| droSim2 | 
	3l:19175533-19175782 + | 
	dsi_28963 | 
	AC-GAGAT---------------CTGGAGTCGAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCTTAGG-----------------------------------------------------------CGCAACTCACTTGGCTCTT----TTCCTGCAGCTAGATCC-------ATTTTCTCACTTTTCGTTTCGA-----CCGTT------------------------TCGATT-----CGA---T------------------CTCAATT----------------------------------------------------------------------------TTTT-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGACT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droSec2 | 
	scaffold_29:228288-228557 + | 
	 | 
	AC-GAGAT---------------CTGGAGTCGAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCTTAGG-----------------------------------------------------------CGCAACTCACTTGGCTCTT----TTCCTGCAGCTAGATCC-------ATTTTCTCGCTTTTCGTTTCGG-----CCGTT------------------------TCGATT-----CGA---T-------------------------------------------CTCAGCCAAACAC------ATAG------------TTACAC----TCTA---------TTTT-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGACT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| dm3 | 
	chr3L:19525574-19525839 + | 
	 | 
	AC-GCGAT---------------CTGGAGTCGAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCTTAGG-----------------------------------------------------------CGCAACTCACTTGGCTCTT----TTCCTGCAGCTAGATCC-------ATTTTCTCGCTTTTCGCTTCGA-----CCGCT------------------------TCGATT-----CGA---T-------------------------------------------CTCAGCCAAACAC------ATAG------------TTACAC-----------------TTTT-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGACT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droEre2 | 
	scaffold_4784:19323347-19323606 + | 
	 | 
	AC-GAGAT---------------CTGCAGCCGAA----CAGTC-----ATCAATTCTTCCTCTGCACGC------GCCAA--------A----GTC---GCAGCTCATT-----------------------------------------------------------CGCAACTCAC-TGGCTCTT----TCCTTGCAGCTAGATCC-------ATTTTCTCGCTTTTCGCTTTTC-----AATTT------------------------TCGATT-----CGA---T-------------------------------------------CTCTGCCATACAC-------CAG------------TTACAC--------------------T-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCG-GT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droYak3 | 
	3L:21016182-21016435 - | 
	 | 
	AC-GAGAT---------------CTGGAGTGGAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCTCATT-----------------------------------------------------------CGCAACTCAC-TGGCTCTT----TCCTTGCAGCTAGATCC-------ATTTTCTCGCTTTTCGTTT------------T------------------------TCGGTT-----CGA---T-------------------------------------------CTCTGCCATACAC-------CAG------------TTACAC--------------------T-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGAGT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droEug1 | 
	scf7180000409472:70894-71142 + | 
	 | 
	AC-GAGAG---------------CTGGAGTCGAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCATATT-----------------------------------------------------------CGTGCCTCACTTGGCTCTT----TCCTTGCAGCTAGATCC-------ATTTTTTT-----------------------------------------------------------TG-TGA------G---TTTTTCGAT-------------------------TTTTGCTACACAT------ATCG------------TTACAC--------------------T-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGAGT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droBia1 | 
	scf7180000302377:2091915-2092169 - | 
	 | 
	GC-GAGAG---------------CTGCGGTCGAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCTCATT-----------------------------------------------------------CGGGTCTCACTTGGCTCTT----TCCTTGCAGCCAGATCA-------ATTTTT---------------------------------------------------CGATT-----------T------------------CTCGATTTTTTCC--TCGGG-----C-TTGCTACACAT------ATAG------------TTACAC--------------------T-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGAGT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droTak1 | 
	scf7180000415276:27679-27918 + | 
	 | 
	AC-GAGAG---------------CTGGAGTCAAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCTTATT-----------------------------------------------------------CGTGCCTCACTTGGCTCTT----TCCTTGCAGCTAGATCA-------ATTTTTA---T--------------------------------------------------------------------------TTTCGA--------------------------TTTTGCTATACAT------GTAG------------TTACAC--------------------T-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGAGT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droEle1 | 
	scf7180000491249:6818324-6818595 + | 
	 | 
	AA-GCAAA-------CGAGAGATCTGGAGTCGAG-CAGCAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCTTT--------------------ACTTCGTT---------------------------------CG---------TGCCTCTT----TCCTTGCAACTAGATCT---------------------------------------------------------------TTGATC-----------TTTTTGGTTG-----C---------ATTTT-------------CTTTTGCTACACAT------ATAG------------TAACAT-------AGTTGGTTGTTTTT-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT------------TTC---GCGACT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droRho1 | 
	scf7180000768266:457-691 + | 
	 | 
	AC-GAGAG---------------CTCGAGTCGAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCTCATT-----------------------------------------------------------CG---------TGCCTCTT----TCCTTGCAACTAGATCT-------ATTTTTT------------------------T------------------------TCGATT-----TTT---T-------------------------------------------TTTTGCTATATAT------ATAG------------TTACAC--------------------T-TTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGAGT---G-----TTGGCC--AACTGACCGAACGTATTTAAGCGATTATAGG | 
	| droFic1 | 
	scf7180000453831:69773-70017 + | 
	 | 
	TC-GCGAG---------------CTGGAGTCGAA----CAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GCC---GCAGCTCATT-----------------------------------------------------------CGGGCCTCACTTGGCTCTT----TCCTTGCAGCCAGATCA-------ATTTTT----------------------------------------------------GTTT-----CGA---T-------------------------------------------TTTTGCTACACATTCGAGTATAG------------T--CAC--------------------TTTTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------CGAGCTTTT--------------C---GCGAGT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droKik1 | 
	scf7180000302694:42886-43145 + | 
	 | 
	------------------------------CGAA----CAGTC-----ATCGATTCTTCATCTGCACGA------GCCAA--------A----GTC---G--GCTCA------------------------------------------------------------------CTCACTCGGCTCTT----TCCTTGCAGCTAGATCC-------ATTTTTC-------------GA---------T------------------------CCGATTCGATTCG----------G---TTTTTC-AT-------------------------TTCTGCTACATAT------ATAG------------TGGCAC--------------------TTTTTTTGTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCTGCGCATGCGTGCTAGTGCCAGTGCGAGTGCGAATGCGAGCTTTT--------------C---GCGAGT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droAna3 | 
	scaffold_13337:6444474-6444740 + | 
	 | 
	AC-GAGAG---------------------------------------------TTCTTCATCTGCACGC------GCCAC--------AAAAAATATCAGCAGCTC-----------------------------------------------------------------------TTTGGCTCTTTTTTTCCTATTAGCCAGAT-----------------------------------------------------------------TTGATT-----CGA---TTTTCGGTGG--------------TTTTTT-----TGCGC---CATATGCTATATAT------ACAA----TATAGGCTATACAC--------------------TTTTTTTGTCGA----------TTTGTCGCCAAACTGGTGCGTGGCGGCTGCTGCGCATGCGTG------------------------CAAGCTTTTCGCGTTTCGTTTTTC---GCGACTCTTGTTGGCCTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droBip1 | 
	scf7180000396709:180377-180643 + | 
	 | 
	AC-GAGAG---------------------------------------------TTCTTCATCTGCACGC------GCCAA--------AAAAAATA---TTAGCTC-----------------------------------------------------------------------TTTGGCTCTTTT-TTCCTTTC-------------------------------------GAAAAAAAAGAT------------------------TCGATT-----CGA---TTTTCGG-----------------TTTTTT-----TTCGC---CATATGCTATATAT------ATAGGCAATATAGGCTATACAC--------------------T-TTTTTGTCGA----------TTTGTCGCCAAACTGGTGCGTGGCGGCTGCTGCGCATGCGTG------------------------CGAGCTTTTCGCGTTTCGTTTTTC---GCGACTCTTGTTGGCCTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| dp5 | 
	XR_group8:7601304-7601584 + | 
	 | 
	AC-GAGAG---------------CTGGAGTCGGAGCTGCAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCGCACC-----CGACTTGGTCT-GGCCTGGCCCGATCCAA-TCCGATAC------GAT-CCGATTCG-----------ACTCAT----TCCTTGCAGCTAGATCC-------ATTTTTT---TT--------------------------------------------------------------------------TTTGTT-------------------------TTCTGCTATAAAT------ATAG------------TG-TGT--------------------T-TTTTTTTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCCGCGCATGCGTG------------------------CGAGCTTTT--------------CTGTGCGAGT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droPer2 | 
	scaffold_48:379373-379653 + | 
	 | 
	AC-GAGAG---------------CTGGAGTCGGAGCTGCAGTC-----ATCAATTCTTCATCTGCACGC------GCCAA--------A----GTC---GCAGCGCACC-----CGACTTGGTCT-GGCCTGGCCCGATCCAA-TCCGATAC------GAT-CCGATTCG-----------ACTCAT----TCCTTGCAGCTAGATCC-------ATTTTTTT--TT--------------------------------------------------------------------------TTTGTT-------------------------TTCTGCTATAAAT------ATAG------------TG--TG--------------------T-TTTTTTTCGC----------TTTGTCGCCAAACTGGTGCGTGG---CTGCCGCGCATGCGTG------------------------CGAGCTTTT--------------CTGTGCGAGT---G-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droWil2 | 
	scf2_1100000004540:806387-806595 + | 
	 | 
	GA-GAGAA---------------CCAGCATCGAA----CAGTCGATCGATCAATTCTTCATATCCACGCTTCGCCGCCAAAA------A----CTT---GCAGTTT-----------------------------------------------------------------------------------------------CAAATCTCGGTTTTATTTTT--------------------------------------------------------------------------------TTTGTT-------------------------TT-TG---------------TGT------------G-----TTTCTGT-----GTTG--T-TTTTTTGGTCGA----------TTTGTCGCCAAACTGGTGCGTAG---CTGC---------GTG------------------------CA-GC---A--------------C---CCGA-----C-----TTGGCC--AACTGACCGAACGTATATAAGCGATTATAGG | 
	| droVir3 | 
	scaffold_13049:13100624-13100888 + | 
	 | 
	ACTG--------------------CGCAGTCGAG----CAGTC-----ATCAATTTTTCTTCAG---GC-----AGTCAGGCCGTTGCA----GTC---GCAGATTTTGAGCTCTGACTTGGCTT-GACTTCGCTTTTCCTAGCTCCAATATTTTTATGCTGCCGAT--------------------------------------------------TTT---------------------------CTGCTCGTTTTTCCAATTCGCTTT--------------------------------------------T-T-------TTT-TTTTTTTGCT---TGT------GTGT------------G-----T------------------------GTGTG---TTTGATTTTTCTGTCGCTAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------TGAGC------------------------------------------CAAAACTGACCGAACGTATATAAGCGATTATAGG | 
	| droMoj3 | 
	scaffold_6680:14264101-14264357 - | 
	 | 
	CT-GCGAACT------GCCAGCAGCGCAGTCGAG----CAGTC-----ATCAATTTTTCTTCAG---GC-----AGTCAGCC------C----GTT---GCAGTCT-------CTGACTTGACTTCGACTTTGCTTTTCCTAACTGCAATATTTT--TGCTGCTGAT--------------------------------------------------TTT---------------------------CTACTCGTTTTTCCAAGCTGCTTT--------------------------------------------T-G-------T------TGTTGTTGTATG-------------------------------------------------------TGTTGCTTTTGATTTTTCTGTCGCTAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------TGAGC------------------------------------------CAAAACTGACCGAACGTATATAAGCGATTATAGG | 
	| droGri2 | 
	scaffold_15110:23836746-23837027 + | 
	 | 
	ACTGCCAACTGCAAACTGCAACTACGCAGCCGAA----CAGTC-----ATCAATTTTTCTTCAG---GC-----AGTC----------A----GTC---GCAGCTTTTGAGCTCTGACTTGACTT-GACTTCGCTTTACCAAACTTCAATATTTT--TGCTGGCGAT--------------------------------------------------T-T---------------------------CTGCTCACTTTACCATTTGATTT---------------------------------------------TTTTTTATTGATGT---TGTTGT------T------ATGG------------TTTTTT--------------------T-TGTTTGCTGC---TGATTTTTCTGTCGCTAAACTGGTGCGTGG---CTGCTGCGCATGCGTG------------------------TGAGC------------------------------------------CAAAACTGACCGAACGTATATAAGCGATTATAGG |