dse_604

Name	Class	Family	Strand
(TCG)n	Simple_repeat	Simple_repeat	+
(CAT)n	Simple_repeat	Simple_repeat	+

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## GGGGATGACGAAGATGATAATAATGAGGATGACGAGGATGACGAAGGAGATGATAATAACGGGAAAGACGAGGACGAGGATGACGAAGATGAAGATGACAATAATGATGACGACGACGAGGATGATGAAGACGATAATAAAAGAGGCGACGAGGATGACGAAGAGAACAATAATGAGGACAAAGATGAAGATAATGATGAGACGAGGATGACGGAGATGACAATGAGGACGACATGGACGAGGATGACGAA ******************************************************************************........................................................................................*********************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V113 male body	V114 embryo	V115 head	M054 female body
............................................................................................................................................AAGAGGCGACGAGGATGACGAAGAGAAC...................................................................................	28	0	1	1.00	1	1	0	0	0
.............................TGACGAAGATGACGAAGGAGATG.......................................................................................................................................................................................................	23	1	1	1.00	1	1	0	0	0
................................................................................TGACGAAGATGAAGATGACAAT.....................................................................................................................................................	22	0	1	1.00	1	1	0	0	0
...................................................................................................................................................................................................................................GACGACAAGGACGAGGATGACG..	22	1	1	1.00	1	1	0	0	0
..........................................................................CGAGGATGACGAAGATGAAGA............................................................................................................................................................	21	0	1	1.00	1	1	0	0	0
.............................................................................................................................................................ACGAAGAGAACAATAATGAT..........................................................................	20	1	1	1.00	1	1	0	0	0
.................................................................................GACGAAGATGAAGATGAC........................................................................................................................................................	18	0	2	0.50	1	0	1	0	0
..................................................................................................................................................................GCGAACAATAAAGAGAACAAAGA..................................................................	23	3	3	0.33	1	0	0	1	0
.........................................................................................................................................TAAAAGAGGAGACTAGGA................................................................................................	18	2	3	0.33	1	0	0	1	0
..............................................................................GATGACGAAGACGAAGAT...........................................................................................................................................................	18	1	3	0.33	1	0	1	0	0
..................................................................GACGGGGACGATGATGACG......................................................................................................................................................................	19	2	20	0.20	4	0	0	4	0
...............................................................................................................................................................GAAAAGACCAATGATGAGGAC.......................................................................	21	3	6	0.17	1	0	0	0	1
.....................................................................................................TAATGATGACAACGACGACGAT................................................................................................................................	22	2	6	0.17	1	0	0	0	1
..................................................TGATAATAAGAGGGAAGACG.....................................................................................................................................................................................	20	3	7	0.14	1	1	0	0	0
..................................................................................................................GACAAGGACGATGAAGACGAT....................................................................................................................	21	2	7	0.14	1	0	1	0	0
............................................................................................AGACTACGATAATGATGACGAC.........................................................................................................................................	22	3	8	0.13	1	0	0	0	1
............................................AGGAGATGGTAATAATGG.............................................................................................................................................................................................	18	2	9	0.11	1	0	0	0	1
.......................................................................................................ATGCTGACGAAGAAGAGGATGATG............................................................................................................................	24	3	10	0.10	1	1	0	0	0
................................................................................................................................................................................GGACGAAGATGATGAAAATGATGA...................................................	24	3	12	0.08	1	0	0	0	1
...........................GATGACGGTGATGACGAAGGTGA.........................................................................................................................................................................................................	23	3	14	0.07	1	0	0	0	1
................................................................................CGACGAAGATGAAGATGACGAT.....................................................................................................................................................	22	2	17	0.06	1	1	0	0	0
............................................................................TGGATGACGAAGACGAAGA............................................................................................................................................................	19	2	17	0.06	1	1	0	0	0
...................................................................ATGGGGACGAGGATGACGGAG...................................................................................................................................................................	21	3	17	0.06	1	1	0	0	0
..............................................................................................................................................................................GAGGACAGGGATGAACATA..........................................................	19	3	18	0.06	1	0	0	0	1
..........................................................................................................ATAAGGACGACCAGGATGAT.............................................................................................................................	20	3	20	0.05	1	1	0	0	0

Species	Coordinate	ID	Alignment
droSec2	scaffold_1:290978-291228 -	dse_604	GGGGATGACGAAGATGATAAT---AATGAGGATGACGAGGATGAC------------GAAGGAGAT---------------GATAATAACGGGAAAG---------AC---GAG------G------------ACGAGGATGA---CG------------AAGATGAAG------ATGACAATAATGATGACGA------CGACGAGGATGAT------------------GAAGA------CGATAATAAAAGAGGCGACGAGGAT------------GACGAAGAGAAC---------AATAATG------AGGACAAAGATGAAGATAATGATGA-------------------GACGAGGATGACGGAGAT---------GACAATGA---GGACGACATGGACGAGGAT---------------------------------------GACGAA
droSim2	2r:3483228-3483470 -		GGGGATGACGAAGATGATAAT---AATGAGGACGACGAGGATGAC------------GAAGAAGAT---------------GATAATAACGGGAACG---------AC---GAG------G------------ACGATGATGA---CG------------AAGATAAAG------ATGACAATAATGATGACGA------CGACGAGGATGAT------------------GAAGA------CGATAATAAAATGGACGACGAGGAT------------AACGAAGAGGAC---------AATAATG------AGGACGAAGATGAAGATAATGATGG---------------------------GGACGAAGAT---------GACAATGA---GGACGACAAGGAAGAGGAT---------------------------------------GACGAA
dm3	chr2R:2618284-2618535 -		GGGGATGACGAAGATGATAAT---GATGAGGACGACGAGGATGAC------------GAAGAAGAT---------------GATAATAACGGGAACG---------AC---GAG------G------------ACGACGAGGA---CG------------AAGAAGAAG------ATGACAATAATGATGACGA------TGACGAGGATGAT------------------GAAGA------TGATAATAATGGAGACGACGAGGAT------------GACGAAGAGGAC---------AATAATG------AAAACGAAGATGAAGATAATGATGGG---------------GACGACGA---TGACGGAGAT---------GACAATGA---GGACGACAAGGACGAGGAT---------------------------------------AACGAA
droEre2	scaffold_4929:19927409-19927663 +		GAGGATGACGAAGAAGATAAT---GATGATGAGGACGAAGATGAC------------GAGGAAAAT---------------AATAATGAGGATGACG---------AG---GAA------G------ATAATAATGAGGACGACGAC---------------GATGACG------AAGAAGATAATAATGAGGA------CGAGGACGATGACGAA---------------GAAGA------TAA---TAATAAAGACGAC---AAT------------GACGAAGACGAG---------AACGACG------AAGAGAACGATGAAGATGAGGACGA---------C------AATGATGA---GGACGAGGAT---------GACGAGGA---CGAGGACGAGAACGACGAT---------------------------------------AACAAA
droYak3	2L:15355149-15355379 -		GGGGATGACGAAGATAATAAT---AATGAGGACGAAGAGGATGAC------------GAAG---AT---------------AATAATAATGAGG------------AC---GAA------G---------------AGGATGA---CG------------AAGAAGAAG------ATGATA---ATGGGAACGA------CGAAGACGATAAT------------------GAAGA------TGACAATAAC---GACGACGAGAAT------------GACGAAGAGGA------------------------AGATGAAGAAGAAGATAATGATGA---CGA---C------GAGGATGA---CGGGGAAGAT---------GACAATGA---GGACGACAAGGACGAAGAT---------------------------------------GATGAA
droEug1	scf7180000409462:3488761-3488988 -		GAGGAGGATGATGAAGACAAT---AATGAGGACGACGACGACGAG------------GATGACAAA---------------GACAATAATGGAGACG---------AC---GAG------G------------AGGAGGATGA---CG------------AAG------------AAGAAAATAA---TGGGGA------CGACGAGGATGAT------------------GAAGA------CGATAATAACGGAGACGATGAGGAT------------AACGAAGATGAT---------A---CCG------------------GGGACGATGAGGA---------C------GACGAAGA---AGATAATAAT---------GGGGACGA---CGAAGACGAGGACGAAGAT---------------------------------------GACGAG
droBia1	scf7180000302292:3533247-3533468 +		GAAGACGATGATGATAATAAT------GGGGACAACGAGGACGAA------------------GAT---------------GATAATAATGGGAACG---------AC---GAG------G------------ACGAAGACGA---CG------------ATGATGACG------AAGAAAATAA---TGAGGA------CGATGAAGAAGAC------------------GAAGATGATAATGGAGACGAC---GAGGACGAAGAT------------GACGAAGAAGAT---------A------------------AAGACGGAGACGATAA------------------------------GGACGAAGAT---GAC---GAAGAAGA---TAATAATGATGACGATGAG---------------------------------------GTCGAA
droTak1	scf7180000415420:474739-475002 +		GAGGACGAAGAAGACGAAAAT------GAGGACGACGAGGACGAA---GAAGAAGACGAA---GACGATAATAATAAGGAAGAC---------AATG---------AC---GAGGACGAAG------ATG---------AAGA---TG------------AAGACGAAG------ACGATAATAA---TAAGGA------AGACGAGGACGAA------------------GAGGA------CAA---TAATGAGGACGACGAGAACGAAGACGATAATGATAAGG---------------------------ACGACGAGGACGAAGACAATAATGGGGAGGA---C------GAGGACGA---TGACGAAGAC---------GATGACAA---TAATAATAAGGACGACGAG---------------------------------------GACGAA
droEle1	scf7180000490247:12365-12610 +		GATGATGATGATAATGATGAT---GATGATGATGATGATGATGAT------------GATGATGAT---------------GATGATGATGATGATG---------AT---GAT------G------------ATGATGATGA---TG------------ATGATGATG------ATGATGATGATGATGATGA------TGATGATGATGAT------------------GAAGA------TGATGATGATGATGATGATGATGAT------------GATGATGATGAT---------GATGATG------ATGA------------TGATGATGATGATGA---T------GATGATGA---CGATGATGAT---------GATGATAA---TGACGATGACGATGATGAT---------------------------------------GACGAT
droRho1	scf7180000766551:36046-36297 +		AAAGATACTGATA------GG---GACGAAGAGGACGACGATGACGAAGAA------GATAATGAT---------AAAGACGACGAAGACGAAG------------AT---------------------------GAAGACGA---CG------------AAGACGAAGATGACGAAGATAATGA---CAATGA------TAACGAGGACGAG------------------GAAGA------TAACGATGAC---GAGAACGGGGAT------------GACAATGAAAAT---------GATGACG------AGGA------CGAAGATGACGATGAGGA------TGAG---AAAGATAA---AAATGATGAG---------GACGAGGATGAGGATGACGAGGAAGGGGAT---------------------------------------GATGAA
droFic1	scf7180000453955:681793-682026 +		GAGGAAGAAGACAATGATAAG---GATAATGATGACGAGGATGAA------------GAAGAGGAT---------------AATGATAACGGTG------------AT---GAC------G------------ACG---AGAA---TGATG---------AAGATG---------GGGACAATAA---GGACGA------TGAGGACGAGGAT------------------GAAGATGA---CG---------C---GGAAGAGGAT------------GAAGAGGAAGAC---------ACCGATA------AAGACGATGATGAAGATGACAATGAAG---------------ACGAGGA---CAACGAAGAA---------GATAACGA---CGAAGATGAAGACGAAGAT---------------------------------------GAAGGA
droKik1	scf7180000302470:177899-178141 -		GAGGATGATGAAGATGCGAAA---GATGA------TGAAGATGAT------------GAAGAAGAT---------GAAGATGATGAAGAGACAA------------AT---AAT------G------------ATG---ACGA---AGATGAAGATGAGGATAATGAAG------ATGAAAATGA---CAAGGA------TGGAGAAGATAAT------------------GAAGA------------------CGACGATGAAGAT------------------GAGGAG---------AATGATG------AAGACGACGACGAAGATGCAAATGGGGATGA---G------AAGGATGA---AGAAGATAAT---------GAAGATGA---GGAGGATGAAGACGAAGAG---------------------------------------GATGAA
droAna3	scaffold_12088:3445-3684 -		GACGATGACGATGACGATGAC---GATGACGATGACGATGACGAT------------GACGATGAC---------------GATGACGATGACGATG---------AC---GAT------G------------ACGATGACGA---TG------------ACGATGGCG------ATGACGATGACGATGACGA------TGACGATGACGAT------------------GACGA------TGA------------CGATGACGATGACGA---T---GACGATGACGAT---------------G------ACGATGACG------ATGACGATGACGATGA---C------GATGACGA---TGACGATGAC---------GATGACGA---TGACGATGACGATGACGAT---------------------------------------GACGAT
droBip1	scf7180000396735:1662386-1662637 +		GAAGATGAGGATGATGAAAAT---CAAGATGAAGATGATGAAAAT------------GAAGATGGG------------GATGATGCAAATGGAG------------AT---GAGGATGAAG------ATG---------AAGA---TG------------AAGATG---------AAGATAATGG---TAATGA------CGATGATGATGACGAG---------------GAGAA------CGAAAATGAAGATGAAGATGAGGAT------------AATGAAGATGAC---------AA---TGAAGACGAAGATGAAGATGAAGGTAATGG------------A------AATGATGA---GGAGGACGAC---------GAAGAAAA---TGGGGACGATGACGAAGAT---------------------------------------GAAGAT
dp5	Unknown_singleton_383:1616-1879 +		GATGAAGAAGATGAAGATGAT---GAAGCTGATGAAGCTGATGAA------------GCTGATGAA---------------GCTGATGAAGGTGATG---------AA---GCT------G------------ATGAAGCTGA---TG------------AAGCTG---------ATGAAGCTAA---TGAAGC------TGATGAAGCTGAT------------------GAAGCTGA---TGAAGCTGATGAAGCTGATGAAGCT------------GATGAAGCTGAT------------------------------------------GAA------------------GCTGATGA---AGCTGATGAAGATGATGAAGCTGATGA---AGCAGATGACGATGA---CTTCGACTTTAAGGAGAACTTCAAGGTGGACAAGGTGGACGAGACT
droPer2	scaffold_2:1063540-1063785 -		GAGGATGAGGATGATGATGAC---GATAATAATGATGAAAATGGG------------GATGAGGAT---------------GAGGCAGATAACG------------ATGACGAC---GAAG------AAG---------AGAA---TG------------ATGATG---------AGGATAACGA---TGACGA------TAACGACGATGATGAAGAT------------AAGGA------TG------ATAAAGATAATGACGACGAAGA---C---GCCGATGACGAT---------AATGATG------AAG------------ACAACGATAATGATGT---A------GAGGATAA---TGATGAGGAT---------AATGATGA---GGACAATGAAAATGACGAT---------------------------------------GATGAC
droWil2	scf2_1100000004558:189147-189395 +		GAGGATAATGAAGATAATAAT---GACGAAGATGACGAGGAGGAT------------AATGACAAA---------------GACAATGGTGATAATG---------AC---GAT------G------------AAGAAGATGA---GG------------ATGATGAGG------AGGACAATAA---CAAAGA------TGAAGACGATGATGAT---------------GAGGA------CAATGATAATGATGAAAATGGAGAT------------GAAGAAGATGAT---------GATGATG------AAAA------------CAATAATGACGATGAGGAT------GATGACGA---TAACGACAAA---------GATAACGA---TGATGATAATGACGAAAAT---------------------------------------GACGAG
droVir3	scaffold_12875:15517136-15517387 -		GAGGATGACGACGATAATGGA---GACGATGATGAAGACGAGGAC------------GAAGACGAT---------------GACGATAACGAAAATGATGACGATAAC---GAT------G------ATG---------AAAA---T---------------GATGAAG------ATAACGATAATGACAATGACAATGACGAGGAC------------------------GACGA------TGAAAACGATGAAGACAATGACGAT------------GAAGATGAGGACGAAAATGATGATGATG------------------AAGACAATGATGAAG---------------ATGAGGA---TGAAAATGGT---------GACGATGA---CGAAGACGACGATGAGAAC---------------------------------------GACAAC
droMoj3	scaffold_6496:8282291-8282539 +		GACGAAGATGATGATGATGAT---GATGATGATAATGACAATAAC------------AAAGACAAT---------------GACAATGACGACG------------AC---GAG------GACGAAGACG---------AAAA---CG------------ATGATGATG------AGGACAATGA---CGAAGA------TGACGAGGATAATGACGAT------------GACGA------TG------ACATACAGAACGATGACGACGA---T---GACGATGAAGAT---------------------------AATGATAAAGATAACGACGATGATGA---C------GAAGATGA---AGACGAAGAC---------GATAATGA---TAATGATAACGACGACGAT---------------------------------------GACGAT
droGri2	scaffold_15245:12322002-12322254 -		A--GATGATGAAGATGATGACGAAGACGAAGACGAAGACGAAGAC------------GAAGACGAT---------------GACGATGACGAGAATG---------GA---G---------------ACGACAACGATGACGACAAT---------------GATGACG------ATGAAAATGA---TGATGA------CGATAATGATGACGATGACGATGACGAGAATGGAGA---------------------CGAT---AAT------------GATGACGACAAC---------GACGACG------ATGAAAATG---------ATGATGAGGA------CGATAACAATGACGA---CAACGGTGAC---------GATAATGA---TGACGATAATGAAGACGAT---------------------------------------GACGAT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSec2

GGGGATGACGAAGATGATAAT---AATGAGGATGACGAGGATGAC------------GAAGGAGAT---------------GATAATAACGGGAAAG---------AC---GAG------G------------ACGAGGATGA---CG------------AAGATGAAG------ATGACAATAATGATGACGA------CGACGAGGATGAT------------------GAAGA------CGATAATAAAAGAGGCGACGAGGAT------------GACGAAGAGAAC---------AATAATG------AGGACAAAGATGAAGATAATGATGA-------------------GACGAGGATGACGGAGAT---------GACAATGA---GGACGACATGGACGAGGAT---------------------------------------GACGAA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
...........................................................................................................................................................................................................................................................AAGAGGCGACGAGGAT------------GACGAAGAGAAC---------...............................................................................................................................................................	28	1	1.00	1	0	1	0	0
............................................................................................................................................TGA---CG------------AAGATGAAG------ATGACAAT....................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0
......................................................................................................................................CGAGGATGA---CG------------AAGATGAAG------A...........................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0
........................................................................................................................................................................................................................................................................................ACGAAGAGAAC---------AATAATG------AT................................................................................................................................................	20	1	1.00	1	0	1	0	0
.............................................................................................................................................GA---CG------------AAGATGAAG------ATGAC.......................................................................................................................................................................................................................................................................................	18	2	0.50	1	0	0	1	0

droSim2

GGGGATGACGAAGATGATAAT---AATGAGGACGACGAGGATGAC------------GAAGAAGAT---------------GATAATAACGGGAACG---------AC---GAG------G------------ACGATGATGA---CG------------AAGATAAAG------ATGACAATAATGATGACGA------CGACGAGGATGAT------------------GAAGA------CGATAATAAAATGGACGACGAGGAT------------AACGAAGAGGAC---------AATAATG------AGGACGAAGATGAAGATAATGATGG---------------------------GGACGAAGAT---------GACAATGA---GGACGACAAGGAAGAGGAT---------------------------------------GACGAA	Size	Hit Count	Total Norm	Total	M023 Head	M024 Male-body	M025 Embryo	M053 Female-body	O001 Testis	O002 Head	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary	V044 Embryo	SRR902008 Ovary	SRR902009 Testis	SRR1275487 Male larvae	SRR1275485 Male prepupae	SRR1275483 Male prepupae
.............................................................................................................................................................................................GACGA------CGACGAGGATGAT------------------GAAGA------CG.......................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................ACG---------AC---GAG------G------------ACGATGATGA---CG------------AA.........................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................GAAGAGGAC---------AATAATG------AGGACGAA..........................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................GAAGAGGAC---------AATAATG------AGGACGAAGA........................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................CG---------AC---GAG------G------------ACGATGATGA---C........................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................CG---------AC---GAG------G------------ACGATGATGA---CG------------AA.........................................................................................................................................................................................................................................................................................................	22	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................G------G------------ACGATGATGA---CG------------A..........................................................................................................................................................................................................................................................................................................	15	16	0.06	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0

dm3

GGGGATGACGAAGATGATAAT---GATGAGGACGACGAGGATGAC------------GAAGAAGAT---------------GATAATAACGGGAACG---------AC---GAG------G------------ACGACGAGGA---CG------------AAGAAGAAG------ATGACAATAATGATGACGA------TGACGAGGATGAT------------------GAAGA------TGATAATAATGGAGACGACGAGGAT------------GACGAAGAGGAC---------AATAATG------AAAACGAAGATGAAGATAATGATGGG---------------GACGACGA---TGACGGAGAT---------GACAATGA---GGACGACAAGGACGAGGAT---------------------------------------AACGAA	Size	Hit Count	Total Norm	Total	GSM154618 Ovary	GSM154620 Ovary	GSM154621 Ovary	GSM154622 Ovary	GSM180328 Head	GSM180329 Mixed-body	GSM180330 Embryo	GSM180331 Embryo	GSM180332 Embryo	GSM180333 Embryo	GSM180334 Larvae	GSM180335 Disc	GSM180336 Pupae	GSM180337 S2	GSM231091 Ovary	GSM239041 Head	GSM239050 Head	GSM239051 S2	GSM239052 S2	GSM246084 Head	GSM266765 S2	GSM280082 Ovary	GSM280083 Ovary	GSM280084 Ovary	GSM280085 Testis	GSM280086 Ovary	GSM280087 S2-NP	GSM280088 S2-NP	GSM312995 Head	GSM313160 Head	GSM313161 Head	GSM313162 Head	GSM313163 Head	GSM313164 Head	GSM313165 Head	GSM343287 Embryo	GSM379050 Ovary	GSM379051 Ovary	GSM379052 Ovary	GSM379053 Ovary	GSM379054 Ovary	GSM379055 Ovary	GSM379056 Ovary	GSM379057 Ovary	GSM379058 Ovary	GSM379059 Ovary	GSM379060 Ovary	GSM379061 Ovary	GSM379062 Ovary	GSM379063 Ovary	GSM379064 Ovary	GSM379065 Ovary	GSM379066 Ovary	GSM379067 Ovary	GSM424739 S2	GSM424740 S2	GSM424741 S2	GSM467729 Female-body	GSM467730 Female-body	GSM467731 Female-body	M002 CS	M003 Male-body	M004 Male-body	M005 ML-DmD32	M006 ML-DmD32	M029 OSC	M030 OSC	M031 OSC	M032 S2-R+	M033 S2-R+	M034 S2-R+	M035 S2-R+	M036 S2-R+	M037 S2-R+	M038 S2-R+	M039 S2-R+	M048 S2-R+	OSS2 OSS	OSS6 OSS	OSS7 OSS	OSS8 OSS	S1 Head	S10 Embryo	S11 Embryo	S12 Embryo	S13 Embryo	S14 Embryo	S15 S2-GMR	S16 Kc	S17 Larvae	S18 Larvae	S19 Pupae	S2 Head	S20 Pupae	S21 Disc	S22 Head	S23 Female-body	S24 Male-body	S25 Larvae	S26 Larvae	S27 Pupae	S28 Pupae	S29 Head	S3 Male-body	S30 S2-GMR	S31 S2	S32 S2	S33 Kc	S34 Kc	S35 Kc	S4 Female-body	S5 Disc	S6 Embryo	S7 Embryo	S8 S2	S9 Embryo	SRR001337 Head	SRR001338 Head	SRR001339 Head	SRR001340 Head	SRR001341 Head	SRR001342 Head	SRR001343 Head	SRR001344 Head	SRR001345 Head	SRR001346 Head	SRR001347 Head	SRR001348 Head	SRR001349 Head	SRR001664 Head	SRR010951 Ovary	SRR010952 Ovary	SRR010953 Ovary	SRR010954 Ovary	SRR010955 Ovary	SRR010956 Ovary	SRR010957 Ovary	SRR010958 Ovary	SRR010959 Ovary	SRR010960 Ovary	SRR014268 Embryo	SRR014269 Embryo	SRR014270 Embryo	SRR014271 Embryo	SRR014272 Embryo	SRR014273 Ovary	SRR014274 Ovary	SRR014275 Ovary	SRR014276 Ovary	SRR014277 Ovary	SRR014278 Ovary	SRR014279 Ovary	SRR014280 Ovary	SRR014281 Ovary	SRR014282 Ovary	SRR023197 S2	SRR023399 S2	SRR023400 S2	SRR023402 S2	SRR023407 S2	SRR029028 S2	SRR029029 S2	SRR029030 S2	SRR029031 S2	SRR029032 S2	SRR029033 S2	SRR029608 Head	SRR029633 Head	SRR030145 gb3	SRR031692 Head	SRR031693 Head	SRR031694 Head	SRR031696 Head	SRR031697 Head	SRR031698 Head	SRR031699 Head	SRR031700 Head	SRR031701 Head	SRR031702 Head	SRR031703 Head	SRR031704 Head	SRR032092 S2	SRR032093 S2	SRR032094 S2	SRR032095 S2-NP	SRR032096 S2-NP	SRR032152 Head	SRR060643 Testis	SRR060644 Ovary	SRR060645 Testis	SRR060646 Ovary	SRR060647 Ovary	SRR060648 Ovary	SRR060649 Ovary	SRR060650 Testis	SRR060651 Ovary	SRR060652 Testis	SRR060653 Ovary	SRR065151 Ovary	SRR065152 Ovary	SRR065153 Ovary	SRR065154 Ovary	SRR065155 Ovary	SRR065800 Ovary	SRR065801 Ovary	SRR065802 Ovary	SRR065803 Ovary	SRR065804 Ovary	SRR065805 Ovary	SRR065806 Ovary	SRR065807 Ovary	SRR097865 S2-NP	SRR097866 S2-NP	SRR097867 S2-NP	SRR298536 Ovary	SRR298537 Ovary	SRR298711 Ovary	SRR298712 Ovary	SRR317110 Ovary	SRR317111 Ovary	SRR317112 Ovary	SRR317113 Ovary	SRR317114 Ovary	SRR317115 Ovary	SRR317116 Ovary	SRR317117 Ovary	SRR341115 S2	SRR341116 S2	SRR341117 S2	SRR341118 S2	SRR351332 Mixed-body	SRR351333 Mixed-body	T004 OSC	T005 CME-L1	V001 Embryo	V002 Embryo	V003 S2	V006 Female-body	V007 Head	V008 S2	V009 CME-L1	V010 ML-DmD20-C5	V011 Sg4	V012 Male-body	V013 Head	V014 DTT	V015 DreRFHV	V018 Kc167	V019 GM2	V020 S2-R+	V021 ML-DmD21	V022 ML-DmD32	V023 Head	V024 Kc167	V025 S2-R+	V026 1182-2H	V027 ML-DmD21	V028 CME-W1-Cl.8+	V029 ML-DmD9	V030 ML-DmD8	V031 GM2	V032 S1	V033 CME-W1-Cl.8+	V034 ML-DmD16-C3	V035 ML-DmD32	V036 ML-DmD20-C5	V037 S2	V038 S2	V063 Ovary	V0632 Ovary	V064 Ovary	V0642 Ovary	V065 Ovary	V0652 Ovary	V066 Ovary	V0662 Ovary	V067 S2-NP	V073 mbn2	V074 S3	V075 ML-DmBG1-C1	V076 ML-DmBG3-C2	V077 Head	V078 Head	V079 Head	V080 Head	V081 Embryo	V082 Embryo	V083 Male-body	V084 Female-body	V085 CME-W2	V086 Female-body	V088 Ovary	V0882 Ovary	V089 Ovary	V0892 Ovary	V090 Male-body	V091 fGS/OSS	V092 Male-body	V093 Male-body	V094 S2-R+	V095 S2-R+	V096 Ovary	V097 Ovary	V098 Ovary	V125 ML-DmD9	V126 CME-L1	V127 G2	V128 S3	V129 ML-DmBG1-C1	V130 ML-DmBG3-C2	V131 ML-DmD16-C3	V132 ML-DmD32	V133 Sg4	V134 ML-DmD8	V135 CME-W2	V136 Male-body	V137 Head	V138 Male-body	V139 Female-body	V140 Female-body	V141 Female-body	V142 Female-body	V144 OSC	V145 S2	V146 S1	V147 1182-2H	V148 mbn2	GSM1528798 follicle cells
................................................................................................................................................................................................................................................................................................................................................GGG---------------GACGACGA---TGACGGT.......................................................................................	18	1	5.00	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................GG---------------GACGACGA---TGACGGATC.....................................................................................	19	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................G------AAAACGAAGATGAAGATAATGAT...........................................................................................................................	24	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................CGAGGATGAT------------------GAAGA------TGATAA...................................................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................ACGAAGATGAAGATAATGATGGG---------------GA.......................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................T---GATGAGGACGACGAGGA..................................................................................................................................................................................................................................................................................................................................................................................................................................	18	2	1.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................GGAC---------AATAATG------AAAACGAAGAT.......................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................GACGAGGAT------------GACGAAGAG...........................................................................................................................................................................	18	2	1.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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............................................................................................................................................................................................................GAGGATGAT------------------GAAGA------TGAT.....................................................................................................................................................................................................................	18	3	0.67	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................GGATGAT------------------GAAGA------TGATAAT..................................................................................................................................................................................................................	19	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................GATGAT------------------GAAGA------TGATAAT..................................................................................................................................................................................................................	18	3	0.33	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0
...............................ACGACGAGGATGAC------------GAAGAA............................................................................................................................................................................................................................................................................................................................................................................................................	20	3	0.33	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................TGATGACGA------TGACGAGGA..........................................................................................................................................................................................................................................................	18	3	0.33	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................GGG---------------GACGACGA---TGACGGC.......................................................................................	18	3	0.33	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droEre2

GAGGATGACGAAGAAGATAAT---GATGATGAGGACGAAGATGAC------------GAGGAAAAT---------------AATAATGAGGATGACG---------AG---GAA------G------ATAATAATGAGGACGACGAC---------------GATGACG------AAGAAGATAATAATGAGGA------CGAGGACGATGACGAA---------------GAAGA------TAA---TAATAAAGACGAC---AAT------------GACGAAGACGAG---------AACGACG------AAGAGAACGATGAAGATGAGGACGA---------C------AATGATGA---GGACGAGGAT---------GACGAGGA---CGAGGACGAGAACGACGAT---------------------------------------AACAAA	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
......................................................................................TGAGGATGACG---------AG---GAA------G------AT..........................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0	0
....................................................................................AATGAGGATGACG---------AG---GAA------G------............................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0	0
..............................................................AAAT---------------AATAATGAGGATGACG---------A................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	1	0	0
.........................................................................................................................................GGACGACGAC---------------GATGACG------AAGAAGATAA..................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	1	0	0
............................................................................................................................................................................................................................................................................................................AACGACG------AAGAGAACGATGAAGA..................................................................................................................................	23	1	1.00	1	0	0	0	0	1	0	0
................................................................................................................................................GAC---------------GATGACG------AAGAAGATA...................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	0	0	0	1	0	0
............................................................................................................................................................................................................GACGATGACGAA---------------GAAGA------TA.......................................................................................................................................................................................................................	19	2	0.50	1	0	0	0	0	1	0	0

droYak3

GGGGATGACGAAGATAATAAT---AATGAGGACGAAGAGGATGAC------------GAAG---AT---------------AATAATAATGAGG------------AC---GAA------G---------------AGGATGA---CG------------AAGAAGAAG------ATGATA---ATGGGAACGA------CGAAGACGATAAT------------------GAAGA------TGACAATAAC---GACGACGAGAAT------------GACGAAGAGGA------------------------AGATGAAGAAGAAGATAATGATGA---CGA---C------GAGGATGA---CGGGGAAGAT---------GACAATGA---GGACGACAAGGACGAAGAT---------------------------------------GATGAA	Size	Hit Count	Total Norm	Total	M026 Head	M043 Female-body	M056 Embryo	V046 Embryo	V052 Head	V058 Head	V120 Male-body	SRR1275488 Male larvae	SRR1275486 Male prepupae	SRR1275484 Male prepupae	GSM1528802 follicle cells
..................................................................................................................................................................................ATA---ATGGGAACGA------CGAAGACGAT.........................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................GGACGACAAGGACGAAGAT---------------------------------------GATG..	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................GATAATGATGA---CGA---C------GAGG.....................................................................................................	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
........................................ATGAC------------GAAG---AT---------------AATAATAATGAGG------------AC---G...........................................................................................................................................................................................................................................................................................................................................................	27	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
........................................................................................ATGAGG------------AC---GAA------G---------------AGGATGA---CG------------...........................................................................................................................................................................................................................................................................................................	21	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
..........................TGAGGACGAAGAGGATGAC------------GAAG---A..........................................................................................................................................................................................................................................................................................................................................................................................................	24	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
.........................................................................................TGAGG------------AC---GAA------G---------------AGGATGA---CG------------...........................................................................................................................................................................................................................................................................................................	20	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................TGAGG------------AC---GAA------G---------------AGGATGA---CG------------AAGA.......................................................................................................................................................................................................................................................................................................	24	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
.........................ATGAGGACGAAGAGGATGAC------------G.................................................................................................................................................................................................................................................................................................................................................................................................................	21	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................GATGA---CGA---C------GAGGATGA---CG............................................................................................	19	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
..........................TGAGGACGAAGAGGATGAC------------G.................................................................................................................................................................................................................................................................................................................................................................................................................	20	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
....ATGACGAAGATAATAAT---AATGAGGACG.........................................................................................................................................................................................................................................................................................................................................................................................................................................	27	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................ATGATGA---CGA---C------GAGGATG..................................................................................................	18	3	0.33	1	0	0	0	0	0	0	1	0	0	0	0

droEug1

GAGGAGGATGATGAAGACAAT---AATGAGGACGACGACGACGAG------------GATGACAAA---------------GACAATAATGGAGACG---------AC---GAG------G------------AGGAGGATGA---CG------------AAG------------AAGAAAATAA---TGGGGA------CGACGAGGATGAT------------------GAAGA------CGATAATAACGGAGACGATGAGGAT------------AACGAAGATGAT---------A---CCG------------------GGGACGATGAGGA---------C------GACGAAGA---AGATAATAAT---------GGGGACGA---CGAAGACGAGGACGAAGAT---------------------------------------GACGAG	Size	Hit Count	Total Norm	Total
No Reads

droBia1

GAAGACGATGATGATAATAAT------GGGGACAACGAGGACGAA------------------GAT---------------GATAATAATGGGAACG---------AC---GAG------G------------ACGAAGACGA---CG------------ATGATGACG------AAGAAAATAA---TGAGGA------CGATGAAGAAGAC------------------GAAGATGATAATGGAGACGAC---GAGGACGAAGAT------------GACGAAGAAGAT---------A------------------AAGACGGAGACGATAA------------------------------GGACGAAGAT---GAC---GAAGAAGA---TAATAATGATGACGATGAG---------------------------------------GTCGAA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GAGGACGAAGAAGACGAAAAT------GAGGACGACGAGGACGAA---GAAGAAGACGAA---GACGATAATAATAAGGAAGAC---------AATG---------AC---GAGGACGAAG------ATG---------AAGA---TG------------AAGACGAAG------ACGATAATAA---TAAGGA------AGACGAGGACGAA------------------GAGGA------CAA---TAATGAGGACGACGAGAACGAAGACGATAATGATAAGG---------------------------ACGACGAGGACGAAGACAATAATGGGGAGGA---C------GAGGACGA---TGACGAAGAC---------GATGACAA---TAATAATAAGGACGACGAG---------------------------------------GACGAA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

GATGATGATGATAATGATGAT---GATGATGATGATGATGATGAT------------GATGATGAT---------------GATGATGATGATGATG---------AT---GAT------G------------ATGATGATGA---TG------------ATGATGATG------ATGATGATGATGATGATGA------TGATGATGATGAT------------------GAAGA------TGATGATGATGATGATGATGATGAT------------GATGATGATGAT---------GATGATG------ATGA------------TGATGATGATGATGA---T------GATGATGA---CGATGATGAT---------GATGATAA---TGACGATGACGATGATGAT---------------------------------------GACGAT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AAAGATACTGATA------GG---GACGAAGAGGACGACGATGACGAAGAA------GATAATGAT---------AAAGACGACGAAGACGAAG------------AT---------------------------GAAGACGA---CG------------AAGACGAAGATGACGAAGATAATGA---CAATGA------TAACGAGGACGAG------------------GAAGA------TAACGATGAC---GAGAACGGGGAT------------GACAATGAAAAT---------GATGACG------AGGA------CGAAGATGACGATGAGGA------TGAG---AAAGATAA---AAATGATGAG---------GACGAGGATGAGGATGACGAGGAAGGGGAT---------------------------------------GATGAA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GAGGAAGAAGACAATGATAAG---GATAATGATGACGAGGATGAA------------GAAGAGGAT---------------AATGATAACGGTG------------AT---GAC------G------------ACG---AGAA---TGATG---------AAGATG---------GGGACAATAA---GGACGA------TGAGGACGAGGAT------------------GAAGATGA---CG---------C---GGAAGAGGAT------------GAAGAGGAAGAC---------ACCGATA------AAGACGATGATGAAGATGACAATGAAG---------------ACGAGGA---CAACGAAGAA---------GATAACGA---CGAAGATGAAGACGAAGAT---------------------------------------GAAGGA	Size	Hit Count	Total Norm	Total
No Reads

droKik1

GAGGATGATGAAGATGCGAAA---GATGA------TGAAGATGAT------------GAAGAAGAT---------GAAGATGATGAAGAGACAA------------AT---AAT------G------------ATG---ACGA---AGATGAAGATGAGGATAATGAAG------ATGAAAATGA---CAAGGA------TGGAGAAGATAAT------------------GAAGA------------------CGACGATGAAGAT------------------GAGGAG---------AATGATG------AAGACGACGACGAAGATGCAAATGGGGATGA---G------AAGGATGA---AGAAGATAAT---------GAAGATGA---GGAGGATGAAGACGAAGAG---------------------------------------GATGAA	Size	Hit Count	Total Norm	Total
No Reads

droAna3

GACGATGACGATGACGATGAC---GATGACGATGACGATGACGAT------------GACGATGAC---------------GATGACGATGACGATG---------AC---GAT------G------------ACGATGACGA---TG------------ACGATGGCG------ATGACGATGACGATGACGA------TGACGATGACGAT------------------GACGA------TGA------------CGATGACGATGACGA---T---GACGATGACGAT---------------G------ACGATGACG------ATGACGATGACGATGA---C------GATGACGA---TGACGATGAC---------GATGACGA---TGACGATGACGATGACGAT---------------------------------------GACGAT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
No Reads

droBip1

GAAGATGAGGATGATGAAAAT---CAAGATGAAGATGATGAAAAT------------GAAGATGGG------------GATGATGCAAATGGAG------------AT---GAGGATGAAG------ATG---------AAGA---TG------------AAGATG---------AAGATAATGG---TAATGA------CGATGATGATGACGAG---------------GAGAA------CGAAAATGAAGATGAAGATGAGGAT------------AATGAAGATGAC---------AA---TGAAGACGAAGATGAAGATGAAGGTAATGG------------A------AATGATGA---GGAGGACGAC---------GAAGAAAA---TGGGGACGATGACGAAGAT---------------------------------------GAAGAT	Size	Hit Count	Total Norm	Total
No Reads

dp5

GATGAAGAAGATGAAGATGAT---GAAGCTGATGAAGCTGATGAA------------GCTGATGAA---------------GCTGATGAAGGTGATG---------AA---GCT------G------------ATGAAGCTGA---TG------------AAGCTG---------ATGAAGCTAA---TGAAGC------TGATGAAGCTGAT------------------GAAGCTGA---TGAAGCTGATGAAGCTGATGAAGCT------------GATGAAGCTGAT------------------------------------------GAA------------------GCTGATGA---AGCTGATGAAGATGATGAAGCTGATGA---AGCAGATGACGATGA---CTTCGACTTTAAGGAGAACTTCAAGGTGGACAAGGTGGACGAGACT	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
..........................................................................................................................................................................................................................................................................................................................................................................................GATGAAGCTGATGA---AGCAGATGACG.....................................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................TAAGGAGAACTTCAAGGTGGACA..............	23	4	0.25	1	0	1	0	0	0	0	0	0	0	0

droPer2

GAGGATGAGGATGATGATGAC---GATAATAATGATGAAAATGGG------------GATGAGGAT---------------GAGGCAGATAACG------------ATGACGAC---GAAG------AAG---------AGAA---TG------------ATGATG---------AGGATAACGA---TGACGA------TAACGACGATGATGAAGAT------------AAGGA------TG------ATAAAGATAATGACGACGAAGA---C---GCCGATGACGAT---------AATGATG------AAG------------ACAACGATAATGATGT---A------GAGGATAA---TGATGAGGAT---------AATGATGA---GGACAATGAAAATGACGAT---------------------------------------GATGAC	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
............................................................GAGGAT---------------GAGGCAGATAACG------------ATGACGAC---......................................................................................................................................................................................................................................................................................................................................................	27	1	2.00	2	2	0	0	0	0	0
.................................................................................................................C---GAAG------AAG---------AGAA---TG------------ATGATG---------AGG.........................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
............................................G------------GATGAGGAT---------------GAGGCAGATA................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1
..................................................................................................................................................................GATG---------AGGATAACGA---TGACGA------TAACG..............................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................GATGAGGAT---------AATGATGA---GGACA...........................................................	22	1	1.00	1	0	0	0	0	0	1
......................................................................................................................AAG------AAG---------AGAA---TG------------ATGATG---------............................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	1
.....................................................................................................................GAAG------AAG---------AGAA---TG------------ATGATG---------............................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1
.........................................................................................................................................................................................................................................................................................CGATGACGAT---------AATGATG------AAG------------ACAAC..............................................................................................................................	25	1	1.00	1	0	0	0	0	0	1
...................................................................................................................................................G------------ATGATG---------AGGATAACGA---TGACGA------T..................................................................................................................................................................................................................................................................	24	2	1.00	2	0	0	0	0	0	2
.............................................................................................................................................................................................................................................................AAGATAATGACGACGAAGA---C---GC..................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0
............................................................................................................................................................................................................GACGATGATGAAGAT------------AAGGA------.........................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1
...............................................................................................................................................................................................................GATGATGAAGAT------------AAGGA------TG------ATAA.............................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
...............................................................................................................................................................................................................GATGATGAAGAT------------AAGGA------TG------A................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1
...................................................................................................................................................................................................................................................................................................................................................................................GGAT---------AATGATGA---GGACAATG........................................................	20	1	1.00	1	0	0	0	0	0	1
.....................................................................................................................................................................................................................GAAGAT------------AAGGA------TG------ATAAA............................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................GATGA---GGACAATGAAAATG..................................................	19	1	1.00	1	0	0	0	0	0	1
.............................................................................................................................................................................................................................................................................................................................................GATAATGATGT---A------GAGGAT...................................................................................................	18	1	1.00	1	0	0	0	0	0	1
.............................................................................................................................................................................................................ACGATGATGAAGAT------------AAGGA------TG------ATAAAG...........................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	1
..................................................................................................................................................................GATG---------AGGATAACGA---TGACGA------T..................................................................................................................................................................................................................................................................	21	2	0.50	1	0	0	0	0	0	1
...................................................................................................................................................G------------ATGATG---------AGGATAACGA---TGAC...........................................................................................................................................................................................................................................................................	21	2	0.50	1	0	0	0	0	0	1
....................................................................................................................................................................................................................................................................................................................................................ATGT---A------GAGGATAA---TGATG.........................................................................................	18	2	0.50	1	0	0	0	0	0	1
........................................ATGGG------------GATGAGGAT---------------GAGGC.....................................................................................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	0	0	0	0	1

droWil2

GAGGATAATGAAGATAATAAT---GACGAAGATGACGAGGAGGAT------------AATGACAAA---------------GACAATGGTGATAATG---------AC---GAT------G------------AAGAAGATGA---GG------------ATGATGAGG------AGGACAATAA---CAAAGA------TGAAGACGATGATGAT---------------GAGGA------CAATGATAATGATGAAAATGGAGAT------------GAAGAAGATGAT---------GATGATG------AAAA------------CAATAATGACGATGAGGAT------GATGACGA---TAACGACAAA---------GATAACGA---TGATGATAATGACGAAAAT---------------------------------------GACGAG	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
........................................................................................................................................................................................................TGAAGACGATGATGAT---------------GAGGA------C........................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0
..............................................................................................................................................................................................AAGA------TGAAGACGATGATGAT---------------GAGGA------CA.......................................................................................................................................................................................................................	27	1	1.00	1	0	0	1	0	0
...............................................................................................................................................................................................................................................................................................................................................TGACGATGAGGAT------GATGACGA---TAACGA........................................................................................	27	1	1.00	1	1	0	0	0	0
.............................AGATGACGAGGAGGAT------------AATGACAAA---------------..........................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0
...............................................................................................................................................................................................AGA------TGAAGACGATGATGAT---------------GAGGA------CAAT.....................................................................................................................................................................................................................	28	1	1.00	1	1	0	0	0	0
................................................................................................................................................................................................GA------TGAAGACGATGATGAT---------------GAGGA------CAA......................................................................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0
..............................................................................................................................................................................................AAGA------TGAAGACGATGATGAT---------------GAGGA------C........................................................................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0
................................................................................................................................................................................................GA------TGAAGACGATGATGAT---------------GAGGA------CAAT.....................................................................................................................................................................................................................	27	1	1.00	1	0	0	1	0	0
............................................................................................................................................................................................................GACGATGATGAT---------------GAGGA------CA.......................................................................................................................................................................................................................	19	2	0.50	1	0	0	1	0	0
...............................................................................................................................................................................................AGA------TGAAGACGATGATGAT---------------GAGG................................................................................................................................................................................................................................	23	2	0.50	1	0	0	0	1	0
........................GACGAAGATGACGAGGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................	18	2	0.50	1	0	0	1	0	0
..............................................................................................................................................................................................AAGA------TGAAGACGATGATGAT---------------G...................................................................................................................................................................................................................................	21	2	0.50	1	0	0	1	0	0
...........................GAAGATGACGAGGAGGAT------------..................................................................................................................................................................................................................................................................................................................................................................................................................	18	3	0.33	1	0	0	1	0	0
..............................................................................................................................................................................................................................................................................................................................................ATGACGATGAGGAT------GATG.....................................................................................................	18	10	0.10	1	0	0	0	0	1
................................................................................................................................................................................................GA------TGAAGACGATGATGAT---------------GA..................................................................................................................................................................................................................................	20	11	0.09	1	0	1	0	0	0
..........................................................................................................................................................................................................................................................................................GAAGATGAT---------GATGATG------AA................................................................................................................................................	18	14	0.07	1	0	0	0	1	0
................................................................................................................................................................................................GA------TGAAGACGATGATGAT---------------....................................................................................................................................................................................................................................	18	14	0.07	1	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................GAAGAAGATGAT---------GATGAT.........................................................................................................................................................	18	20	0.05	1	0	0	0	1	0

droVir3

GAGGATGACGACGATAATGGA---GACGATGATGAAGACGAGGAC------------GAAGACGAT---------------GACGATAACGAAAATGATGACGATAAC---GAT------G------ATG---------AAAA---T---------------GATGAAG------ATAACGATAATGACAATGACAATGACGAGGAC------------------------GACGA------TGAAAACGATGAAGACAATGACGAT------------GAAGATGAGGACGAAAATGATGATGATG------------------AAGACAATGATGAAG---------------ATGAGGA---TGAAAATGGT---------GACGATGA---CGAAGACGACGATGAGAAC---------------------------------------GACAAC	Size	Hit Count	Total Norm	Total	M027 Male-body	M028 Head	M047 Female-body	M061 Embryo	SRR060654 Ovary	SRR060655 Testis	SRR060656 Ovary	SRR060657 Testis	SRR060658 Ovary	SRR060659 Testis	SRR060660 Ovary	SRR060661 Embryo	SRR060662 Embryo	SRR060663 Embryo	SRR060664 Male-body	SRR060665 Female-body	SRR060666 Male-body	SRR060667 Female-body	SRR060668 Male-body	SRR060669 Female-body	SRR060670 Testis	SRR060671 Male-body	SRR060672 Female-body	SRR060673 Ovary	SRR060674 Ovary	SRR060675 Ovary	SRR060676 Ovary	SRR060677 Ovary	SRR060678 Testis	SRR060679 Testis	SRR060680 Testis	SRR060681 Testis	SRR060682 Embryo	SRR060683 Testis	SRR060684 Embryo	SRR060685 Embryo	SRR060686 Embryo	SRR060687 Embryo	SRR060688 Ovary	SRR060689 Testis	SRR1106712 embryo_0-2h	SRR1106713 embryo_0-2h	SRR1106714 embryo_2-4h	SRR1106715 embryo_4-6h	SRR1106716 embryo_4-6h	SRR1106717 embryo_6-8h	SRR1106718 embryo_6-8h	SRR1106719 embryo_8-10h	SRR1106720 embryo_8-10h	SRR1106721 embryo_10-12h	SRR1106722 embryo_10-12h	SRR1106723 embryo_12-14h	SRR1106724 embryo_12-14h	SRR1106725 embryo_14-16h	SRR1106726 embryo_14-16h	SRR1106727 larvae	SRR1106728 larvae	SRR1106729 mixed whole adult body	SRR1106730 embryo_16-30h	V047 Embryo	V053 Head	V116 Male-body	GSM1528803 follicle cells
.............................................................................................................................................AA---T---------------GATGAAG------ATAACGATAA..................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................ATGA---CGAAGACGACGATGAGA...............................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................AGGA---TGAAAATGGT---------GACGAT.....................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................CGAT---------------GACGATAACGAAAATGATGAC.....................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
..........................................................................................................AC---GAT------G------ATG---------AAAA---T---------------GATGAAG------ATA.........................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................CGATAATGACAATGACAATG....................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................ATGAGGACGAAAATGATGAT............................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................TG---------AAAA---T---------------GATGAAG------ATAACGAT....................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................TGATGACGATAAC---GAT------G------ATG---------AA..............................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................AAGACGAT---------------GACGATAACG................................................................................................................................................................................................................................................................................................................................................................................	18	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................TGATGAAG---------------ATGAGGA---TGA...........................................................................................	18	3	0.33	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................TGATGAAGACGAGGAC------------GGT...............................................................................................................................................................................................................................................................................................................................................................................................................	19	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
...................................................................................................................................................................................................................................................................................................................................................................................................GATGA---CGAAGACGACGAC...................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

GACGAAGATGATGATGATGAT---GATGATGATAATGACAATAAC------------AAAGACAAT---------------GACAATGACGACG------------AC---GAG------GACGAAGACG---------AAAA---CG------------ATGATGATG------AGGACAATGA---CGAAGA------TGACGAGGATAATGACGAT------------GACGA------TG------ACATACAGAACGATGACGACGA---T---GACGATGAAGAT---------------------------AATGATAAAGATAACGACGATGATGA---C------GAAGATGA---AGACGAAGAC---------GATAATGA---TAATGATAACGACGACGAT---------------------------------------GACGAT	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..................GAT---GATGATGATAATGACAATAAC------------A.................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0
...GAAGATGATGATGATGAT---...................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.10	2	0	0	1	0	0	1
....AAGATGATGATGATGAT---GATGAT.............................................................................................................................................................................................................................................................................................................................................................................................................................................	23	15	0.07	1	0	0	0	0	0	1

droGri2

A--GATGATGAAGATGATGACGAAGACGAAGACGAAGACGAAGAC------------GAAGACGAT---------------GACGATGACGAGAATG---------GA---G---------------ACGACAACGATGACGACAAT---------------GATGACG------ATGAAAATGA---TGATGA------CGATAATGATGACGATGACGATGACGAGAATGGAGA---------------------CGAT---AAT------------GATGACGACAAC---------GACGACG------ATGAAAATG---------ATGATGAGGA------CGATAACAATGACGA---CAACGGTGAC---------GATAATGA---TGACGATAATGAAGACGAT---------------------------------------GACGAT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
................................................................................................................................................................................................................................................................................................................................................................ACAATGACGA---CAACGGTGAC---------G..........................................................................	21	1	1.00	1	1	0
..........................................................AAGACGAT---------------GACGATGACG................................................................................................................................................................................................................................................................................................................................................................................	18	17	0.06	1	1	0

dse_604

scaffold_1:291028-291178 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

0.6	0.8	0.93