Cytology	Observed or estimated sequence coordinates	Symbol	Stocks


*Genes (mapped to the sequence)* [Export into hitlist]
49E6-49E6,49E6-49E7,49E-49E,49E-49E	2R:12965997..12980994	Psc	29 stocks
49E6-49E7	2R:12985367..12985995	lncRNA:CR44339

*Genes (mapped, but not to the sequence)* [Export into hitlist]
41-60	2R:4460915..25255318	l(2)cl-R11	3 stocks
48E-50A	2R:12068242..13523466	M(2)40c
49C1-50D1	2R:12690973..14022736	EY2-8
49D1-50D1	2R:12800418..14022736	unch	4 stocks
49E-49F	2R:12883887..13275886	l(2)SH0549
49E-49F	2R:12883887..13275886	l(2)SH0714
49E5-49E7	2R:12959256..13024826	l(2)SH0218
49E6-49E6	2R:12964417..12985385	l(2)SH1263

*Insertions (cytology mapped)* [Export into hitlist]
41--60	2R:4460915..25255318	P{Rac1[+t3.6]}1.7.2	FBst0006683
49C-49E	2R:12690973..13024826	P{23.4}T13B
49D--50D	2R:12800418..14135801	P{lacW}C6-2-29
49E-49F	2R:12883887..13275886	P{S3.8}6
49E-49E	2R:12883887..13024826	P{Cyp6a8-luc.0.2}4
49E6-49E7	2R:12964417..13024826	P{lacW}k07201
49E6-49E7	2R:12964417..13024826	P{lacW}k07211
49E6-49E7	2R:12964417..13024826	P{lacW}k07216	FBst0301469
49E6-49E6	2R:12964417..12985385	P{RS3r}CB-6084-3
49E6-49E6	2R:12964417..12985385	P{M2ET-QF}ET40	3 stocks

*Insertions (sequence mapped)* [Export into hitlist]
49E6	2R:12971019..12971019	PBac{WH}Psc[f03877]
49E6_r5	2R:12971652..12971652	PBac{SAstopDsRed}LL04486	FBst0319887
49E6	2R:12971780..12971879	P{lacW}l(2)SH1263[SH1263]
49E6-49E6	2R:12972065..12972065	P{lacW}Psc[k07834]	FBst0314046
49E6	2R:12978571..12978571	PBac{RB}Psc[e02632]
49E6	2R:12978639..12978639	PBac{RB}Psc[e04009]
49E6	2R:12979721..12979721	P{EPgy2}Psc[EY06547]
49E6	2R:12980026..12980026	PBac{WH}Psc[f04334]
49E6	2R:12980674..12980674	P{GSV7}GS21512	FBst0321457
49E6	2R:12980698..12980698	P{GSV7}GS20660
49E6	2R:12980729..12980729	P{XP}Psc[d07470]
49E6-49E6	2R:12980736..12980736	P{PTT-GB}Psc[CB05083]
49E6	2R:12980756..12980756	P{GSV6}GS16155
49E6	2R:12980757..12980757	P{GSV6}GS9553
49E6	2R:12980783..12980783	P{GSV6}GS9501
49E6	2R:12980916..12980916	P{RS3}Psc[CB-6084-3]	FBst0326457
49E6	2R:12980950..12980950	P{GSV6}GS12426
49E6	2R:12980951..12980951	P{GSV6}GS15698	FBst0323578
49E6	2R:12981098..12981098	P{XP}d02146
49E6-49E6	2R:12981175..12981175	P{GawB}NP2696	FBst0303160
49E6	2R:12981182..12981182	P{XP}d09185
49E6	2R:12981375..12981375	PBac{WH}Psc[f00391]
49E6-49E6	2R:12984616..12984616	P{XP}d11162
49E6	2R:12984735..12984735	PBac{WH}f02068

*Deleted segments (sequence mapped)* [Export into hitlist]
49C1--50D5	2R:12700421..14062629	Df(2R)CX1	3 stocks
49C3--49E7	2R:12780370..12996984	Df(2R)ED2308	2 stocks
49D5--49E6	2R:12862210..12981182	Df(2R)Exel7123	FBst0007870
49E4--49F10	2R:12946341..13223791	Df(2R)ED2311	FBst0313484
49E6--49F1	2R:12981184..13035179	Df(2R)Exel6062	FBst0007544

*Duplicated segments (sequence mapped)* [Export into hitlist]
49E1-49E6	2R:12896337..12984424	Dp(2;3)GV-CH321-88N23	FBst0090635
49E4-49F1	2R:12958350..13032793	Dp(2;3)GV-CH321-60N13	FBst0089960

*Deleted segments (cytology mapped)* [Export into hitlist]
49B--50C	2R:12530888..13994731	Df(2R)H6a
49B1--50A3	2R:12530888..13401521	Df(2R)Su(z)3-1.i31
49B1--49E7	2R:12530888..13024826	Df(2R)vg88g38
49B3--49E7	2R:12539889..13024826	Df(2R)vg83b
49B3--49E6	2R:12539889..12985385	Df(2R)Arp1.Fbf1a
49B5--49F10	2R:12567496..13224103	Df(2R)vg84h49
49B8--50B2	2R:12599283..13575230	Df(2R)Su(z)3-1.j32
49B8--50B2	2R:12599283..13575230	Df(2R)Su(z)2-1.a2
49B8--49E7	2R:12599283..13024826	Df(2R)vg62
49B8--49E7	2R:12599283..13024826	Df(2R)vg89e84c
49B12--50A1	2R:12667311..13330105	Df(2R)vg-S
49C1--50C	2R:12690973..13994731	Df(2R)vg52
49C1--50C10	2R:12690973..13954018	Df(2R)Su(z)2-1.b10
49C1--50A12	2R:12690973..13494482	Df(2R)vg87f98
49C1--49E7	2R:12690973..13024826	Df(2R)vg87h49
49C1--49E7	2R:12690973..13024826	Df(2R)vg85f1
49C1--49E7	2R:12690973..13024826	Df(2R)vg85f2
49C1--49E7	2R:12690973..13024826	Df(2R)vg87e12
49C1--49E6	2R:12690973..12985385	Df(2R)vg-D	3 stocks
49C2--50A3	2R:12736590..13401521	Df(2R)vg-I
49C3--50C1	2R:12760251..13689755	Df(2R)vg83l-N
49C3--50B9	2R:12760251..13663923	Df(2R)vg83l1
49C3--50A1	2R:12760251..13330105	Df(2R)vg83c31
49C4--49F13	2R:12800408..13262028	Df(2R)vg104
49D1--50C10	2R:12800418..13954018	Df(2R)Su(z)2-1.a4
49D--50B	2R:12800418..13663923	Df(2R)V13
49D1--50A	2R:12800418..13523466	Df(2R)vg33
49D1--50A	2R:12800418..13523466	Df(2R)vg89e24
49D1--49F2	2R:12800418..13133598	Df(2R)sca-KX2
49D1--49E7	2R:12800418..13024826	Df(2R)vg83f15
49D1--49E7	2R:12800418..13024826	Df(2R)vg87e90
49D1--49E7	2R:12800418..13024826	Df(2R)vg[88h64]
49D1--49E7	2R:12800418..13024826	Df(2R)vg83f36
49D2--49F2	2R:12800428..13133598	Df(2R)Su(z)2[5]
49D2--49E7	2R:12800428..13024826	Df(2R)vg80l1
49D3--50A2	2R:12800438..13332634	Df(2R)vg-B	3 stocks
49D3--49E7	2R:12800438..13024826	Df(2R)vg92g23
49D4--50C6	2R:12825913..13868901	Df(2R)vg87e148
49D4--50A14	2R:12825913..13517109	Df(2R)vg88f80
49D4--49F14	2R:12825913..13264557	Df(2R)vg87f50
49D4--49F6	2R:12825913..13182825	Df(2R)vg88c28
49D4--49F6	2R:12825913..13182825	Df(2R)vg89e84a
49D6--49F50	2R:12863698..13275886	Df(2R)vg-P2
49D6--49F7	2R:12863698..13204129	Df(2R)Su(z)3-1.jtg
49D6--49F1	2R:12863698..13086607	Df(2R)vg56
49D6--49F1	2R:12863698..13086607	Df(2R)vg106
49D6--49E7	2R:12863698..13024826	Df(2R)vg124
49D6--49E7	2R:12863698..13024826	Df(2R)vg81
49D6--49E7	2R:12863698..13024826	Df(2R)vg107
49D6--49E7	2R:12863698..13024826	Df(2R)vg120
49D6--49E7	2R:12863698..13024826	Df(2R)vg136
49E1--50C4	2R:12883887..13777036	Df(2R)Su(z)2-1.a3
49E1--49F2	2R:12883887..13133598	Df(2R)Su(z)2-1.a6
49E1--49F1	2R:12883887..13086607	Df(2R)vr9.22
49E1--49F1	2R:12883887..13086607	Df(2R)vr9r2

*Duplicated segments (cytology mapped)* [Export into hitlist]
41A1--60D	2R:4460915..24747488	Dp(2;Y)cb25-11
42A--60D	2R:5802900..24747488	Dp(2;Y)cb25-9
42A--55E	2R:5802900..18750945	Dp(2;2)SMG45
43E--49E	2R:7571523..13024826	Dp(2;2)Y3b
45--51C	2R:8985488..14872152	Dp(2;2)vg-D.fg
48D3--50C6	2R:11932384..13868901	Dp(2;2)vg-D.fi
48E--50A	2R:12068242..13523466	Dp(2;2)M14
48F--51E	2R:12240145..15265242	Dp(2;2)bw-NS
49A1--49F7	2R:12345604..13204129	Dp(2;2)vg-D.fd
49B1--51C1	2R:12530888..14752221	Dp(2;2)vg-D.fk
49B7--50A9	2R:12582294..13474251	Dp(2;2)vg-D.fm

*Inversion breakpoints (cytology mapped)* [Export into hitlist]
41-60A	2R:4460915..23989883	In(F2R)217
41-59F	2R:4460915..23787158	In(2R)41;59F
41-59D	2R:4460915..23434601	In(2R)bw[A]
41A-59D	2R:4460915..23434601	In(2R)bw[VI]
41-58B	2R:4460915..22128418	In(F2R)153
41-57C7	2R:4460915..21179828	In(2R)Pu[K]
41-57A	2R:4460915..20683849	In(2R)C92
41A-57A	2R:4460915..20683849	In(2R)102
41-56E	2R:4460915..19971053	In(2R)41;56E
41-53E	2R:4460915..17039162	In(F2R)241
41-53D	2R:4460915..16882421	In(2R)B2
41A-51F	2R:4460915..15402599	In(2R)Dem1-5
41-49F	2R:4460915..13275886	In(2R)B119
41C-57B	2R:4704667..21107330	In(2R)C2
41F-52C	2R:5405811..15890253	In(2R)B208
41F-52A	2R:5405811..15578985	In(2R)Dem2-2
42A-60B	2R:5802900..24156611	In(2R)Mg109
42A-60A	2R:5802900..23989883	In(2R)PS19
42A-57F	2R:5802900..21758515	In(2R)KA
42A-57F	2R:5802900..21758515	In(2R)40
42A-57C	2R:5802900..21199299	In(2R)K3
42A-53C	2R:5802900..16667220	In(2R)Dem2-3
42B-58A	2R:6496636..21978058	In(F2R)39
42C-50B	2R:6651966..13663923	In(2LR)A8123
42D-60F	2R:6776963..25255318	In(2R)PS20
42D-49E	2R:6776963..13024826	In(2LR)A8148b
42E-56B	2R:6908323..19156660	In(2LR)A8176b
42E-55E	2R:6908323..18750945	In(2R)K14
42F-50E	2R:7078092..14289891	In(2R)AWI2
42F-50C	2R:7078092..13994731	In(2R)AWI1
42F-50A	2R:7078092..13523466	In(2LR)A8185
43A-54E	2R:7180674..17811908	In(2R)Mg105
43-53	2R:7180674..17132869	In(2R)SD72-240
43A-52F	2R:7180674..16231534	In(2R)RBR13
43B-53E	2R:7333731..17039162	In(2R)43B;53E
43C-56F	2R:7428109..20361757	In(2R)B1
43E-60B	2R:7571523..24156611	In(2R)Mg108
43E15-56D2	2R:7756730..19386821	In(2R)cn79b8
43F-56E	2R:7861514..19971053	In(2R)C129
43F-54B	2R:7861514..17507339	In(2R)RBR145
43F-49F	2R:7861514..13275886	In(2R)L
44A-53D	2R:7972698..16882421	In(2R)L5
44B-57C	2R:8111491..21199299	In(2R)RBR24
44B-51F	2R:8111491..15402599	In(2R)Alt-2
44C-57E	2R:8185882..21549017	In(2R)St-M
44C-54B	2R:8185882..17507339	In(2R)cn10
44C-49F	2R:8185882..13275886	In(2R)K21
44D-51C	2R:8436437..14872152	In(F2R)183
44E-56B	2R:8660245..19156660	In(2R)ena[GC5]
44E-53F	2R:8660245..17132869	In(2R)Be
44F-51A	2R:8783087..14547366	In(2R)44F;51A
45B-53A	2R:9153345..16285583	In(F2R)26
45B-50C	2R:9153345..13994731	In(F2R)52
45B-50C	2R:9153345..13994731	In(F2R)282
45C-58A	2R:9250251..21978058	In(F2R)284
45C-52C	2R:9250251..15890253	In(2R)45C-52C
45D-58E	2R:9344687..22584651	In(2LR)A8158
45D-58E	2R:9344687..22584651	In(2LR)A81815
45D-57B	2R:9344687..21107330	In(2LR)A8128
45D-55F	2R:9344687..18927715	In(2R)IW20
45D-54F	2R:9344687..17890759	In(F2R)34
45D-49E	2R:9344687..13024826	In(2LR)A81214a
45D-49E	2R:9344687..13024826	In(2LR)A8121
45E-56B	2R:9465234..19156660	In(2R)Mg102
46A-57F	2R:9637539..21758515	In(2R)12
46A-49F	2R:9637539..13275886	In(2R)NC
46A-49E	2R:9637539..13024826	In(2LR)A8116
47C-54D	2R:10799366..17701490	In(2R)PS23
47D-49E	2R:10977101..13024826	In(2LR)A8173
47E-58E	2R:11220955..22584651	In(2LR)A8164b
47E-55E	2R:11220955..18750945	In(2R)PS24
47F-60A	2R:11287019..23989883	In(2R)Z5
48A-56A	2R:11527783..19012906	In(2R)IE
48A-52E	2R:11527783..16150095	In(F2R)255
48A3-59C3	2R:11580032..23098521	In(2R)SD1[rv1]
48B-53F	2R:11631876..17132869	In(2R)K24
48F-51F	2R:12240145..15402599	In(2R)IC
48F-51C	2R:12240145..14872152	In(F2R)283
49A-51D	2R:12345604..15093453	In(2R)St-D
49B-60B	2R:12530888..24156611	In(2R)St-B
49B-56C	2R:12530888..19329544	In(2R)RBR148
49B-56B	2R:12530888..19156660	In(2R)AL7
49B-56A	2R:12530888..19012906	In(2R)Au
49B-51D	2R:12530888..15093453	In(2R)St-O
49C-56A	2R:12690973..19012906	In(2R)IB
49C1-49F5	2R:12690973..13181369	In(2R)89e76a
49D-50F	2R:12800418..14389491	In(2R)RBR143
49D3-50A14	2R:12800438..13517109	In(2R)vg[89e60]
49D4-60F1	2R:12825913..25044553	In(2R)vg[88e28]
49D4-60B12	2R:12825913..24144090	In(2R)vg[87g43]
49D4-59D	2R:12825913..23434601	In(2R)vg[83f38]
49D4-59D4	2R:12825913..23285389	In(2R)vg[78k3]
49D4-56E	2R:12825913..19971053	In(2R)vg[78a2]
49D4-54C4	2R:12825913..17550360	In(2R)vg[88f18]
49D4-52A11	2R:12825913..15562398	In(2R)vg[89e4]
49D4-51D2	2R:12825913..14928493	In(2R)vg[83b39]
49D4-50A2	2R:12825913..13332634	In(2R)vg[79h5]
49E-57E	2R:12883887..21549017	In(2R)RBR93
49E-56C	2R:12883887..19329544	In(2R)PA
49E-52F	2R:12883887..16231534	In(2R)Mg106
[49E6--49E7];[]	2R:12964417..12985385	In(2R)Arp1.Cl
[49E6--49E7];[]	2R:12964417..12985385	In(2R)Arp1.DG41
49E6--49E7-49E6--49E7	2R:12964417..12985385	In(2R)Arp1.B21e

*Transposition and translocation breakpoints (cytology mapped)* [Export into hitlist]
41-100	2R:4460915..32068446	T(2;3)E(SD)1
41-98F	2R:4460915..29184631	T(2;3)L141-50
41A-98C	2R:4460915..28383802	T(2;3)Dem1-19
41-97D	2R:4460915..27054991	T(F2R;3)172
41-80	2R:4460915..23856407	T(2;3)L141-41
41A-94B	2R:4460915..22666854	T(2;3)Dem2-2
41-93E	2R:4460915..21645979	T(2;3)C199
41-92E14	2R:4460915..20522671	T(2;3)H[24]
41-89E	2R:4460915..17123622	T(2;3)P58
41-89E3	2R:4460915..16902970	T(2;3)iab9[65]
41-89D	2R:4460915..16736155	T(2;3)205
41-89B	2R:4460915..16576178	T(2;3)D24,D18#1
41C-75B	2R:4704667..18155271	T(2;3)V116
42A-96E	2R:5802900..25712016	T(2;3)C5
42F-100F	2R:7078092..32068446	T(2;3)CA15
43-93	2R:7180674..22019295	T(2;3)D7
43D5-75C4	2R:7549958..18378383	T(2;3)L141-28
43E8-75C2	2R:7657576..18262608	T(2;3)MV
43E15-98A12	2R:7756730..27635789	T(2;3)cn74c7
43E15-70F	2R:7756730..14827714	T(2;3)cn88f29
43F-92D	2R:7861514..20259177	T(2;3)C29
44D-92A	2R:8436437..19695282	T(F2R;3)222
44F-99B	2R:8783087..29775722	T(2;3)Mg175
45C-98A	2R:9250251..27670954	T(2;3)14h
45F-94C	2R:9534678..22827295	T(2;3)A81115
45F-74B	2R:9534678..17429272	T(2;3)Mg182
45F-87E	2R:9534678..13484493	T(2;3)H56
47D-93B	2R:10977101..21124232	T(2;3)Mg51
48A3-96C	2R:11580032..25292351	T(2;3)en[LA3]
48A3-79F	2R:11580032..22718905	T(2;3)en[SF24]
49A-98B	2R:12345604..28082526	T(2;3)Hin111
49A-80A	2R:12345604..22843488	T(2;3)6r6
49D4-96C2	2R:12825913..25173390	T(2;3)vg88d9
49D4-80C2	2R:12825913..23005626	T(2;3)vg[88f31]
49D4-70C4	2R:12825913..13859231	T(2;3)vg[88c25]
49E-92E	2R:12883887..20525400	T(2;3)Mg187
49E6-49E7-61E1-61F2	2R:12964417..12985385	T(2;3)Su(z)2[1.a1]