dse_797

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## CCAGTACCGCCCAAGAAATCGCCCCACACCATACCGCCCAAACCGCTAATCAAGCCCAAGCCTCGTGTAACACAGAAGTTCTCACGCACTTCGGATATACGTCGAGATGAGGACTCCGACAACCAGCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGCGGTGCCCAGGATGCGGATGATAATCCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACTGATGCCGA ***********************************************************((((((((.....(((((........))))).....)))).))))......*****************************************************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V114 embryo	V113 male body	M054 female body	V115 head
...........................................................................................................................................................CAAGCCAACAGGCGGTGACCA...........................................................................	21	3	3	1.00	3	0	0	2	1
........................................................................................CTTCGGATATACGTCGAGATGAGG...........................................................................................................................................	24	0	1	1.00	1	0	1	0	0
......................................................................................................................................................................................................................GCTCCAAGGAGAAGAGGGCCCAGAAAACT........	29	0	1	1.00	1	1	0	0	0
.......................................................................................................................................................................................................AGACGATACTGCGCCGCT..................................	18	0	1	1.00	1	1	0	0	0
.......................................................................................ACTTCGGATATACGTCGAGATGAGG...........................................................................................................................................	25	0	1	1.00	1	0	1	0	0
.............................................................CTCGTGTAACACAGAAGTTCT.........................................................................................................................................................................	21	0	1	1.00	1	0	1	0	0
..................................................................GTAACACAGAAGTTCTCACGCA...................................................................................................................................................................	22	0	1	1.00	1	1	0	0	0
.....................................................GCCCAAGCCTCGTGTAACACA.................................................................................................................................................................................	21	0	1	1.00	1	1	0	0	0
............................................................................................................................................................................................................ATACTGCGCCGCTCCAAGGAGAAG.......................	24	0	1	1.00	1	0	1	0	0
......................................................CCCAAGCCTCGTGTAACA...................................................................................................................................................................................	18	0	1	1.00	1	1	0	0	0
............................................................................................GGATATACGTCGAGATGAGG...........................................................................................................................................	20	0	1	1.00	1	0	0	1	0
................................................................................................................................................................CAGCCGGCGGTGCCCAGGATGCGGAT.................................................................	26	0	1	1.00	1	0	1	0	0
.............................................................................................................AGGACTCCGACAACCAGCACA.........................................................................................................................	21	0	1	1.00	1	1	0	0	0
..................................................................................CACGCACTTCGGATATACGTC....................................................................................................................................................	21	0	1	1.00	1	1	0	0	0
.............................................................................................................................................................AGCCAGCCGGCGGTGCCCAGGATGCGGAT.................................................................	29	0	1	1.00	1	1	0	0	0
..................................................................................CACGAACTTCGGATAGACGA.....................................................................................................................................................	20	3	3	0.33	1	0	0	0	1
......................................................................................................................ACAGGTAGCACAAGGTCAAC.................................................................................................................	20	3	5	0.20	1	0	0	0	1
........................................................................................................................................................CATCTAGACAGCCGACGGTG...............................................................................	20	3	13	0.15	2	0	1	0	1
...........CAAGAAATCCCCCAACAC..............................................................................................................................................................................................................................	18	2	14	0.07	1	0	0	0	1

GGTCATGGCGGGTTCTTTAGCGGGGTGTGGTATGGCGGGTTTGGCGATTAGTTCGGGTTCGGAGCACATTGTGTCTTCAAGAGTGCGTGAAGCCTATATGCAGCTCTACTCCTGAGGCTGTTGGTCGTGTTCCAGTTGTGCCTGTGTTAGTAGTAGTTCGGTCGGCCGCCACGGGTCCTACGCCTACTATTAGGGCTGCTCTGCTATGACGCGGCGAGGTTCCTCTTCTCCCGGGTCTTTTGACTACGGCT *****************************************************************************************************************************************((((((((.....(((((........))))).....)))).))))......***********************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M054 female body	V113 male body	V115 head
....................CCGGGTGTGGTAAGACGGGTTT.................................................................................................................................................................................................................	22	3	1	1.00	1	0	1	0
.............................................................................................................................CGTGTTCCAGTTGTGCCTGTG.........................................................................................................	21	0	1	1.00	1	1	0	0
.........................................................................................................................................................................................................................GGTTCCTCGTCTCCCGTG................	18	2	16	0.69	11	11	0	0
..........................................................................................................................................................................................................................GTTCCTCGTCTCCCGTGT...............	18	2	15	0.67	10	10	0	0
.........................................................................................................................................................................................................................GGTTCCTCGTCTCCCGTGT...............	19	2	4	0.50	2	2	0	0
.......................................................................................................................................................................................................................GGGGTTCCTCGTCTCCCGTGT...............	21	3	5	0.20	1	1	0	0
......................................................................................................................................................................................................................CGGTGTTCCTCTTCTCCCGTG................	21	3	5	0.20	1	1	0	0
.......................................................................................................................................................................................................................GGTGTTCCTCTTCTCCCGTG................	20	3	12	0.17	2	2	0	0
...........................................................................................................................................................................................................................TTCCTCGTCTCCCGTGTTTTTT..........	22	3	7	0.14	1	1	0	0
.........................................................................................................................................................................................................................TGTTCCTCTTCTCCCGTGTTT.............	21	3	8	0.13	1	1	0	0
.......................................................................................................................................................................................................................GATGTTCCTCGTCTCCCG..................	18	2	9	0.11	1	1	0	0
............................................................................................................................................................................................................................TCCTCTTCTCCCGTGTTTTG...........	20	3	19	0.11	2	2	0	0
.......................................................................................................................................................................................................................TGGGTTCCTCTTCTCCCGTG................	20	3	12	0.08	1	1	0	0
........................ATGTAGTATGGCGGGTATG................................................................................................................................................................................................................	19	3	15	0.07	1	0	0	1
...........................................................................................................................................................................................................................TTCCTCGTCTCCCGTGTTTTT...........	21	3	18	0.06	1	1	0	0
....................................................................................................................................CTGTCGTGGCTGTGTTAGTA...................................................................................................	20	3	19	0.05	1	0	1	0
..................................................................................................................................................TTAGTTGCAGTTGGGTCGG......................................................................................	19	3	20	0.05	1	1	0	0

Species	Coordinate	ID	Alignment
droSec2	scaffold_12:1869218-1869468 +	dse_797	CCAGTACCGCCCAAGAAATCGCCCCACACCATACCGCCCAAACCGCTAATCAAGCCCAAGCCTCG---TGTAACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATGAGGACTCCGAC---AACC------AGCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGC---------GGT------------GCCCAGG------ATG------C------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACTGATGCCGA
droSim2	3r:8972103-8972353 +	dsi_7819	CCAGTACCGCCCAAGAAATCGCCCCACACCATACCGCCCAAACCGCAAATCAAGCCCAAGCCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATGAGGACTCCGAC---AACC------AGCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGC---------GGT------------GCCCAGG------ATG------C------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACCGATGCCGA
dm3	chr3R:12277809-12278065 -		CCAGTACCGCCCAAGAAATCGCCCCACACCATACCGCCCAAACCGCAAATCAAGCCCAAACCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATGAGGACTCCGAC---AACC------AGCACAAGATCAACACAGACACAATCATCATCAAGCCAGCCGTA---------GGG------------GCCCAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACCGATGCCGA
droEre2	scaffold_4770:11808824-11809080 -	der_603	CCAGTACCGCCAAAAAAGTCGCCCCACACCATACCGCCCAAGCCGCAAATCAAGCCAAAGCCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGGGATGAGGACTCCGAC---AACC------AGCACAAGGTCAACACGGACACCATCATCATCAAGCCAGCCGGC---------GGG------------GCACAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGTTCCAAGGAGAAGAGAACACAAAAGACCGACGCCGA
droYak3	3R:14136359-14136615 +	dya_1041	CCAGTACCGCCCAAGAAGTCACCCCACACCATACCGCCCAAGCCGCAAATCAAGCCCAAACCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATTCGTCGCGATGAGGACTCCGAC---AACC------AGCACAAGATCAATACGGACACCATCATCATCAAGCCTGCCGGC---------GGT------------GCCCAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGTTCCAAGGAAAAGAGGACCCAAAAGACCGACGCCGA
droEug1	scf7180000409557:265588-265844 +		CCAGTACCGCCCAAGAAATCCCCACATACTATGCCGCCCAAGCCGCAGATTAAGCCAAAACCCCG---GGTAACCC---AGAAGTTCTCAAGAACATCAGATCTCCGGCGGGATGAGGATTCCGAC---AATC------AGCACAAGATCAACACAGATACCATCATTATCAAGCCAGCCGGC---------GGT------------GCCCAGG------ATGCTGGAGG------GGATGACAAT---CCAGACGAGACGATACTCCGTCGATCGAAGGAGAAGAGGGCTCAGAAGACCGATGCCGA
droBia1	scf7180000299102:208338-208588 -		CCAGTGCCGCCCAAGAAATCGCCACATGCCATGCCGCCCAAGCCGCAGATCAAGCCCAAACCCAG---GGTTACCC---AGAAGTTCTCACGCACATCGGACCTGCGGCAGGAGGAGGACTCTGAA---AACC------AGCACAAGATCAACACGGACACCATCATCATCAAGCCGGCCGGC---------AAT------------GCCCAGG------ATGC------------CGATGACAAT---CCGGACGAGACGATACTGCGCCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGCCGA
droTak1	scf7180000415580:406482-406735 +		CCGGTGCCGCCCAAGAAATCGCCACACACCATGCCGCCCAAGCCGCAGATTAAGCCGAAGCCTCG---CGTAACCC---AGAAGTTCTCACGCACCTCGGACCTTCGCACGGAGGAGGACTCCGAG---AATC------AGCACAAGATCAACACGGACACTATTATTATAAAGCCAGCCGGT---------GGTGGA---------GCCCAGG------ATGC------------CGATGACAAC---CCAGACGAGACCATACTGCGTCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGCCGA
droEle1	scf7180000490967:536990-537249 -		CCAGTGCCGCCCAAGAAATCGCCACATGCCATGCCGCCCAAGCCACAGATCAAGCCCAAACCCCGGAATGTTACCC---AGAAGTTCTCCCGCACCTCGGATCTCCGGCGAGAGGAGGATTCCGAC---AACC------AGCATAAAATCAACACGGACACCATTATTATCAAGCCAGCCGGC---------GGT------------GCCCAGG------ATGCCGGAGC------GGATGACAAT---CCGGATGAGACGATACTGCGCCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGCTGA
droRho1	scf7180000777068:48830-49089 -		CCAGTGCCGCCCAAAAAATCGCCGCACACCATGCCGCCCAAACCGCAGATAAAGCCAAAACCCCGAGGGGTAACCC---AGAAGTTCTCACGCACCTCAGATCTCCGGCGAGAGGAGGACTCCGAT---AACC------AGCACAAAATCAACACAGACACCATCATCATTAAGCCAGCCGGC---------AGT------------GTCCAGG------ATGCCGCAAC------GGATGACAAT---CCGGACGAGACGATACTGCGTCGCTCCAAGGAGAAGCGGGCTCAGAAGACTGATGCCGA
droFic1	scf7180000453796:322575-322834 +		CCAGTGCCGCCCAAGAAATCACCGCATGCCATGCCGCCTAAGCCACAGATCAAGCCCAAACCCCG---GGTAACCC---AGAAGTTCTCACGCACATCGGACCTCCGGCGGGACGAGGACTCCGACAACAACC------AGCACACGATTAACACCGACACTATCATCATCAAGCCAGCCGGC---------GGT------------GCCCAAG------ATGCCGGAGC------GGATGACAAT---CCAGATGAGACGATACTGCGCCGCTCGAAGGAGAAGCGAACCCAGAAGACCGATGCCGA
droKik1	scf7180000302276:492834-493096 -		CCGGTGCCGCCTAAGAAGTCTCCGCACACGATGCCCCCCAAGCCCCAGATCAAGCCCAAGCCCCG---GGTTACCC---AGAAGTTCTCAAGGACCTCCGATCTGCGGCGGGAGGAGGAAGGCGAC---CAGC------AGCACAAAGTCAACACGGATACCATCATCATCAAGCCGGCGACG---------GGAGCA---------GCATTGCATG---CGGACGGCGG------GGACGATAAT---CCGGACGAGACGATACTGCGCCGTTCAAAAGAGAAGCGGGCGCAGAAGACCGATGCCGA
droAna3	scaffold_13340:15629839-15630101 -	dan_3112	CCAGTGCCGCCCAAAAAATCACCCCACGCCATGGCTCCCAAACCGCAAATAAAGCCCAAGCCCCG---GGTAACCC---AGAAGTTCTCGCGCACCTCCGACCTGCGGCGGGACGAGGACGGCGAA---CACC------CGCACAAGGTCAACACAGACACGATCATCATCAAGCCGGCGGCA---------CCC------------GGCCAGCACATAGACGCCGGTGG------CGATGACAAC---CCGGACGAGACGATACTCCGCCGGTCGAAGGAGAAGCGGACGCAGAAAACCGACGCCGA
droBip1	scf7180000396708:4401476-4401738 +		CCAGTGCCGCCCAAGAAGTCACCGCATGCCATGGCCCCCAAGCCGCAAATCAAGCCCAAACCCCG---GGTGACTC---AGAAGTTCTCGCGCGCCTCCGACCTGCGGCGGGAGGAGGACGGCGAA---CAGC------CCCACAAGATTAACACAGACACGATCATCATCAAGCCGGCGGCC---------ACG------------GGCCAGCACATAGACGCCGGAGG------CGACGACAAC---CCGGACGAGACGATACTGCGCCGGTCGAAGGAGAAGCGGACGCAGAAAACCGACGCCGA
dp5	2:22319533-22319783 +		CCAGTGCCGCCCAAAAAGTCCACGCACACGATGCCGCCCAAGCCACAGATCAAGCCAAAGCCCCG---AGTCACCC---AGAAGTTCTCGCGCTCCTCCGACCTGCGACGGGAGGATGAC------------G------ACCACAAGATCAACACAGACACCATCATCATCAAGCCGGCGGCG---------CCG------------GGCCAGC------ATGTCGACGCCTC---CGAGGACAAT---CCCGACGAGACGATACTGCGCCGGTCCAAGGAGAAGCGGGCCCAGAAGACCGATGCCGA
droPer2	scaffold_3:2954601-2954628 -		CCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAAGAAGAAGATGTCCGATGAGGA
droWil2	scf2_1100000004943:8728572-8728834 +	dwi_3383	CCGGTTCCACCTAAAAAGTCAACACACACAATGCCACCAAAGCCGCAGCTTAAGCCAAAGCCACA---AGTAACGC---AAAAATTCTCGCGAAGTTCCGACCTTCGACGTGATAACGGCGACGATGACAATGAGCATGCCCACAAAATCAATACGGATACGATCATAATTAAACCAGCCA-C---------GGC------------ACCCGAA------TCG--GCGAC------AGATGATAAT---CCCGATGAGACTATTCTGCGTCGATCTAAAGAAAAGCGGGCCCAGAAGACCGATTCCGA
droVir3	scaffold_13047:1997281-1997543 -	dvi_21357	CCTGTGCCGCCCAAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAACCGAAACCTTCGAGCGTTATCCAGCAAAAATTCTCACGT------GATCTGCGTAGCCTAGA---TGGTG------AAC------CACACAAGATTAATACAGATACAATTATCATTAAGCCCAACAAT---TTGGGCAGCGCC---------AGTCAGG------AGGGCGGTATCGATGCC---GA---TGCGCCCGAGGAGACCATATTGCGTCGCTCCAAAGAGAAACGGGCACAGAAAACGGATGCAGA
droMoj3	scaffold_6540:22893344-22893609 +	dmo_2029	CCTGTGCCGCCTAAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAGCCCAAACCCGCAAGCATCATTCAACACAAATTATCACGT------GATCTGCGTGGACAGGA---TGGAGAG---CTGC------AGAGCAAGATCAACACTGATACCATAATCATCAAGCCCGCTGCT---GCGGGCAGTGGG---------ACCCAAG------AGGGTGGCATCGATGCC---GA---TGCGCCCGAGGAAACAATTCTGCGTCGCTCGAAGGAGAAGAGGTCCCAGAAAACTGATGCAGA
droGri2	scaffold_14906:8846003-8846268 -		CCTGTGCCGCCCAAGAAATCGCCACATCAATTGCCGCCGAAGCCACAGATCAAGCCAAAGCCATCGAGCGTTATGCCGAACAAATTCTCACGT------GATCTCCGCTCCCTGGA---TGATGAT---AATC------ACAAAACGATCAACACGGACACCATCATCATTAAGGCGGCGCCGGGTGCCGGCAGTCCCGGCCACGATGGTCACG------ATGC------------C---GA---TGCGCCCGATGAGGCGATATTGCGTCGCTCCAAGGAGAAGCGTGCTCAGAAAACCGATGCCGA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSec2

CCAGTACCGCCCAAGAAATCGCCCCACACCATACCGCCCAAACCGCTAATCAAGCCCAAGCCTCG---TGTAACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATGAGGACTCCGAC---AACC------AGCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGC---------GGT------------GCCCAGG------ATG------C------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACTGATGCCGA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
..............................................................................................CTTCGGATATACGTCGAGATGAGG..............................................................................................................................................................................................	24	1	1.00	1	0	1	0	0
...............................................................................................................................................................................................................................................................................GCTCCAAGGAGAAGAGGGCCCAGAAAACT........	29	1	1.00	1	0	0	1	0
................................................................................................................................................................................................................................................................AGACGATACTGCGCCGCT..................................	18	1	1.00	1	0	0	1	0
.............................................................................................ACTTCGGATATACGTCGAGATGAGG..............................................................................................................................................................................................	25	1	1.00	1	0	1	0	0
.............................................................CTCG---TGTAACAC---AGAAGTTCT............................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0
.....................................................................GTAACAC---AGAAGTTCTCACGCA......................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0
.....................................................GCCCAAGCCTCG---TGTAACAC---A....................................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0
.....................................................................................................................................................................................................................................................................ATACTGCGCCGCTCCAAGGAGAAG.......................	24	1	1.00	1	0	1	0	0
......................................................CCCAAGCCTCG---TGTAACA.........................................................................................................................................................................................................................................	18	1	1.00	1	0	0	1	0
..................................................................................................GGATATACGTCGAGATGAGG..............................................................................................................................................................................................	20	1	1.00	1	1	0	0	0
...............................................................................................................................................................................CAGCCGGC---------GGT------------GCCCAGG------ATG------C------GGAT....................................................................	26	1	1.00	1	0	1	0	0
...................................................................................................................AGGACTCCGAC---AACC------AGCACA...................................................................................................................................................................	21	1	1.00	1	0	0	1	0
........................................................................................CACGCACTTCGGATATACGTC.......................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0
............................................................................................................................................................................AGCCAGCCGGC---------GGT------------GCCCAGG------ATG------C------GGAT....................................................................	29	1	1.00	1	0	0	1	0

droSim2

CCAGTACCGCCCAAGAAATCGCCCCACACCATACCGCCCAAACCGCAAATCAAGCCCAAGCCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATGAGGACTCCGAC---AACC------AGCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGC---------GGT------------GCCCAGG------ATG------C------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACCGATGCCGA	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
....................................................................................................ATATACGTCGAGATGAGGACTCC.........................................................................................................................................................................................	23	1	2.00	2	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................GAGGACTCCGAC---AACC------AGCACAAGGT...............................................................................................................................................................	26	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................CGAGATGAGGACTCCGAC---AACC------AGC......................................................................................................................................................................	25	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................CACTTCGGATATACGTCGAG....................................................................................................................................................................................................	20	1	2.00	2	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................TCAAGCCCAAGCCTCG---TGTCACAC---AGA..................................................................................................................................................................................................................................	27	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0
...............................................................................................TTCGGATATACGTCGAGATGAGGA.............................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................CGCACTTCGGATATACGTCGAGATGA................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
..................................................................................................GGATATACGTCGAGATGAGGA.............................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................TGCGCCGCTCCAAGGAGAAGAGGGC..................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..................................................................................................................GAGGACTCCGAC---AACC------AG.......................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................GCACTTCGGATATACGTCGAG....................................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................C---AACC------AGCACAAGGTCAACACGG.......................................................................................................................................................	23	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................ACC------AGCACAAGGTCAACACG........................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................C---AACC------AGCACAAGGTCAACACGGACAC...................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................CCTCG---TGTCACAC---AGAA.................................................................................................................................................................................................................................	17	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................TGAGGACTCCGAC---AACC------AGCACAAGG................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
.......................................................................................................TACGTCGAGATGAGGACTCCGAC---AACC------AG.......................................................................................................................................................................	29	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................GGATATACGTCGAGATGAGGACTCC.........................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................GTCACAC---AGAAGTTCTCACGC.......................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................ATGAGGACTCCGAC---AACC------AGC......................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................GATATACGTCGAGATGAGGA.............................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................ACAAGGTCAACACGGACACAATCATCAT..........................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TATACGTCGAGATGAGGA.............................................................................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................GAGATGAGGACTCCGAC---AACC------.........................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................GAGGACTCCGAC---AACC------AGCA.....................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................AACACGGACACAATCATC............................................................................................................................................	18	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..AGTACCGCCCAAGAAA..................................................................................................................................................................................................................................................................................................	16	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.....................................................................GTCACAC---AGAAGTTCTCAC.........................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................AGATGAGGACTCCGAC---AACC------AG.......................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................GATGAGGACTCCGAC---AACC------AGCA.....................................................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................ATATACGTCGAGATGAGGACT...........................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................GATGAGGACTCCGAC---AACC------AGC......................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................ACGGACACAATCATCAA..........................................................................................................................................	17	3	0.33	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0

dm3

CCAGTACCGCCCAAGAAATCGCCCCACACCATACCGCCCAAACCGCAAATCAAGCCCAAACCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATGAGGACTCCGAC---AACC------AGCACAAGATCAACACAGACACAATCATCATCAAGCCAGCCGTA---------GGG------------GCCCAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACCGATGCCGA	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
...........................................................................................................................................................................................................................................................................CGCCGCTCCAAGGAGAAGAGGGC..................	23	1	8.00	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................GATATACGTCGAGATGAGGACT...........................................................................................................................................................................................	22	1	8.00	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................GTCGAGATGAGGACTCCGAC---AACC------.........................................................................................................................................................................	24	1	7.00	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	7
...............................................................................................TTCGGATATACGTCGAGATGAGGAC............................................................................................................................................................................................	25	1	7.00	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	3	0	0	0	0	2	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
.....................................................................GTCACAC---AGAAGTTCTCACGC.......................................................................................................................................................................................................................	21	1	6.00	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................G------------GCCCAGG------ATGCTGGAGC------GGAT....................................................................	22	1	5.00	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5
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........................................................................................................................................................................................................................................................................CTGCGCCGCTCCAAGGAGAAGAG.....................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................TCCAAGGAGAAGAGGGCC.................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................CACAATCATCATCAAGCCA...................................................................................................................................	19	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.............................................................................................................GAGATGAGGACTCCGAC---G..................................................................................................................................................................................	18	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droEre2

CCAGTACCGCCAAAAAAGTCGCCCCACACCATACCGCCCAAGCCGCAAATCAAGCCAAAGCCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGGGATGAGGACTCCGAC---AACC------AGCACAAGGTCAACACGGACACCATCATCATCAAGCCAGCCGGC---------GGG------------GCACAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGTTCCAAGGAGAAGAGAACACAAAAGACCGACGCCGA	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
..............................................AAATCAAGCCAAAGCCTCG---T...............................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0	0
...................................................................................................................................................................................................................AGG------ATGCTGGAGC------GGATGATAAT---...........................................................	23	1	1.00	1	0	0	0	0	1	0	0
...............................................................................................................................................................................................................................................................................GTTCCAAGGAGAAGAGAACAC................	21	1	1.00	1	0	0	0	0	1	0	0
....................................................................................................................................................................................................................................................AT---CCCGACGAGACGATACTGCGCCGTT..................................	27	1	1.00	1	0	1	0	0	0	0	0
..................................................................................................................................................GGTCAACACGGACACCATCATCATCA........................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0
......................................CAAGCCGCAAATCAAGCCAAAGCCT.....................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGA...........................	21	1	1.00	1	0	0	0	0	1	0	0
............................................................................................................................................................................................................................................................................GCCGTTCCAAGGAGAAGAGA....................	20	1	1.00	1	0	0	0	0	1	0	0
...................................................AAGCCAAAGCCTCG---TGTCACAC---AGA..................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1	0	0
............................................GCAAATCAAGCCAAAGCCTCG---T...............................................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................TCCAAGGAGAAGAGAACACAAAA............	23	1	1.00	1	0	0	0	0	0	1	0
.....................................................................GTCACAC---AGAAGTTCTCACGCACTT...................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................................ATACTGCGCCGTTCCAAGGAGAAGA......................	25	1	1.00	1	0	0	0	0	0	1	0
.....................................................................................................................GACTCCGAC---AACC------AGCACA...................................................................................................................................................................	19	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................GCACTTCGGATATACGTCGGGATGAG...............................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1	0
......................................................................................................ATACGTCGGGATGAGGACTCCGAC---AAC................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	1	0	0
.............................................................................................................................................................................................................................................GATGATAAT---CCCGACGAGAC................................................	20	1	1.00	1	0	0	0	0	1	0	0
.............................................................................................................................................................................GCCAGCCGGC---------GGG------------GCACAGG------A.......................................................................................	21	1	1.00	1	0	0	0	0	1	0	0
...................................................AAGCCAAAGCCTCG---TGTCACAC---.....................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	1	0	0
.......................................................................................................................................................................CATCAAGCCAGCCGGC---------GG..................................................................................................................	18	1	1.00	1	1	0	0	0	0	0	0
...........................................................................................................TCGGGATGAGGACTCCGAC---AACC------AGCA.....................................................................................................................................................................	27	1	1.00	1	1	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................ATACTGCGCCGTTCCAAGGAGAAG.......................	24	1	1.00	1	0	0	0	0	1	0	0
.............................................................................................................................C---AACC------AGCACAAGGTCAACACGGACACC..................................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0	0
....................................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGAGAA........................	24	1	1.00	1	0	0	0	0	1	0	0
.....................................................................GTCACAC---AGAAGTTCTCACGCA......................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1	0
..................................................................................................GGATATACGTCGGGATGAGGACTCC.........................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0	0
......................................................................................CTCACGCACTTCGGATATACGTCGG.....................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1	0	0
.................................................................................................................................................................................GCCGGC---------GGG------------GCACAGG------ATGCTGGAGC------GGA.....................................................................	29	1	1.00	1	0	0	0	0	1	0	0
........................................................................ACAC---AGAAGTTCTCACGCAC.....................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0
.....................................................................................................................................................CAACACGGACACCATCATC............................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1	0
....................................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGAG..........................	22	1	1.00	1	0	0	0	0	1	0	0
.................................................................................................................................................................................................................................................................GACGATACTGCGCCGTTCCAAGGA...........................	24	1	1.00	1	1	0	0	0	0	0	0
................................................................................................................................................................................................GGG------------GCACAGG------ATGCTGGAGC------GGA.....................................................................	23	1	1.00	1	0	0	0	0	1	0	0
................................................................G---TGTCACAC---AGAAGTTCTCACGCA......................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	1	0	0	0
.....................................................GCCAAAGCCTCG---TGTCACAC---AGAAGT...............................................................................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................ATACTGCGCCGTTCCAAGGA...........................	20	1	1.00	1	0	0	0	0	1	0	0

droYak3

CCAGTACCGCCCAAGAAGTCACCCCACACCATACCGCCCAAGCCGCAAATCAAGCCCAAACCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATTCGTCGCGATGAGGACTCCGAC---AACC------AGCACAAGATCAATACGGACACCATCATCATCAAGCCTGCCGGC---------GGT------------GCCCAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGTTCCAAGGAAAAGAGGACCCAAAAGACCGACGCCGA	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
........................................................................................CACGCACTTCGGATATTCGTCGCG....................................................................................................................................................................................................	24	1	21.00	21	0	0	0	0	0	0	0	0	0	0	21
.................................................................................................................................................................CATCATCATCAAGCCTGCCGGC---------GGT------------.....................................................................................................	25	1	2.00	2	0	1	0	0	0	0	1	0	0	0	0
.......................................................................................................................................................................CATCAAGCCTGCCGGC---------GGT------------.....................................................................................................	19	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0
........................................................................................CACGCACTTCGGATATTCGTCGC.....................................................................................................................................................................................................	23	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................GAC---AACC------AGCACAAGATCAATACGGACAC...................................................................................................................................................	29	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
........................................................CAAACCTCG---TGTCACAC---AGA..................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................GCCGTTCCAAGGAAAAGAG.....................	19	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0
...................................................................................GTTCTCACGCACTTCGGA...............................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0
.................................................................................................CGGATATTCGTCGCGATGAGGACTCC.........................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.................GTCACCCCACACCATACCGCC..............................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
...................................................................................................GATATTCGTCGCGATGAGGA.............................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................................GGAAAAGAGGACCCAAAAGACCG.......	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................CGCCGTTCCAAGGAAAAGAG.....................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................AATACGGACACCATCATCATC.........................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................AAAGAGGACCCAAAAGACCGA......	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
....................................................................................................ATATTCGTCGCGATGAGGACTCCGA.......................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
............................................................................................................CGCGATGAGGACTCCGAC---AACC------AGC......................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
....................................................................................................ATATTCGTCGCGATGAGGA.............................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...............................................................................................................................................................ACCATCATCATCAAGCCTGCCGGC---------GGT------------.....................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................CGCACTTCGGATATTCGTCGCGATG.................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
........................................................................................................................................................................................................................................................................................AAAAGAGGACCCAAAAGACC........	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................GCCCAGG------ATGCTGGAGC------GGATG...................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................GATAAT---CCCGACGAGACGATACTGCGC......................................	27	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...................................................................................................................................................................TCATCATCAAGCCTGCCGGC---------GGT------------.....................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGAAAAGAG.....................	27	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
............................................................................................................................................GCACAAGATCAATACGGACACCATC...............................................................................................................................................	25	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................CGAGACGATACTGCGCCGT...................................	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
................................................................................................................ATGAGGACTCCGAC---AACC------AGC......................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................AT---CCCGACGAGACGATACTGCGC......................................	23	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.............................................................................................................................................CACAAGATCAATACGGACACCA.................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...............................................................................................................................................................................................................................................................................GTTCCAAGGAAAAGAGGACCCAAAAGAC.........	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...................................................................................GTTCTCACGCACTTCGGATATTCGTCGC.....................................................................................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................GCTGGAGC------GGATGATAAT---CCCGACG....................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
....................................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGAAA.........................	23	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0

droEug1

CCAGTACCGCCCAAGAAATCCCCACATACTATGCCGCCCAAGCCGCAGATTAAGCCAAAACCCCG---GGTAACCC---AGAAGTTCTCAAGAACATCAGATCTCCGGCGGGATGAGGATTCCGAC---AATC------AGCACAAGATCAACACAGATACCATCATTATCAAGCCAGCCGGC---------GGT------------GCCCAGG------ATGCTGGAGG------GGATGACAAT---CCAGACGAGACGATACTCCGTCGATCGAAGGAGAAGAGGGCTCAGAAGACCGATGCCGA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CCAGTGCCGCCCAAGAAATCGCCACATGCCATGCCGCCCAAGCCGCAGATCAAGCCCAAACCCAG---GGTTACCC---AGAAGTTCTCACGCACATCGGACCTGCGGCAGGAGGAGGACTCTGAA---AACC------AGCACAAGATCAACACGGACACCATCATCATCAAGCCGGCCGGC---------AAT------------GCCCAGG------ATGC------------CGATGACAAT---CCGGACGAGACGATACTGCGCCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGCCGA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CCGGTGCCGCCCAAGAAATCGCCACACACCATGCCGCCCAAGCCGCAGATTAAGCCGAAGCCTCG---CGTAACCC---AGAAGTTCTCACGCACCTCGGACCTTCGCACGGAGGAGGACTCCGAG---AATC------AGCACAAGATCAACACGGACACTATTATTATAAAGCCAGCCGGT---------GGTGGA---------GCCCAGG------ATGC------------CGATGACAAC---CCAGACGAGACCATACTGCGTCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGCCGA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

CCAGTGCCGCCCAAGAAATCGCCACATGCCATGCCGCCCAAGCCACAGATCAAGCCCAAACCCCGGAATGTTACCC---AGAAGTTCTCCCGCACCTCGGATCTCCGGCGAGAGGAGGATTCCGAC---AACC------AGCATAAAATCAACACGGACACCATTATTATCAAGCCAGCCGGC---------GGT------------GCCCAGG------ATGCCGGAGC------GGATGACAAT---CCGGATGAGACGATACTGCGCCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGCTGA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CCAGTGCCGCCCAAAAAATCGCCGCACACCATGCCGCCCAAACCGCAGATAAAGCCAAAACCCCGAGGGGTAACCC---AGAAGTTCTCACGCACCTCAGATCTCCGGCGAGAGGAGGACTCCGAT---AACC------AGCACAAAATCAACACAGACACCATCATCATTAAGCCAGCCGGC---------AGT------------GTCCAGG------ATGCCGCAAC------GGATGACAAT---CCGGACGAGACGATACTGCGTCGCTCCAAGGAGAAGCGGGCTCAGAAGACTGATGCCGA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CCAGTGCCGCCCAAGAAATCACCGCATGCCATGCCGCCTAAGCCACAGATCAAGCCCAAACCCCG---GGTAACCC---AGAAGTTCTCACGCACATCGGACCTCCGGCGGGACGAGGACTCCGACAACAACC------AGCACACGATTAACACCGACACTATCATCATCAAGCCAGCCGGC---------GGT------------GCCCAAG------ATGCCGGAGC------GGATGACAAT---CCAGATGAGACGATACTGCGCCGCTCGAAGGAGAAGCGAACCCAGAAGACCGATGCCGA	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CCGGTGCCGCCTAAGAAGTCTCCGCACACGATGCCCCCCAAGCCCCAGATCAAGCCCAAGCCCCG---GGTTACCC---AGAAGTTCTCAAGGACCTCCGATCTGCGGCGGGAGGAGGAAGGCGAC---CAGC------AGCACAAAGTCAACACGGATACCATCATCATCAAGCCGGCGACG---------GGAGCA---------GCATTGCATG---CGGACGGCGG------GGACGATAAT---CCGGACGAGACGATACTGCGCCGTTCAAAAGAGAAGCGGGCGCAGAAGACCGATGCCGA	Size	Hit Count	Total Norm	Total
No Reads

droAna3

CCAGTGCCGCCCAAAAAATCACCCCACGCCATGGCTCCCAAACCGCAAATAAAGCCCAAGCCCCG---GGTAACCC---AGAAGTTCTCGCGCACCTCCGACCTGCGGCGGGACGAGGACGGCGAA---CACC------CGCACAAGGTCAACACAGACACGATCATCATCAAGCCGGCGGCA---------CCC------------GGCCAGCACATAGACGCCGGTGG------CGATGACAAC---CCGGACGAGACGATACTCCGCCGGTCGAAGGAGAAGCGGACGCAGAAAACCGACGCCGA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.................................................................................................................................................................GATCATCATCAAGCCGGC.................................................................................................................................	18	1	2.00	2	0	2	0	0	0	0
...............................................................CG---GGTAACCC---AGAAGTTCTCGCGCACCTC..................................................................................................................................................................................................................	29	1	1.00	1	0	1	0	0	0	0
..................................................................................................................................................................................................................CAGCACATAGACGCCGGTGG------T.......................................................................	21	1	1.00	1	0	1	0	0	0	0
........................CACGCCATGGCTCCCAAACC........................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................CACATAGACGCCGGTGG------CGAT....................................................................	21	1	1.00	1	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................................GGAGAAGCGGACGCAGAA............	18	1	1.00	1	0	1	0	0	0	0
.......................................................................AACCC---AGAAGTTCTCGCGCAC.....................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................................................GACGATACTCCGCCGGTCGAAGGA...........................	24	1	1.00	1	0	1	0	0	0	0
..............................................................................................................................................................................................................................................................CGAGACGATACTCCGCCGGT..................................	20	1	1.00	1	0	0	0	0	0	1
.................ATCACCCCACGCCATGGCTCC..............................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
............................................................................................................................................................GACACGATCATCATCAAGCC....................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0
.......................................AAACCGCAAATAAAGCCCAAGCCC.....................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0
.......................CCACGCCATGGCTCCCAAACCGC......................................................................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0
............................................................................................................................................................GACACGATCATCATCAAGCCG...................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
...............................................................................................................................................................................................................GGCCAGCACATAGACGCCGGTGG------C.......................................................................	24	1	1.00	1	0	1	0	0	0	0
....................................................................................................................................................................................................................GCACATAGACGCCGGTGG------C.......................................................................	19	1	1.00	1	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................CGATACTCCGCCGGTCGAAGGAG..........................	23	1	1.00	1	0	0	1	0	0	0
...............................................................................AGAAGTTCTCGCGCACCTCC.................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................................GACGAGACGATACTCCGCC.....................................	19	1	1.00	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................................................GACGATACTCCGCCGGTCGAAGG............................	23	1	1.00	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................GGTGG------CGATGACAAC---CCGGACGA...................................................	23	1	1.00	1	1	0	0	0	0	0
...................................................................................................................................................................................................................AGCACATAGACGCCGGTGG------C.......................................................................	20	1	1.00	1	0	1	0	0	0	0

droBip1

CCAGTGCCGCCCAAGAAGTCACCGCATGCCATGGCCCCCAAGCCGCAAATCAAGCCCAAACCCCG---GGTGACTC---AGAAGTTCTCGCGCGCCTCCGACCTGCGGCGGGAGGAGGACGGCGAA---CAGC------CCCACAAGATTAACACAGACACGATCATCATCAAGCCGGCGGCC---------ACG------------GGCCAGCACATAGACGCCGGAGG------CGACGACAAC---CCGGACGAGACGATACTGCGCCGGTCGAAGGAGAAGCGGACGCAGAAAACCGACGCCGA	Size	Hit Count	Total Norm	Total
No Reads

dp5

CCAGTGCCGCCCAAAAAGTCCACGCACACGATGCCGCCCAAGCCACAGATCAAGCCAAAGCCCCG---AGTCACCC---AGAAGTTCTCGCGCTCCTCCGACCTGCGACGGGAGGATGAC------------G------ACCACAAGATCAACACAGACACCATCATCATCAAGCCGGCGGCG---------CCG------------GGCCAGC------ATGTCGACGCCTC---CGAGGACAAT---CCCGACGAGACGATACTGCGCCGGTCCAAGGAGAAGCGGGCCCAGAAGACCGATGCCGA	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
........................................................................................CGCGCTCCTCCGACCTGCGAC.......................................................................................................................................................................................................	21	1	2.00	2	0	2	0	0	0	0	0	0	0	0
...........................................................................................................................................................................AAGCCGGCGGCG---------CCG------------GGCCAGC------........................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................................GCCCAAGCCACAGATCAAGCCAA..........................................................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................ACAAGATCAACACAGACACCAC................................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0
...................................GCCCAAGCCACAGATCAAGC.............................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................TGAC------------G------ACCACAAGATCAACA..........................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................ATCATCATCAAGCCGGCGGC..............................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................GGTCCAAGGAGAAGCGGGCCCA...............	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................TCAACACAGACACCATCATC............................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................ACTGCGCCGGTCCAAGGA...........................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................GACAAT---CCCGACGAGACG...............................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................ATACTGCGCCGGTCCAAGGA...........................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................CAAGCCGGCGGCG---------CCG------------GGCCAGC------ATGT....................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0

droPer2

CCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAAGAAGAAGATGTCCGATGAGGA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
CCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAAGAAGAAGATGTCCGATGAG..	26	1	1.00	1	0	1	0	0	0	0

droWil2

CCGGTTCCACCTAAAAAGTCAACACACACAATGCCACCAAAGCCGCAGCTTAAGCCAAAGCCACA---AGTAACGC---AAAAATTCTCGCGAAGTTCCGACCTTCGACGTGATAACGGCGACGATGACAATGAGCATGCCCACAAAATCAATACGGATACGATCATAATTAAACCAGCCA-C---------GGC------------ACCCGAA------TCG--GCGAC------AGATGATAAT---CCCGATGAGACTATTCTGCGTCGATCTAAAGAAAAGCGGGCCCAGAAGACCGATTCCGA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
........................................................................................................................GACGATGACAATGAGCATGC........................................................................................................................................................................	20	1	2.00	2	0	0	2	0	0
....................................................................................................................................................................................................................................................AT---CCCGATGAGACTATTCTGCGTC.....................................	24	1	2.00	2	0	2	0	0	0
.........................................................................................................................................................................................................................................................................TGCGTCGATCTAAAGAAAAGC......................	21	1	1.00	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................GATCTAAAGAAAAGCGGGCCCAGAAG...........	26	1	1.00	1	0	1	0	0	0
...................................................................................................GACCTTCGACGTGATAACGGCGACGAT......................................................................................................................................................................................	27	1	1.00	1	0	0	1	0	0
.................................................TTAAGCCAAAGCCACA---AGT.............................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0
....................................................................................................................................................................................................................................................AT---CCCGATGAGACTATTCT..........................................	19	1	1.00	1	0	0	0	1	0
..............................................................................................................................................................TACGATCATAATTAAACCAGC.................................................................................................................................	21	1	1.00	1	0	1	0	0	0
............................................................................................................................................................................................................................................................................GTCGATCTAAAGAAAAGCGGGC..................	22	1	1.00	1	0	0	1	0	0
.....................................................................................................................................................................................................................................................................ATTCTGCGTCGATCTAAAGA...........................	20	1	1.00	1	0	1	0	0	0
...................................................................................................................................................ATCAATACGGATACGATCAT.............................................................................................................................................	20	1	1.00	1	0	0	0	1	0
..................................................................................................................AACGGCGACGATGACAATGAGCATGC........................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0
........................................................AAAGCCACA---AGTAACGC---AAA..................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1
.......................................................................................................................................................ATACGGATACGATCATAATT.........................................................................................................................................	20	1	1.00	1	1	0	0	0	0
.....................................................................................................................................................CAATACGGATACGATCATA............................................................................................................................................	19	1	1.00	1	0	1	0	0	0
.........................................................................................................................................................................................................................................................CCCGATGAGACTATTCTGCGT......................................	21	1	1.00	1	0	0	0	1	0
...................................................................................................................................................................................................................................GAC------AGATGATAAT---CCCGAT.....................................................	19	1	1.00	1	0	0	0	0	1
...............................................................................................................................................................................................................................................................................GATCTAAAGAAAAGCGGGCCCAG..............	23	1	1.00	1	1	0	0	0	0
.............................................................................................................GTGATAACGGCGACGATG.....................................................................................................................................................................................	18	1	1.00	1	0	0	1	0	0
............................................................................................................CGTGATAACGGCGACGATG.....................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0
............................................................................................................................................................................................................................................................................GTCGATCTAAAGAAAAGCG.....................	19	1	1.00	1	1	0	0	0	0
................................................................................................................ATAACGGCGACGATGACAAT................................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0
..............................................................................................................................................................................................................................................ATGATAAT---CCCGATGAGACT...............................................	20	1	1.00	1	0	0	1	0	0
................................................................................................................................................................................................................................................................................ATCTAAAGAAAAGCGGGCCCAGA.............	23	1	1.00	1	0	0	1	0	0
..................................................TAAGCCAAAGCCACA---AGT.............................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
..............................................................................................................................GACAATGAGCATGCCCACAAAATCAATA..........................................................................................................................................................	28	1	1.00	1	0	1	0	0	0
..............................................................................................................................................ACAAAATCAATACGGATACGATCATA............................................................................................................................................	26	1	1.00	1	0	0	0	1	0
............................................................................................................................................................................................................................................................................GTCGATCTAAAGAAAAGCGGGCCCAGA.............	27	1	1.00	1	1	0	0	0	0
.............................................................................................AGTTCCGACCTTCGACGT.....................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
..................................................................................................................................................................................................C------------ACCCGAA------TCG--GCGAC------AGATGATA................................................................	24	1	1.00	1	0	1	0	0	0
.......CACCTAAAAAGTCAACACACACAATGC..................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0
.....................................................................................................................GGCGACGATGACAATGAGCAT..........................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0
.............................................................................................................GTGATAACGGCGACGATGACA..................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0
................................................................................................................ATAACGGCGACGATGACAATGAGC............................................................................................................................................................................	24	1	1.00	1	0	0	0	1	0
....................................................................................................................................................................................................................................................AT---CCCGATGAGACTATTCTGC........................................	21	1	1.00	1	0	0	0	1	0
.............................................................................................................................................................................................................................................GATGATAAT---CCCGATGAGACT...............................................	21	1	1.00	1	0	0	1	0	0
..........CTAAAAAGTCAACACACACAATG...................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	1	0
............................................................................................................................ATGACAATGAGCATGCCCACAAA.................................................................................................................................................................	23	1	1.00	1	0	0	0	1	0
...........................................CGCAGCTTAAGCCAAAGC.......................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
...................................................................................................................................................................................CA-C---------GGC------------ACCCGAA------TCG--GCGAC------AGAT....................................................................	25	1	1.00	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................GATCTAAAGAAAAGCGGGCCCAGA.............	24	1	1.00	1	0	0	0	1	0

droVir3

CCTGTGCCGCCCAAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAACCGAAACCTTCGAGCGTTATCCAGCAAAAATTCTCACGT------GATCTGCGTAGCCTAGA---TGGTG------AAC------CACACAAGATTAATACAGATACAATTATCATTAAGCCCAACAAT---TTGGGCAGCGCC---------AGTCAGG------AGGGCGGTATCGATGCC---GA---TGCGCCCGAGGAGACCATATTGCGTCGCTCCAAAGAGAAACGGGCACAGAAAACGGATGCAGA	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
.......................................................................................................................................................................................................................................GATGCC---GA---TGCGCCCGAGGA...................................................	20	1	4.00	4	0	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................AGCGCC---------AGTCAGG------AGGGC...................................................................................	18	1	3.00	3	0	0	2	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
................................................................................................................................................................................................AGCGCC---------AGTCAGG------AGGGCGGTATC.............................................................................	24	1	2.00	2	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	1	0
...................................................................................................GATCTGCGTAGCCTAGA---TGGT.........................................................................................................................................................................................	21	1	2.00	2	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	1	0	0	0
................................................................................................................................................................................................AGCGCC---------AGTCAGG------AGGGCGGT................................................................................	21	1	2.00	2	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	1	0	0	0
.........................................................................................................................................................................................................................................................................................GAAACGGGCACAGAAAACGGATGCA..	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................GTCGCTCCAAAGAGAAACGG....................	20	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
........................................................................................................................................................................................................................................ATGCC---GA---TGCGCCCGAGGAGA.................................................	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	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
.........................................................AAACCTTCGAGCGTTATCCAGC.....................................................................................................................................................................................................................................	22	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
...............................................................................................................................................................................................................................GCGGTATCGATGCC---GA---TGCGCC.........................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................T------GATCTGCGTAGCCTAGA---.............................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................GCAGCGCC---------AGTCAGG------AGGGC...................................................................................	20	1	1.00	1	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
.......................................................................................................................TGGTG------AAC------CACACAAGATTAAT...........................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................AAATTCTCACGT------GATCTGCGTAGC.....................................................................................................................................................................................................	24	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
......................................................................................................................................................................................................................................CGATGCC---GA---TGCGCCCGAGGAGA.................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
....................................................................................................................................................................TATCATTAAGCCCAACAAT---TTGGGC....................................................................................................................	25	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................T------GATCTGCGTAGCCTAGA---TGGTG------AAC------.........................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................G------AAC------CACACAAGATTAATACAGAT.....................................................................................................................................................	24	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
..........................................................................................................................................................................................................................................................................................AAACGGGCACAGAAAACG........	18	1	1.00	1	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
.....................................................................GTTATCCAGCAAAAATTCTCACGT------.................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................CTCACGT------GATCTGCGTAGCCTA..................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................TCGATGCC---GA---TGCGCCCGAGGAGAC................................................	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
..............................................AAATCAAACCGAAACCTTCGAGC...............................................................................................................................................................................................................................................	23	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
..........................................................AACCTTCGAGCGTTATCCAGC.....................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................AGCGCC---------AGTCAGG------AGGGCGGTATCGATGC........................................................................	29	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
.........................................................................TCCAGCAAAAATTCTCACGT------GATC.............................................................................................................................................................................................................	24	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
.....................................................................................................................................................................................................................................................................................AAGAGAAACGGGCACAGAAAACGGAC.....	26	1	1.00	1	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
.............................................................CTTCGAGCGTTATCCAGCA....................................................................................................................................................................................................................................	19	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	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
..................................................................................................................................................................................................................CAGG------AGGGCGGTATCGATGCC---GA---T..............................................................	24	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
.............................................................................................................................................................................................................................................................AGGAGACCATATTGCGTCGCTCC................................	23	1	1.00	1	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
.....................................................................................................................................................................................................................................TCGATGCC---GA---TGCGCCCGAGGA...................................................	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
........................................................................ATCCAGCAAAAATTCTCACGT------.................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................AGG------AGGGCGGTATCGATGCC---GA---T..............................................................	23	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	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
.................................................................................................................................................................................................................................................................GACCATATTGCGTCGCTCCA...............................	20	1	1.00	1	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
.........................................................AAACCTTCGAGCGTTATCCAG......................................................................................................................................................................................................................................	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	1	0
........................................................GAAACCTTCGAGCGTTATCCAGCA....................................................................................................................................................................................................................................	24	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
.......................................................CGAAACCTTCGAGCGTTATCC........................................................................................................................................................................................................................................	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	1	0	0	0
...........................................CACAAATCAAACCGAAACCTTCGAGC...............................................................................................................................................................................................................................................	26	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

droMoj3

CCTGTGCCGCCTAAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAGCCCAAACCCGCAAGCATCATTCAACACAAATTATCACGT------GATCTGCGTGGACAGGA---TGGAGAG---CTGC------AGAGCAAGATCAACACTGATACCATAATCATCAAGCCCGCTGCT---GCGGGCAGTGGG---------ACCCAAG------AGGGTGGCATCGATGCC---GA---TGCGCCCGAGGAAACAATTCTGCGTCGCTCGAAGGAGAAGAGGTCCCAGAAAACTGATGCAGA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..............................................................................................................................................................................................GCAGTGGG---------ACCCAAG------AGGGTGGCAT..............................................................................	25	1	3.00	3	1	0	0	0	0	2
.............................................................................................................GACAGGA---TGGAGAG---CTGC------.........................................................................................................................................................................	18	1	2.00	2	2	0	0	0	0	0
.........................................................................................................................GAGAG---CTGC------AGAGCAAGAT...............................................................................................................................................................	19	1	2.00	2	0	0	0	0	0	2
.................................................................................................................GGA---TGGAGAG---CTGC------AGAGCAA..................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	1
..............................................................................................................................................................................................GCAGTGGG---------ACCCAAG------AGGGTGGC................................................................................	23	1	1.00	1	0	0	0	0	0	1
...........................................................................................GT------GATCTGCGTGGACAGGA---TGGAGAG---CT.................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	1
...............................................................................................................................................................................................................ACCCAAG------AGGGTGGCATC.............................................................................	18	1	1.00	1	1	0	0	0	0	0
.................................................................................................................................................................................GCTGCT---GCGGGCAGTGGG---------AC...................................................................................................	20	1	1.00	1	1	0	0	0	0	0
............................................................................................................GGACAGGA---TGGAGAG---CTGC------AGAG.....................................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0
....................................................................................................................................................................................................................................ATCGATGCC---GA---TGCGCCCGAGG....................................................	22	1	1.00	1	1	0	0	0	0	0
................................................................................................................AGGA---TGGAGAG---CTGC------AGAGCAAGAT...............................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	1
............................................................................................................GGACAGGA---TGGAGAG---CTGC------.........................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
............AAGAAATCGCCACATCAACT....................................................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0
.......................................................................................................................................................................................................................................GATGCC---GA---TGCGCCCGAGGAAAC................................................	23	1	1.00	1	0	0	0	0	0	1
........................................................................................................................GGAGAG---CTGC------AGAGCAAGATCA.............................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
.............................................................................................................................................................................................GGCAGTGGG---------ACCCAAG------AGGGTGGC................................................................................	24	1	1.00	1	1	0	0	0	0	0
.................................................................................................................................CTGC------AGAGCAAGATCAACACTGATAC...................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1
......................................................................................................................................................................................................................................CGATGCC---GA---TGCGCCCGAGGAAAC................................................	24	1	1.00	1	0	0	0	0	0	1
.................................................................................................................................................................................GCTGCT---GCGGGCAGTGGG---------ACCC.................................................................................................	22	1	1.00	1	0	0	0	0	1	0
...............................................................................................................................................................................................CAGTGGG---------ACCCAAG------AGGGTGGCAT..............................................................................	24	1	1.00	1	1	0	0	0	0	0
.............................................................................................................................G---CTGC------AGAGCAAGATCAACACT........................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
........................CATCAACTGCCGCCCAAGCCA.......................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
...........................................................................................GT------GATCTGCGTGGACAGGA---TGGAGAG---C..................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	1
...................................................................................................................A---TGGAGAG---CTGC------AGAGCAAGAT...............................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1
..................................................................................................................................TGC------AGAGCAAGATCAACACTGAT.....................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
......................................................................................................CTGCGTGGACAGGA---TGGAGAG---C..................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1
................................................ATCAAGCCCAAACCCGCAAG................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0

droGri2

CCTGTGCCGCCCAAGAAATCGCCACATCAATTGCCGCCGAAGCCACAGATCAAGCCAAAGCCATCGAGCGTTATGCCGAACAAATTCTCACGT------GATCTCCGCTCCCTGGA---TGATGAT---AATC------ACAAAACGATCAACACGGACACCATCATCATTAAGGCGGCGCCGGGTGCCGGCAGTCCCGGCCACGATGGTCACG------ATGC------------C---GA---TGCGCCCGATGAGGCGATATTGCGTCGCTCCAAGGAGAAGCGTGCTCAGAAAACCGATGCCGA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
....................................................................................................................................................................................................................................................................................AAGGAGAAGCGTGCTCAGAAAACC........	24	1	1.00	1	1	0
............................................................CCATCGAGCGTTATGCCGAACAAATT..............................................................................................................................................................................................................................	26	1	1.00	1	1	0
..................................................................................................................................................................................................................................................................................CCAAGGAGAAGCGTGCTCA...............	19	1	1.00	1	0	1
..................................................................................................................................................................................................................................................................................CCAAGGAGAAGCGTGCTCAGAAAAC.........	25	1	1.00	1	1	0

dse_797

scaffold_12:1869268-1869418 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads