dsi_1273

exon [3l_20741905_20742063_-]; CDS [3l_20741905_20742063_-]; intron [3l_20742064_20742637_-]

Name	Class	Family	Strand
DNAREP1_DYak	RC	Helitron	-

--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## AGAAAGTAAAGTCGGCTTCTTTTTATACCCAATGTATGTTTTATGTTATAAAATATATATATTCTTGACCAGAAGCCGAGTCAATCTGGCCTCGTCCGCCTGTCCGTCAAATTATTTAAAGCCCTCAGAACCGAATTGTCATCAAGTCCGAGGTTTTGAAAATCGTGCATTGGGCAATTCTCACTGTACTGTCTTTGCAGCGCAACCACGAGATCACCAAAGTGGCTATGCCCCGAATTTGCTGCGGCAA ************************************************..............((((((((..(((((((((...))).))))...)))))...)))))..........((((((((((((((.(((....))).))...))))))))............))))........(((((.......)))))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR553488 RT_0-2 hours eggs	SRR618934 dsim w501 ovaries	SRR553485 Chicharo_3 day-old ovaries	SRR553486 Makindu_3 day-old ovaries	SRR553487 NRT_0-2 hours eggs
....................................................................................................................................................................................................TATGCGCAACCACGAGATCACC................................	22	3	1	1.00	1	1	0	0	0	0
........................................................................................................................................TATCATCAAGTCCGAGAT................................................................................................	18	2	4	0.25	1	0	1	0	0	0
........................................................ATATATGCTTGACCCGA.................................................................................................................................................................................	17	2	12	0.17	2	0	1	1	0	0
..................................................................................................................................................TCCGATGTTTTGAAAA........................................................................................	16	1	6	0.17	1	0	0	1	0	0
........................................................ATATATGCTTGACCCGAAA...............................................................................................................................................................................	19	3	20	0.15	3	0	0	1	1	1
........................................................................AAGCCGAGTCAATCG...................................................................................................................................................................	15	1	12	0.08	1	0	0	0	1	0
.........................................................................AGCCGAGTCAATCTGG.................................................................................................................................................................	16	0	15	0.07	1	0	1	0	0	0
..................................................................GAGCAGAAGCCGAGTGA.......................................................................................................................................................................	17	2	16	0.06	1	0	0	1	0	0
................................................................................................................TATTTATCGCCCTCAGA.........................................................................................................................	17	2	19	0.05	1	1	0	0	0	0

TCTTTCATTTCAGCCGAAGAAAAATATGGGTTACATACAAAATACAATATTTTATATATATAAGAACTGGTCTTCGGCTCAGTTAGACCGGAGCAGGCGGACAGGCAGTTTAATAAATTTCGGGAGTCTTGGCTTAACAGTAGTTCAGGCTCCAAAACTTTTAGCACGTAACCCGTTAAGAGTGACATGACAGAAACGTCGCGTTGGTGCTCTAGTGGTTTCACCGATACGGGGCTTAAACGACGCCGTT ************************************************..............((((((((..(((((((((...))).))))...)))))...)))))..........((((((((((((((.(((....))).))...))))))))............))))........(((((.......)))))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR553488 RT_0-2 hours eggs	SRR553485 Chicharo_3 day-old ovaries	SRR553486 Makindu_3 day-old ovaries	M024 male body	SRR553487 NRT_0-2 hours eggs	M053 female body	GSM343915 embryo
...............................................................................................................................................................................TTAAGAGTGTCATGACATAGAC.....................................................	22	3	1	1.00	1	0	1	0	0	0	0	0
..............................................ATATTTTATATATATAAGAACTGGT...................................................................................................................................................................................	25	0	2	0.50	1	1	0	0	0	0	0	0
.................................................................................................................................................................................AAGAGGGCCATGACAGAA.......................................................	18	2	2	0.50	1	0	0	1	0	0	0	0
................................................................................................................................................................................TAAGAGGGCCATGACAGTAA......................................................	20	3	5	0.20	1	1	0	0	0	0	0	0
........................................................................................................................................................................................................................GGTCTGACCGATATGGGGC...............	19	3	5	0.20	1	1	0	0	0	0	0	0
.................................................................................................................................................................................AAGAGTGCCATGACA..........................................................	15	1	5	0.20	1	1	0	0	0	0	0	0
...............................................................................................................................................................................TTAAGAGTATCATGACA..........................................................	17	2	7	0.14	1	0	0	0	0	1	0	0
......................................................................................................................................................................................................GCGCGCTGGTGCTCTAG...................................	17	2	10	0.10	1	0	0	1	0	0	0	0
.........TCGGCTGAAGAAAAGTATG..............................................................................................................................................................................................................................	19	3	20	0.10	2	0	0	0	2	0	0	0
................................................................................................................................................................................TAAGAGGGCCATGACA..........................................................	16	2	20	0.10	2	2	0	0	0	0	0	0
............................................................................................................................AGTCTTCGCTTAACA...............................................................................................................	15	1	16	0.06	1	1	0	0	0	0	0	0
....................................................................................................................ATGTTGGGAGTCTTGGGTT...................................................................................................................	19	3	20	0.05	1	0	0	0	0	0	1	0
.............................................................................................................................................................................................................GGCGCTCTAGTGATTTCG...........................	18	3	20	0.05	1	0	0	0	0	0	0	1
...................................................................TGGTCTCCGGTTCAGCTAG....................................................................................................................................................................	19	3	20	0.05	1	0	0	0	1	0	0	0

Species	Coordinate	ID	Alignment
droSim2	3l:20742014-20742263 -	dsi_1273	AGAAAGTAAAGT----CGGCTTCT-------------------------------TTT---------TATACCCA--------------------------------------------------------------------------------------------ATGTATGTTTTATGTT---------AT--------AA------AATATATATATTCTTGACCAGA------AGCCGAGTCAATCTGGCCTCGTCCGCCTGTCCGTCAAAT----------------------------------TATTT-------------------------------------------------------------------AAAGCCCTCAGAACCGAA------------------------------------------------------------------------------------TTGTCATCAAGTCCGAGGTTTTGA---------------------------------------------------AAATCGTGCATTGGGCAATTCTCACTGTACTGTCTTTGCAGCGCAACCACGAGATCACCAAAGTGGCTATGCCCCGAATTTGCTGCG----------------GCAA
droSec2	scaffold_11:1145980-1146238 -		AGAAAGTAAAGT----CAGCTTCT-------------------------------TTT---------TATAATCA--------------------------------------------------------------------------------------------ATGT------TATGTTTCCGACTCTAT--------AA------AATATATATATTCTTAAACAGAATCATTAGCCGAGTCAATCTGGCCTCGTCCGCCTGTCCGTCAAAT----------------------------------TATGT-------------------------------------------------------------------AAAGCCCTTAGAACCGAA------------------------------------------------------------------------------------TTGTCATCAAGTCCAAGATCTTGA---------------------------------------------------AAATCGTGTATTGGGCACTTCTCACTGTACTGTCTCTGCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGAATTTGCTGCG----------------GCAA
dm3	chr3L:21192455-21192719 -		AGAAAGTAAAGT----CAGCTTCT-------------------------------TTT---------TATACCCA--------------------------------------------------------------------------------------------ATGT------TATGTTTCTGACCCTAT--------AAGCAATACGTACATATATTGTTGATCAGAATGACTAGCCGAATCAATCGGGCCTCGTCCGCCTGTCCGTCAAAT----------------------------------TATGT-------------------------------------------------------------------GAAGCCCTCAGAACCAAA------------------------------------------------------------------------------------TTGTCATCAAGTCCGAGGTTTTGA---------------------------------------------------AAATAGTGCATTGGGCAATTCTCACTGTAGTGTCTCTGCAGCGCAACCATGAGATCACCAAAGTGGCTATGCCCCGAATCTGCTGCG----------------GCAA
droEre2	scaffold_4784:20877036-20877461 -		AGAAAGTAAAGT----CAGTTTCTAAAGATCTT----------GTATACAAGA-TTTT---------GATACCCG---TTACTCGTAGAGTAAAAGCAAGAATATGTATTAGAATAATTATTCTAATGCCTTTGGTAGATTCCTTAAGAAGT-----ATGTTTTGTTGTGT------TATGTTTCCGACCCTAT--------ACCG--------ATTATATTCCTGATCAGAATCTGTAGCAAAGTCAATCTGGCTAGGTCCGTCTGTCCGTCAAAT-----------AGAAG------------TATGTATATGT-------------------------------------------------------------------AAAGCCCTCAGAATTGTA-----CTAAAATATTTTT-----TTACAAACGGTGTAAAAGCTTTTTTAA-GATTGAACCTCCGTCACC----TAGCGAACTAT---------------AGCTTTTGA---------------------------------------------------TAATTGTGTATTGTGCAATTCTCACTGTACTGTCTCTGCAGCGCAACCACGAGATCACCAAAGTGGCTATGCCCCGGATCTGCTGCG----------------GCAA
droYak3	3L:19333070-19333468 +		AGAAAGT--AGT----CAGTTTCTTAAGATTTTTATAAAAGATTTATACAAAAGTTTT---------TATACCCG---TTACTCGTTGAG---------------------------------------------TAGATTCCTTAAAAAGTTTTTCATGTTATGTTGTGT------TATATTTCCGACCCTTTTATATATTCA------TATACATATATTCCTGATCAGGATCACTAGGCGAGTCAATTTGGCTATGTCCGTCTGTCCGTCAAAT-----------AGAAA------------TAT------AT--------------------------------------------------------------------TAGCCCTCGGAACAGAATTGTACTTAAACCC-TTT-----TTAGAAACGGTTTGAAAGTTTCTTTAATGATAGAGCCTC-----------------------TGTCACCAAGTCCAAGCTTTTGA---------------------------------------------------CAATAGTGTATGGGGCAATCCTCACTGTACTGTCTCTGCAGCGCAACCACGAGATCACCAAAGTGGCTATGCCCCGAATCTGCTGTG----------------GCCA
droEug1	scf7180000409711:4806364-4806521 +		AAA-------GT----TAGTTTCA-------------------------------TGA---------GAAACTCA--------------------------------------------------------------------------------------------TTTCTTATTTTTT----------------------------------------TTTGTGGATAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTTTAAGGCAAAGTTTCTAG---------------------------------------------------AAT--TTGTATTAAGCAATATTTACTGTTTCGTTCCTCCAGCGCAACCACGAGATCACAAAAGTGGCCATGCCCCGAATCTGCTGCG----------------GCAA
droBia1	scf7180000302193:4841387-4841496 +		TCGAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGGCCAATTTGTTAA---------------------------------------------------AAT--TCGTGTTAGCCAATACTCACTGTTCTGTCTTTCCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGGATCTGCTGCG----------------ACAA
droTak1	scf7180000415880:372864-373012 +		ATAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGCACCAATAGCCGAGTCTATCTAGCCATGTCCGTCTGTCCGTCTGTC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGTCTGTCCG-----------------------------------------------------------------------------------TCTGTCGTTATCATATTTCGCCATCTTTCGTGCATTTTGTTTTTTACGCCCTGCAGCCTTTGCA----------------GAGC
droEle1	scf7180000491193:2155447-2155546 +		AGTTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGTATTCTATTAGCCAATGCTCACTGTACTGTTTCCCCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGAATCTGCTGCG----------------GCAA
droRho1	scf7180000779803:27323-27403 -		ATTAAC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAATGTCCACTGTACTGTCT-TCCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGGATCTGCTGCG----------------GCAA
droFic1	scf7180000453929:344471-344650 -		GGAAAGCTAAGT----AAGTTTCTGAAGATTA------------------------------------------------------------------------------AAAATAATTAA------------------------------------------------------------------ATTTTAG--------TCAG--------ATAATGTTTCTGGTTAAC------------TTTGTTTGAGTTAAG--------------------------------------------------------------------------------------------------------------------------------------TGTTTGC------------------------------------------------------------------------------------------------------------T---------------------------------------------------GAT--TTCTGTTAACTAATACTTACTGTACTGTCTTCGCAGCGCAACCACGAGATCACTAAAGTGGCCATGCCCCGAATTTGCTGCG----------------GCAG
droKik1	scf7180000302260:122797-123103 +		AGAAAGTAAACT----CAGTTTTT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CATGACCAAAAGTAAAATTCGCTTTTAAAGAGT--TGCAGTTATTTTGTTA--------------------------------TTA------ATGGGAAATATGATTTATACCCAAATAAAGTAAAGGTATTTAAGTAAATAGATATGCTTTATGGTCCAA------------------------------------------------------------------------------------------------------TTTTCATAAAACACTAAATGTTCAAAGGTACTTTATATATTTTCCCAAAATTTTTTTCTTATGCCTCACTTCTTCAAAGGTTCTGTTGATCGATGACTACTGTTTCGTATTTCCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGGATCTGCTGCG----------------GCAG
droAna3	scaffold_13337:8505291-8505590 +		AAGAAAG---CATAATGGGGAACA-------------------------------CTTAATCATCTTTATAATGGCTGTCA---------------TAAGTATTTAATTTAAATTAAATAT------------------------------------------------------------TTTTTGACCCAAA--------AAGTTA----------CTTT-------TGA------AGC-------------------------------CAAATTCTATAAAGAAAGAAACCTTATAATCTTTAT------A--------------------------------------------------------------------AGAGCTCTCATAACCTAA-----ATATAATATTTTTCAATCTAAATAACGGTTCAT-----------------------CAATCATTTTTTATGCGAAATAT---------------AATCATTTT---------------------------------------------------TAATTG------AAAGAACACTTACTGT------TCCACAGCGCAACCACGAGATCACAAAAGTGGCCATGCCCCGGATCTGTTGCG----------------GCAA
droBip1	scf7180000396541:645723-645785 +		T-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTGT-TCCACAGCGCAACCACGAGATCACAAAAGTGGCCATGCCCCGGATCTGTTGCG----------------GCAA
dp5	Unknown_singleton_3651:2993-3053 -		ATAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGC------AGCCGAGTCGATTGAGCCATGTCTGTCTGTCCGTC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_106:6356-6416 -		ATAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGC------AGCCGAGTCGATTGAGCCATGTCTGTCTGTCCGTC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil2	scf2_1100000004968:1800108-1800247 +		ATAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGCATGAACAGCCGAGTCGATCTAGCTTTGTCCGTCTGTCCGTATGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACACCTAGATCTCGGAGACTCTAACAGCGAGAGGCACCAAATTTGGTATGTAGACTCGTGTAGTATGTAA
droVir3	scaffold_6855:976-1088 +		AAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGACCAGCACCAAAAGCCGAGTCGATCTAGCCATGTCCGTCTGTCCGTA--------------------------------TGT------ATGAACGCTAGGATCTCAGAACC--------------------------------------------------------------------------------------------------------------------------------------------------------TATAAAATCTAGAGACTTG------------------------------------------------------------------------------------------------------------------------------------------------------------AAA
droMoj3	scaffold_6500:30944474-30944586 +		ACAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGGGCGACGAGCTAAGTCGATTTGGCCCTGTCCGTCTGTCTGTCAGAA----------------------------------GATAT-------------------------------------------------------------------AAGAGCTAGAGAATTGAA----------AT-----------------------------------------------TT-----------------------TTTTCCCTAGGTC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------CG
droGri2	scaffold_15110:12070356-12070420 +		TGTACT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATAGCGCAATCATGAAATCACCAAAGTGGCGATGCCCCGAATCTGTTGTG----------------GCAA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim2

AGAAAGTAAAGT----CGGCTTCT-------------------------------TTT---------TATACCCA--------------------------------------------------------------------------------------------ATGTATGTTTTATGTT---------AT--------AA------AATATATATATTCTTGACCAGA------AGCCGAGTCAATCTGGCCTCGTCCGCCTGTCCGTCAAAT----------------------------------TATTT-------------------------------------------------------------------AAAGCCCTCAGAACCGAA------------------------------------------------------------------------------------TTGTCATCAAGTCCGAGGTTTTGA---------------------------------------------------AAATCGTGCATTGGGCAATTCTCACTGTACTGTCTTTGCAGCGCAACCACGAGATCACCAAAGTGGCTATGCCCCGAATTTGCTGCG----------------GCAA	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
.......................................................................................................................................................................................................................................A------AGCCGAGTCAATCG...............................................................................................................................................................................................................................................................................................................................................................................................................................	15	12	0.08	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................AGCCGAGTCAATCTGG.............................................................................................................................................................................................................................................................................................................................................................................................................................	16	15	0.07	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

AGAAAGTAAAGT----CAGCTTCT-------------------------------TTT---------TATAATCA--------------------------------------------------------------------------------------------ATGT------TATGTTTCCGACTCTAT--------AA------AATATATATATTCTTAAACAGAATCATTAGCCGAGTCAATCTGGCCTCGTCCGCCTGTCCGTCAAAT----------------------------------TATGT-------------------------------------------------------------------AAAGCCCTTAGAACCGAA------------------------------------------------------------------------------------TTGTCATCAAGTCCAAGATCTTGA---------------------------------------------------AAATCGTGTATTGGGCACTTCTCACTGTACTGTCTCTGCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGAATTTGCTGCG----------------GCAA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

dm3

AGAAAGTAAAGT----CAGCTTCT-------------------------------TTT---------TATACCCA--------------------------------------------------------------------------------------------ATGT------TATGTTTCTGACCCTAT--------AAGCAATACGTACATATATTGTTGATCAGAATGACTAGCCGAATCAATCGGGCCTCGTCCGCCTGTCCGTCAAAT----------------------------------TATGT-------------------------------------------------------------------GAAGCCCTCAGAACCAAA------------------------------------------------------------------------------------TTGTCATCAAGTCCGAGGTTTTGA---------------------------------------------------AAATAGTGCATTGGGCAATTCTCACTGTAGTGTCTCTGCAGCGCAACCATGAGATCACCAAAGTGGCTATGCCCCGAATCTGCTGCG----------------GCAA	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTCTCACTGTAGTGTCTCTG.....................................................................	22	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	0	0	0	0	0	0	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	1	0	0	0	0	0	0
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...................................................................................................................................................................................................................................TCAGAATGACTAGCCGAATCAATCGGG.............................................................................................................................................................................................................................................................................................................................................................................................................................	27	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	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
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAAGTCCGAGGTTTTGA---------------------------------------------------AAATAGTG...................................................................................................	26	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	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
.....................................................................................................................................................................................................................................................TCAATCGGGCCTCGTCCGCCTGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	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	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGA---------------------------------------------------AAATAGTGCATTGGGCA..........................................................................................	21	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	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCTCACTGTAGTGTCTCTGCA...................................................................	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	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
.............................................................................................................................................................................................................................................TAGCCGAATCAATCGGGCCTCGTCCGCC..................................................................................................................................................................................................................................................................................................................................................................................................................	28	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	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
.......................................................................................................................................................................................................................ATATATTGTTGATCAGAATGAA..............................................................................................................................................................................................................................................................................................................................................................................................................................................	22	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	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
..........................................................................................................................................................................................................................................................................................................................GT-------------------------------------------------------------------GAAGCCCTCAGAACCTCG------------------------------------------------------------------------------------......................................................................................................................................................................................	20	4	0.25	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	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

droEre2

AGAAAGTAAAGT----CAGTTTCTAAAGATCTT----------GTATACAAGA-TTTT---------GATACCCG---TTACTCGTAGAGTAAAAGCAAGAATATGTATTAGAATAATTATTCTAATGCCTTTGGTAGATTCCTTAAGAAGT-----ATGTTTTGTTGTGT------TATGTTTCCGACCCTAT--------ACCG--------ATTATATTCCTGATCAGAATCTGTAGCAAAGTCAATCTGGCTAGGTCCGTCTGTCCGTCAAAT-----------AGAAG------------TATGTATATGT-------------------------------------------------------------------AAAGCCCTCAGAATTGTA-----CTAAAATATTTTT-----TTACAAACGGTGTAAAAGCTTTTTTAA-GATTGAACCTCCGTCACC----TAGCGAACTAT---------------AGCTTTTGA---------------------------------------------------TAATTGTGTATTGTGCAATTCTCACTGTACTGTCTCTGCAGCGCAACCACGAGATCACCAAAGTGGCTATGCCCCGGATCTGCTGCG----------------GCAA	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.......................................................TTT---------GATACCCG---TTACTCGT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	3	0.33	1	0	0	0	0	1	0	0

droYak3

AGAAAGT--AGT----CAGTTTCTTAAGATTTTTATAAAAGATTTATACAAAAGTTTT---------TATACCCG---TTACTCGTTGAG---------------------------------------------TAGATTCCTTAAAAAGTTTTTCATGTTATGTTGTGT------TATATTTCCGACCCTTTTATATATTCA------TATACATATATTCCTGATCAGGATCACTAGGCGAGTCAATTTGGCTATGTCCGTCTGTCCGTCAAAT-----------AGAAA------------TAT------AT--------------------------------------------------------------------TAGCCCTCGGAACAGAATTGTACTTAAACCC-TTT-----TTAGAAACGGTTTGAAAGTTTCTTTAATGATAGAGCCTC-----------------------TGTCACCAAGTCCAAGCTTTTGA---------------------------------------------------CAATAGTGTATGGGGCAATCCTCACTGTACTGTCTCTGCAGCGCAACCACGAGATCACCAAAGTGGCTATGCCCCGAATCTGCTGTG----------------GCCA	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
...........................................................................................................................................................................................................................................................TGGCTATGTCCGTCTGTCCGTC..........................................................................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

droEug1

AAA-------GT----TAGTTTCA-------------------------------TGA---------GAAACTCA--------------------------------------------------------------------------------------------TTTCTTATTTTTT----------------------------------------TTTGTGGATAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTTTAAGGCAAAGTTTCTAG---------------------------------------------------AAT--TTGTATTAAGCAATATTTACTGTTTCGTTCCTCCAGCGCAACCACGAGATCACAAAAGTGGCCATGCCCCGAATCTGCTGCG----------------GCAA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TCGAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGGCCAATTTGTTAA---------------------------------------------------AAT--TCGTGTTAGCCAATACTCACTGTTCTGTCTTTCCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGGATCTGCTGCG----------------ACAA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ATAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGCACCAATAGCCGAGTCTATCTAGCCATGTCCGTCTGTCCGTCTGTC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGTCTGTCCG-----------------------------------------------------------------------------------TCTGTCGTTATCATATTTCGCCATCTTTCGTGCATTTTGTTTTTTACGCCCTGCAGCCTTTGCA----------------GAGC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AGTTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGTATTCTATTAGCCAATGCTCACTGTACTGTTTCCCCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGAATCTGCTGCG----------------GCAA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

ATTAAC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAATGTCCACTGTACTGTCT-TCCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGGATCTGCTGCG----------------GCAA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GGAAAGCTAAGT----AAGTTTCTGAAGATTA------------------------------------------------------------------------------AAAATAATTAA------------------------------------------------------------------ATTTTAG--------TCAG--------ATAATGTTTCTGGTTAAC------------TTTGTTTGAGTTAAG--------------------------------------------------------------------------------------------------------------------------------------TGTTTGC------------------------------------------------------------------------------------------------------------T---------------------------------------------------GAT--TTCTGTTAACTAATACTTACTGTACTGTCTTCGCAGCGCAACCACGAGATCACTAAAGTGGCCATGCCCCGAATTTGCTGCG----------------GCAG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AGAAAGTAAACT----CAGTTTTT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CATGACCAAAAGTAAAATTCGCTTTTAAAGAGT--TGCAGTTATTTTGTTA--------------------------------TTA------ATGGGAAATATGATTTATACCCAAATAAAGTAAAGGTATTTAAGTAAATAGATATGCTTTATGGTCCAA------------------------------------------------------------------------------------------------------TTTTCATAAAACACTAAATGTTCAAAGGTACTTTATATATTTTCCCAAAATTTTTTTCTTATGCCTCACTTCTTCAAAGGTTCTGTTGATCGATGACTACTGTTTCGTATTTCCAGCGCAACCACGAGATCACCAAAGTGGCCATGCCCCGGATCTGCTGCG----------------GCAG	Size	Hit Count	Total Norm	Total
No Reads

droAna3

AAGAAAG---CATAATGGGGAACA-------------------------------CTTAATCATCTTTATAATGGCTGTCA---------------TAAGTATTTAATTTAAATTAAATAT------------------------------------------------------------TTTTTGACCCAAA--------AAGTTA----------CTTT-------TGA------AGC-------------------------------CAAATTCTATAAAGAAAGAAACCTTATAATCTTTAT------A--------------------------------------------------------------------AGAGCTCTCATAACCTAA-----ATATAATATTTTTCAATCTAAATAACGGTTCAT-----------------------CAATCATTTTTTATGCGAAATAT---------------AATCATTTT---------------------------------------------------TAATTG------AAAGAACACTTACTGT------TCCACAGCGCAACCACGAGATCACAAAAGTGGCCATGCCCCGGATCTGTTGCG----------------GCAA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
..GAAAG---CATAATGGGGAACA-------------------------------CTTT................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCCACAGCGCAACCACGAGA.....................................................	20	1	1.00	1	0	1	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAACCACGAGATCACAAAAGT...........................................	22	1	1.00	1	0	0	0	0	0	1

droBip1

T-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTGT-TCCACAGCGCAACCACGAGATCACAAAAGTGGCCATGCCCCGGATCTGTTGCG----------------GCAA	Size	Hit Count	Total Norm	Total
No Reads

dp5

ATAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGC------AGCCGAGTCGATTGAGCCATGTCTGTCTGTCCGTC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	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
..........................................................................................................................................................................................................................................................TGAGCCATGTCTGTCTGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	20	20	3.80	76	0	76	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................TTGATCAGC------AGCCGAGTCGATTG...............................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	1	0	0	0	0	0
....................................................................................................................................................................................................................TATATATATTCTTGATCAGC------.............................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.10	2	0	1	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................GAGCCATGTCTGTCTGTCCGT...........................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.10	2	0	0	0	0	0	0	2	0	0	0
.TAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	1	0	0
.....................................................................................................................................................................................................................ATATATATTCTTGATCAGC------AGC..........................................................................................................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0

droPer2

ATAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGC------AGCCGAGTCGATTGAGCCATGTCTGTCTGTCCGTC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
................................................................................................................................................................................................................................................CCGAGTCGATTGAGCCATGTCTGTCTGTC..............................................................................................................................................................................................................................................................................................................................................................................................................	29	20	0.05	1	1	0	0	0	0	0

droWil2

ATAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGCATGAACAGCCGAGTCGATCTAGCTTTGTCCGTCTGTCCGTATGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACACCTAGATCTCGGAGACTCTAACAGCGAGAGGCACCAAATTTGGTATGTAGACTCGTGTAGTATGTAA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
...........................................................................................................................................................................................................................................................TAGCTTTGTCCGTCTGTCCGTATGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACA...................................................................	28	1	1.00	1	1	0	0	0	0
.........................................................................................................................................................................................................................................TGAACAGCCGAGTCGATCTAG.............................................................................................................................................................................................................................................................................................................................................................................................................................	21	7	0.43	3	0	0	0	3	0
.........................................................................................................................................................................................................................................................................TGTCCGTATGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACACCTAGATCTCG........................................................	25	20	0.40	8	0	8	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTTGGTATGTAGACTCGTGTAGT......	24	20	0.25	5	0	0	0	5	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACACCTAGATCTCGGAGACTC.................................................	21	6	0.17	1	1	0	0	0	0
.....................................................................................................................................................................................................................................................................CGTCTGTCCGTATGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACACCT................................................................	21	20	0.10	2	0	2	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAATTTGGTATGTAGACTCGTGTAGT......	26	20	0.05	1	1	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTATGTAGACTCGTGTAGT......	20	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................GTCCGTCTGTCCGTATGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A.....................................................................	19	20	0.05	1	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACCAAATTTGGTATGTAGACTC.............	23	20	0.05	1	0	0	0	1	0

droVir3

AAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGACCAGCACCAAAAGCCGAGTCGATCTAGCCATGTCCGTCTGTCCGTA--------------------------------TGT------ATGAACGCTAGGATCTCAGAACC--------------------------------------------------------------------------------------------------------------------------------------------------------TATAAAATCTAGAGACTTG------------------------------------------------------------------------------------------------------------------------------------------------------------AAA	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
.....................................................................................................................................................................................................................................................TCGATCTAGCCATGTCCGTCTGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	25	20	0.30	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5	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
........................................................................................................................................................................................................................................................ATCTAGCCATGTCCGTCTGTC..............................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.25	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	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
...............................................................................................................................................................................................................................................................................TA--------------------------------TGT------ATGAACGCTAGGATCTCAGAAC...........................................................................................................................................................................................................................................................................................................................................	27	16	0.13	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	1	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
.....................................................................................................................................................................................................................................................TCGATCTAGCCATGTCCGTCTGTCCGTA--------------------------------..........................................................................................................................................................................................................................................................................................................................................................................	28	20	0.10	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	1	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
..............................................................................................................................................................................................................................................AGCCGAGTCGATCTAGCCATGTCCGT...................................................................................................................................................................................................................................................................................................................................................................................................................	26	20	0.10	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	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
...............................................................................................................................................................................................................................................................................TA--------------------------------TGT------ATGAACGCTAGGATCTC................................................................................................................................................................................................................................................................................................................................................	22	20	0.10	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	1	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
..........................................................................................................................................................................................................................................................CTAGCCATGTCCGTCTGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.10	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	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
......................................................................................................................................................................................................................................................CGATCTAGCCATGTCCGTCTGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	24	20	0.10	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	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
...........................................................................................................................................................................................................................................................TAGCCATGTCCGTCTGTCCGT...........................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.10	2	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
...........................................................................................................................................................................................................................................................TAGCCATGTCCGTCTGTCCGTA--------------------------------TGT------AT...............................................................................................................................................................................................................................................................................................................................................................	27	20	0.10	2	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	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
.........................................................................................................................................................................................................................................................TCTAGCCATGTCCGTCTGTCCGTA--------------------------------TG........................................................................................................................................................................................................................................................................................................................................................................	26	20	0.10	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	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
...............................................................................................................................................................................................................................................................................TA--------------------------------TGT------ATGAACGCTAGGATCTCAGAACC--------------------------------------------------------------------------------------------------------------------------------------------------------..................................................................................................................................................................................	28	15	0.07	1	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
...................................................................................................................................................................................................................................................................................................................T------ATGAACGCTAGGATCTCAGAACC--------------------------------------------------------------------------------------------------------------------------------------------------------TAT...............................................................................................................................................................................	27	19	0.05	1	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
...................................................................................................................................................................................................................................................AGTCGATCTAGCCATGTCCGT...................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	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	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
.................................................................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCG....................................................................................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	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
..........................................................................................................................................................................................................................................................CTAGCCATGTCCGTCTGTCCGTA--------------------------------T.........................................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	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
...............................................................................................................................................................................................................................................................................TA--------------------------------TGT------ATGAACGCTAGGATCTCAG..............................................................................................................................................................................................................................................................................................................................................	24	20	0.05	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	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
..............................................................................................................................................................................................................................................................................GTA--------------------------------TGT------ATGAACGCTAGGATCTCAG..............................................................................................................................................................................................................................................................................................................................................	25	20	0.05	1	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
.............................................................................................................................................................................................................................................................GCCATGTCCGTCTGTCCGTA--------------------------------TGT------AT...............................................................................................................................................................................................................................................................................................................................................................	25	20	0.05	1	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
.....................................................................................................................................................................................................................................................TCGATCTAGCCATGTCCGTCT.................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	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	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
...............................................................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCCG....................................................................................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	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	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
................................................................................................................................................................................................................................................................ATGTCCGTCTGTCCGTA--------------------------------TGT------A................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	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	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
...............................................................................................................................................................................................................................................................................TA--------------------------------TGT------ATGAACGCTAGGATCTCAGAACT--------------------------------------------------------------------------------------------------------------------------------------------------------..................................................................................................................................................................................	28	20	0.05	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	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
...................................................................................................................................................................................................................................................AGTCGATCTAGCCATGTCCGTCTGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	27	20	0.05	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	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
...............................................................................................................................................................................................................................................................................TA--------------------------------TGT------ATGAACGCTAGGATCTCA...............................................................................................................................................................................................................................................................................................................................................	23	20	0.05	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
........................................................................................................................................................................................................................TATATTCTTGACCAGCACCAAAAGCC.........................................................................................................................................................................................................................................................................................................................................................................................................................................	26	20	0.05	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	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
...............................................................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCCGT...................................................................................................................................................................................................................................................................................................................................................................................................................	25	20	0.05	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	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
.......................................................................................................................................................................................................................................................GATCTAGCCATGTCCGTCTGTCCG............................................................................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	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	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
...............................................................................................................................................................................................................................................................................TA--------------------------------TGT------ATGAACGCTAGGATCT.................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	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
...................................................................................................................................................................................................................................................................TCCGTCTGTCCGTA--------------------------------TGT------ATGAACG..........................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	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
....................................................................................................................................................................................................................................................GTCGATCTAGCCATGTCCGTC..................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	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
....................................................................................................................................................................................................................................................GTCGATCTAGCCATGTCCG....................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	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	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
.........................................................................................................................................................................................................................ATATTCTTGACCAGCACCAAAAGCCG........................................................................................................................................................................................................................................................................................................................................................................................................................................	26	20	0.05	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	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
...............................................................................................................................................................................................................................................................................TA--------------------------------TGT------ATGAACGCTAGGATCTCAGA.............................................................................................................................................................................................................................................................................................................................................	25	20	0.05	1	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
......................................................................................................................................................................................................................................................CGATCTAGCCATGTCCGTCTGTC..............................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	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	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
.........................................................................................................................................................................................................................................................TCTAGCCATGTCCGTCTGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	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	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
.........................................................................................................................................................................................................................................................TCTAGCCATGTCCGTCTGTCCGT...........................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	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

droMoj3

ACAAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATATATTCTTGATCAGGGCGACGAGCTAAGTCGATTTGGCCCTGTCCGTCTGTCTGTCAGAA----------------------------------GATAT-------------------------------------------------------------------AAGAGCTAGAGAATTGAA----------AT-----------------------------------------------TT-----------------------TTTTCCCTAGGTC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------CG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..........................................................................................................................................................................................................................TATTCTTGATCAGGGCGACGAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................	22	20	0.35	7	7	0	0	0	0	0
............................................................................................................................................................................................................................................CGAGCTAAGTCGATTTGGCCC..........................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.30	6	0	0	0	0	6	0
.................................................................................................................................................................................................................................................TAAGTCGATTTGGCCCTGTCCGTCTG................................................................................................................................................................................................................................................................................................................................................................................................................	26	20	0.25	5	5	0	0	0	0	0
..................................................................................................................................................................................................................................................AAGTCGATTTGGCCCTGTCCG....................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.20	4	4	0	0	0	0	0
...............................................................................................................................................................................................................................................GCTAAGTCGATTTGGCCCTGT.......................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.10	2	2	0	0	0	0	0
......................................................................................................................................................................................................................................................CGATTTGGCCCTGTCCGTC..................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0
.........................................................................................................................................................................................................................ATATTCTTGATCAGGGCGACGA............................................................................................................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	1	0	0
....................................................................................................................................................................................................................TATATATATTCTTGATCAGGGCG................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	1
..........................................................................................................................................................................................................................................GACGAGCTAAGTCGATTTGGCCCTG........................................................................................................................................................................................................................................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0

droGri2

TGTACT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATAGCGCAATCATGAAATCACCAAAGTGGCGATGCCCCGAATCTGTTGTG----------------GCAA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

dsi_1273

3l:20742064-20742213 -

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

-26.2	-26.0	-26.0