019295	l(3)93DFf
93E1-94A16	3R:21400810..22474684	E(Delta)9P39.3
93E-93E	3R:21400810..21645979	Eth-AR310
93E-93E	3R:21400810..21645979	l(3)93Ea
93E1-93E9	3R:21400810..21631618	l(3)1A1
93E4-93F8	3R:21512749..21754666	l(3)93Fa
93E8-93E9	3R:21612118..21631618	EP3707
93F-93F	3R:21645980..22019295	l(3)S086802
93F-93F	3R:21645980..22019295	myoblast-specific
93F1-93F1	3R:21645980..21662142	Ori93Fα

*Insertions (cytology mapped)* [Export into hitlist]
93E--93F	3R:21400810..22019295	P{lacW}S082414b
93E-93E	3R:21400810..21645979	P{GMroX1}93E
93E-93E	3R:21400810..21645979	P{lacW}S049706b
93E-93E	3R:21400810..21645979	P{enE}l(3)93Ea[3]
93E-93E	3R:21400810..21645979	P{lacW}S029701c
93E-93E	3R:21400810..21645979	P{lacW}S082609
93E4-93E9	3R:21512749..21631618	TI{TI}InR[353(HR)-8]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[EGFP]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[V5.rLUC]	FBst0092832
93E4-93E9	3R:21512749..21631618	TI{TI}InR[V5.spGFP11]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[E19,74(HR)]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[E19(HR)-22]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[E19(HR)-2]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[74(HR)]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[null(HR)]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[211(HR)]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[353(HR)-15]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[353(HR)]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[mCherry]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[246(HR)]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[353(HR)-20]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[E19(HR)-14]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[EYFP]
93E4-93E9	3R:21512749..21631618	TI{TI}InR[E19(HR)]
93E6--93E11	3R:21600248..21645979	P{lacW}l(3)S062314[S062314]
93E6--93E11	3R:21600248..21645979	P{lacW}l(3)S062310[S062310]
93E8--93E11	3R:21612118..21645979	P{lacW}S102312a
93E8-93E9	3R:21612118..21631618	P{lacW}E2f1[j3B1]
93E9-93F1	3R:21618053..21662142	P+PBac{XP5.WH5}E2f1[ΔRA]
93E9-93E9	3R:21618053..21631618	P{Mae-UAS.6.11}B0748[B0748]
93E9-93E9	3R:21618053..21631618	TI{TI}mir-11[R.w-]
93E9-93E9	3R:21618053..21631618	P{?XP}mir-998[exc222]
93E9-93E9	3R:21618053..21631618	TI{TI}mir-11[KO.w+]
93E9-93E9	3R:21618053..21631618	P{GSV1}C211[C211]
93E9-93E9	3R:21618053..21631618	TI{TI}mir-11[KO.w-]	FBst0058890
93E10-93E10	3R:21631619..21634957	P{RS5r}5-HA-1661
93E10-93E10	3R:21631619..21634957	P{GSV6}GS16665
93E10-93E10	3R:21631619..21634957	P{RS5r}5-SZ-3242
93E10-93E10	3R:21631619..21634957	P{RS3r}CB-0495-3
93E10-93E10	3R:21631619..21634957	P{GSV6}GS10386
93F-93F	3R:21645980..22019295	P{A[[17]]O[[15]]}6
93F-93F	3R:21645980..22019295	P{enE}12
93F-93F	3R:21645980..22019295	P{lacW}l(3)S086802[S086802]
93F-93F	3R:21645980..22019295	P{DBF10}93F
93F1-93F1	3R:21645980..21662142	P{XP}d06757

*Insertions (sequence mapped)* [Export into hitlist]
93E9	3R:21618525..21618525	P{GSV7}GS21312	FBst0321376
93E9	3R:21618538..21618538	P{GSV1}E2f1[GS3152]	FBst0308529
93E6	3R:21618545..21618545	P{XP}InR[d03668]
93E9	3R:21619292..21619292	P{GSV6}GS9890	FBst0310165
93F1-93F1	3R:21619317..21619317	P{EP}InR[EP3180]
93E6	3R:21619326..21619326	P{XP}d06459
93F1	3R:21619326..21619326	P{SUPor-P}KG06703
93E9-93E9	3R:21621922..21621923	P{XP}mir-998[d01508-3928]
93E9	3R:21622810..21622810	Mi{MIC}E2f1[MI00618]	FBst0033072
93E7	3R:21626514..21626514	P{XP}E2f1[d05852]
93E9-93E9	3R:21626530..21626530	P{PZ}E2f1[07172]	FBst0307516
93E7	3R:21626537..21626537	P{EPgy2}E2f1[EY14408]	FBst0020929
93E9-93E9	3R:21626545..21626545	P{PZ}E2f1[rM729]	2 stocks
93E9	3R:21626648..21626648	P{GSV6}GS9801	FBst0322449
93E7	3R:21626761..21626761	P{XP}E2f1[d02846]
93E7	3R:21626761..21626761	P{XP}E2f1[d02760]
93E9_r5	3R:21627385..21627385	PBac{SAstopDsRed}LL03990
93E7	3R:21630158..21630158	PBac{WH}E2f1[f05222]
93E7	3R:21630782..21630782	P{EPgy2}E2f1[EY16535]
93E9	3R:21631033..21631033	Mi{MIC}E2f1[MI03553]	FBst0036998
93E10,93E7	3R:21632323..21632323	P{RS5}E2f1[5-HA-1661]	FBst0327366
93E10	3R:21632764..21632764	P{GSV2}GS50237	FBst0322267
93E10-93E10	3R:21632792..21632792	P{GawB}E2f1[NP3094]	FBst0303241
93E10	3R:21632826..21632826	P{GSV6}GS14801	FBst0323226
93E7,93E10	3R:21632833..21632833	P{RS3}E2f1[CB-0495-3]	FBst0325759
93E7	3R:21632833..21632833	P{EPgy2}E2f1[EY05005]	FBst0022140
93E7	3R:21633116..21633116	P{XP}E2f1[d01508]
93F1-93F1	3R:21633116..21633116	P{EP}EP3707[EP3707]
93E10	3R:21633155..21633155	P{GSV6}GS12610
93E10	3R:21633156..21633156	P{GSV6}GS18020
93E10	3R:21633205..21633205	P{GSV6}GS13395	FBst0322818
93E10	3R:21633226..21633226	P{GSV6}GS15044	FBst0323316
93E10,93E7	3R:21633505..21633505	P{RS5}E2f1[5-SZ-3242]
93E10	3R:21633707..21633707	P{GSV7}GS20680	FBst0321050
93E10	3R:21633708..21633708	P{GSV6}GS12062
93E10-93E10	3R:21633709..21633709	P{ST.lexA::HG}E2f1[JHW-8]	FBst0066642
93E10	3R:21633755..21633755	P{GSV6}E2f1[GS9647]	FBst0309952
93E10	3R:21633876..21633876	P{wHy}E2f1[DG02609]
93E7	3R:21634232..21634232	PBac{WH}E2f1[f01550]
93E7	3R:21635504..21635504	PBac{WH}E2f1[f06935]
93F1-93F1	3R:21638646..21638646	P{EP}E2f1[EP3029]
93E8	3R:21638659..21638659	P{EPgy2}E2f1[EY08459]
93E11	3R:21638707..21638707	P{GSV6}GS15678	FBst0323568
93E8	3R:21641689..21641689	PBac{PB}E2f1[c06065]
93F1	3R:21642443..21642443	P{SUPor-P}E2f1[KG03332]
93E8	3R:21644028..21644028	PBac{WH}E2f1[f01988]
93F1	3R:21648147..21648147	Mi{MIC}E2f1[MI07609]	FBst0044199
93E9	3R:21651640..21651640	P{XP}E2f1[d06292]
93E9	3R:21652343..21652343	PBac{WH}E2f1[f05965]
93E9	3R:21652901..21652901	P{XP}E2f1[d03985]
93E9	3R:21656483..21656483	P{Mae-UAS.6.11}E2f1[LA00365]	2 stocks
93F1-93F1	3R:21657822..21657822	PBac{PB}E2f1[c00336]
93E9	3R:21657822..21657822	PBac{PB}E2f1[c00310]
93F1-93F1	3R:21660452..21660452	P{EP}E2f1[G13702]	FBst1023552
93F1-93F1	3R:21660799..21660799	PBac{PB}c04005
93F2-93F2	3R:21660968..21660968	P{EP}EP3424
93E9	3R:21660985..21660985	P{EPgy2}EY03621	FBst0017325

*Deleted segments (sequence mapped)* [Export into hitlist]
93D1--93F14	3R:21242217..21972151	Df(3R)BSC677	FBst0026529
93D4--93F6	3R:21296495..21719600	Df(3R)ED6058	2 stocks
93E1--93F14	3R:21418562..21972151	Df(3R)BSC678	FBst0026530
93E9--93F6	3R:21618422..21719773	Df(3R)Exel6186	FBst0007665
93E10--94A1	3R:21633505..22042828	Df(3R)ED6076	2 stocks

*Duplicated segments (sequence mapped)* [Export into hitlist]
93E4-93E11	3R:21553415..21639638	Dp(3;2)GV-CH321-24D17	FBst0090220

*Deleted segments (cytology mapped)* [Export into hitlist]
85E15--95C8	3R:9893362..23892547	Df(3R)pug[D-rv7]
86A1--95B3	3R:10201763..23780006	Df(3R)pug[D-rv1]
86B6--94F4	3R:10449672..23476389	Df(3R)pug[D-rv10]
86C3--95B4	3R:10618839..23780016	Df(3R)pug[D-rv2]
86C3--95A5	3R:10618839..23649044	Df(3R)pug[D-rv6]
86C3--94F3	3R:10618839..23454611	Df(3R)pug[D-rv4]
93A2--93F	3R:20833102..22019295	Df(3R)r1-G6
93B1--93F	3R:20983974..22019295	Df(3R)93-1
93B1--93F	3R:20983974..22019295	Df(3R)93-E
93B1--93F	3R:20983974..22019295	Df(3R)93-2
93B1--93F	3R:20983974..22019295	Df(3R)93-J
93B--93F	3R:20983974..22019295	Df(3R)e-N26
93B1--93F	3R:20983974..22019295	Df(3R)93-C
93B--93F	3R:20983974..22019295	Df(3R)e4.39
93B1--93F	3R:20983974..22019295	Df(3R)93-R
93B1--93F	3R:20983974..22019295	Df(3R)93-A
93B1--93F	3R:20983974..22019295	Df(3R)93-K
93B1--93F	3R:20983974..22019295	Df(3R)93-I
93B1--93F	3R:20983974..22019295	Df(3R)93-S
93B1--93F5	3R:20983974..21713915	Df(3R)e100.256
93B2--94A8	3R:20983984..22382095	Df(3R)e-N19	3 stocks
93B4--94A16	3R:21015890..22474684	Df(3R)e-R6
93B7--94A1	3R:21038787..22083638	Df(3R)e100.172
93C3--93F14	3R:21172900..22019295	Df(3R)e-F4
93C3--93F14	3R:21172900..22019295	Df(3R)e-BS2	2 stocks
93C3--93F8	3R:21172900..21754666	Df(3R)e-D7
93C6--94A4	3R:21215024..22315004	Df(3R)e-H6
93C6--94A4	3R:21215024..22315004	Df(3R)e-GC3	2 stocks
93D1--93F8	3R:21232816..21754666	Df(3R)e-H4	2 stocks
93E--94D	3R:21400810..23114712	Df(3R)5C1	3 stocks
93E--94C	3R:21400810..22827295	Df(3R)17D1
93F--94D	3R:21645980..23114712	Df(3R)15CE1

*Duplicated segments (cytology mapped)* [Export into hitlist]
83C--95C	3R:5688967..23940806	Dp(3;3)M37
83E1--100D2	3R:6192284..31837725	Dp(3;Y)Tpl7
83E1--99E	3R:6192284..30323585	Dp(3;Y)Tpl11
88D--100B	3R:14675783..31275051	Dp(3;3)SMG35
90A--95A1	3R:17256344..23546750	Dp(3;3)M95A[+]33a
90A--95A1	3R:17256344..23546750	Dp(3;3)M95A[+]33
90E--98B	3R:18004999..28082526	Dp(3;3)M95A[+]13	3 stocks
91B2--97F	3R:18476184..27434247	Dp(3;3)M96C[+]20
91D--94D	3R:18793976..23114712	Dp(3;3)M48
91F--95A1	3R:19070333..23546750	Dp(3;3)M95A[+]10
91F--94D	3R:19070333..23114712	Dp(3;3)M73
92A3--95A2	3R:19373736..23588736	Dp(3;3)M95A[+]h67
92E--98C	3R:20259178..28383802	Dp(3;3)M95A[+]30
92E--98C	3R:20259178..28383802	Dp(3;3)M95A[+]30a
92E1--98A	3R:20259178..27670954	Dp(3;3)M95A[+]11
92E1--96A	3R:20259178..24840518	Dp(3;3)H[+]
92E1--96A1	3R:20259178..24420760	Dp(3;3)M95A[+]8
92E--95B	3R:20259178..23812801	Dp(3;3)M39
92E--95A1	3R:20259178..23546750	Dp(3;3)M95A[+]24
92E--95A1	3R:20259178..23546750	Dp(3;3)M95A[+]4a
92F--94D	3R:20525401..23114712	Dp(3;3)M38
93B--95A	3R:20983974..23714950	Dp(3;3)M49
93D--95D	3R:21232816..24063100	Dp(3;3)M95A[+]7
93D--95A	3R:21232816..23714950	Dp(3;3)M44
93D5--99B1	3R:21314671..29505909	Dp(3;3)M95A[+]12
93E--95C	3R:21400810..23940806	Dp(3;3)M95A[+]21
93E--95C	3R:21400810..23940806	Dp(3;3)M95A[+]1a
93E--94F	3R:21400810..23509789	Dp(3;3)M46
93F--96B	3R:21645980..25101913	Dp(3;3)M95A[+]6

*Inversion breakpoints (cytology mapped)* [Export into hitlist]
81-99E	3R:3461351..30323585	In(3R)D116.8
81-99B	3R:3461351..29775722	In(3R)CA52
81-98E	3R:3461351..28855898	In(3R)HR13
81-98C	3R:3461351..28383802	In(3R)CA33
81-98C	3R:3461351..28383802	In(3R)CA23
81-95F	3R:3461351..24380882	In(3R)284
81F-95D	3R:3461351..24063100	In(3R)253
81F-93E	3R:3461351..21645979	In(3R)C289
82D-98E	3R:4657100..28855898	In(3R)IC67-327
83-99	3R:5364156..30597427	In(3R)LD30
83D-96A	3R:5948971..24840518	In(3R)Mg140
83D-94E	3R:5948971..23363938	In(3R)SM22
84B-97A	3R:6896978..26362804	In(3R)Mg146
84B-97A	3R:6896978..26362804	In(3R)Mg147
84B1-95F	3R:6896978..24380882	In(3R)Scr[18]
84E-99E	3R:7760099..30323585	In(3R)AL14
85A-96E	3R:8383248..25712016	In(3R)V103
85D-95E	3R:9202521..24189602	In(3R)K19
85D-94E	3R:9202521..23363938	In(3R)Dem1-8
85F-97F	3R:9907979..27434247	In(3R)IC67-79
86B-98E	3R:10335172..28855898	In(3R)Dem3-7
86D-97A	3R:11013214..26362804	In(3R)Nel-D
86E-98F	3R:11284446..29184631	In(3R)Mg139
86E-97C	3R:11284446..26733804	In(3R)St-E
86F-100E	3R:11785613..32068441	In(3R)M
86F-98F	3R:11785613..29184631	In(3R)IW12
86F-96A	3R:11785613..24840518	In(3R)PS32
87A-100F	3R:11871713..32068446	In(3R)St-C
87B-100F	3R:12147055..32068446	In(3R)IW13
87C-98F	3R:12535256..29184631	In(3R)Mg157
87C-95A	3R:12535256..23714950	In(3R)KOG-M
87E-97A	3R:13164290..26362804	In(3R)Mg21
87E-95A	3R:13164290..23714950	In(3R)SM24
87E-94E	3R:13164290..23363938	In(3R)Alt-6
87E-94A	3R:13164290..22474684	In(3R)SM29
88-97A	3R:13843303..26362804	In(3R)SM27
88A-94A	3R:13843303..22474684	In(3R)SM30
88C-98F	3R:14415068..29184631	In(3R)PS35
88C-96E	3R:14415068..25712016	In(3R)PE
88C-96D	3R:14415068..25439751	In(3R)KH
88D-94A	3R:14675783..22474684	In(3R)PS38
88D-94A	3R:14675783..22474684	In(3R)KI
88E-93F	3R:15054626..22019295	In(3R)AL16
89A-99D	3R:15623020..30152942	In(3R)St-M
89B-98B	3R:16027430..28082526	In(3R)P33
89B-96A	3R:16027430..24840518	In(3R)PH
89B9-97D	3R:16229403..27054991	In(3R)sbd[l]
89C-96A	3R:16576179..24840518	In(3R)PS47
89C2-96A19	3R:16576189..24754796	In(3R)ven
89E-98B	3R:16736156..28082526	In(3R)89E-98B
89E2-99F	3R:16791761..30597427	In(3R)abd-A[M1]
89E2-96A	3R:16791761..24840518	In(3R)iab3[793]
89E2-93F	3R:16791761..22019295	In(3R)iab2[S3]
89E3-100C	3R:16847366..31613779	In(3R)Abd-B[iab9-48]
89E5-96A13	3R:16951015..24654655	In(3R)m53e
89F-96A	3R:17123623..24840518	In(3R)Mg143
89F-95A	3R:17123623..23714950	In(3R)89386
90B-98A	3R:17436925..27670954	In(3R)St-H
90B-97D	3R:17436925..27054991	In(3R)Dem1-10
90E-99A	3R:18004999..29468940	In(3R)Alt-7
90F-96A	3R:18118268..24840518	In(3R)PI
90F-94E	3R:18118268..23363938	In(3R)ZP27
91B-97C	3R:18446795..26733804	In(3R)ZP24
91B-96B	3R:18446795..25101913	In(3R)C208
91D-98B	3R:18793976..28082526	In(3R)Mg136
92-97	3R:19261020..27434247	In(3R)CA35
92A-94C	3R:19261020..22827295	In(3R)Dem1-11
92B-98C	3R:19695283..28383802	In(3R)SM25
92B-95A	3R:19695283..23714950	In(3R)Dem1-12
92C-99F	3R:19971233..30597427	In(3R)IW22
92C-96A	3R:19971233..24840518	In(3R)IW16
92C-96A	3R:19971233..24840518	In(3R)92C;96A
92D-100A	3R:20096868..30928228	In(3R)92D;100A
92D-98F	3R:20096868..29184631	In(3R)89300
92D-93F	3R:20096868..22019295	In(3R)St-J
92E-100E	3R:20259178..32068441	In(3R)92E-100E
92E-97E	3R:20259178..27264826	In(3R)AL17
92E-97C	3R:20259178..26733804	In(3R)KK
92E-97A	3R:20259178..26362804	In(3R)IC
92F-95C	3R:20525401..23940806	In(3R)SM31
93A-97A	3R:20794571..26362804	In(3R)Mg148
93D-98F	3R:21232816..29184631	In(3R)PS49
93D-98F	3R:21232816..29184631	In(3R)KOG-N
93D-98B	3R:21232816..28082526	In(3R)St-Q
93D3-95E	3R:21281403..24189602	In(3R)100.265
93E-100F	3R:21400810..32068446	In(3R)ML193
93E-97D	3R:21400810..27054991	In(3R)IW17
93E1-94A	3R:21400810..22474684	In(3R)GC25	FBst0009554
93F-99C	3R:21645980..29957664	In(3R)V16
93F-98C	3R:21645980..28383802	In(3R)Dem1-14
93F-97B-97C	3R:21645980..21662142	In(3R)Kh
93F-97C-97D	3R:21645980..21662142	In(3R)C133

*Transposition and translocation breakpoints (cytology mapped)* [Export into hitlist]
93E;[>101]-93E;[>101]	3R:21400810..21645979	T(3;4)Mg198
93F1-93F14-102F2	3R:21645980..21662142	T(3;4)ci40