Cytology	Observed or estimated sequence coordinates	Symbol	Stocks


*Genes (mapped to the sequence)* [Export into hitlist]
11A1-11A2	X:12022837..12029032	Usp7	7 stocks
11A2-11A2,11A-11A	X:12029754..12031465	Cyp311a1	4 stocks
11A2-11A2,11A-11A	X:12032632..12035283	Cyp318a1	6 stocks
11A2-11A8,11A-11A,11A6-11A9,11A6-11A9	X:12043698..12335214	Ten-a	23 stocks
11A2-11A4	X:12043698..12116041	lncRNA:CR43960	3 stocks
11A2-11A2	X:12055338..12056635	Uch-L5R	3 stocks
11A2-11A3	X:12059795..12065144	Muc11A	5 stocks
11A3-11A3	X:12067200..12070139	lncRNA:CR43961
11A3-11A3	X:12070437..12071263	CG34323	2 stocks
11A3-11A3	X:12072008..12072818	moon	3 stocks
11A3-11A3	X:12086469..12087025	CG15734	2 stocks
11A3-11A3	X:12087211..12087695	lncRNA:CR32657	2 stocks
11A3-11A3	X:12091264..12092272	lncRNA:CR32658	4 stocks
11A4-11A4	X:12102797..12103840	CG11356	3 stocks
11A4-11A4	X:12107200..12113357	CG2750	4 stocks
11A6-11A6	X:12176440..12178626	CG1924	2 stocks
11A7-11A7	X:12234562..12235877	CG32655	FBst0473593
11A7-11A7	X:12274635..12275155	CG45603

*Genes (mapped, but not to the sequence)* [Export into hitlist]
1-20	X:103615..23108331	l(1)EH275a
1-20	X:103615..23108331	ms(1)10
1-20	X:103615..23108331	l(1)M86.4
1-20	X:103615..23108331	l(1)U3
1-20	X:103615..23108331	mei-99	FBst0004882
1-20	X:103615..23108331	dh	FBst0001539
1-20	X:103615..23108331	l(1)L25.7
1-20	X:103615..23108331	l(1)M76.3
1-20	X:103615..23108331	l(1)K84.3
1-20	X:103615..23108331	l(1)Uc-1
1-20	X:103615..23108331	l(1)BP
1-20	X:103615..23108331	l(1)M95.1
1-20	X:103615..23108331	l(1)5-39-1
1-20	X:103615..23108331	ms(1)66
1-20	X:103615..23108331	ms(1)294
1-20	X:103615..23108331	l(1)K87.2
1-20	X:103615..23108331	mei-269
1-20	X:103615..23108331	ms(1)12
1-20	X:103615..23108331	l(1)VA624
1-20	X:103615..23108331	l(1)64	FBst0313556
1-20	X:103615..23108331	c(1)a
1-20	X:103615..23108331	l(1)14P11
1-20	X:103615..23108331	mei-160	FBst0004878
10A-11A	X:10976636..12525916	tilC
10A1-11A8	X:10976636..12360552	ES1-1
10A2-15F4	X:11002009..17258775	fs(1)A457
10A11-11A8	X:11187935..12360552	l(1)D36.5
10C2-11B12	X:11504705..12710249	l(1)75B2
10C2-11B12	X:11504705..12710249	l(1)89B
10C2-11B12	X:11504705..12710249	l(1)48B
10E2-11A7	X:11756049..12294293	l(1)10Eb
10E2-11A7	X:11756049..12294293	l(1)10Ea
10E2-11A7	X:11756049..12294293	l(1)10Fk
10E3-11A7	X:11781286..12294293	Gtd
10E3-11A2	X:11781286..12062670	l(1)ESHS45
10F7-11A4	X:11920399..12140754	Flutter
10F11-11A7	X:11969720..12294293	l(1)10Fj
11A-11A	X:11982050..12525916	l(1)G0214
11A1-11A8	X:11982050..12360552	l(1)B64.2
11A1-11A5	X:11982050..12170786	twg
11A2-11B9	X:12027055..12678236	l(1)ESHS46	FBst0005401
11A2-11B9	X:12027055..12678236	l(1)11Ag
11A2-11B9	X:12027055..12678236	l(1)11Ah
11A2-11B9	X:12027055..12678236	l(1)11Ai
11A2-11A7	X:12027055..12294293	limbo
11A2-11A7	X:12027055..12294293	l(1)11Ad
11A2-11A3	X:12027055..12101712	cab
11A2-11A2	X:12027055..12062670	anon-11c
11A2-11A2	X:12027055..12062670	anon-11b
11A2-11A2	X:12027055..12062670	anon-11a
11A5-11A5	X:12140755..12170786	l(1)11Ae
11A7-13F10	X:12228036..15846342	l(1)air14
11A7-13F10	X:12228036..15846342	l(1)air15
11A7-13F10	X:12228036..15846342	l(1)air13
11A7-11B9	X:12228036..12678236	gs(1)N41
11A7-11B9	X:12228036..12678236	cex
11A7-11A9	X:12228036..12426810	L12
11A7-11A8	X:12228036..12360552	l(1)G0141	FBst0010148
11A7-11A8	X:12228036..12360552	clv-2

*Insertions (cytology mapped)* [Export into hitlist]
2B13--12B18	X:1860969..13757665	P{lacW}arm[G0268a]	FBst0314575
11A-11A	X:11982050..12525916	P{enJ}24
11A1-11A2	X:11982050..12062670	P{?SUPor-P}Usp7[Δ35]
11A1-11A2	X:11982050..12062670	TI{KozakGAL4}Usp7[CR70120-KO-kG4]
11A2-11A8	X:12027055..12360552	P{?EPgy2}Ten-a[138]
11A2-11A8	X:12027055..12360552	P{?EPgy2}Ten-a[485]
11A2-11A8	X:12027055..12360552	P{?EPgy2}Ten-a[952]
11A2-11A8	X:12027055..12360552	P{?EPgy2}Ten-a[85]
11A2-11A8	X:12027055..12360552	P{?EPgy2}Ten-a[917]

*Insertions (sequence mapped)* [Export into hitlist]
11A4	X:12028431..12028431	P{SUPor-P}Usp7[KG06814]	FBst0014505
11A2	X:12028969..12028969	PBac{RB}Usp7[e04593]
11A2	X:12031478..12031478	P{EP}G173	FBst0033519
11A2-11A2	X:12031775..12031775	PBac{IT.GAL4}0315-G4	FBst0033215
11A2	X:12032290..12032311	PBac{WH}Cyp318a1[f01983]
11A2	X:12032810..12032810	Mi{ET1}Cyp318a1[MB02480]	FBst0023445
11A2-11A2	X:12033223..12033223	P{EP}Cyp318a1[G1554]	FBst1022806
11A2	X:12043009..12043009	P{GSV2}GS51133	FBst0324497
11A2	X:12043352..12043352	PBac{WH}f06371
11A2	X:12051912..12051912	Mi{MIC}lncRNA:CR43960[MI06094]	FBst0043780
11A2	X:12058783..12058783	Mi{ET1}MB06099
11A2	X:12059566..12059566	Mi{MIC}lncRNA:CR43960[MI08449]	FBst0044969
11A3	X:12067086..12067086	PBac{WH}f02187
11A6	X:12070458..12070458	P{EPgy2}CG34323[EY01976]	FBst0015544
11A3	X:12070463..12070463	PBac{WH}f06054
11A3-11A3	X:12070463..12070463	PBac{IT.GAL4}CG34323[0843-G4]	FBst0064084
11A3	X:12070651..12070651	PBac{WH}CG34323[f08030]
11A3	X:12070651..12070651	PBac{WH}CG34323[f06494]
11A3	X:12078985..12078985	Mi{MIC}Ten-a[MI08049]	FBst0060809
11A6	X:12090624..12090624	P{SUPor-P}KG00318
11A3	X:12090999..12090999	Mi{ET1}MB07189
11A3	X:12096637..12096637	Mi{MIC}lncRNA:CR43960[MI01963]
11A4	X:12108135..12108145	PBac{WH}CG2750[f01388]
11A4	X:12112754..12112754	Mi{ET1}CG2750[MB06379]	FBst0026046
11A4-11A4	X:12127927..12128149	P{Mae-UAS.6.11}GG01731
11A5	X:12144797..12144797	P{XP}d07540
11A5	X:12154893..12154893	PBac{WH}f03705
11A5	X:12157228..12157228	Mi{MIC}Ten-a[MI14664]	FBst0060955
11A6	X:12201528..12201528	PBac{WH}Ten-a[f02361]
11A6-11A6	X:12203517..12203793	P{Mae-UAS.6.11}Ten-a[GG01628]
11A8	X:12203524..12203524	P{EPgy2}Ten-a[EY00353]
11A6-11A6	X:12203560..12203629	P{Mae-UAS.6.11}Ten-a[GG01393]
11A6-11A6	X:12203641..12203641	P{EP}Ten-a[GE1914]	FBst0041563
11A6	X:12216161..12216161	Mi{MIC}Ten-a[MI04658]	FBst0038043
11A7	X:12242008..12242008	PBac{RB}Ten-a[e03855]
11A7-11A7	X:12246242..12246242	P{EP}Ten-a[G1142]	FBst1022757
11A7	X:12246807..12246807	Mi{MIC}Ten-a[MI01197]	FBst0034170
11A7	X:12247066..12247066	PBac{WH}Ten-a[f08005]
11A7_r6	X:12270463..12270463	Mi{PT-GFSTF.2}Ten-a[MI04411-GFSTF.2]	FBst0060541
11A7	X:12270463..12270463	Mi{MIC}Ten-a[MI04411]	FBst0037815
11A8	X:12295020..12295020	PBac{WH}Ten-a[f04023]
11A8	X:12315700..12315700	Mi{ET1}Ten-a[MB04333]	FBst0024577
11A8	X:12332387..12332387	Mi{ET1}MB01437

*Deleted segments (sequence mapped)* [Export into hitlist]
9F5-11A6	X:10869000..12228035	Df(1)v65b
10E4--11B9	X:11805748..12659617	Df(1)BSC544
10F4--11A12	X:11887110..12496391	Df(1)BSC726	FBst0026578
10F7--11A11	X:11921286..12458044	Df(1)BSC543	FBst0025071
10F7--11A3	X:11921286..12070463	Df(1)BSC542	FBst0025070
11A1--11B14	X:12007087..12750866	Df(1)ED7161	6 stocks
11A1--11B1	X:12007087..12567460	Df(1)ED7153	2 stocks
11A5--11A9	X:12144797..12395692	Df(1)Ten-a	FBst0041562

*Duplicated segments (sequence mapped)* [Export into hitlist]
10F11--11A2	X:11971696..12061253	Dp(1;3)DC247	FBst0030365
11A1-11A4	X:12019634..12119097	Dp(1;3)DC514	FBst0032318
11A3--11A5	X:12071217..12150313	Dp(1;3)DC249	FBst0030366
11A4--11A6	X:12127736..12225097	Dp(1;3)DC250	FBst0030367
11A6--11A8	X:12174370..12338611	Dp(1;3)RC027	FBst0038488
11A6--11A7	X:12200252..12288903	Dp(1;3)DC251	FBst0030368
11A7--11A9	X:12254800..12361471	Dp(1;3)DC252	FBst0030369
11A8--11A10	X:12331040..12432116	Dp(1;3)DC253	FBst0030370

*Deleted segments (cytology mapped)* [Export into hitlist]
2D--12B6	X:2083109..13754475	Df(1)w71b
3A10--12A8	X:2658572..13623898	Df(1)w70j
3B5--12A10	X:2753186..13646537	Df(1)w70e
3C--12B10	X:2804156..13757665	Df(1)LCD
7B3--12B6	X:7483043..13754475	Df(1)HM459
9C1--13C3	X:10401342..15456047	Df(1)ras-TM6
9E2--13B4	X:10744694..15293947	Df(1)ras-TM5
10A1--11A2	X:10976636..12062670	Df(1)W172
10B10--11A5	X:11404125..12170786	Df(1)m13	2 stocks
10B11--11A7	X:11419655..12294293	Df(1)L50.4
10E1--11A7	X:11728874..12294293	Df(1)m-30
10E1--11A7	X:11728874..12294293	Df(1)KA6	2 stocks
10E2--11A4	X:11756049..12140754	Df(1)m-fw
10F7--11D1	X:11920399..12911046	Df(1)N105	2 stocks
11A1--11D9	X:11982050..13073348	Df(1)JA26	2 stocks
11A1--11A7	X:11982050..12294293	Df(1)KA10	2 stocks
11A1--11A5	X:11982050..12170786	Df(1)RC29	2 stocks
11A2--11B9	X:12027055..12678236	Df(1)HF368	2 stocks
11A3--11A11	X:12062671..12486874	Df(1)T36
11A6--11F4	X:12170787..13413561	Df(1)wy2

*Duplicated segments (cytology mapped)* [Export into hitlist]
3A--11E	X:2328358..13346259	Dp(1;1)SM2
8D8--11B11	X:9326678..12705569	Dp(1;1)J37.6
10B--11A	X:11198804..12525916	Dp(1;3)m[+]84f
10B12--14B5	X:11435186..16253611	Dp(1;1)M41.6
10C1--11D8	X:11489174..13055825	Dp(1;Y)BSC1	2 stocks
10E1--11D8	X:11728874..13055825	Dp(1;Y)BSC2	FBst0005794

*Inversion breakpoints (cytology mapped)* [Export into hitlist]
1B1-20D	X:408583..22716656	In(1)y[A74e]
1B1-20D	X:408583..22716656	In(1)y[A74b51]
1B1-20A	X:408583..21675680	In(1)y[A79d2]
1B1-20A	X:408583..21675680	In(1)y[A72d3]
1B1-20A	X:408583..21675680	In(1)y[89d68]
1B1-19E8	X:408583..21086629	In(1)y[88f86]
1B1-18D2	X:408583..19573161	In(1)y[88c63]
1B1-16D	X:408583..17841787	In(1)y[A79b21]
1B1-16C8	X:408583..17761755	In(1)y[A76b94]
1B1-11E3	X:408583..13217908	In(1)y[85f2]
1F-14A	X:1254810..16113516	In(1)C146
2B5-20F	X:1660982..23108331	In(1)GA106
2B5-20A	X:1660982..21675680	In(1)VE891
2D-14F	X:2083109..16667591	In(1)Mg96
3B1-20F	X:2666235..23108331	In(1)GE257
3B1-20A	X:2666235..21675680	In(1)GE228
3B1-12F2	X:2666235..14718166	In(1)62b12
3C-20F	X:2804156..23108331	In(1)w[is]
3C2-20C	X:2845023..22597814	In(1)w[77d]
3C2-20B	X:2845023..22371346	In(1)w83c19
3C2-20B	X:2845023..22371346	In(1)w88f83
3C2-19E	X:2845023..21086629	In(1)w88c87
3C2-19E4	X:2845023..20921597	In(1)w[89e52]
3C2-18F	X:2845023..19887081	In(1)w[EM20]
3C2-18E	X:2845023..19747669	In(1)w[81f3]
3C2-18C	X:2845023..19555536	In(1)w8631-1A
3C2-17D	X:2845023..18803707	In(1)w[89e12]
3C2-16D	X:2845023..17841787	In(1)w79b3
3C2-12B9	X:2845023..13755214	In(1)z[+64b9]
3C3-20D2	X:2907915..22716656	In(1)w[m54l]
3C5-20A	X:2976542..21675680	In(1)C171
3C7-19E	X:3102328..21086629	In(1)N[8d5]
3C7-14B	X:3102328..16363596	In(1)N[298]
4-17B	X:3955447..18502714	In(1)SMG3
4A-14D	X:3955447..16520529	In(1)Dem1-1
4D-17B	X:4749024..18502714	In(1)St-D
4D-12E	X:4749024..14510750	In(1)Dem1-2
4E-20F	X:4964040..23108331	In(1)l-v132
5A-16E	X:5475817..17883261	In(1)IW1
5B-19D	X:5697153..20604985	In(1)89e80
5B-11A7	X:5697153..12294293	In(1)V7-12
5C-12C1	X:5766003..13767270	In(1)rdgB5
5D1-15A1	X:5955321..16701269	In(1)r[hd1-4]
5E-12D	X:6198962..14080987	In(1)T3
6A1-19E8	X:6400666..21086629	In(1)RF19	2 stocks
6D-11A	X:6779511..12525916	In(1)St-B
6F-13B	X:7033899..15372314	In(1)Uc6F-13B
7A3-20F	X:7193760..23108331	In(1)JA9	FBst0001399
7B-15A1	X:7286018..16701269	In(1)r[70b]	2 stocks
7B-11A	X:7286018..12525916	In(1)Dem3-1
7C-20D	X:7801643..22716656	In(1)87g49
7C-16A	X:7801643..17472087	In(1)193
7C-13A	X:7801643..15131121	In(1)Dem3-3
7C6-18A	X:7933671..19200032	In(1)GE219
7D-14D	X:7947830..16520529	In(1)7D-14D
7D-12A	X:7947830..13646537	In(1)Dem3-4
8C-18D	X:8933650..19676126	In(1)C176
8C-18B	X:8933650..19295064	In(1)PS2
8C-17A1	X:8933650..18188579	In(1)Px
8D-12A	X:9194656..13646537	In(1)8D;12A
8E-16F	X:9412384..18168379	In(1)9A3
8F-11E	X:9600461..13346259	In(1)Mg92
9A-18A	X:9709557..19200032	In(1)MKS45
9F4-15A1	X:10820470..16701269	In(1)r[hd5-2]
10A-16D	X:10976636..17841787	In(1)ney
10B-12B	X:11198804..13757665	In(1)PS3
10E-15E	X:11728874..17157124	In(1)Dem4-1
10F-18D	X:11829939..19676126	In(1)RB10-18
10F-17E	X:11829939..18858040	In(1)Dem1-3
11A1-15A1	X:11982050..16701269	In(1)r[hd1-2]
11A-12F	X:11982050..14873201	In(1)Nel-B
11A-12F	X:11982050..14873201	In(1)IA
11A2-11A6-14D1-14D2	X:12027055..12062670	In(1)Si2

*Transposition and translocation breakpoints (cytology mapped)* [Export into hitlist]
1A-56A	X:103615..19012906	T(1;2)SP18
1B1-98C	X:408583..28383802	T(1;3)y[75r]
1B1-98C	X:408583..28383802	T(1;3)y[67k5]
1B1-60F4	X:408583..25101785	T(1;2)y[A76b37]
1B-38E	X:408583..20812419	T(1;2)OR25
1B1-36D	X:408583..17817472	T(1;2)y[260-13]
1B1-49F	X:408583..13275886	T(1;2)y[R7]
1B1-87A	X:408583..12147054	T(1;3)y[R19]
1B4-71D	X:466699..15528103	T(1;3)sc[260-15]	2 stocks
1B9-88A	X:529780..14226397	T(1;3)GA100
1C-56C	X:660484..19329544	T(1;2)DEB5
1D4-36C	X:962726..17552485	T(1;2)GF326
1E-99A	X:991048..29468940	T(1;3)GA91	FBst0004636
1E1-71C1	X:991048..15298777	T(1;3)N3
1E4-58E	X:1185508..22584651	T(1;2)RC66
1F-99F	X:1254810..30597427	T(1;3)Dem1-8
2A-60D	X:1368553..24747488	T(1;2)OR6
2B-57D	X:1475669..21378741	T(1;2)Su(bw[D])42
2B5-54A	X:1660982..17227747	T(1;2)C123
2C-97A10	X:1972107..26362804	T(1;3)slu
2D3-52F	X:2127280..16231534	T(1;2)KC16
2D3-49A	X:2127280..12530887	T(1;2)GA113
2F-91A	X:2223442..18446794	T(1;3)29A2
3A-97A	X:2328358..26362804	T(1;3)M155
3A5-55A	X:2555321..18013902	T(1;2)N4
3B-39E	X:2666235..21684084	T(1;2)OR28
3C1-98D	X:2804156..28644088	T(1;3)ZWD9
3C-97F	X:2804156..27434247	T(1;3)OR37
3C1-39E2	X:2804156..21592349	T(1;2)w[70k18.1]
3C-57B	X:2804156..21107330	T(1;2)Ee4
3C-38E	X:2804156..20812419	T(1;2)OR84
3C-37C	X:2804156..19217604	T(1;2)OR17
3C2-92C2	X:2845023..20037706	T(1;3)w[88c34b]
3C2-91E	X:2845023..19070332	T(1;3)w[78h]
3C2-54E	X:2845023..17811908	T(1;2)w[Ee10]
3C2-70C	X:2845023..14047681	T(1;2)w[Ee11]
3C2-87F	X:2845023..13843302	T(1;3)w[81k11]
3C7-38B	X:3102328..20098210	T(1;2)N[Uc1.26]
3F-71E	X:3765078..15674313	T(1;3)OR66
4B-88A	X:4115669..14226397	T(1;3)OR60	6 stocks
4C-73C	X:4333244..16805146	T(1;3)OR67
4C6-71B	X:4517999..15216220	T(1;3)bi[Qd-1E4]
4D-87F	X:4749024..13843302	T(1;3)OR6
5B-35C	X:5697153..15271253	T(1;2)5B;35C
6B-90E	X:6516901..18118267	T(1;3)M150
6C-98C	X:6585391..28383802	T(1;3)OR22
7B3-60E	X:7483043..25017640	T(1;2)ct[J1]
7B3-96A	X:7483043..24840518	T(1;3)L54
7B3-96A	X:7483043..24840518	T(1;3)ct[J2]
7B3-95F	X:7483043..24380882	T(1;3)ct[J11]
7B3-36E	X:7483043..18188234	T(1;2)ct[268-26]
7B3-35C	X:7483043..15271253	T(1;2)ct[C75]
7C-53F	X:7801643..17132869	T(1;2)Dem1-4
7D-57B	X:7947830..21107330	T(1;2)Ee2
7D-51F	X:7947830..15402599	T(1;2)A3
7F-100A	X:8465639..30928228	T(1;3)M153
8C-35D	X:8933650..15968241	T(1;2)SP75
8E-57B	X:9412384..21107330	T(1;2)27A2
8E-56E	X:9412384..19971053	T(1;2)Su(bw[D])158
8E-71E	X:9412384..15674313	T(1;3)M163
9F-98E	X:10781791..28855898	T(1;3)OR41
10-38	X:10976636..20966124	T(1;2)OR85
10A-52D	X:10976636..16042767	T(1;2)OR60
10A-50C	X:10976636..13994731	T(1;2)OR37
10A-34A	X:10976636..13241340	T(1;2)SP58
10F-88C	X:11829939..14675782	T(1;3)OR62
11-98	X:11982050..29184631	T(1;3)SP46
11A-80C	X:11982050..23077120	T(1;3)OR28
11A-53F	X:11982050..17132869	T(1;2)OR64	8 stocks
11A-73C	X:11982050..16805146	T(1;3)Dem1-7
11A-70E	X:11982050..14682684	T(1;3)SMG
11A2;15B;34A;38C;69C-69D;77E-77F;81;88E-88F	X:12027055..12062670	T(1;3)RF56
11A5-11A6-37B	X:12140755..12170786	T(1;2)A92
11A5-11A6-83C-83D	X:12140755..12170786	T(1;2)JC79
11A6-11A7-h18-h25B	X:12170787..12228035	T(1;Y)B53
11A6-11A7-h1-h17	X:12170787..12228035	T(1;Y)D9	FBst0300096
11A6-11A9-h1-h17	X:12170787..12228035	T(1;Y)20
11A6-11A7-h1-h17	X:12170787..12228035	T(1;Y)B44
11A6-11A7-h18-h25B	X:12170787..12228035	T(1;Y)B45
11A6--7;[>101]	X:12170787..12228035	T(1;4)A8
11A6-11A9-h1-h17	X:12170787..12228035	T(1;Y)4	FBst0302131
11A6-11A7-h1-h17	X:12170787..12228035	T(1;Y)B87
11A6-11A9-h1-h17	X:12170787..12228035	T(1;Y)D8
11A6-11A7-h1-h17	X:12170787..12228035	T(1;Y)B112
11A6-11A9-61A1-100F5	X:12170787..12228035	T(1;3)01249
11A7-11A8-27E2-27E3	X:12228036..12294293	T(1;2)clv-2[D]
11A7-11A8-36	X:12228036..12294293	T(1;2)v[267-4]
11A8-11A9;14D1-14D2;19C	X:12294294..12360552	Tp(1;1)Si1