dse_427

Name	Class	Family	Strand
(CA)n	Simple_repeat	Simple_repeat	+

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GCTGCAGGGACAGCAGGGCCAGCCCGCTCCGCCCACCAAGGAAGTCATCGGTAAGGCTGAAACTCGCATGTTAAATCCAATTCCGAACCAATTTCATTCATGTGCCGCGAACACATGGCGGCTGCTACCAAAATAGCAATGAAAAAAAAGGAGGAAAAAAAGAACAAGAAACATGCCTCCCTCTCTATGTGTGTGTGTGTGCGTGTGTGTGTTTTGAGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC ************************************************..............((((((............................)))))).((((.((((((((.((.(((((......)))))...........(((((.....................))))).)).)))))))).))))....************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V115 head	V113 male body	V114 embryo	M054 female body
..........................................................................................................................................ATGAAAAAAAAGGAAGAAAAAAAG.........................................................................................	24	1	1	1.00	1	1	0	0	0
..............................................................................................................................................AAAAAAAGGAGGAAAAAAAG.........................................................................................	20	0	1	1.00	1	0	1	0	0
........................................................................................................................................CAATAAAGAAAAAGGAGGAAAAAAA..........................................................................................	25	2	1	1.00	1	1	0	0	0
..........................................................................................................................................ATGAAATAAAAGGAGGAA...............................................................................................	18	1	2	0.50	1	0	0	1	0
.................................................................................................................AATGGCGGCTGTTACCAAGA......................................................................................................................	20	3	5	0.40	2	0	0	2	0
..........................................................................................................................................ATGAAAAAACAGGAGAAAAAAAA..........................................................................................	23	2	3	0.33	1	1	0	0	0
..............................................................................................................................................AAAAAAAGGAGGAAAAAAA..........................................................................................	19	0	3	0.33	1	1	0	0	0
...............................................................................................................................................AAAAAAGGAGGTAAAGAAGA........................................................................................	20	2	4	0.25	1	0	1	0	0
....................................................................................................................................................AGGATGAAAAAAAGGTCAAGA..................................................................................	21	3	5	0.20	1	0	0	0	1
.............................................................................................................................................AAAAGAAAGGAGGAAAAAAA..........................................................................................	20	1	6	0.17	1	0	1	0	0
......................................................................................................................................AGGAAAGAAAAAAAAGGAGG.................................................................................................	20	2	6	0.17	1	0	1	0	0
...........................................................................................................................................TTAAAAAACAGGAGGAAAAA............................................................................................	20	2	11	0.09	1	0	1	0	0
..........................................................................................................................................ATGAAAAATATGGAGGAAAAGA...........................................................................................	22	3	12	0.08	1	0	1	0	0
...........................................................................................................................................CGAAAAAAAAGGAGAAAAAAAAGGA.......................................................................................	25	3	12	0.08	1	1	0	0	0
.............................................................................................................................................AAGAAAAAGGAGGAAAAATAGGA.......................................................................................	23	3	12	0.08	1	0	1	0	0
................................................................................................................................................AAAAAGAAGGAAAAAAAGA........................................................................................	19	1	13	0.08	1	1	0	0	0
............................................................................................................................................GAATAAAAAGGAGAAAAAAAA..........................................................................................	21	2	14	0.07	1	1	0	0	0
...............................................................................................................................................AAAAAAGGAGAAAAAAAAGA........................................................................................	20	1	15	0.07	1	1	0	0	0
.............................................................................................................................................ATAAAAAAGTAGGAAGAAAAGAA.......................................................................................	23	3	17	0.06	1	1	0	0	0
...................................................................................................................................................ATGGATGAAAAAAAGAAAAAGA..................................................................................	22	3	20	0.05	1	1	0	0	0
..............................................................................................................................................................................................GTGTGTGTGTGCGTGTGTG..........................................	19	0	20	0.05	1	0	1	0	0
.................................................................................................................AATGGCGGCTGTTACCAAG.......................................................................................................................	19	3	20	0.05	1	0	0	1	0

CGACGTCCCTGTCGTCCCGGTCGGGCGAGGCGGGTGGTTCCTTCAGTAGCCATTCCGACTTTGAGCGTACAATTTAGGTTAAGGCTTGGTTAAAGTAAGTACACGGCGCTTGTGTACCGCCGACGATGGTTTTATCGTTACTTTTTTTTCCTCCTTTTTTTCTTGTTCTTTGTACGGAGGGAGAGATACACACACACACACGCACACACACAAAACTCAGAATTTTATATGCGCGCAGCCGGTAAAACACG ************************************************..............((((((............................)))))).((((.((((((((.((.(((((......)))))...........(((((.....................))))).)).)))))))).))))....************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V115 head	V113 male body	M054 female body
...........................................................................................AAAGTAAGTACACGGCGCTT............................................................................................................................................	20	0	1	1.00	1	1	0	0
................CCGTTCCGGCGAAGCGGGTG.......................................................................................................................................................................................................................	20	3	7	0.14	1	1	0	0
.....................CGGGCGACGCGACTGGTTCC..................................................................................................................................................................................................................	20	3	9	0.11	1	0	1	0
.....................................................TCCTAGTTTGAGCGTCCAA...................................................................................................................................................................................	19	3	10	0.10	1	0	0	1
.....................................................TCCTACTTTGAGAGTCCAA...................................................................................................................................................................................	19	3	18	0.06	1	0	1	0

Species	Coordinate	ID	Alignment
droSec2	scaffold_0:4302439-4302689 -	dse_427	GCTGCAGGGACA------------------------GCAGGGCCAGCCCGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AA---------------------AT------------C-CAATTCCGAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAAA------AAA---AAGGA-----GG-AA-AAAAAGAA--C--AAGAAAC------------ATGCCTCCCTCTCTA------------TGTGTGTG----------------TG--T--GT----GCG----TGTGTGTGTTTTGAGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droSim2	3l:11816351-11816610 -	dsi_6788	GCTGCAGGGACA------------------------GCAGGGCCAGCCCGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AA---------------------AC------------C-CAATTCCCAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAA-------AAA---AAGGA-----GG-AA-AAAAAGAA--C--AAGAAAC------------ATGCCTCCCTGCGCTCGTCGCACTCCATCTGT--G----------------TG--T--GT----GCG----TGTGTGTGTTTTGAGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
dm3	chr3L:12117621-12117861 -		GCTGCAGGGACA------------------------GCAGGGCCAGCCCGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AA---------------------AC------------C-CAATTCCCAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAA-------AAA---AAGGA-----GG-A--AAAAAGAA--C--AAGAAAC------------ATGCCTCCCTGTATG------------------------------------CG--T--GT----GTG----TGTGTGTGTTTTGAGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droEre2	scaffold_4784:12106853-12107119 -		GCTGCAGGGACA------------------------GCAGGGCCAGCCTGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AA---------------------AC------------C-AAAATCCCAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAA-------AAA---AAGGA-----GG-AA-AAGAAGAA--C--AAG-AGC------------ATGCCTCCCTGCGCTCGCC--TCTCTATGTGTG------------------TGTGT--GTGTGTGTGTGTGCGTGTGTGTTTTGGGTCTTAAAATATACGCGGGTCGGCCATTTTGTGC
droYak3	3L:12165554-12165803 -		GCTGCAGGGACA------------------------GCAGGGCCAGCCTGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AT---------------------AC------------C-AAAATCCCAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAA-------A-A---AAGGA-----GG-AAAAAAAAGAA--C--AAGAAAC------------ATGCCTCCCTGCGCTCGCC----------------------------TCTCTG--T--GT----GTG----TGTGTGTGTTTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droEug1	scf7180000409466:4208148-4208388 -		GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCCAAGGAAGTCATTGGTAAGA------------------------GTGAA----------------T-CTCTAGCCTT-----------------AA---------------------GT------------C-CAAATCCCAA-------------CCCA-TTTCATTCATAT-GCAAAGAACACATGGCGGC------T----GCTACCAAAATAGCATT-CAA-------AAA---AAGGA-----GA-A--AAAAAGAC--CG-AAGAAAC------------ATGCCTCCCTGAGCT------------------------------------TG--T--GT----GTG----TGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droBia1	scf7180000302428:4369132-4369394 -		GCAGCAGG---C------------------------GCAGGGCAAGCCCGCCCCGCCGCCCAAGGAAGTCATCGGTAAGGCTAAGA---TCGGCCA-------GAGG--------------------GCC--ACCCT----GCGAACGCA----CT---------------------GC------------C-CAAATCCCAG-------------CCCA-TTTCATTCATAT-GCGAGAAACACATGGCGGC------T----GCTACCAAAATAGCATTCGAG-------AAA---AAGGA-----GA-GGAAAAAAGAA-----GAGAAAC------------ATGCCTCCCTGCCTG------------CGTGTGCA--------------------T--GT----GTG----CGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droTak1	scf7180000415254:488010-488272 +		GCAGCAG---CT------------------------GCAGGGCAAGCCCGCTCCGCCGCCCAAGGAAGTCATCGGTAAGG------------------------ATGTGAATC-----CA--------------GTTAATAGCGAACGTACTCGAAA--------------------TCCCAAT-------C-CAAATCCCAA-------------CCCA-TTTCATTCATAT-GCA-AGAACACATGGCGGC------T----GCTACCAAAATAGCATT-GAAATAAAA-AAAAATAAGGA-----GA------AGAGAA--A--AAAATAC------------ATGCCTCCCTGCGCG------------------------------------CG--T--GT----GTG----TGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droEle1	scf7180000491193:4057679-4057915 -		GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCCAAGGAAGTCATTGGTAAGG------------------------A-GAA----------------C-CTAGGAGG-------------------AAA--------------------TC------------CCAAAATC-CAA-------------CCCA-TTTCATTCATATCGC---AAACACATGGC---------T----GCTACCAAAATAGCTACGGAA-------AAAAATAAGGA-----GA-GA-AAAAAAAA--CG-AAGAAAC------------ATGCCTCCCTGCGTT----------------------------------------T--GT----GTG----TGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droRho1	scf7180000773422:143999-144239 +		GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCCAAGGAAGTCATTGGTAAGG------------------------A-GAA----------------A-CTAAGAGG-------------------AAA--------------------TC------------CCAAAATC-CAA-------------CCCA-TTTCATTCATATCGC---AAACACATGGC---------T----GCTACCAAAATAGCTAC-GAG-------AAAAATAAGGA-----GA-GA-AAAAAGAAACC--AAGAAAC------------ATGCCTCCCTGCGCT------------------------------------TGTGT--GT----GTG----CGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droFic1	scf7180000454113:2518499-2518763 +		GCTGCAGGGACA------------------------GCAAGGCAAGCCCGCTCCGCCGCCTAAGGAAGTGATTGGTAAGACCAAGAAAATAA--------CTA-GTGAGAATCGGAAACAGTGAAT-TTAAA-----------------------AATCTAAA--------------TC------------TGAAAATCCCAA-------------CCCA-TTTCATTCATAC-GC-GAGAACACATGGCGGC------T----GCTACAAAAATAGCAAC-GAA-------A-A---AAGGA-----GA-AA-AAAA---------AAGAAAC------------ATGCCTCCCTGCGTT----------------------------------------C--GT----GTG----TGTGCGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droKik1	scf7180000302391:694687-694944 +		GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCGAAGGAAGTCATCGGTAAGCCCCAG--------CCA-------GATGTG---------CAGTGCAC-C------------------------CG--ATCCGAA--------------TC------------C--CAATCCCAATCGCA---G--TCCCCC-TTTCATTCATAC-GC---GAACACATGGCGGCGGCTAGT----GCTACCAAAATAGCAAT-GAA-------A-------GGAACGA-AA----AAAAAG-------AAGAAAC------------ATGCCTGCAAGAGCA----------------------------------------T--GT----GTG----TGTGTGTG-TTTGTGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC
droAna3	scaffold_13337:19468943-19469202 +	dan_2727	GCTGCAGGGACA------------------------GCAGGGCAAGCCAGCTCCGCCGCCAAAGGAAATCATCGGTGAGC------------------------A-----------------------------GTT-----------------AAATCCCAATCCTCAATCCCCAATCCCAATCCCCTCC-ACAAATCGTA------------C-TCCA-TTTCATTCATAC-GC---GAACACATGGCTGCAGCTTGT----GCTACCAAAATAGCAAT-GAA-------A-------GGAACGA-AAAAAAAAAAAGAA--G-AACGAAAC------------GTAGCTG-----G--------------------------------------TG--T--GC----GTG----TGTGTGTG-TTTAGGTCTTAAAATATACGCGCGTCGGCCATTTTGTG-
droBip1	scf7180000396360:663365-663607 +		GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCAAAGGAAATCATCGGTGAGC------------------------A-----------------------------GTT-----------------AA---------------------TCCCAATCCCCTCG-ACAAATCTTAC-------------TCCA-TTTCATTCATAC-GC---GAACACATGGCTGCAGCTTGT----GCTACCAAAATAGCAAT-GAAAGCAAT--GA---AAGGAACGA-AA----AAAAAAAA--CGAACGAAAC------------GTAGCTG---------------------------------------------G--C--GT----GCG----TGTGTGTG-TTTAGGTCTTAAAATATACGCGCGTCGGCCATTTTGTG-
dp5	XR_group6:5906534-5906791 -	dps_3068	GG---AGGAACAGCAGGAGGACGATGGCCAGCAGGGAGAAGGCAAGCCAGCTCCGCCGCCGAAGGAAATTATTGGTAAGA------------------------GCAAA----------------C-GT-----------------------------------------------------------------AAATGG-----------AT-T-TGCA-TTTCATTCATAC-GC---AAACACATGGCGACCGCTAGT----TCTACCAAAATAGCAAT-AAA-------A-------GGAATGA-AA----AA-----------GTAAAAT------------GTGCGTGTGTGTA--------------------CACATATAGAGTTTTTTTT--GC--GT----GTA----TGTGTGTG-TTTGTGTCTTAAAATATACGCACGACGGCCATTTTGTAT
droPer2	scaffold_47:406710-406967 -		GG---AGGAACAGCAGGAGGACGATGGCCAGCAGGGAGAAGGCAAGCCAGCTCCGCCGCCGAAGGAAATTATTGGTAAGA------------------------GCAAA----------------C-GT-----------------------------------------------------------------AAATGG-----------AT-T-TGCA-TTTCATTCATAC-GC---AAACACATGGCGACCGCTAGT----TCTACCAAAATAGCAAT-GAA-------A-------GGAATGA-AA----AA-----------GTAAAAT------------GTGCGTGTGTGTA--------------------CACATATAGAGTTTTTTTT--GC--GT----GTA----TGTGTGTG-TTTGTGTCTTAAAATATACGCACGACGGCCATTTTGTAT
droWil2	scf2_1100000004511:8565636-8565910 -	dwi_669	TGGTCAGCAGGC------------------------GCAGGGTAAGCCAGCGCCGCCACCAAAGGAGATTATTGGTAAGC-AAAAA---TAAGCCCATCGCTGGGTGAA----------------AAATC--ATCTT-----------------A-----------------------------------------------ATTGTTGTAATAT-TCAATTTTCATTCATAT-GCC--AAACACATGGCAGCGGCGGGCCCCAGCACCCAAAATAGCCAACGAA-------AAAAAAAAGGA-----------AA-----------GAAAAAT------------GTGCGTGCCTGTGTG------------------TGCATGTGTATTAGTGTAT--AT--AT----GTG----TGTGTGTG-TGTGAGTCTTAAAATATACGCG-GA-CGCCATTTTGT--
droVir3	scaffold_13049:22945698-22945935 +	dvi_21061	GGGGCAGCAAGC------------------------GCAGGGCAAGCCCGCGCCGCCACCAAAGGAAATTATTGGTAAGC------------------------ATACA--------------------------------------------------------------------------------------AATCA-----------AT-T-TGCATTTTCATTCAT---GC---AAACACATGGCTGCGAC---T----GCTACCAAAATAGCGCA-ATGA-----AA-------GGAACGGCGC-GC-TATATGTA--T--GTGAAAA----------ATGTGCGTGTTTATA--------------------TATATATATA------TAT------ATGTGTATG----TGTGTGTG-TGCGTGTCTTAAAATATACGCGCGAC-GCCATTTTGTAT
droMoj3	scaffold_6680:17557450-17557652 +		GGGGCAGCAAGC------------------------GCAGGGCAAGCCCGCGCCGCCTCCAAAGGAAATTATTGGTAAGC------------------------GTACA--------------------------------------------------------------------------------------AATCA-----------AT-T-TGCATTTTCATTCATCT------AAACACATGGCAAG------T----GCTACCGAAATAGCAAT-GAA-------A-------GGAACGGCGG-GC-TATAT--------GTGAAAA----------ATGTGCG--------------------------------------------------T--GT----TTA----TGTGTGTG-TGCGTGTCTTAAAATATACGCGCGCC-GCCATTTTGT--
droGri2	scaffold_15110:18219484-18219722 +		C-----------------------------------GCAGGGCAAGTTGGCGCAGCCACCAAAGGAACTGATTGGTAAGC------------------------T-----------------------------GTC-----------------A----------------------------------------AATCA-----------AT-T-TGCATTTTCATTCATGC-A----AAACACATGGCGCCGAT-TGC--TGGCTACCAAAATAGCAAT-GAGA-----AA-------GGAACGG-CA----AA--C--------GATATACATACGTATGTATGTACGTGTGTGTG--------------------TACATGAAAAAATGTGCGT--GCTTAT----GTG----TGTGTGTG-TGCGTGTCTTAAAATATACGCGCGAC-GCCATTTTGTAT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSec2

GCTGCAGGGACA------------------------GCAGGGCCAGCCCGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AA---------------------AT------------C-CAATTCCGAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAAA------AAA---AAGGA-----GG-AA-AAAAAGAA--C--AAGAAAC------------ATGCCTCCCTCTCTA------------TGTGTGTG----------------TG--T--GT----GCG----TGTGTGTGTTTTGAGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
............................................................................................................................................................................................................................................................................................AA------AAA---AAGGA-----GG-AA-AAAAAG.................................................................................................................................................	20	1	1.00	1	0	1	0	0
............................................................................................................................................................................................................................................................................................AA------AAA---AAGGA-----GG-AA-AAAAA..................................................................................................................................................	19	3	0.33	1	0	0	0	1
........................................................................................................................................................................................................................................................................................................................................................................................GTGTG----------------TG--T--GT----GCG----TGTGTG..........................................	19	20	0.05	1	0	1	0	0

droSim2

GCTGCAGGGACA------------------------GCAGGGCCAGCCCGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AA---------------------AC------------C-CAATTCCCAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAA-------AAA---AAGGA-----GG-AA-AAAAAGAA--C--AAGAAAC------------ATGCCTCCCTGCGCTCGTCGCACTCCATCTGT--G----------------TG--T--GT----GCG----TGTGTGTGTTTTGAGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	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
...................................................TCCGCCCACCAAGGAAGTCATCGCC.....................................................................................................................................................................................................................................................................................................................................................................................................	25	1	3.00	3	0	0	0	0	0	0	1	1	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................AAAAGAA--C--AAGAAAC------------ATGCCT.................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................GTAAGG------------------------CTGAA----------------A-CTC...............................................................................................................................................................................................................................................................................................................................................	15	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
....................................................CCGCCCACCAAGGAAGTC...........................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................A-AAAAAGAA--C--AAGAAAC------------ATGC...................................................................................................................	21	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................TAAGG------------------------CTGAA----------------A-CTCA..............................................................................................................................................................................................................................................................................................................................................	15	15	0.13	2	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0
....CAGGGACA------------------------GCAGGGCA.....................................................................................................................................................................................................................................................................................................................................................................................................................................	16	13	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................T--G----------------TG--T--GT----GCG----TGTGTGTGTT......................................	20	14	0.07	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

dm3

GCTGCAGGGACA------------------------GCAGGGCCAGCCCGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AA---------------------AC------------C-CAATTCCCAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAA-------AAA---AAGGA-----GG-A--AAAAAGAA--C--AAGAAAC------------ATGCCTCCCTGTATG------------------------------------CG--T--GT----GTG----TGTGTGTGTTTTGAGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	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
...................................................TCCGCCCACCAAGGAAGTCATCGCC.....................................................................................................................................................................................................................................................................................................................................................................................................	25	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..TGCAGGGACA------------------------GCAGGGCCAGCCCGCT.............................................................................................................................................................................................................................................................................................................................................................................................................................	26	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	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	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
...............................................CCGCTCCGCCCACCAAGGAAGTC...........................................................................................................................................................................................................................................................................................................................................................................................................	23	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	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	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
......................................................GCCCACCAAGGAAGTCATCGCC.....................................................................................................................................................................................................................................................................................................................................................................................................	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	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	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
...GCAGGGACA------------------------GCAGGGCCAGCCCGCTCCG..........................................................................................................................................................................................................................................................................................................................................................................................................................	28	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	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
.......................................GGGCCAGCCCGCTCCGCCCAC.....................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........A------------------------GCAGGGCCAGCCCGCTCCGCCCACC....................................................................................................................................................................................................................................................................................................................................................................................................................	26	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	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
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............................................................CAAGGAAGTCATCGGTAAGG------------------------C........................................................................................................................................................................................................................................................................................................................................................................	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	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
...........................................................................................................................................................................................................................................................................................AA-------AAA---AAGGA-----GG-A--AAAAAGAA--.............................................................................................................................................	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	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
..................................................................................................................................................................................................................................................................................................................................................................CTGTATG------------------------------------CG--T--GT----GTG----TGTGTG..........................................	21	6	0.33	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	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	1	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................TGTATG------------------------------------CG--T--GT----GTG----TGTG............................................	18	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	1	0	0	0	0	1	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	1	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................TGTATG------------------------------------CG--T--GT----GTG----TGTGTGT.........................................	21	12	0.25	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.............................................................................................................................................................................................................................................................................................................................................................................................................CG--T--GT----GTG----TGTGTGTGTT......................................	18	20	0.20	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................TGTATG------------------------------------CG--T--GT----GTG----TGTGT...........................................	19	19	0.11	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	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
...........................................................................................................................................................................................................................................................................................................................................................................................................................TG----TGTGTGTGTTTTGAGG................................	18	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droEre2

GCTGCAGGGACA------------------------GCAGGGCCAGCCTGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AA---------------------AC------------C-AAAATCCCAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAA-------AAA---AAGGA-----GG-AA-AAGAAGAA--C--AAG-AGC------------ATGCCTCCCTGCGCTCGCC--TCTCTATGTGTG------------------TGTGT--GTGTGTGTGTGTGCGTGTGTGTTTTGGGTCTTAAAATATACGCGGGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
...............................................CTGCTCCGCCCACCAAGGAAGTC...........................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0	0
....................................................CCGCCCACCAAGGAAGTCATC........................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0	0	0
.....................................................CGCCCACCAAGGAAGTCATCGC......................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	1	0	0
....................................................CCGCCCACCAAGGAAGTCATCGC......................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................GTGTGTGCGTGTGTGTTTT....................................	19	7	0.14	1	1	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................TGTGTGTGTGTGCGTGTGTGTT......................................	22	15	0.07	1	0	0	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................................................................................................................................GTGT--GTGTGTGTGTGTGCGTGTGTG........................................	25	20	0.05	1	0	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................................................................................................................................GTGTG------------------TGTGT--GTGTGTGTGTGTG................................................	23	20	0.05	1	0	0	1	0	0	0	0

droYak3

GCTGCAGGGACA------------------------GCAGGGCCAGCCTGCTCCGCCCACCAAGGAAGTCATCGGTAAGG------------------------CTGAA----------------A-CTCGCATGTT-----------------AT---------------------AC------------C-AAAATCCCAA-------------CCAA-TTTCATTCATGT-GCCGCGAACACATGGCGGC------T----GCTACCAAAATAGCAAT-GAA-------A-A---AAGGA-----GG-AAAAAAAAGAA--C--AAGAAAC------------ATGCCTCCCTGCGCTCGCC----------------------------TCTCTG--T--GT----GTG----TGTGTGTGTTTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	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
......................................AGGGCCAGCCTGCTCCGCCCACCAAGGAAGT............................................................................................................................................................................................................................................................................................................................................................................................................	31	1	6.00	6	0	0	0	0	0	0	0	0	0	0	6
.....................................CAGGGCCAGCCTGCTCCGCCCACC....................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
..TGCAGGGACA------------------------GCAGGGCCAGCCTGCTCC...........................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
......................................AGGGCCAGCCTGCTCCGCCCACC....................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
......................................AGGGCCAGCCTGCTCCGCCC.......................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
....................................GCAGGGCCAGCCTGCTCCGCCC.......................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
......................................................GCCCACCAAGGAAGTCATC........................................................................................................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	0	1	0	0	0	0	0	0	0	0

droEug1

GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCCAAGGAAGTCATTGGTAAGA------------------------GTGAA----------------T-CTCTAGCCTT-----------------AA---------------------GT------------C-CAAATCCCAA-------------CCCA-TTTCATTCATAT-GCAAAGAACACATGGCGGC------T----GCTACCAAAATAGCATT-CAA-------AAA---AAGGA-----GA-A--AAAAAGAC--CG-AAGAAAC------------ATGCCTCCCTGAGCT------------------------------------TG--T--GT----GTG----TGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

GCAGCAGG---C------------------------GCAGGGCAAGCCCGCCCCGCCGCCCAAGGAAGTCATCGGTAAGGCTAAGA---TCGGCCA-------GAGG--------------------GCC--ACCCT----GCGAACGCA----CT---------------------GC------------C-CAAATCCCAG-------------CCCA-TTTCATTCATAT-GCGAGAAACACATGGCGGC------T----GCTACCAAAATAGCATTCGAG-------AAA---AAGGA-----GA-GGAAAAAAGAA-----GAGAAAC------------ATGCCTCCCTGCCTG------------CGTGTGCA--------------------T--GT----GTG----CGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GCAGCAG---CT------------------------GCAGGGCAAGCCCGCTCCGCCGCCCAAGGAAGTCATCGGTAAGG------------------------ATGTGAATC-----CA--------------GTTAATAGCGAACGTACTCGAAA--------------------TCCCAAT-------C-CAAATCCCAA-------------CCCA-TTTCATTCATAT-GCA-AGAACACATGGCGGC------T----GCTACCAAAATAGCATT-GAAATAAAA-AAAAATAAGGA-----GA------AGAGAA--A--AAAATAC------------ATGCCTCCCTGCGCG------------------------------------CG--T--GT----GTG----TGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCCAAGGAAGTCATTGGTAAGG------------------------A-GAA----------------C-CTAGGAGG-------------------AAA--------------------TC------------CCAAAATC-CAA-------------CCCA-TTTCATTCATATCGC---AAACACATGGC---------T----GCTACCAAAATAGCTACGGAA-------AAAAATAAGGA-----GA-GA-AAAAAAAA--CG-AAGAAAC------------ATGCCTCCCTGCGTT----------------------------------------T--GT----GTG----TGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCCAAGGAAGTCATTGGTAAGG------------------------A-GAA----------------A-CTAAGAGG-------------------AAA--------------------TC------------CCAAAATC-CAA-------------CCCA-TTTCATTCATATCGC---AAACACATGGC---------T----GCTACCAAAATAGCTAC-GAG-------AAAAATAAGGA-----GA-GA-AAAAAGAAACC--AAGAAAC------------ATGCCTCCCTGCGCT------------------------------------TGTGT--GT----GTG----CGTGTGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GCTGCAGGGACA------------------------GCAAGGCAAGCCCGCTCCGCCGCCTAAGGAAGTGATTGGTAAGACCAAGAAAATAA--------CTA-GTGAGAATCGGAAACAGTGAAT-TTAAA-----------------------AATCTAAA--------------TC------------TGAAAATCCCAA-------------CCCA-TTTCATTCATAC-GC-GAGAACACATGGCGGC------T----GCTACAAAAATAGCAAC-GAA-------A-A---AAGGA-----GA-AA-AAAA---------AAGAAAC------------ATGCCTCCCTGCGTT----------------------------------------C--GT----GTG----TGTGCGTG-TTTGGGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCGAAGGAAGTCATCGGTAAGCCCCAG--------CCA-------GATGTG---------CAGTGCAC-C------------------------CG--ATCCGAA--------------TC------------C--CAATCCCAATCGCA---G--TCCCCC-TTTCATTCATAC-GC---GAACACATGGCGGCGGCTAGT----GCTACCAAAATAGCAAT-GAA-------A-------GGAACGA-AA----AAAAAG-------AAGAAAC------------ATGCCTGCAAGAGCA----------------------------------------T--GT----GTG----TGTGTGTG-TTTGTGTCTTAAAATATACGCGCGTCGGCCATTTTGTGC	Size	Hit Count	Total Norm	Total
No Reads

droAna3

GCTGCAGGGACA------------------------GCAGGGCAAGCCAGCTCCGCCGCCAAAGGAAATCATCGGTGAGC------------------------A-----------------------------GTT-----------------AAATCCCAATCCTCAATCCCCAATCCCAATCCCCTCC-ACAAATCGTA------------C-TCCA-TTTCATTCATAC-GC---GAACACATGGCTGCAGCTTGT----GCTACCAAAATAGCAAT-GAA-------A-------GGAACGA-AAAAAAAAAAAGAA--G-AACGAAAC------------GTAGCTG-----G--------------------------------------TG--T--GC----GTG----TGTGTGTG-TTTAGGTCTTAAAATATACGCGCGTCGGCCATTTTGTG-	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
...GCAGGGACA------------------------GCAGGGCAAGCCA................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1
........GACA------------------------GCAGGGCAAGCCAGCTC............................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	1	0
......GGGACA------------------------GCAGGGCAAGCCA................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
...GCAGGGACA------------------------GCAGGGCAAGC..................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0
...GCAGGGACA------------------------GCAGGGCAAGCCAGCTCCGC.........................................................................................................................................................................................................................................................................................................................................................................................................................	29	1	1.00	1	0	1	0	0	0	0
....................................GCAGGGCAAGCCAGCTCCGCCGCC.....................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0
............................................AGCCAGCTCCGCCGCCAAAGGAAA.............................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	1
................................................AGCTCCGCCGCCAAAGGAA..............................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1
.............................................GCCAGCTCCGCCGCCAAAGGAA..............................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1
..TGCAGGGACA------------------------GCAGGGCAAG...................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1
.........................................................GCCAAAGGAAATCATCGCC.....................................................................................................................................................................................................................................................................................................................................................................................................	19	3	0.33	1	0	0	0	0	0	1
.................................................................................................................................................................................................................................................................................................................GA-AAAAAAAAAAAGAA--G-A..........................................................................................................................................	18	7	0.14	1	0	0	1	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................TG--T--GC----GTG----TGTGTGTG-TT.....................................	18	12	0.08	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................A-AAAAAAAAAAAGAA--G-AACC.......................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0

droBip1

GCTGCAGGGACA------------------------GCAGGGCAAGCCCGCTCCGCCGCCAAAGGAAATCATCGGTGAGC------------------------A-----------------------------GTT-----------------AA---------------------TCCCAATCCCCTCG-ACAAATCTTAC-------------TCCA-TTTCATTCATAC-GC---GAACACATGGCTGCAGCTTGT----GCTACCAAAATAGCAAT-GAAAGCAAT--GA---AAGGAACGA-AA----AAAAAAAA--CGAACGAAAC------------GTAGCTG---------------------------------------------G--C--GT----GCG----TGTGTGTG-TTTAGGTCTTAAAATATACGCGCGTCGGCCATTTTGTG-	Size	Hit Count	Total Norm	Total
No Reads

dp5

GG---AGGAACAGCAGGAGGACGATGGCCAGCAGGGAGAAGGCAAGCCAGCTCCGCCGCCGAAGGAAATTATTGGTAAGA------------------------GCAAA----------------C-GT-----------------------------------------------------------------AAATGG-----------AT-T-TGCA-TTTCATTCATAC-GC---AAACACATGGCGACCGCTAGT----TCTACCAAAATAGCAAT-AAA-------A-------GGAATGA-AA----AA-----------GTAAAAT------------GTGCGTGTGTGTA--------------------CACATATAGAGTTTTTTTT--GC--GT----GTA----TGTGTGTG-TTTGTGTCTTAAAATATACGCACGACGGCCATTTTGTAT	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
.....AGGAACAGCAGGAGGACGATGG......................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	5.00	5	0	5	0	0	0	0	0	0	0	0
................GAGGACGATGGCCAGCAGGGAGAAGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	5.00	5	0	0	0	0	0	0	0	5	0	0
..........CAGCAGGAGGACGATGGCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	2.00	2	0	1	0	0	1	0	0	0	0	0
............GCAGGAGGACGATGGCCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	2.00	2	0	2	0	0	0	0	0	0	0	0
.........................................GCAAGCCAGCTCCGCCGCC.....................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................GACGATGGCCAGCAGGGAGAAGGC......................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	1	0	0	0	0	0
................GAGGACGATGGCCAGCAGGGAGAAGGCA.....................................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	0	0	1	0
........................TGGCCAGCAGGGAGAAGGCAA....................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
........................TGGCCAGCAGGGAGAAGGCAAGCC.................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	1	0	0
........................................GGCAAGCCAGCTCCGCCGCCGA...................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.............CAGGAGGACGATGGCCAGCAGGG.............................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	1
.........................................GCAAGCCAGCTCCGCCGCCGAAGGAA..............................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.....AGGAACAGCAGGAGGACGATGGCT....................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........CAGCAGGAGGACGATGGCCAGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................TTTTTTTT--GC--GT----GTA----TGTGT...........................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......................................AGGCAAGCCAGCTCCGCCG.......................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................GACGATGGCCAGCAGGGAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
........AACAGCAGGAGGACGATG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......GAACAGCAGGAGGACGATGG......................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0	0	0	0
.....AGGAACAGCAGGAGGACGATGGCC....................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0
GG---AGGAACAGCAGGAGGACGATGGCC....................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0	0	0	0	0	0
......................GATGGCCAGCAGGGAGAAGGCA.....................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	1	0	0	0	0	0
........................................GGCAAGCCAGCTCCGCCGCC.....................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..................GGACGATGGCCAGCAGGG.............................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.....AGGAACAGCAGGAGGACGATGGCCAGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0
......GGAACAGCAGGAGGACGATG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........CAGCAGGAGGACGATGGCCAGCAGGGAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0
...........................CCAGCAGGGAGAAGGCAAGCCAC...............................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0

droPer2

GG---AGGAACAGCAGGAGGACGATGGCCAGCAGGGAGAAGGCAAGCCAGCTCCGCCGCCGAAGGAAATTATTGGTAAGA------------------------GCAAA----------------C-GT-----------------------------------------------------------------AAATGG-----------AT-T-TGCA-TTTCATTCATAC-GC---AAACACATGGCGACCGCTAGT----TCTACCAAAATAGCAAT-GAA-------A-------GGAATGA-AA----AA-----------GTAAAAT------------GTGCGTGTGTGTA--------------------CACATATAGAGTTTTTTTT--GC--GT----GTA----TGTGTGTG-TTTGTGTCTTAAAATATACGCACGACGGCCATTTTGTAT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.G---AGGAACAGCAGGAGGACGAT........................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	3.00	3	0	0	0	0	0	3
........................................................CGCCGAAGGAAATTATTGC......................................................................................................................................................................................................................................................................................................................................................................................................	19	1	2.00	2	2	0	0	0	0	0
............GCAGGAGGACGATGGCCAGCAGGGA............................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	2.00	2	2	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACGCACGACGGCCATTTTGT..	22	1	1.00	1	0	0	1	0	0	0
............GCAGGAGGACGATGGCCAGCAGGGAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1
..........................................CAAGCCAGCTCCGCCGCC.....................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0
.....AGGAACAGCAGGAGGACGATGGCT....................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0
...........................................AAGCCAGCTCCGCCGCCG....................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	1
.....................CGATGGCCAGCAGGGAGA..........................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	1	0	0	0

droWil2

TGGTCAGCAGGC------------------------GCAGGGTAAGCCAGCGCCGCCACCAAAGGAGATTATTGGTAAGC-AAAAA---TAAGCCCATCGCTGGGTGAA----------------AAATC--ATCTT-----------------A-----------------------------------------------ATTGTTGTAATAT-TCAATTTTCATTCATAT-GCC--AAACACATGGCAGCGGCGGGCCCCAGCACCCAAAATAGCCAACGAA-------AAAAAAAAGGA-----------AA-----------GAAAAAT------------GTGCGTGCCTGTGTG------------------TGCATGTGTATTAGTGTAT--AT--AT----GTG----TGTGTGTG-TGTGAGTCTTAAAATATACGCG-GA-CGCCATTTTGT--	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
....................................GCAGGGTAAGCCAGCGCCGCC........................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	2.00	2	0	0	0	2	0
....................................GCAGGGTAAGCCAGCGCCGCCAC......................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	2.00	2	0	2	0	0	0
....................................GCAGGGTAAGCCAGCGCCGC.........................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	2.00	2	0	0	1	1	0
.....................................................CGCCACCAAAGGAGATTATTGC......................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	1	0
.....................................CAGGGTAAGCCAGCGCCGCCAC......................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0
......GCAGGC------------------------GCAGGGTAAGCCAGC..............................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0
....................................................................................................................................................................................................................................................................................................................................................................................................ATTAGTGTAT--AT--AT----GTG----TGTGT...........................................	22	1	1.00	1	0	0	0	1	0
........................................................CACCAAAGGAGATTATTGC......................................................................................................................................................................................................................................................................................................................................................................................................	19	5	0.20	1	0	0	1	0	0
.........................................................ACCAAAGGAGATTATTGC......................................................................................................................................................................................................................................................................................................................................................................................................	18	5	0.20	1	0	0	0	1	0

droVir3

GGGGCAGCAAGC------------------------GCAGGGCAAGCCCGCGCCGCCACCAAAGGAAATTATTGGTAAGC------------------------ATACA--------------------------------------------------------------------------------------AATCA-----------AT-T-TGCATTTTCATTCAT---GC---AAACACATGGCTGCGAC---T----GCTACCAAAATAGCGCA-ATGA-----AA-------GGAACGGCGC-GC-TATATGTA--T--GTGAAAA----------ATGTGCGTGTTTATA--------------------TATATATATA------TAT------ATGTGTATG----TGTGTGTG-TGCGTGTCTTAAAATATACGCGCGAC-GCCATTTTGTAT	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
.....AGCAAGC------------------------GCAGGGCAAGCCCGC..............................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	2.00	2	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	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
...........................................AAGCCCGCGCCGCCACCA....................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	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
...............................................................GGAAATTATTGGTAAGC------------------------ATACA--------------------------------------------------------------------------------------..............................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................CCACCAAAGGAAATTATTG.......................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........AGC------------------------GCAGGGCAAGCCCGCGCCGCCA.......................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....AGCAAGC------------------------GCAGGGCAAGCCC................................................................................................................................................................................................................................................................................................................................................................................................................................	20	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	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
....CAGCAAGC------------------------GCAGGGCAAGCCCGCGCCGC.........................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....AGCAAGC------------------------GCAGGGCAAGCCCGCGCCGCC........................................................................................................................................................................................................................................................................................................................................................................................................................	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	1
..............................................................................................................................................................................................................................................................................................................................................................................................................................................TGTCTTAAAATATACGCGCGA..............	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	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
.....AGCAAGC------------------------GCAGGGCAAGCCCGCG.............................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................GCA-ATGA-----AA-------GGAACGGCGC-GC-.......................................................................................................................................................	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	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
...........C------------------------GCAGGGCAAGCCCGCGCCGCCACG.....................................................................................................................................................................................................................................................................................................................................................................................................................	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	1
..............................................................................................................................................................................................................................................................................................................................................................................................ATATATA------TAT------ATGTGTATG----TGT.............................................	22	10	0.10	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	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
...................................................................................................................................................................................................................................................................................................................................................................TATA--------------------TATATATATA------TAT------ATGTGTATG----T...............................................	27	12	0.08	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	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
...........................................................................................................................................................................................................................................................................................................................................................................................................................TG----TGTGTGTG-TGCGTGTC...............................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................TGTGTATG----TGTGTGTG-TG.....................................	18	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--------------------TATATATATA------TAT------ATGTGT.......................................................	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	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
.............................................................................................................................................................................................................................................................................................................................................................................................................T------ATGTGTATG----TGTGTGTG-T......................................	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	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

droMoj3

GGGGCAGCAAGC------------------------GCAGGGCAAGCCCGCGCCGCCTCCAAAGGAAATTATTGGTAAGC------------------------GTACA--------------------------------------------------------------------------------------AATCA-----------AT-T-TGCATTTTCATTCATCT------AAACACATGGCAAG------T----GCTACCGAAATAGCAAT-GAA-------A-------GGAACGGCGG-GC-TATAT--------GTGAAAA----------ATGTGCG--------------------------------------------------T--GT----TTA----TGTGTGTG-TGCGTGTCTTAAAATATACGCGCGCC-GCCATTTTGT--	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
GGGGCAGCAAGC------------------------GCAGGGCAAGCCC................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1	0
............................................AGCCCGCGCCGCCTCCAAAG.................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0
....CAGCAAGC------------------------GCAGGGCAAGCCC................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0

droGri2

C-----------------------------------GCAGGGCAAGTTGGCGCAGCCACCAAAGGAACTGATTGGTAAGC------------------------T-----------------------------GTC-----------------A----------------------------------------AATCA-----------AT-T-TGCATTTTCATTCATGC-A----AAACACATGGCGCCGAT-TGC--TGGCTACCAAAATAGCAAT-GAGA-----AA-------GGAACGG-CA----AA--C--------GATATACATACGTATGTATGTACGTGTGTGTG--------------------TACATGAAAAAATGTGCGT--GCTTAT----GTG----TGTGTGTG-TGCGTGTCTTAAAATATACGCGCGAC-GCCATTTTGTAT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

dse_427

scaffold_0:4302489-4302639 -

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

-26.8	-26.8	-26.6