der_81

CAAGGGCTAGCCCGCGTAAGGTGTATAGATGATGTAAACTGGCCTGTCCCTGGGCAAACTCCCAATGATGCGGTGTACATAGAATCCCGATCCTTGGGCTTCTGCCCACGGGCAAGGACAGTAGTGCCCGCGAAGGGCCCAATGTTTGTTAACTCCTTTAG *********************************..((((.(((((((.((((((....(((((.(((.(((.((.......)).)))))).)))))....)))))).)))).))).))))...**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V108 head	M055 female body	V040 embryo	V107 male body	V060 head
..................................................TGGGCAAACTCCCAATGATGCGG........................................................................................	23	0	1	52.00	52	33	16	1	2	0
..................................................TGGGCAGACTCCCAATGATGCGG........................................................................................	23	1	1	8.00	8	4	3	0	0	1
..................................................TGGGCAAACTCCCAATGATGCG.........................................................................................	22	0	1	7.00	7	5	2	0	0	0
........................................................................................GATCCTTGGGCTTCTGCCCACG...................................................	22	0	1	5.00	5	2	1	2	0	0
..................................................TGGGCAAACTCCCAATGCTGCGG........................................................................................	23	1	1	2.00	2	0	2	0	0	0
..................................................TGGGCAAACTCCCAATGATCCGG........................................................................................	23	1	1	2.00	2	0	2	0	0	0
.................................................CTGGGCAAACTCCCAATGATGCG.........................................................................................	23	0	1	2.00	2	2	0	0	0	0
...................................................GGGCAAACTCCCAATGATGCGG........................................................................................	22	0	1	2.00	2	0	2	0	0	0
..................................................TGGGCAAACTCACAATGATGCGG........................................................................................	23	1	1	2.00	2	2	0	0	0	0
....GGCTAGCCCGCGTAAGGT...........................................................................................................................................	18	0	1	1.00	1	1	0	0	0	0
..................................................TGGGCAAACTCCCAATGATGCGT........................................................................................	23	1	1	1.00	1	1	0	0	0	0
..................................................TGGGCAAACCCCCAATGATGCGG........................................................................................	23	1	1	1.00	1	1	0	0	0	0
...................................................GGGCAAACTCCCAATGATGCGGT.......................................................................................	23	0	1	1.00	1	1	0	0	0	0
.................................................CTGGTCAGACTCCCAATGATGCG.........................................................................................	23	2	1	1.00	1	1	0	0	0	0
........................................................................................GATCCTTGGGCTTCTGCCCACGT..................................................	23	1	1	1.00	1	0	0	0	1	0
..................................................TGGGCAAAATCCCAATGATGCGG........................................................................................	23	1	1	1.00	1	0	1	0	0	0
..................................................TAGGCAAACTCCAAATGATGCGG........................................................................................	23	2	1	1.00	1	1	0	0	0	0
..................................................TGGGCAAACTCCCAATGATGC..........................................................................................	21	0	1	1.00	1	0	1	0	0	0
.......................................................................................CGATCCTTGGGCTTCTGT........................................................	18	1	1	1.00	1	0	1	0	0	0
..................................................TGGGCAAACTCCCAATGGTTCTG........................................................................................	23	3	1	1.00	1	0	0	1	0	0
..................................................TTGGCAAACTCCCAATGATGCGG........................................................................................	23	1	1	1.00	1	1	0	0	0	0
..................................................TGGGCAAACTCCCAATGATGAGG........................................................................................	23	1	1	1.00	1	1	0	0	0	0
..................................................TGGGCAGACTCCCAATGATTCGG........................................................................................	23	2	1	1.00	1	1	0	0	0	0
..................................................TGGGAAGACTCCCAATGATGC..........................................................................................	21	2	1	1.00	1	0	1	0	0	0
..................................................TGGGCAGACTCCCAATGATGCT.........................................................................................	22	2	1	1.00	1	1	0	0	0	0
.................................................CTGGGCAAACTCCCAATGATG...........................................................................................	21	0	1	1.00	1	0	1	0	0	0

GTTCCCGATCGGGCGCATTCCACATATCTACTACATTTGACCGGACAGGGACCCGTTTGAGGGTTACTACGCCACATGTATCTTAGGGCTAGGAACCCGAAGACGGGTGCCCGTTCCTGTCATCACGGGCGCTTCCCGGGTTACAAACAATTGAGGAAATC **********************************..((((.(((((((.((((((....(((((.(((.(((.((.......)).)))))).)))))....)))))).)))).))).))))...*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V108 head	V107 male body	M055 female body	V060 head	M057 embryo
................................................GGACCCGTTTGAGGGTTACTA............................................................................................	21	0	1	6.00	6	3	1	1	1	0
.......................................................................................GCTAGGAACCCGAAGACGGGTG....................................................	22	0	1	2.00	2	1	1	0	0	0
......................................................................................GGCTAGGAACCCGAAGACGGGT.....................................................	22	0	1	2.00	2	0	2	0	0	0
..........GGGCGCATTCCACATATCTAC..................................................................................................................................	21	0	1	1.00	1	1	0	0	0	0
................................................TGACCCGTTTGAGGGTTACTAC...........................................................................................	22	1	1	1.00	1	1	0	0	0	0
..............................................................................................................CCGTTCCTGTCATCACGGGCGCTTCC.........................	26	0	1	1.00	1	0	0	0	0	1
................................................GGACCCTTTTGAGGGTTACTA............................................................................................	21	1	1	1.00	1	1	0	0	0	0
.................................................GACCCGTTTGAGGGTTACTACG..........................................................................................	22	0	1	1.00	1	0	1	0	0	0
..................................................ACCCGTTTGAGGGTTACTACG..........................................................................................	21	0	1	1.00	1	0	1	0	0	0
................................................GGACCCGTTTGCGGGTTACTA............................................................................................	21	1	1	1.00	1	1	0	0	0	0
................................................AGACCCGTTTGAGGGTTACTA............................................................................................	21	1	1	1.00	1	0	1	0	0	0
................................................GGACCCGTTTGAGGGTTATTA............................................................................................	21	1	1	1.00	1	1	0	0	0	0
...........................................................................................................TGCCCGTTCCTGTCATCAC...................................	19	0	1	1.00	1	0	0	1	0	0
....................................................................................AGGGCTAGGAACCCGAAGACGGG......................................................	23	0	1	1.00	1	0	0	1	0	0
........................................................................................CTAGGAGCCCGAAGACGGGTG....................................................	21	1	1	1.00	1	0	0	1	0	0
...............................................TGGACCCGTTTGAGGGTTACTA............................................................................................	22	1	1	1.00	1	0	0	1	0	0
................................................GGACCCGTTTGAGGGTTACTAC...........................................................................................	22	0	1	1.00	1	0	0	1	0	0
................................................AGACCCGTTTGAGGGTTACTAC...........................................................................................	22	1	1	1.00	1	0	0	0	1	0

Species	Coordinate	ID	Type	Alignment
droEre2	scaffold_4820:4569056-4569216 +	der_81	confident	CAAGG---------------------GC-----------------------------TAG-CCCGCGTAAGGTGTATAGATGATGTAAACTGGCCTGTCCCTGGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GCGGTGTACATAGAA-----------------T------------------CCCGATCCTTGGGCTTCTGCCCACGGGCA-AGGACAGTAGTGCCCG--CGAAG--------GGCCCA-ATGTTTGTTAACTCC--------TTTAG
droYak3	3R:23018673-23018819 +	dya_42	confident	CG-----------------------------------------------------------------CAAGGTGTATAGATGATGTAAACTGGCCTGTCCCTGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCGGTGTACATTGAA-----------------T------------------TCGGATCCTTGGGTTTGAGCCCAAGGACA-AGGACAGTAGTGCCCG--CGAAG--------GGCCCA-ATGTTTGTTAACTCC--------TTTAG
droSec2	scaffold_22:111541-111690 -	dse_30	confident	CGAGG---------------------GT-----------------------------TAG-CCCGC------------GATGATGTAAGCTGGCCTGTCCCTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGTGGAGATTGAA-----------------T------------------CCCGATCCTTGGGATTCTGCTCTCGGGCA-AGGTCAGCAGTGCCCG--CGAAG--------GGCCCAGCTGTTTGTTAACTCC--------TTTAG
droSim2	3r:22893181-22893330 -	dsi-mir-1001	Known_mirbase	CGAGG---------------------GT-----------------------------TAG-CCCGC------------GATGATGTAAGCTGGCCTGTCCCTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGTGGAGATTGAA-----------------T------------------CCCGATCCTTGGGTTTCTGCTCTCGGGCA-AGGTCAGCAGTGCCCG--CGAAG--------GGCCCAGCTGTTTGTTAACTCC--------TTTAG
dm3	chr3R:23468151-23468300 -	dme-mir-1001	Known_mirbase	CGAGG---------------------GT-----------------------------TAG-CCCGC------------GATGATGTAAGCTGGCCTGTCCCTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGTGGAGATTGAA-----------------T------------------CCCGATCCTTGGGTTTCTGCTCTCGGGCA-AGGTCAGTAGTGCCCG--CGAAG--------GGCCCAGCTGTTTGTTAACTCC--------TTTAG
droEug1	scf7180000409770:952509-952649 -			CAATG---------------------GT-----------------------------TAG-CCCTTGGAAGGTGTATAGATAATGTAAACTGACCTGTCCCTAAGAAA--CTCCCT----------------------------------------------------------------------------AATGA---------------------------------------------------------------------------------TCTTGGGATTCTGCTTATGGACA-AGGACAGTAGTGCCCTCACAGAG--------GGCCCA-ATGTTTGTTAACATCC-------TTTAG
droBia1	scf7180000302075:1453676-1453813 +			CAATG---------------------GC-----------------------------CAG-CCCTTGAGAGGTGCATAGATAGTGTAAGCTGGCCTGCCCCAGATCAAGGA-TCCC----------------------------------------------------------------------------AATGA---------------------------------------------------------------------------------TCTTGGTAAACTGCTCAGGGGCA-AGGTCAGTAGAGCCCG--CAGAG--------GG-CCA-ATTTTTGTTAACTCC--------CCTAG
droTak1	scf7180000413872:362749-362852 -			AA----------------------------------------------------------------------TGTATAGATAATA-AAGCTGACCTTCCCCTGAGCAAGTATTCCC----------------------------------------------------------------------------AATGA---------------------------------------------------------------------------------CCTTGGGACTGTGCCCAAGGGCA-GGGTCAGC--------------------------ACA-ACGTTTGTTAACTCC--------TTTAG
droEle1	scf7180000491261:1964191-1964353 -			CAATG---------------------GTT----------------------------TAG-TCCTTGAAAGGTGTATAGATACTGTAAGCTGACCTGCCCCTGAGCAA--TTCGCC----------------------------------------------------------------------------ACAGAA-----------------------AAGGATGAAATTTAA-----------------T------------------C-TGAACCCTAGGACACTGCTCTTGGGCA-AGGACAGTACTGCCCAACCAGAG--------GGCCCG-ATGTTTGTTAACTCC--------TTTAG
droRho1	scf7180000779391:18312-18483 +			CAATG---------------------GT-----------------------------TAG-CCCTTGGAAGGTGTATAGATGATGTAAGCTGTCCTGCCCCTGAGCAA--TTCCGC----------------------------------------------------------------------------AAAAAA-----------------------AAGGATGAAATTGGATTAAAATCACA------T-------------------CTTAACCCTAGGTTTCTGCTCATGGGCA-AGGACAGTACTGCCCC-CCAGAG--------GGCCCA-ATGTTTGTTAACTCC--------TTTAG
droFic1	scf7180000453826:246852-247011 +			CAATG---------------------GT-----------------------------CAA-CCCTTGGAAGTTGTATAGATAATGTAAGCTGATCTGCCCAGGAGCAA--ATCCCT---------------T-G----------------------------------------------------------AAAGAT-----------------------CAGGTGTATATAGG------------------C------------------CCTGA-TCTTGGGTAAATGCTTGTGGGCA-CAGACAGTAGAGCCC---CAGAG--------GCCACA-ATGTTTGTTAAATCC--------TCTAG
droKik1	scf7180000302697:740327-740498 -			AAA--------------------------------------------------------------------GTATGTTGAGGATATGCGCTGTCCTGCCCCTGGGCAG--ATCCCC----------------------------------------------------------------------------GGAGAGGAGGGATGCTCTTGCGATCCGGCCAGGTGTAAATTGAATTTA-ACCACA-----------------GC------CCC--AGCTCAGGTCACTGTCCAGGGGCAGAAGGCAGCA-----------------------GCCCG-ATGTTTGTTAACTCCCCCTAGTCCCTAG
droAna3	scaffold_13340:19221694-19221852 +			CAATAAGATACT--------------AT-----------------------------TA--TCCTTGGAGTGTGTATAGATGATGTGAGCTGTCCTGTCCCTGGGAGG--ATCACC----------------------------------------------------------------------------TGTAG---------------------------TATTAAATTAAA--------------------------------------TGGAACAAAGGTCTCCCCCTAGGGGCA-AGGACAGCATTGGCCA--CG--A--------GGCTCA-ATGTTTGTTAATTCCT-------TTTAG
droBip1	scf7180000396413:3143033-3143176 -			CAATAAGATACG--------------AT-----------------------------TA--TCCTTGGAGTGTGTATAGATGATGTGAGCTGTCCTGTCCTTGGGAGG--ATCACC----------------------------------------------------------------------------TGTAG---------------------------TATTAAATTCAA--------------------------------------TGAAAGACAGGCCTCCGCCCAGGGGCC-AT-------------------GA--------GGCTCA-ATGTTTGTTAATTCCT-------TTTAG
dp5	2:3822357-3822570 -			CATCG---------------------GTTGAGGCTATACTATACTATC-------------CCCATGGAACGTGTATACTT------------------------------------------------------------------AGATGATGATACATATAAGCTGATTCTCTCCCAGTGGCGGACACACGGCAG-ATGGTGGCTTTACCGATCCGAT--------AATTGAAT----------TTTAAC-CAAAAGAAAACCACCTGC-------ATTCGGGTGCCGCCCCTGGG---------------TCT---GAGAGGGCTGAGAGAGAGA-ATGTTTGTTAATTCC--------TTTAG
droPer2	scaffold_7:528120-528333 +			CATCG---------------------GTTGAGGCTACACTATACTATC-------------CCCATGGAACGTGTATACTT------------------------------------------------------------------AGATGATGATACATATAAGCTGATTCTCTCCCAGGGGCGGATACACGGCAG-ATGGTGGCTTTACCGATCCGAT--------AATTGAAT----------TTTAAC-CAAAAGAAAACCACCTGC-------TTTCGGGTGCCGCCCCTGGG---------------TCT---GAGAGGGCTGAGAGAGAGA-ATGTTTGTTAATTCC--------TTTAG
droVir3	scaffold_12855:2154419-2154531 +			GGCTA---------------------GCTGAAATTTGTTTATACCCTTTCCAATGTTAAGCCCCTTGGAAAATGTATGAATCTCGTAACA--------------------------------------------------------------------------------------------------------------------------------------------------T----------TCGTAA-CAAGAG---------------------------------------------AT---------------GTT--------CGCCAA-ACTTTTGTTAATTCC--------TTTAG
droMoj3	scaffold_6540:32461038-32461165 +			TAACACAAAGC---AAATTTCGGCTAGCTGAAATTGGTTTATGCTCTT-------------TCCAAAAG-----------------------------------------ATTTTCATTT----------TTGGCAAGCGTAT--------------------------------------------------AAT--------------------------------GAATA---------------------CCAAAGAAAATACC-----------------------------------------TAACACTCG--TAA------------GAGA-AGTTTTGTTAACAT--------------
droGri2	scaffold_15074:2155838-2155996 +			ACAACAAATATTGTTAATTTCGGCTAGCTGAAATTATTTGAT-------------------------------------------------ACCCCTTCCAATAAAAA--ATCACCATTTGTGCTGGCTATTGGAAAGTGTATGAATTTGTGAGGAGTTTGGTAAATT----------------------------------------------------------------------------------------------------------------------CACTCTCAAG---------AT---------------GTT--------AGCCAA-ACTTTTGTTAAATTCG-------TTAAC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droEre2

CAAGG---------------------GC-----------------------------TAG-CCCGCGTAAGGTGTATAGATGATGTAAACTGGCCTGTCCCTGGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GCGGTGTACATAGAA-----------------T------------------CCCGATCCTTGGGCTTCTGCCCACGGGCA-AGGACAGTAGTGCCCG--CGAAG--------GGCCCA-ATGTTTGTTAACTCC--------TTTAG	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.....................................................................................................TGGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GCGG...............................................................................................................................................	23	1	52.00	52	16	0	0	1	2	33	0
.....................................................................................................TGGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GCG................................................................................................................................................	22	1	7.00	7	2	0	0	0	0	5	0
...................................................................................................................................................................................................................................................................................GATCCTTGGGCTTCTGCCCACG.......................................................................	22	1	5.00	5	1	0	0	2	0	2	0
....................................................................................................CTGGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GCG................................................................................................................................................	23	1	2.00	2	0	0	0	0	0	2	0
......................................................................................................GGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GCGG...............................................................................................................................................	22	1	2.00	2	2	0	0	0	0	0	0
....G---------------------GC-----------------------------TAG-CCCGCGTAAGGT.......................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	1	0
.....................................................................................................TGGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GCGT...............................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1	0
......................................................................................................GGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GCGGT..............................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1	0
...................................................................................................................................................................................................................................................................................GATCCTTGGGCTTCTGCCCACGT......................................................................	23	1	1.00	1	0	0	0	0	1	0	0
.....................................................................................................TGGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------GC.................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGCTTCTGT............................................................................	18	1	1.00	1	1	0	0	0	0	0	0
....................................................................................................CTGGGCAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------G..................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0

droYak3

CG-----------------------------------------------------------------CAAGGTGTATAGATGATGTAAACTGGCCTGTCCCTGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCGGTGTACATTGAA-----------------T------------------TCGGATCCTTGGGTTTGAGCCCAAGGACA-AGGACAGTAGTGCCCG--CGAAG--------GGCCCA-ATGTTTGTTAACTCC--------TTTAG	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
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCG................................................................................................................................................	22	1	888.00	888	193	334	9	5	90	190	67	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCG................................................................................................................................................	21	1	44.00	44	0	44	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCGT...............................................................................................................................................	23	1	33.00	33	1	7	0	0	1	5	19	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CC.................................................................................................................................................	21	1	17.00	17	1	13	2	0	0	1	0	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CC.................................................................................................................................................	20	1	5.00	5	0	5	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................GATCCTTGGGTTTGAGCCCAA........................................................................	21	1	5.00	5	0	4	0	0	0	1	0	0	0	0	0
.......................................................................................................GGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCG................................................................................................................................................	20	1	4.00	4	0	4	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------C..................................................................................................................................................	20	1	4.00	4	0	0	4	0	0	0	0	0	0	0	0
........................................................................................................GTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCG................................................................................................................................................	19	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCT................................................................................................................................................	22	1	2.00	2	0	1	0	0	0	1	0	0	0	0	0
.......................................................................................................GGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------C..................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCGT...............................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCGC...............................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................GATGATGTAAACTGGCCTGTC.............................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCC................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...................................................................................................................................................................................................................................................................................GATCCTTGGGTTTGAGCCCAC........................................................................	21	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................CG--CGAAG--------GGCCCA-ATGTTTGTT...................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCG................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AATGAT-----------------------CCGG...............................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0

droSec2

CGAGG---------------------GT-----------------------------TAG-CCCGC------------GATGATGTAAGCTGGCCTGTCCCTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGTGGAGATTGAA-----------------T------------------CCCGATCCTTGGGATTCTGCTCTCGGGCA-AGGTCAGCAGTGCCCG--CGAAG--------GGCCCAGCTGTTTGTTAACTCC--------TTTAG	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGG...............................................................................................................................................	23	1	913.00	913	128	173	67	545
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	22	1	595.00	595	90	135	37	333
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CA.................................................................................................................................................	21	1	192.00	192	51	12	7	122
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTCTCGG......................................................................	24	1	168.00	168	74	17	22	55
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCGG......................................................................	22	1	141.00	141	99	11	2	29
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGT..............................................................................................................................................	24	1	90.00	90	4	42	0	44
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCG.......................................................................	21	1	85.00	85	15	32	1	37
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTCTCG.......................................................................	23	1	82.00	82	22	15	5	40
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------C..................................................................................................................................................	20	1	63.00	63	24	0	1	38
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTC........................................................................	20	1	51.00	51	12	5	0	34
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGT...............................................................................................................................................	23	1	27.00	27	4	15	0	8
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGA..............................................................................................................................................	24	1	20.00	20	1	7	1	11
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGG...............................................................................................................................................	22	1	16.00	16	15	1	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGTT.............................................................................................................................................	25	1	16.00	16	0	11	0	5
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	21	1	15.00	15	15	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTCTC........................................................................	22	1	13.00	13	8	1	1	3
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGA...............................................................................................................................................	23	1	12.00	12	2	4	1	5
...................................................................................................................................................................................................................................................................................GATCCTTGGGATTCTGCTCTCGG......................................................................	23	1	12.00	12	9	0	1	2
.....................................................................................................................................................................................................................................................................................TCCTTGGGATTCTGCTCTCGG......................................................................	21	1	11.00	11	8	1	2	0
...................................................................................................................................................................................................................................................................................GATCCTTGGGATTCTGCTCTCG.......................................................................	22	1	9.00	9	4	3	0	2
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------C..................................................................................................................................................	21	1	7.00	7	4	0	0	3
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTCTCGGT.....................................................................	25	1	6.00	6	0	1	0	5
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCGGT.....................................................................	23	1	6.00	6	6	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTCT.........................................................................	21	1	5.00	5	4	0	0	1
...................................................................................................................................................................................................................................................................................GATCCTTGGGATTCTGCTCTC........................................................................	21	1	4.00	4	4	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGC..............................................................................................................................................	24	1	4.00	4	0	1	0	3
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CA.................................................................................................................................................	22	1	3.00	3	1	0	1	1
.......................................................................................................GGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	20	1	3.00	3	2	0	0	1
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCGT......................................................................	22	1	3.00	3	1	1	0	1
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTC..........................................................................	20	1	3.00	3	2	0	0	1
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------C..................................................................................................................................................	19	1	3.00	3	3	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGC...............................................................................................................................................	23	1	3.00	3	0	0	0	3
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------...................................................................................................................................................	19	1	2.00	2	2	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------...................................................................................................................................................	20	1	2.00	2	0	0	0	2
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGT..............................................................................................................................................	23	1	2.00	2	2	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CA.................................................................................................................................................	20	1	2.00	2	2	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGG..............................................................................................................................................	24	1	2.00	2	1	0	0	1
.....................................................................................................................................................................................................................................................................................TCCTTGGGATTCTGCTCTCG.......................................................................	20	1	2.00	2	2	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	23	1	2.00	2	2	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCGCTT....................................................................	24	1	1.00	1	0	0	0	1
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCT...........................................................................	19	1	1.00	1	1	0	0	0
................................................................................................................................................................................................................................................................................CCCGATCCTTGGGATTCTGCTCTCGG......................................................................	26	1	1.00	1	0	0	0	1
.......................................................................................................GGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CA.................................................................................................................................................	19	1	1.00	1	1	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCGGC.....................................................................	23	1	1.00	1	1	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGG...............................................................................................................................................	24	1	1.00	1	0	0	0	1
..................................................................................ATGTAAGCTGGCCTGTCCC...........................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1
.....................................................................................................................................................................................................................................................................................TCCTTGGGATTCTGCTCTCGGTA....................................................................	23	1	1.00	1	0	1	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CT.................................................................................................................................................	20	1	1.00	1	1	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGA..............................................................................................................................................	23	1	1.00	1	1	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTA........................................................................	20	1	1.00	1	1	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCGGTT....................................................................	24	1	1.00	1	0	0	0	1
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGTTT............................................................................................................................................	26	1	1.00	1	0	1	0	0
.....................................................................................................................................................................................................................................................................................TCCTTGGGATTCTGCTCTAAA......................................................................	21	1	1.00	1	0	1	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCT.......................................................................	21	1	1.00	1	1	0	0	0
.......................................................................................................GGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGG...............................................................................................................................................	21	1	1.00	1	1	0	0	0
...................................................................................................................................................................................................................................................................................GATCCTTGGGATTCTGCTC..........................................................................	19	1	1.00	1	1	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCGGG.....................................................................	23	1	1.00	1	1	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTCTCGA......................................................................	24	1	1.00	1	0	0	0	1
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAT................................................................................................................................................	22	1	1.00	1	0	0	0	1
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTT........................................................................	20	1	1.00	1	0	0	0	1
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCT.........................................................................	19	1	1.00	1	0	0	0	1
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTCTCGGTT....................................................................	26	1	1.00	1	0	0	0	1
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGA...........................................................................................................................................................................	19	1	1.00	1	1	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTCTCGC......................................................................	22	1	1.00	1	1	0	0	0
.......................................................................................................................................................................................................................................................................................CTTGGGATTCTGCTCTCGG......................................................................	19	1	1.00	1	1	0	0	0
.....................................................................................................................................................................................................................................................................................TCCTTGGGATTCTGCTCTCGGA.....................................................................	22	1	1.00	1	0	0	0	1
..................................................................................................................................................................................................................................................................................CGATCCTTGGGATTCTGCTCGG........................................................................	22	1	1.00	1	0	0	0	1
....................................................................................................................................................................................................................................................................................ATCCTTGGGATTCTGCTTA.........................................................................	19	6	0.17	1	0	0	0	1

droSim2

CGAGG---------------------GT-----------------------------TAG-CCCGC------------GATGATGTAAGCTGGCCTGTCCCTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGTGGAGATTGAA-----------------T------------------CCCGATCCTTGGGTTTCTGCTCTCGGGCA-AGGTCAGCAGTGCCCG--CGAAG--------GGCCCAGCTGTTTGTTAACTCC--------TTTAG	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
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------C..................................................................................................................................................	20	1	1375.00	1375	1274	75	5	10	0	7	1	0	1	2	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	22	1	308.00	308	146	11	1	9	9	121	3	0	3	3	0	0	0	2	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGG...............................................................................................................................................	23	1	221.00	221	10	3	0	30	0	10	101	14	23	18	0	10	0	2	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------...................................................................................................................................................	19	1	162.00	162	150	5	0	0	0	7	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CA.................................................................................................................................................	21	1	155.00	155	28	2	0	13	1	98	7	0	3	3	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGCTCTC........................................................................	22	1	47.00	47	41	0	2	0	2	2	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGTTTCTGCTCTC........................................................................	20	1	43.00	43	32	9	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGA...........................................................................................................................................................................	18	1	43.00	43	1	0	0	0	5	37	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------...................................................................................................................................................	20	1	28.00	28	26	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------C..................................................................................................................................................	21	1	21.00	21	19	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................ATGTAAGCTGGCCTGTCCC...........................................................................................................................................................................................................................................................................	19	1	21.00	21	17	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGTTTCTGCTCTCG.......................................................................	21	1	13.00	13	6	0	0	3	0	2	0	0	0	0	0	1	0	1	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAC-----------------------...................................................................................................................................................	19	1	8.00	8	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGCTCTCG.......................................................................	23	1	8.00	8	3	1	0	1	0	2	0	0	0	0	0	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGC............................................................................	18	1	7.00	7	0	0	0	0	1	6	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGCTC..........................................................................	20	1	7.00	7	3	0	0	0	1	3	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGA..............................................................................................................................................	24	1	7.00	7	5	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGTTTCTGCTCTCGG......................................................................	22	1	6.00	6	0	0	0	3	0	3	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGT..............................................................................................................................................	24	1	5.00	5	0	0	0	2	0	0	2	1	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGT...............................................................................................................................................	23	1	5.00	5	1	0	0	3	0	0	1	0	0	0	0	0	0	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	21	1	4.00	4	1	0	0	2	0	1	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGTTTCTGCTC..........................................................................	18	1	4.00	4	2	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGCTCT.........................................................................	21	1	3.00	3	2	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGA...........................................................................................................................................................................	19	1	3.00	3	2	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGCTCTCGG......................................................................	24	1	2.00	2	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................GATGTAAGCTGGCCTGTCCCT..........................................................................................................................................................................................................................................................................	21	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGG...............................................................................................................................................	22	1	2.00	2	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CC.................................................................................................................................................	21	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAC................................................................................................................................................	22	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................CGC------------GATGATGTAAGCTGGCCT................................................................................................................................................................................................................................................................................	21	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAG-----------------------...................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGCTCTT........................................................................	22	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGCTCG.........................................................................	21	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CA.................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAG-----------------------...................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGG..............................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................GATCCTTGGGTTTCTGCTCTCGG......................................................................	23	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CA.................................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................GATCCTTGGGTTTCTGCTCTC........................................................................	21	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CT.................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGA...............................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CGATCCTTGGGTTTCTGCTCTCC.......................................................................	23	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGTTTCTGCTCTT........................................................................	20	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................GGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGTTTCTGCTCTCGA......................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------C..................................................................................................................................................	19	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------...................................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAC-----------------------...................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGC..............................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................ATCCTTGGGTTTCTGCTCTCGT......................................................................	22	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CG.................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

dm3

CGAGG---------------------GT-----------------------------TAG-CCCGC------------GATGATGTAAGCTGGCCTGTCCCTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGTGGAGATTGAA-----------------T------------------CCCGATCCTTGGGTTTCTGCTCTCGGGCA-AGGTCAGTAGTGCCCG--CGAAG--------GGCCCAGCTGTTTGTTAACTCC--------TTTAG	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	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
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CA.................................................................................................................................................	21	1	5753.00	5753	0	0	0	0	16	1	0	0	0	1	1	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	6	5	228	230	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	1	0	0	0	0	0	42	26	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	94	4	0	0	0	0	0	0	3	4	5	118	0	13	289	26	52	2	3	12	13	540	11	0	0	7	0	4	11	6	2	3	2	1	37	3	232	70	1	46	1	64	38	124	4	199	18	233	168	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	394	464	0	283	2	1	59	251	5	240	6	197	1	210	4	0	0	0	0	0	87	3	0	1	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	4	0	8	12	4	1	3	5	0	0	0	1	4	0	0	0	2	0	0	5	20	1	0	0	0	25	11	0	10	0	0	0	0	1	3	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	66	74	85	76	0	11	27	12	0	0	0	0	0	0	17	0	3	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	1	6	1	0	2	0	3	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGG...............................................................................................................................................	23	1	5608.00	5608	0	0	0	0	2	0	0	0	0	0	0	1	0	0	3	0	0	6	0	0	0	0	1	1	0	0	1	0	4	3	99	74	0	1	0	0	1	0	0	0	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	11	0	0	0	0	0	0	0	1	2	1	31	1	4	48	7	16	1	1	4	0	179	1	0	0	0	2	0	0	2	3	1	2	0	1	7	73	67	2	64	1	99	74	337	5	57	9	68	33	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	122	149	0	79	0	0	123	91	3	108	5	64	2	170	31	0	0	0	0	0	248	6	0	7	1	0	0	0	3	0	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	2	13	3	7	3	9	23	0	1	4	5	0	0	0	0	1	0	0	0	9	12	0	18	79	2	0	0	0	72	60	0	21	0	0	0	0	3	99	0	0	0	0	0	0	0	0	0	0	0	5	0	0	0	1	3	1	6	2	6	2	2	0	0	0	0	0	423	464	327	349	2	63	102	56	0	5	0	4	2	3	105	0	83	74	0	0	0	1	6	0	0	13	0	1	0	0	8	0	0	0	15	238	55	17	37	22	14	0	0	1	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	22	1	4962.00	4962	0	0	0	0	8	0	0	0	0	0	0	0	0	0	4	0	0	2	0	0	0	0	0	1	0	0	0	0	3	4	134	131	1	0	0	1	0	0	1	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	31	20	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	18	0	0	0	0	0	0	0	1	3	1	40	0	5	48	4	24	3	0	8	9	178	3	0	0	1	0	0	3	0	2	1	1	0	4	2	142	41	0	30	0	75	56	181	3	68	9	114	76	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	211	204	0	141	0	0	121	148	4	143	3	145	2	237	6	0	0	0	0	0	277	5	0	4	3	0	0	0	10	1	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	3	15	6	2	1	0	9	0	0	1	0	0	0	0	0	0	0	0	0	4	6	0	8	32	1	0	0	0	41	23	0	12	0	0	0	0	1	54	0	0	0	0	0	1	0	0	0	0	0	4	0	1	0	0	2	1	1	1	5	0	3	0	0	0	0	1	234	232	192	255	0	26	106	58	0	6	0	2	0	4	73	0	56	55	0	0	2	5	4	0	0	2	0	0	0	0	13	0	0	0	15	88	26	19	33	21	19	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------C..................................................................................................................................................	20	1	2945.00	2945	0	0	0	0	3	0	0	0	0	0	0	0	0	0	2	0	0	0	3	0	0	0	0	0	0	0	0	1	1	4	166	116	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	12	0	0	0	0	0	0	0	0	0	0	11	0	2	31	0	6	0	0	3	1	115	0	0	0	0	0	0	3	0	0	1	0	0	5	3	160	54	4	12	0	66	17	41	2	96	10	124	109	0	0	0	1	0	0	0	0	7	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	138	227	0	107	2	1	88	126	4	182	1	187	0	243	15	0	0	0	0	0	247	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	3	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	13	0	0	0	0	8	11	0	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	26	22	30	47	0	0	0	1	0	1	0	0	0	0	0	0	1	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	6	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGATC............................................................................................................................................	26	1	570.00	570	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	396	174	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------...................................................................................................................................................	19	1	327.00	327	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	1	0	0	6	0	1	0	0	0	0	47	0	0	0	0	0	0	0	0	0	0	0	0	0	0	11	1	0	0	0	2	0	2	0	19	0	23	14	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	34	55	0	10	0	0	2	8	1	11	0	34	0	25	0	0	0	0	0	0	13	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	2	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGGT..............................................................................................................................................	24	1	314.00	314	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	2	0	0	4	1	3	0	0	0	0	9	0	0	0	0	0	0	0	1	0	0	0	0	0	0	3	0	0	0	0	1	1	5	0	2	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	7	4	0	2	0	0	0	3	1	1	0	1	0	8	0	0	0	0	0	0	9	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	1	0	0	1	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	4	3	0	1	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	2	0	0	0	0	0	21	17	23	10	0	0	12	3	0	3	0	0	0	0	5	0	14	10	0	0	0	2	1	0	0	3	0	0	0	0	0	0	0	0	8	45	16	6	4	4	7	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGA...........................................................................................................................................................................	18	1	275.00	275	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0	2	21	6	4	0	5	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	6	0	0	0	0	0	0	1	160	2	4	0	2	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	0	0	0	0	0	0	0	2	0	3	1	2	0	0	6	4	22	3	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------...................................................................................................................................................	20	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	1	0	1	0	2	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	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
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAGG...............................................................................................................................................	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	1	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	1	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................TCCTTGGGTTTCTGCTCTCGGT.....................................................................	22	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	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	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	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................CTGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CATC...............................................................................................................................................	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	5	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TGGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAATC..............................................................................................................................................	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	3	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................GGGTAA--ACTCCC----------------------------------------------------------------------------AAGGAT-----------------------CAG................................................................................................................................................	21	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	1	0	0	0	0	0	1	0	1	0	2	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	1	0	0	0	0	0	0	0	0	0	0

droEug1

CAATG---------------------GT-----------------------------TAG-CCCTTGGAAGGTGTATAGATAATGTAAACTGACCTGTCCCTAAGAAA--CTCCCT----------------------------------------------------------------------------AATGA---------------------------------------------------------------------------------TCTTGGGATTCTGCTTATGGACA-AGGACAGTAGTGCCCTCACAGAG--------GGCCCA-ATGTTTGTTAACATCC-------TTTAG	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CAATG---------------------GC-----------------------------CAG-CCCTTGAGAGGTGCATAGATAGTGTAAGCTGGCCTGCCCCAGATCAAGGA-TCCC----------------------------------------------------------------------------AATGA---------------------------------------------------------------------------------TCTTGGTAAACTGCTCAGGGGCA-AGGTCAGTAGAGCCCG--CAGAG--------GG-CCA-ATTTTTGTTAACTCC--------CCTAG	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AA----------------------------------------------------------------------TGTATAGATAATA-AAGCTGACCTTCCCCTGAGCAAGTATTCCC----------------------------------------------------------------------------AATGA---------------------------------------------------------------------------------CCTTGGGACTGTGCCCAAGGGCA-GGGTCAGC--------------------------ACA-ACGTTTGTTAACTCC--------TTTAG	Size	Hit Count	Total Norm	Total
No Reads

droEle1

CAATG---------------------GTT----------------------------TAG-TCCTTGAAAGGTGTATAGATACTGTAAGCTGACCTGCCCCTGAGCAA--TTCGCC----------------------------------------------------------------------------ACAGAA-----------------------AAGGATGAAATTTAA-----------------T------------------C-TGAACCCTAGGACACTGCTCTTGGGCA-AGGACAGTACTGCCCAACCAGAG--------GGCCCG-ATGTTTGTTAACTCC--------TTTAG	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CAATG---------------------GT-----------------------------TAG-CCCTTGGAAGGTGTATAGATGATGTAAGCTGTCCTGCCCCTGAGCAA--TTCCGC----------------------------------------------------------------------------AAAAAA-----------------------AAGGATGAAATTGGATTAAAATCACA------T-------------------CTTAACCCTAGGTTTCTGCTCATGGGCA-AGGACAGTACTGCCCC-CCAGAG--------GGCCCA-ATGTTTGTTAACTCC--------TTTAG	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CAATG---------------------GT-----------------------------CAA-CCCTTGGAAGTTGTATAGATAATGTAAGCTGATCTGCCCAGGAGCAA--ATCCCT---------------T-G----------------------------------------------------------AAAGAT-----------------------CAGGTGTATATAGG------------------C------------------CCTGA-TCTTGGGTAAATGCTTGTGGGCA-CAGACAGTAGAGCCC---CAGAG--------GCCACA-ATGTTTGTTAAATCC--------TCTAG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AAA--------------------------------------------------------------------GTATGTTGAGGATATGCGCTGTCCTGCCCCTGGGCAG--ATCCCC----------------------------------------------------------------------------GGAGAGGAGGGATGCTCTTGCGATCCGGCCAGGTGTAAATTGAATTTA-ACCACA-----------------GC------CCC--AGCTCAGGTCACTGTCCAGGGGCAGAAGGCAGCA-----------------------GCCCG-ATGTTTGTTAACTCCCCCTAGTCCCTAG	Size	Hit Count	Total Norm	Total
No Reads

droAna3

CAATAAGATACT--------------AT-----------------------------TA--TCCTTGGAGTGTGTATAGATGATGTGAGCTGTCCTGTCCCTGGGAGG--ATCACC----------------------------------------------------------------------------TGTAG---------------------------TATTAAATTAAA--------------------------------------TGGAACAAAGGTCTCCCCCTAGGGGCA-AGGACAGCATTGGCCA--CG--A--------GGCTCA-ATGTTTGTTAATTCCT-------TTTAG	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
................................................................................TGATGTGAGCTGTCCTGTCCC...........................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0

droBip1

CAATAAGATACG--------------AT-----------------------------TA--TCCTTGGAGTGTGTATAGATGATGTGAGCTGTCCTGTCCTTGGGAGG--ATCACC----------------------------------------------------------------------------TGTAG---------------------------TATTAAATTCAA--------------------------------------TGAAAGACAGGCCTCCGCCCAGGGGCC-AT-------------------GA--------GGCTCA-ATGTTTGTTAATTCCT-------TTTAG	Size	Hit Count	Total Norm	Total
No Reads

dp5

CATCG---------------------GTTGAGGCTATACTATACTATC-------------CCCATGGAACGTGTATACTT------------------------------------------------------------------AGATGATGATACATATAAGCTGATTCTCTCCCAGTGGCGGACACACGGCAG-ATGGTGGCTTTACCGATCCGAT--------AATTGAAT----------TTTAAC-CAAAAGAAAACCACCTGC-------ATTCGGGTGCCGCCCCTGGG---------------TCT---GAGAGGGCTGAGAGAGAGA-ATGTTTGTTAATTCC--------TTTAG	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
..............................................................................................................................................................................................................................................................................................TGCCGCCCCTGGG---------------TCT---GAGA............................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0

droPer2

CATCG---------------------GTTGAGGCTACACTATACTATC-------------CCCATGGAACGTGTATACTT------------------------------------------------------------------AGATGATGATACATATAAGCTGATTCTCTCCCAGGGGCGGATACACGGCAG-ATGGTGGCTTTACCGATCCGAT--------AATTGAAT----------TTTAAC-CAAAAGAAAACCACCTGC-------TTTCGGGTGCCGCCCCTGGG---------------TCT---GAGAGGGCTGAGAGAGAGA-ATGTTTGTTAATTCC--------TTTAG	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droVir3

GGCTA---------------------GCTGAAATTTGTTTATACCCTTTCCAATGTTAAGCCCCTTGGAAAATGTATGAATCTCGTAACA--------------------------------------------------------------------------------------------------------------------------------------------------T----------TCGTAA-CAAGAG---------------------------------------------AT---------------GTT--------CGCCAA-ACTTTTGTTAATTCC--------TTTAG	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	SRR2096013 Ovary_Strain_9_oxidized	SRR2096014 Ovary_Strain_160_oxidized	SRR2096026 embryo_0-2h from 14 day old Strain 9 mothers	SRR2096038 embryo_0-2h from 14 day old Strain 9 mothers	SRR2096050 embryo_0-2h from 14 day old Strain 160 mothers	SRR2096055 Ovary_Min_43	SRR2096056 Ovary_Min_46	SRR2096057 Ovary_Min_50	SRR2096058 Ovary_Min_98	SRR2096059 Ovary_Min_164	SRR2096060 Ovary_Min_193	SRR2096061 embryo_0-2h from 14 day old Strain 160 mothers	SRR2096072 embryo_0-2h from 15to16 day old dysgenic mothers	SRR2096079 embryo_0-2h from 15to16 day old dysgenic mothers	SRR2096080 embryo_0-2h from 15to16 day old nondysgenic mothers	SRR2096081 embryo_0-2h from 15to16 day old nondysgenic mothers
...............................................................................ATCTCGTAACA--------------------------------------------------------------------------------------------------------------------------------------------------T----------TCGTAA-CAAGAG---------------------------------------------A..............................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

TAACACAAAGC---AAATTTCGGCTAGCTGAAATTGGTTTATGCTCTT-------------TCCAAAAG-----------------------------------------ATTTTCATTT----------TTGGCAAGCGTAT--------------------------------------------------AAT--------------------------------GAATA---------------------CCAAAGAAAATACC-----------------------------------------TAACACTCG--TAA------------GAGA-AGTTTTGTTAACAT--------------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

ACAACAAATATTGTTAATTTCGGCTAGCTGAAATTATTTGAT-------------------------------------------------ACCCCTTCCAATAAAAA--ATCACCATTTGTGCTGGCTATTGGAAAGTGTATGAATTTGTGAGGAGTTTGGTAAATT----------------------------------------------------------------------------------------------------------------------CACTCTCAAG---------AT---------------GTT--------AGCCAA-ACTTTTGTTAAATTCG-------TTAAC	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

der_81

scaffold_4820:4569106-4569166 +

Known Ortholog

Canonical miRNA

intron

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

-38.1	-37.6	-37.6