dmo_2029

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## AAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAGCCCAAACCCGCAAGCATCATTCAACACAAATTATCACGTGATCTGCGTGGACAGGATGGAGAGCTGCAGAGCAAGATCAACACTGATACCATAATCATCAAGCCCGCTGCTGCGGGCAGTGGGACCCAAGAGGGTGGCATCGATGCCGATGCGCCCGAGGAAACAATTCTGCGTCGCTCGAAGGAGAAGAGGTCCCAGAAAACTGATGC *****************************************************************************************..(((....((..(((....)))....))....)))...((((..((......(((((((((...)))))))))......))..))))...*******************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V110 male body	M060 embryo	V049 head
.............................................................................................................................................................GCAGTGGGACCCAAGAGGGTGGCAT.....................................................................	25	0	1	3.00	3	1	2	0	0
...........................................................................................GACAGGATGGAGAGCTGC..............................................................................................................................................	18	0	1	2.00	2	2	0	0	0
....................................................................................................GAGAGCTGCAGAGCAAGAT....................................................................................................................................	19	0	1	2.00	2	0	2	0	0
...............................................................................................GGATGGAGAGCTGCAGAGCAA.......................................................................................................................................	21	0	1	1.00	1	0	1	0	0
.............................................................................................................................................................GCAGTGGGACCCAAGAGGGTGGC.......................................................................	23	0	1	1.00	1	0	1	0	0
...............................................................................GTGATCTGCGTGGACAGGATGGAGAGCT................................................................................................................................................	28	0	1	1.00	1	0	1	0	0
.....................................................................................................................................................................ACCCAAGAGGGTGGCATC....................................................................	18	0	1	1.00	1	1	0	0	0
...................................................................................................................................................GCTGCTGCGGGCAGTGGGAC....................................................................................	20	0	1	1.00	1	1	0	0	0
..........................................................................................GGACAGGATGGAGAGCTGCAGAG..........................................................................................................................................	23	0	1	1.00	1	1	0	0	0
....................................................................................................................................................................................ATCGATGCCGATGCGCCCGAGG.................................................	22	0	1	1.00	1	1	0	0	0
..............................................................................................AGGATGGAGAGCTGCAGAGCAAGAT....................................................................................................................................	25	0	1	1.00	1	0	1	0	0
..........................................................................................GGACAGGATGGAGAGCTGC..............................................................................................................................................	19	0	1	1.00	1	1	0	0	0
AAGAAATCGCCACATCAACT.......................................................................................................................................................................................................................................	20	0	1	1.00	1	1	0	0	0
.......................................................................................................................................................................................GATGCCGATGCGCCCGAGGAAAC.............................................	23	0	1	1.00	1	0	1	0	0
...................................................................................................GGAGAGCTGCAGAGCAAGATCA..................................................................................................................................	22	0	1	1.00	1	1	0	0	0
............................................................................................................................................................GGCAGTGGGACCCAAGAGGGTGGC.......................................................................	24	0	1	1.00	1	1	0	0	0
.........................................................................................................CTGCAGAGCAAGATCAACACTGATAC........................................................................................................................	26	0	1	1.00	1	0	1	0	0
...................................................................................................................................................GGTGCTGCGGGCAGTGGGACCC..................................................................................	22	1	1	1.00	1	0	0	1	0
......................................................................................................................................................................................CGATGCCGATGCGCCCGAGGAAAC.............................................	24	0	1	1.00	1	0	1	0	0
...................................................................................................................................................GCTGCTGCGGGCAGTGGGACCC..................................................................................	22	0	1	1.00	1	0	0	1	0
..............................................................................................................................................................CAGTGGGACCCAAGAGGGTGGCAT.....................................................................	24	0	1	1.00	1	1	0	0	0
........................................................................................................GCTGCAGAGCAAGATCAACACT.............................................................................................................................	22	0	1	1.00	1	1	0	0	0
............CATCAACTGCCGCCCAAGCCA..........................................................................................................................................................................................................................	21	0	1	1.00	1	1	0	0	0
...............................................................................GTGATCTGCGTGGACAGGATGGAGAGC.................................................................................................................................................	27	0	1	1.00	1	0	1	0	0
.................................................................................................ATGGAGAGCTGCAGAGCAAGAT....................................................................................................................................	22	0	1	1.00	1	0	1	0	0
..........................................................................................................TGCAGAGCAAGATCAACACTGAT..........................................................................................................................	23	0	1	1.00	1	0	1	0	0
....................................................................................CTGCGTGGACAGGATGGAGAGC.................................................................................................................................................	22	0	1	1.00	1	0	1	0	0
....................................ATCAAGCCCAAACCCGCAAG...................................................................................................................................................................................................	20	0	1	1.00	1	1	0	0	0
......................................................................................................................................................GTTGCGGGCAGTGAGACC...................................................................................	18	2	4	0.25	1	0	0	0	1
........................................AGCCCAAACCAGGAAGCTT................................................................................................................................................................................................	19	3	15	0.13	2	2	0	0	0
...................................................................................................................................................................................................................................CTAGAGGTCCCAGAAAAGT.....	19	3	14	0.07	1	0	1	0	0

TTCTTTAGCGGTGTAGTTGACGGCGGGTTCGGTGTTTAGTTCGGGTTTGGGCGTTCGTAGTAAGTTGTGTTTAATAGTGCACTAGACGCACCTGTCCTACCTCTCGACGTCTCGTTCTAGTTGTGACTATGGTATTAGTAGTTCGGGCGACGACGCCCGTCACCCTGGGTTCTCCCACCGTAGCTACGGCTACGCGGGCTCCTTTGTTAAGACGCAGCGAGCTTCCTCTTCTCCAGGGTCTTTTGACTACG *******************************************************************..(((....((..(((....)))....))....)))...((((..((......(((((((((...)))))))))......))..))))...*****************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V110 male body	M060 embryo	M046 female body
...............................................TGGGCTTTCGCAGAAAGTT.........................................................................................................................................................................................	19	3	20	0.40	8	5	0	3
.................................................................................................................................................................................................CCAGGCTCCTCTGTTAAGA.......................................	19	3	6	0.17	1	0	1	0
.................................................................................................................................TGGTATTAGTAGTCAGGGTG......................................................................................................	20	3	12	0.08	1	1	0	0
...............................................TGGGCTTTCGCAGAAAGT..........................................................................................................................................................................................	18	3	20	0.05	1	1	0	0
.........................................CGAGCTTGGGCGTTCCTA................................................................................................................................................................................................	18	3	20	0.05	1	0	1	0

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6540:22893356-22893606 +	dmo_2029	AAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAGCCCAAACCCGCAAGCATCATTCAACACAAATTATCACGT------GATCTGCGTGGACAGG------ATGGAGAG---CTGCA------GAGCAAGATCAACACTGATACCATAATCATCAAGCCCGCTGCT---GCGGGCAGTGGG---------ACCCAAG------AGGGTGGCATCGATGCC---GA---TGCGCCCGAGGAAACAATTCTGCGTCGCTCGAAGGAGAAGAGGTCCCAGAAAACTGATGC
droVir3	scaffold_13047:1997284-1997531 -	dvi_21357	AAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAACCGAAACCTTCGAGCGTTATCCAGCAAAAATTCTCACGT------GATCTGCGTAGCCTAGATGG------TG------AACC------ACACAAGATTAATACAGATACAATTATCATTAAGCCCAACAAT---TTGGGCAGCGCC---------AGTCAGG------AGGGCGGTATCGATGCC---GA---TGCGCCCGAGGAGACCATATTGCGTCGCTCCAAAGAGAAACGGGCACAGAAAACGGATGC
droGri2	scaffold_14906:8846006-8846256 -		AAGAAATCGCCACATCAATTGCCGCCGAAGCCACAGATCAAGCCAAAGCCATCGAGCGTTATGCCGAACAAATTCTCACGT------GATCTCCGCTCCCTGGATGA------TGAT---AATCA------CAAAACGATCAACACGGACACCATCATCATTAAGGCGGCGCCGGGTGCCGGCAGTCCCGGCCACGATGGTCACG------ATGC------------C---GA---TGCGCCCGATGAGGCGATATTGCGTCGCTCCAAGGAGAAGCGTGCTCAGAAAACCGATGC
droWil2	scf2_1100000004943:8728584-8728831 +	dwi_3383	AAAAAGTCAACACACACAATGCCACCAAAGCCGCAGCTTAAGCCAAAGCCACA---AGTAACGC---AAAAATTCTCGCGAAGTTCCGACCTTCGACGTGATA---ACGGCGACGATGACAATGAGCATGCCCACAAAATCAATACGGATACGATCATAATTAAACCAGCCA-C---------GG---C---------ACCCGAA------TC--GGCGAC------AGATGATAAT---CCCGATGAGACTATTCTGCGTCGATCTAAAGAAAAGCGGGCCCAGAAGACCGATTC
dp5	2:22319545-22319780 +		AAAAAGTCCACGCACACGATGCCGCCCAAGCCACAGATCAAGCCAAAGCCCCG---AGTCACCC---AGAAGTTCTCGCGCTCCTCCGACCTGCGACGGGAGG---ATGAC------------GA------CCACAAGATCAACACAGACACCATCATCATCAAGCCGGCGGCG---------CC---G---------GGCCAGC------ATGTCGACGCCTC---CGAGGACAAT---CCCGACGAGACGATACTGCGCCGGTCCAAGGAGAAGCGGGCCCAGAAGACCGATGC
droPer2	scaffold_3:2954604-2954624 -		GAAGAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAAGATGTCCGATGA
droAna3	scaffold_13340:15629842-15630089 -	dan_3112	AAAAAATCACCCCACGCCATGGCTCCCAAACCGCAAATAAAGCCCAAGCCCCG---GGTAACCC---AGAAGTTCTCGCGCACCTCCGACCTGCGGCGGGACG---AGGACGGCGAA---CACCC------GCACAAGGTCAACACAGACACGATCATCATCAAGCCGGCGGCA---------CC---C---------GGCCAGCACATAGACGCCGGTGG------CGATGACAAC---CCGGACGAGACGATACTCCGCCGGTCGAAGGAGAAGCGGACGCAGAAAACCGACGC
droBip1	scf7180000396708:4401488-4401735 +		AAGAAGTCACCGCATGCCATGGCCCCCAAGCCGCAAATCAAGCCCAAACCCCG---GGTGACTC---AGAAGTTCTCGCGCGCCTCCGACCTGCGGCGGGAGG---AGGACGGCGAA---CAGCC------CCACAAGATTAACACAGACACGATCATCATCAAGCCGGCGGCC---------AC---G---------GGCCAGCACATAGACGCCGGAGG------CGACGACAAC---CCGGACGAGACGATACTGCGCCGGTCGAAGGAGAAGCGGACGCAGAAAACCGACGC
droKik1	scf7180000302276:492837-493084 -		AAGAAGTCTCCGCACACGATGCCCCCCAAGCCCCAGATCAAGCCCAAGCCCCG---GGTTACCC---AGAAGTTCTCAAGGACCTCCGATCTGCGGCGGGAGG---AGGAAGGCGAC---CAGCA------GCACAAAGTCAACACGGATACCATCATCATCAAGCCGGCGACG---------GG---A-GCA-----GCATTGCATG---CGGACGGCGG------GGACGATAAT---CCGGACGAGACGATACTGCGCCGTTCAAAAGAGAAGCGGGCGCAGAAGACCGATGC
droFic1	scf7180000453796:322587-322831 +		AAGAAATCACCGCATGCCATGCCGCCTAAGCCACAGATCAAGCCCAAACCCCG---GGTAACCC---AGAAGTTCTCACGCACATCGGACCTCCGGCGGGACG---AGGACTCCGACAACAACCA------GCACACGATTAACACCGACACTATCATCATCAAGCCAGCCGGC---------GG---T---------GCCCAAG------ATGCCGGAGC------GGATGACAAT---CCAGATGAGACGATACTGCGCCGCTCGAAGGAGAAGCGAACCCAGAAGACCGATGC
droEle1	scf7180000490967:536993-537237 -		AAGAAATCGCCACATGCCATGCCGCCCAAGCCACAGATCAAGCCCAAACCCCGGAATGTTACCC---AGAAGTTCTCCCGCACCTCGGATCTCCGGCGAGAGG---AGGATTCCGAC---AACCA------GCATAAAATCAACACGGACACCATTATTATCAAGCCAGCCGGC---------GG---T---------GCCCAGG------ATGCCGGAGC------GGATGACAAT---CCGGATGAGACGATACTGCGCCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGC
droRho1	scf7180000777068:48833-49077 -		AAAAAATCGCCGCACACCATGCCGCCCAAACCGCAGATAAAGCCAAAACCCCGAGGGGTAACCC---AGAAGTTCTCACGCACCTCAGATCTCCGGCGAGAGG---AGGACTCCGAT---AACCA------GCACAAAATCAACACAGACACCATCATCATTAAGCCAGCCGGC---------AG---T---------GTCCAGG------ATGCCGCAAC------GGATGACAAT---CCGGACGAGACGATACTGCGTCGCTCCAAGGAGAAGCGGGCTCAGAAGACTGATGC
droBia1	scf7180000299102:208341-208576 -		AAGAAATCGCCACATGCCATGCCGCCCAAGCCGCAGATCAAGCCCAAACCCAG---GGTTACCC---AGAAGTTCTCACGCACATCGGACCTGCGGCAGGAGG---AGGACTCTGAA---AACCA------GCACAAGATCAACACGGACACCATCATCATCAAGCCGGCCGGC---------AA---T---------GCCCAGG------ATGC------------CGATGACAAT---CCGGACGAGACGATACTGCGCCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGC
droTak1	scf7180000415580:406494-406732 +		AAGAAATCGCCACACACCATGCCGCCCAAGCCGCAGATTAAGCCGAAGCCTCG---CGTAACCC---AGAAGTTCTCACGCACCTCGGACCTTCGCACGGAGG---AGGACTCCGAG---AATCA------GCACAAGATCAACACGGACACTATTATTATAAAGCCAGCCGGT---------GG---T-GGA-----GCCCAGG------ATGC------------CGATGACAAC---CCAGACGAGACCATACTGCGTCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGC
droEug1	scf7180000409557:265600-265841 +		AAGAAATCCCCACATACTATGCCGCCCAAGCCGCAGATTAAGCCAAAACCCCG---GGTAACCC---AGAAGTTCTCAAGAACATCAGATCTCCGGCGGGATG---AGGATTCCGAC---AATCA------GCACAAGATCAACACAGATACCATCATTATCAAGCCAGCCGGC---------GG---T---------GCCCAGG------ATGCTGGAGG------GGATGACAAT---CCAGACGAGACGATACTCCGTCGATCGAAGGAGAAGAGGGCTCAGAAGACCGATGC
dm3	chr3R:12277812-12278053 -		AAGAAATCGCCCCACACCATACCGCCCAAACCGCAAATCAAGCCCAAACCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATG---AGGACTCCGAC---AACCA------GCACAAGATCAACACAGACACAATCATCATCAAGCCAGCCGTA---------GG---G---------GCCCAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACCGATGC
droSim2	3r:8972115-8972350 +	dsi_7819	AAGAAATCGCCCCACACCATACCGCCCAAACCGCAAATCAAGCCCAAGCCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATG---AGGACTCCGAC---AACCA------GCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGC---------GG---T---------GCCCAGG------ATG------C------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACCGATGC
droSec2	scaffold_12:1869230-1869465 +	dse_797	AAGAAATCGCCCCACACCATACCGCCCAAACCGCTAATCAAGCCCAAGCCTCG---TGTAACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATG---AGGACTCCGAC---AACCA------GCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGC---------GG---T---------GCCCAGG------ATG------C------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACTGATGC
droYak3	3R:14136371-14136612 +	dya_1041	AAGAAGTCACCCCACACCATACCGCCCAAGCCGCAAATCAAGCCCAAACCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATTCGTCGCGATG---AGGACTCCGAC---AACCA------GCACAAGATCAATACGGACACCATCATCATCAAGCCTGCCGGC---------GG---T---------GCCCAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGTTCCAAGGAAAAGAGGACCCAAAAGACCGACGC
droEre2	scaffold_4770:11808827-11809068 -	der_603	AAAAAGTCGCCCCACACCATACCGCCCAAGCCGCAAATCAAGCCAAAGCCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGGGATG---AGGACTCCGAC---AACCA------GCACAAGGTCAACACGGACACCATCATCATCAAGCCAGCCGGC---------GG---G---------GCACAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGTTCCAAGGAGAAGAGAACACAAAAGACCGACGC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

AAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAGCCCAAACCCGCAAGCATCATTCAACACAAATTATCACGT------GATCTGCGTGGACAGG------ATGGAGAG---CTGCA------GAGCAAGATCAACACTGATACCATAATCATCAAGCCCGCTGCT---GCGGGCAGTGGG---------ACCCAAG------AGGGTGGCATCGATGCC---GA---TGCGCCCGAGGAAACAATTCTGCGTCGCTCGAAGGAGAAGAGGTCCCAGAAAACTGATGC	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.....................................................................................................................................................................................GCAGTGGG---------ACCCAAG------AGGGTGGCAT...........................................................................	25	1	3.00	3	1	0	0	0	0	2
.................................................................................................GACAGG------ATGGAGAG---CTGC............................................................................................................................................................................	18	1	2.00	2	2	0	0	0	0	0
................................................................................................................GAGAG---CTGCA------GAGCAAGAT............................................................................................................................................................	19	1	2.00	2	0	0	0	0	0	2
.....................................................................................................GG------ATGGAGAG---CTGCA------GAGCAA...............................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	1
.....................................................................................................................................................................................GCAGTGGG---------ACCCAAG------AGGGTGGC.............................................................................	23	1	1.00	1	0	0	0	0	0	1
...............................................................................GT------GATCTGCGTGGACAGG------ATGGAGAG---CT..............................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	1
......................................................................................................................................................................................................ACCCAAG------AGGGTGGCATC..........................................................................	18	1	1.00	1	1	0	0	0	0	0
........................................................................................................................................................................GCTGCT---GCGGGCAGTGGG---------AC................................................................................................	20	1	1.00	1	1	0	0	0	0	0
................................................................................................GGACAGG------ATGGAGAG---CTGCA------GAG..................................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0
...........................................................................................................................................................................................................................ATCGATGCC---GA---TGCGCCCGAGG.................................................	22	1	1.00	1	1	0	0	0	0	0
....................................................................................................AGG------ATGGAGAG---CTGCA------GAGCAAGAT............................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	1
................................................................................................GGACAGG------ATGGAGAG---CTGC............................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
AAGAAATCGCCACATCAACT....................................................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0
..............................................................................................................................................................................................................................GATGCC---GA---TGCGCCCGAGGAAAC.............................................	23	1	1.00	1	0	0	0	0	0	1
...............................................................................................................GGAGAG---CTGCA------GAGCAAGATCA..........................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
....................................................................................................................................................................................GGCAGTGGG---------ACCCAAG------AGGGTGGC.............................................................................	24	1	1.00	1	1	0	0	0	0	0
........................................................................................................................CTGCA------GAGCAAGATCAACACTGATAC................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1
.............................................................................................................................................................................................................................CGATGCC---GA---TGCGCCCGAGGAAAC.............................................	24	1	1.00	1	0	0	0	0	0	1
........................................................................................................................................................................GCTGCT---GCGGGCAGTGGG---------ACCC..............................................................................................	22	1	1.00	1	0	0	0	0	1	0
......................................................................................................................................................................................CAGTGGG---------ACCCAAG------AGGGTGGCAT...........................................................................	24	1	1.00	1	1	0	0	0	0	0
....................................................................................................................G---CTGCA------GAGCAAGATCAACACT.....................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
............CATCAACTGCCGCCCAAGCCA.......................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
...............................................................................GT------GATCTGCGTGGACAGG------ATGGAGAG---C...............................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	1
.............................................................................................................ATGGAGAG---CTGCA------GAGCAAGAT............................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1
.........................................................................................................................TGCA------GAGCAAGATCAACACTGAT..................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
..........................................................................................CTGCGTGGACAGG------ATGGAGAG---C...............................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1
....................................ATCAAGCCCAAACCCGCAAG................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0

droVir3

AAGAAATCGCCACATCAACTGCCGCCCAAGCCACAAATCAAACCGAAACCTTCGAGCGTTATCCAGCAAAAATTCTCACGT------GATCTGCGTAGCCTAGATGG------TG------AACC------ACACAAGATTAATACAGATACAATTATCATTAAGCCCAACAAT---TTGGGCAGCGCC---------AGTCAGG------AGGGCGGTATCGATGCC---GA---TGCGCCCGAGGAGACCATATTGCGTCGCTCCAAAGAGAAACGGGCACAGAAAACGGATGC	Size	Hit Count	Total Norm	Total	M027 Male-body	M028 Head	M047 Female-body	M061 Embryo	SRR060654 Ovary	SRR060655 Testis	SRR060656 Ovary	SRR060657 Testis	SRR060658 Ovary	SRR060659 Testis	SRR060660 Ovary	SRR060661 Embryo	SRR060662 Embryo	SRR060663 Embryo	SRR060664 Male-body	SRR060665 Female-body	SRR060666 Male-body	SRR060667 Female-body	SRR060668 Male-body	SRR060669 Female-body	SRR060670 Testis	SRR060671 Male-body	SRR060672 Female-body	SRR060673 Ovary	SRR060674 Ovary	SRR060675 Ovary	SRR060676 Ovary	SRR060677 Ovary	SRR060678 Testis	SRR060679 Testis	SRR060680 Testis	SRR060681 Testis	SRR060682 Embryo	SRR060683 Testis	SRR060684 Embryo	SRR060685 Embryo	SRR060686 Embryo	SRR060687 Embryo	SRR060688 Ovary	SRR060689 Testis	SRR1106712 embryo_0-2h	SRR1106713 embryo_0-2h	SRR1106714 embryo_2-4h	SRR1106715 embryo_4-6h	SRR1106716 embryo_4-6h	SRR1106717 embryo_6-8h	SRR1106718 embryo_6-8h	SRR1106719 embryo_8-10h	SRR1106720 embryo_8-10h	SRR1106721 embryo_10-12h	SRR1106722 embryo_10-12h	SRR1106723 embryo_12-14h	SRR1106724 embryo_12-14h	SRR1106725 embryo_14-16h	SRR1106726 embryo_14-16h	SRR1106727 larvae	SRR1106728 larvae	SRR1106729 mixed whole adult body	SRR1106730 embryo_16-30h	V047 Embryo	V053 Head	V116 Male-body	GSM1528803 follicle cells
..............................................................................................................................................................................................................................GATGCC---GA---TGCGCCCGAGGA................................................	20	1	4.00	4	0	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.......................................................................................................................................................................................AGCGCC---------AGTCAGG------AGGGC................................................................................	18	1	3.00	3	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................AGCGCC---------AGTCAGG------AGGGCGGTATC..........................................................................	24	1	2.00	2	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
.......................................................................................................................................................................................AGCGCC---------AGTCAGG------AGGGCGGT.............................................................................	21	1	2.00	2	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.......................................................................................GATCTGCGTAGCCTAGATGG------T......................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
............................................................................................................................................................................................................................TCGATGCC---GA---TGCGCCCGAGGAGAC.............................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
..................................AAATCAAACCGAAACCTTCGAGC...............................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................GTCGCTCCAAAGAGAAACGG.................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................ATGCC---GA---TGCGCCCGAGGAGA..............................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................AAACCTTCGAGCGTTATCCAGC.....................................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................GCGGTATCGATGCC---GA---TGCGCC......................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................AACCTTCGAGCGTTATCCAGC.....................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................T------GATCTGCGTAGCCTAGA................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................AGCGCC---------AGTCAGG------AGGGCGGTATCGATGC.....................................................................	29	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
.............................................................TCCAGCAAAAATTCTCACGT------GATC.............................................................................................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................GCAGCGCC---------AGTCAGG------AGGGC................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................AAGAGAAACGGGCACAGAAAACGGAC..	26	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................TGG------TG------AACC------ACACAAGATTAAT........................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................CTTCGAGCGTTATCCAGCA....................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................CAGG------AGGGCGGTATCGATGCC---GA---T...........................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................AAATTCTCACGT------GATCTGCGTAGC.....................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................CGATGCC---GA---TGCGCCCGAGGAGA..............................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
....................................................................................................................................................................................................................................................AGGAGACCATATTGCGTCGCTCC.............................	23	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................TCGATGCC---GA---TGCGCCCGAGGA................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................ATCCAGCAAAAATTCTCACGT------.................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................TATCATTAAGCCCAACAAT---TTGGGC.................................................................................................................	25	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................AGG------AGGGCGGTATCGATGCC---GA---T...........................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................GACCATATTGCGTCGCTCCA............................	20	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................AAACCTTCGAGCGTTATCCAG......................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
................................................................................T------GATCTGCGTAGCCTAGATGG------TG------AAC............................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................GAAACCTTCGAGCGTTATCCAGCA....................................................................................................................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................G------AACC------ACACAAGATTAATACAGAT..................................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................AAACGGGCACAGAAAACG.....	18	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................GTTATCCAGCAAAAATTCTCACGT------.................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................CTCACGT------GATCTGCGTAGCCTA..................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................CGAAACCTTCGAGCGTTATCC........................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
...............................CACAAATCAAACCGAAACCTTCGAGC...............................................................................................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droGri2

AAGAAATCGCCACATCAATTGCCGCCGAAGCCACAGATCAAGCCAAAGCCATCGAGCGTTATGCCGAACAAATTCTCACGT------GATCTCCGCTCCCTGGATGA------TGAT---AATCA------CAAAACGATCAACACGGACACCATCATCATTAAGGCGGCGCCGGGTGCCGGCAGTCCCGGCCACGATGGTCACG------ATGC------------C---GA---TGCGCCCGATGAGGCGATATTGCGTCGCTCCAAGGAGAAGCGTGCTCAGAAAACCGATGC	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
...........................................................................................................................................................................................................................................................................AAGGAGAAGCGTGCTCAGAAAACC.....	24	1	1.00	1	1	0
................................................CCATCGAGCGTTATGCCGAACAAATT..............................................................................................................................................................................................................................	26	1	1.00	1	1	0
.........................................................................................................................................................................................................................................................................CCAAGGAGAAGCGTGCTCA............	19	1	1.00	1	0	1
.........................................................................................................................................................................................................................................................................CCAAGGAGAAGCGTGCTCAGAAAAC......	25	1	1.00	1	1	0

droWil2

AAAAAGTCAACACACACAATGCCACCAAAGCCGCAGCTTAAGCCAAAGCCACA---AGTAACGC---AAAAATTCTCGCGAAGTTCCGACCTTCGACGTGATA---ACGGCGACGATGACAATGAGCATGCCCACAAAATCAATACGGATACGATCATAATTAAACCAGCCA-C---------GG---C---------ACCCGAA------TC--GGCGAC------AGATGATAAT---CCCGATGAGACTATTCTGCGTCGATCTAAAGAAAAGCGGGCCCAGAAGACCGATTC	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
...............................................................................................................GACGATGACAATGAGCATGC.....................................................................................................................................................................	20	1	2.00	2	0	0	2	0	0
...........................................................................................................................................................................................................................................AT---CCCGATGAGACTATTCTGCGTC..................................	24	1	2.00	2	0	2	0	0	0
................................................................................................................................................................................................................................................................TGCGTCGATCTAAAGAAAAGC...................	21	1	1.00	1	0	1	0	0	0
......................................................................................................................................................................................................................................................................GATCTAAAGAAAAGCGGGCCCAGAAG........	26	1	1.00	1	0	1	0	0	0
.......................................................................................GACCTTCGACGTGATA---ACGGCGACGAT...................................................................................................................................................................................	27	1	1.00	1	0	0	1	0	0
.....................................TTAAGCCAAAGCCACA---AGT.............................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0
...........................................................................................................................................................................................................................................AT---CCCGATGAGACTATTCT.......................................	19	1	1.00	1	0	0	0	1	0
.....................................................................................................................................................TACGATCATAATTAAACCAGC..............................................................................................................................	21	1	1.00	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................GTCGATCTAAAGAAAAGCGGGC...............	22	1	1.00	1	0	0	1	0	0
............................................................................................................................................................................................................................................................ATTCTGCGTCGATCTAAAGA........................	20	1	1.00	1	0	1	0	0	0
..........................................................................................................................................ATCAATACGGATACGATCAT..........................................................................................................................................	20	1	1.00	1	0	0	0	1	0
......................................................................................................A---ACGGCGACGATGACAATGAGCATGC.....................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0
............................................AAAGCCACA---AGTAACGC---AAA..................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1
..............................................................................................................................................ATACGGATACGATCATAATT......................................................................................................................................	20	1	1.00	1	1	0	0	0	0
............................................................................................................................................CAATACGGATACGATCATA.........................................................................................................................................	19	1	1.00	1	0	1	0	0	0
................................................................................................................................................................................................................................................CCCGATGAGACTATTCTGCGT...................................	21	1	1.00	1	0	0	0	1	0
..........................................................................................................................................................................................................................GAC------AGATGATAAT---CCCGAT..................................................	19	1	1.00	1	0	0	0	0	1
......................................................................................................................................................................................................................................................................GATCTAAAGAAAAGCGGGCCCAG...........	23	1	1.00	1	1	0	0	0	0
.................................................................................................GTGATA---ACGGCGACGATG..................................................................................................................................................................................	18	1	1.00	1	0	0	1	0	0
................................................................................................CGTGATA---ACGGCGACGATG..................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0
...................................................................................................................................................................................................................................................................GTCGATCTAAAGAAAAGCG..................	19	1	1.00	1	1	0	0	0	0
....................................................................................................ATA---ACGGCGACGATGACAAT.............................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0
.....................................................................................................................................................................................................................................ATGATAAT---CCCGATGAGACT............................................	20	1	1.00	1	0	0	1	0	0
.......................................................................................................................................................................................................................................................................ATCTAAAGAAAAGCGGGCCCAGA..........	23	1	1.00	1	0	0	1	0	0
......................................TAAGCCAAAGCCACA---AGT.............................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
.....................................................................................................................GACAATGAGCATGCCCACAAAATCAATA.......................................................................................................................................................	28	1	1.00	1	0	1	0	0	0
.....................................................................................................................................ACAAAATCAATACGGATACGATCATA.........................................................................................................................................	26	1	1.00	1	0	0	0	1	0
...................................................................................................................................................................................................................................................................GTCGATCTAAAGAAAAGCGGGCCCAGA..........	27	1	1.00	1	1	0	0	0	0
.................................................................................AGTTCCGACCTTCGACGT.....................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
............................................................................................................................................................................................C---------ACCCGAA------TC--GGCGAC------AGATGATA.............................................................	24	1	1.00	1	0	1	0	0	0
............................................................................................................GGCGACGATGACAATGAGCAT.......................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0
.................................................................................................GTGATA---ACGGCGACGATGACA...............................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0
....................................................................................................ATA---ACGGCGACGATGACAATGAGC.........................................................................................................................................................................	24	1	1.00	1	0	0	0	1	0
...........................................................................................................................................................................................................................................AT---CCCGATGAGACTATTCTGC.....................................	21	1	1.00	1	0	0	0	1	0
....................................................................................................................................................................................................................................GATGATAAT---CCCGATGAGACT............................................	21	1	1.00	1	0	0	1	0	0
...................................................................................................................ATGACAATGAGCATGCCCACAAA..............................................................................................................................................................	23	1	1.00	1	0	0	0	1	0
...............................CGCAGCTTAAGCCAAAGC.......................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
..........................................................................................................................................................................CA-C---------GG---C---------ACCCGAA------TC--GGCGAC------AGAT.................................................................	25	1	1.00	1	0	1	0	0	0
......................................................................................................................................................................................................................................................................GATCTAAAGAAAAGCGGGCCCAGA..........	24	1	1.00	1	0	0	0	1	0

dp5

AAAAAGTCCACGCACACGATGCCGCCCAAGCCACAGATCAAGCCAAAGCCCCG---AGTCACCC---AGAAGTTCTCGCGCTCCTCCGACCTGCGACGGGAGG---ATGAC------------GA------CCACAAGATCAACACAGACACCATCATCATCAAGCCGGCGGCG---------CC---G---------GGCCAGC------ATGTCGACGCCTC---CGAGGACAAT---CCCGACGAGACGATACTGCGCCGGTCCAAGGAGAAGCGGGCCCAGAAGACCGATGC	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
............................................................................CGCGCTCCTCCGACCTGCGAC.......................................................................................................................................................................................................	21	1	2.00	2	0	2	0	0	0	0	0	0	0	0
..................................................................................................................................................................AAGCCGGCGGCG---------CC---G---------GGCCAGC------.....................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......................GCCCAAGCCACAGATCAAGCCAA..........................................................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................ACAAGATCAACACAGACACCAC.............................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0
.......................GCCCAAGCCACAGATCAAGC.............................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................TGAC------------GA------CCACAAGATCAACA.......................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................ATCATCATCAAGCCGGCGGC...........................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................GGTCCAAGGAGAAGCGGGCCCA............	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................TCAACACAGACACCATCATC.........................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................ACTGCGCCGGTCCAAGGA........................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................GACAAT---CCCGACGAGACG............................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................ATACTGCGCCGGTCCAAGGA........................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................CAAGCCGGCGGCG---------CC---G---------GGCCAGC------ATGT.................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0

droPer2

GAAGAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAAGATGTCCGATGA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droAna3

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

droBip1

AAGAAGTCACCGCATGCCATGGCCCCCAAGCCGCAAATCAAGCCCAAACCCCG---GGTGACTC---AGAAGTTCTCGCGCGCCTCCGACCTGCGGCGGGAGG---AGGACGGCGAA---CAGCC------CCACAAGATTAACACAGACACGATCATCATCAAGCCGGCGGCC---------AC---G---------GGCCAGCACATAGACGCCGGAGG------CGACGACAAC---CCGGACGAGACGATACTGCGCCGGTCGAAGGAGAAGCGGACGCAGAAAACCGACGC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AAGAAGTCTCCGCACACGATGCCCCCCAAGCCCCAGATCAAGCCCAAGCCCCG---GGTTACCC---AGAAGTTCTCAAGGACCTCCGATCTGCGGCGGGAGG---AGGAAGGCGAC---CAGCA------GCACAAAGTCAACACGGATACCATCATCATCAAGCCGGCGACG---------GG---A-GCA-----GCATTGCATG---CGGACGGCGG------GGACGATAAT---CCGGACGAGACGATACTGCGCCGTTCAAAAGAGAAGCGGGCGCAGAAGACCGATGC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AAGAAATCACCGCATGCCATGCCGCCTAAGCCACAGATCAAGCCCAAACCCCG---GGTAACCC---AGAAGTTCTCACGCACATCGGACCTCCGGCGGGACG---AGGACTCCGACAACAACCA------GCACACGATTAACACCGACACTATCATCATCAAGCCAGCCGGC---------GG---T---------GCCCAAG------ATGCCGGAGC------GGATGACAAT---CCAGATGAGACGATACTGCGCCGCTCGAAGGAGAAGCGAACCCAGAAGACCGATGC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AAGAAATCGCCACATGCCATGCCGCCCAAGCCACAGATCAAGCCCAAACCCCGGAATGTTACCC---AGAAGTTCTCCCGCACCTCGGATCTCCGGCGAGAGG---AGGATTCCGAC---AACCA------GCATAAAATCAACACGGACACCATTATTATCAAGCCAGCCGGC---------GG---T---------GCCCAGG------ATGCCGGAGC------GGATGACAAT---CCGGATGAGACGATACTGCGCCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AAAAAATCGCCGCACACCATGCCGCCCAAACCGCAGATAAAGCCAAAACCCCGAGGGGTAACCC---AGAAGTTCTCACGCACCTCAGATCTCCGGCGAGAGG---AGGACTCCGAT---AACCA------GCACAAAATCAACACAGACACCATCATCATTAAGCCAGCCGGC---------AG---T---------GTCCAGG------ATGCCGCAAC------GGATGACAAT---CCGGACGAGACGATACTGCGTCGCTCCAAGGAGAAGCGGGCTCAGAAGACTGATGC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AAGAAATCGCCACATGCCATGCCGCCCAAGCCGCAGATCAAGCCCAAACCCAG---GGTTACCC---AGAAGTTCTCACGCACATCGGACCTGCGGCAGGAGG---AGGACTCTGAA---AACCA------GCACAAGATCAACACGGACACCATCATCATCAAGCCGGCCGGC---------AA---T---------GCCCAGG------ATGC------------CGATGACAAT---CCGGACGAGACGATACTGCGCCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AAGAAATCGCCACACACCATGCCGCCCAAGCCGCAGATTAAGCCGAAGCCTCG---CGTAACCC---AGAAGTTCTCACGCACCTCGGACCTTCGCACGGAGG---AGGACTCCGAG---AATCA------GCACAAGATCAACACGGACACTATTATTATAAAGCCAGCCGGT---------GG---T-GGA-----GCCCAGG------ATGC------------CGATGACAAC---CCAGACGAGACCATACTGCGTCGCTCCAAGGAGAAGCGGGCCCAGAAGACCGATGC	Size	Hit Count	Total Norm	Total
No Reads

droEug1

AAGAAATCCCCACATACTATGCCGCCCAAGCCGCAGATTAAGCCAAAACCCCG---GGTAACCC---AGAAGTTCTCAAGAACATCAGATCTCCGGCGGGATG---AGGATTCCGAC---AATCA------GCACAAGATCAACACAGATACCATCATTATCAAGCCAGCCGGC---------GG---T---------GCCCAGG------ATGCTGGAGG------GGATGACAAT---CCAGACGAGACGATACTCCGTCGATCGAAGGAGAAGAGGGCTCAGAAGACCGATGC	Size	Hit Count	Total Norm	Total
No Reads

dm3

AAGAAATCGCCCCACACCATACCGCCCAAACCGCAAATCAAGCCCAAACCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATG---AGGACTCCGAC---AACCA------GCACAAGATCAACACAGACACAATCATCATCAAGCCAGCCGTA---------GG---G---------GCCCAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACCGATGC	Size	Hit Count	Total Norm	Total	GSM154618 Ovary	GSM154620 Ovary	GSM154621 Ovary	GSM154622 Ovary	GSM180328 Head	GSM180329 Mixed-body	GSM180330 Embryo	GSM180331 Embryo	GSM180332 Embryo	GSM180333 Embryo	GSM180334 Larvae	GSM180335 Disc	GSM180336 Pupae	GSM180337 S2	GSM231091 Ovary	GSM239041 Head	GSM239050 Head	GSM239051 S2	GSM239052 S2	GSM246084 Head	GSM266765 S2	GSM280082 Ovary	GSM280083 Ovary	GSM280084 Ovary	GSM280085 Testis	GSM280086 Ovary	GSM280087 S2-NP	GSM280088 S2-NP	GSM312995 Head	GSM313160 Head	GSM313161 Head	GSM313162 Head	GSM313163 Head	GSM313164 Head	GSM313165 Head	GSM343287 Embryo	GSM379050 Ovary	GSM379051 Ovary	GSM379052 Ovary	GSM379053 Ovary	GSM379054 Ovary	GSM379055 Ovary	GSM379056 Ovary	GSM379057 Ovary	GSM379058 Ovary	GSM379059 Ovary	GSM379060 Ovary	GSM379061 Ovary	GSM379062 Ovary	GSM379063 Ovary	GSM379064 Ovary	GSM379065 Ovary	GSM379066 Ovary	GSM379067 Ovary	GSM424739 S2	GSM424740 S2	GSM424741 S2	GSM467729 Female-body	GSM467730 Female-body	GSM467731 Female-body	M002 CS	M003 Male-body	M004 Male-body	M005 ML-DmD32	M006 ML-DmD32	M029 OSC	M030 OSC	M031 OSC	M032 S2-R+	M033 S2-R+	M034 S2-R+	M035 S2-R+	M036 S2-R+	M037 S2-R+	M038 S2-R+	M039 S2-R+	M048 S2-R+	OSS2 OSS	OSS6 OSS	OSS7 OSS	OSS8 OSS	S1 Head	S10 Embryo	S11 Embryo	S12 Embryo	S13 Embryo	S14 Embryo	S15 S2-GMR	S16 Kc	S17 Larvae	S18 Larvae	S19 Pupae	S2 Head	S20 Pupae	S21 Disc	S22 Head	S23 Female-body	S24 Male-body	S25 Larvae	S26 Larvae	S27 Pupae	S28 Pupae	S29 Head	S3 Male-body	S30 S2-GMR	S31 S2	S32 S2	S33 Kc	S34 Kc	S35 Kc	S4 Female-body	S5 Disc	S6 Embryo	S7 Embryo	S8 S2	S9 Embryo	SRR001337 Head	SRR001338 Head	SRR001339 Head	SRR001340 Head	SRR001341 Head	SRR001342 Head	SRR001343 Head	SRR001344 Head	SRR001345 Head	SRR001346 Head	SRR001347 Head	SRR001348 Head	SRR001349 Head	SRR001664 Head	SRR010951 Ovary	SRR010952 Ovary	SRR010953 Ovary	SRR010954 Ovary	SRR010955 Ovary	SRR010956 Ovary	SRR010957 Ovary	SRR010958 Ovary	SRR010959 Ovary	SRR010960 Ovary	SRR014268 Embryo	SRR014269 Embryo	SRR014270 Embryo	SRR014271 Embryo	SRR014272 Embryo	SRR014273 Ovary	SRR014274 Ovary	SRR014275 Ovary	SRR014276 Ovary	SRR014277 Ovary	SRR014278 Ovary	SRR014279 Ovary	SRR014280 Ovary	SRR014281 Ovary	SRR014282 Ovary	SRR023197 S2	SRR023399 S2	SRR023400 S2	SRR023402 S2	SRR023407 S2	SRR029028 S2	SRR029029 S2	SRR029030 S2	SRR029031 S2	SRR029032 S2	SRR029033 S2	SRR029608 Head	SRR029633 Head	SRR030145 gb3	SRR031692 Head	SRR031693 Head	SRR031694 Head	SRR031696 Head	SRR031697 Head	SRR031698 Head	SRR031699 Head	SRR031700 Head	SRR031701 Head	SRR031702 Head	SRR031703 Head	SRR031704 Head	SRR032092 S2	SRR032093 S2	SRR032094 S2	SRR032095 S2-NP	SRR032096 S2-NP	SRR032152 Head	SRR060643 Testis	SRR060644 Ovary	SRR060645 Testis	SRR060646 Ovary	SRR060647 Ovary	SRR060648 Ovary	SRR060649 Ovary	SRR060650 Testis	SRR060651 Ovary	SRR060652 Testis	SRR060653 Ovary	SRR065151 Ovary	SRR065152 Ovary	SRR065153 Ovary	SRR065154 Ovary	SRR065155 Ovary	SRR065800 Ovary	SRR065801 Ovary	SRR065802 Ovary	SRR065803 Ovary	SRR065804 Ovary	SRR065805 Ovary	SRR065806 Ovary	SRR065807 Ovary	SRR097865 S2-NP	SRR097866 S2-NP	SRR097867 S2-NP	SRR298536 Ovary	SRR298537 Ovary	SRR298711 Ovary	SRR298712 Ovary	SRR317110 Ovary	SRR317111 Ovary	SRR317112 Ovary	SRR317113 Ovary	SRR317114 Ovary	SRR317115 Ovary	SRR317116 Ovary	SRR317117 Ovary	SRR341115 S2	SRR341116 S2	SRR341117 S2	SRR341118 S2	SRR351332 Mixed-body	SRR351333 Mixed-body	T004 OSC	T005 CME-L1	V001 Embryo	V002 Embryo	V003 S2	V006 Female-body	V007 Head	V008 S2	V009 CME-L1	V010 ML-DmD20-C5	V011 Sg4	V012 Male-body	V013 Head	V014 DTT	V015 DreRFHV	V018 Kc167	V019 GM2	V020 S2-R+	V021 ML-DmD21	V022 ML-DmD32	V023 Head	V024 Kc167	V025 S2-R+	V026 1182-2H	V027 ML-DmD21	V028 CME-W1-Cl.8+	V029 ML-DmD9	V030 ML-DmD8	V031 GM2	V032 S1	V033 CME-W1-Cl.8+	V034 ML-DmD16-C3	V035 ML-DmD32	V036 ML-DmD20-C5	V037 S2	V038 S2	V063 Ovary	V0632 Ovary	V064 Ovary	V0642 Ovary	V065 Ovary	V0652 Ovary	V066 Ovary	V0662 Ovary	V067 S2-NP	V073 mbn2	V074 S3	V075 ML-DmBG1-C1	V076 ML-DmBG3-C2	V077 Head	V078 Head	V079 Head	V080 Head	V081 Embryo	V082 Embryo	V083 Male-body	V084 Female-body	V085 CME-W2	V086 Female-body	V088 Ovary	V0882 Ovary	V089 Ovary	V0892 Ovary	V090 Male-body	V091 fGS/OSS	V092 Male-body	V093 Male-body	V094 S2-R+	V095 S2-R+	V096 Ovary	V097 Ovary	V098 Ovary	V125 ML-DmD9	V126 CME-L1	V127 G2	V128 S3	V129 ML-DmBG1-C1	V130 ML-DmBG3-C2	V131 ML-DmD16-C3	V132 ML-DmD32	V133 Sg4	V134 ML-DmD8	V135 CME-W2	V136 Male-body	V137 Head	V138 Male-body	V139 Female-body	V140 Female-body	V141 Female-body	V142 Female-body	V144 OSC	V145 S2	V146 S1	V147 1182-2H	V148 mbn2	GSM1528798 follicle cells
..................................................................................................................................................................................................................................................................CGCCGCTCCAAGGAGAAGAGGGC...............	23	1	8.00	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................GATATACGTCGAGATG---AGGACT........................................................................................................................................................................................	22	1	8.00	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................GTCGAGATG---AGGACTCCGAC---AACC............................................................................................................................................................................	24	1	7.00	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	7
...................................................................................TTCGGATATACGTCGAGATG---AGGAC.........................................................................................................................................................................................	25	1	7.00	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	2	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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...............................................................................................................................................................................................................................................................CTGCGCCGCTCCAAGGAGAAGAG..................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................TCCAAGGAGAAGAGGGCC..............	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................CACAATCATCATCAAGCCA................................................................................................................................	19	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................GAGATG---AGGACTCCGAC---G...............................................................................................................................................................................	18	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSim2

AAGAAATCGCCCCACACCATACCGCCCAAACCGCAAATCAAGCCCAAGCCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATG---AGGACTCCGAC---AACCA------GCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGC---------GG---T---------GCCCAGG------ATG------C------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACCGATGC	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
........................................................................................ATATACGTCGAGATG---AGGACTCC......................................................................................................................................................................................	23	1	2.00	2	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................G---AGGACTCCGAC---AACCA------GCACAAGGT............................................................................................................................................................	26	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................CGAGATG---AGGACTCCGAC---AACCA------GC...................................................................................................................................................................	25	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................CACTTCGGATATACGTCGAG....................................................................................................................................................................................................	20	1	2.00	2	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................TCAAGCCCAAGCCTCG---TGTCACAC---AGA..................................................................................................................................................................................................................................	27	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0
....................................................................................................ATG---AGGACTCCGAC---AACCA------GC...................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................GATATACGTCGAGATG---AGGA..........................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................TTCGGATATACGTCGAGATG---AGGA..........................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................ACAAGGTCAACACGGACACAATCATCAT.......................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................CGCACTTCGGATATACGTCGAGATG---A.............................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
......................................................................................GGATATACGTCGAGATG---AGGA..........................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................TATACGTCGAGATG---AGGA..........................................................................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................TGCGCCGCTCCAAGGAGAAGAGGGC...............	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................G---AGGACTCCGAC---AACCA------G....................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................GCACTTCGGATATACGTCGAG....................................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................GAGATG---AGGACTCCGAC---AACC............................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................C---AACCA------GCACAAGGTCAACACGG....................................................................................................................................................	23	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................ACCA------GCACAAGGTCAACACG.....................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................C---AACCA------GCACAAGGTCAACACGGACAC................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................G---AGGACTCCGAC---AACCA------GCA..................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................AACACGGACACAATCATC.........................................................................................................................................	18	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................GTCACAC---AGAAGTTCTCAC.........................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................CCTCG---TGTCACAC---AGAA.................................................................................................................................................................................................................................	17	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..................................................................................................AGATG---AGGACTCCGAC---AACCA------G....................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................GATG---AGGACTCCGAC---AACCA------GCA..................................................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................TG---AGGACTCCGAC---AACCA------GCACAAGG.............................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
...........................................................................................TACGTCGAGATG---AGGACTCCGAC---AACCA------G....................................................................................................................................................................	29	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................ATATACGTCGAGATG---AGGACT........................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................GGATATACGTCGAGATG---AGGACTCC......................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................GATG---AGGACTCCGAC---AACCA------GC...................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................GTCACAC---AGAAGTTCTCACGC.......................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................ACGGACACAATCATCAA.......................................................................................................................................	17	3	0.33	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0

droSec2

AAGAAATCGCCCCACACCATACCGCCCAAACCGCTAATCAAGCCCAAGCCTCG---TGTAACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGAGATG---AGGACTCCGAC---AACCA------GCACAAGGTCAACACGGACACAATCATCATCAAGCCAGCCGGC---------GG---T---------GCCCAGG------ATG------C------GGATGATAAT---CCCGACGAGACGATACTGCGCCGCTCCAAGGAGAAGAGGGCCCAGAAAACTGATGC	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
..................................................................................CTTCGGATATACGTCGAGATG---AGG...........................................................................................................................................................................................	24	1	1.00	1	0	1	0	0
......................................................................................................................................................................................................................................................................GCTCCAAGGAGAAGAGGGCCCAGAAAACT.....	29	1	1.00	1	0	0	1	0
.......................................................................................................................................................................................................................................................AGACGATACTGCGCCGCT...............................	18	1	1.00	1	0	0	1	0
.................................................................................ACTTCGGATATACGTCGAGATG---AGG...........................................................................................................................................................................................	25	1	1.00	1	0	1	0	0
.................................................CTCG---TGTAACAC---AGAAGTTCT............................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0
.........................................................GTAACAC---AGAAGTTCTCACGCA......................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0
.........................................GCCCAAGCCTCG---TGTAACAC---A....................................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0
............................................................................................................................................................................................................................................................ATACTGCGCCGCTCCAAGGAGAAG....................	24	1	1.00	1	0	1	0	0
..........................................CCCAAGCCTCG---TGTAACA.........................................................................................................................................................................................................................................	18	1	1.00	1	0	0	1	0
......................................................................................GGATATACGTCGAGATG---AGG...........................................................................................................................................................................................	20	1	1.00	1	1	0	0	0
......................................................................................................................................................................CAGCCGGC---------GG---T---------GCCCAGG------ATG------C------GGAT.................................................................	26	1	1.00	1	0	1	0	0
..........................................................................................................AGGACTCCGAC---AACCA------GCACA................................................................................................................................................................	21	1	1.00	1	0	0	1	0
............................................................................CACGCACTTCGGATATACGTC.......................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0
...................................................................................................................................................................AGCCAGCCGGC---------GG---T---------GCCCAGG------ATG------C------GGAT.................................................................	29	1	1.00	1	0	0	1	0

droYak3

AAGAAGTCACCCCACACCATACCGCCCAAGCCGCAAATCAAGCCCAAACCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATTCGTCGCGATG---AGGACTCCGAC---AACCA------GCACAAGATCAATACGGACACCATCATCATCAAGCCTGCCGGC---------GG---T---------GCCCAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGTTCCAAGGAAAAGAGGACCCAAAAGACCGACGC	Size	Hit Count	Total Norm	Total	M026 Head	M043 Female-body	M056 Embryo	V046 Embryo	V052 Head	V058 Head	V120 Male-body	SRR1275488 Male larvae	SRR1275486 Male prepupae	SRR1275484 Male prepupae	GSM1528802 follicle cells
............................................................................CACGCACTTCGGATATTCGTCGCG....................................................................................................................................................................................................	24	1	21.00	21	0	0	0	0	0	0	0	0	0	0	21
........................................................................................................................................................CATCATCATCAAGCCTGCCGGC---------GG---T---------..................................................................................................	25	1	2.00	2	0	1	0	0	0	0	1	0	0	0	0
..............................................................................................................................................................CATCAAGCCTGCCGGC---------GG---T---------..................................................................................................	19	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0
............................................................................CACGCACTTCGGATATTCGTCGC.....................................................................................................................................................................................................	23	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0
..................................................................................................................GAC---AACCA------GCACAAGATCAATACGGACAC................................................................................................................................................	29	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
............................................CAAACCTCG---TGTCACAC---AGA..................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................GCCGTTCCAAGGAAAAGAG..................	19	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0
.......................................................................GTTCTCACGCACTTCGGA...............................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0
.....................................................................................CGGATATTCGTCGCGATG---AGGACTCC......................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.....GTCACCCCACACCATACCGCC..............................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.......................................................................................GATATTCGTCGCGATG---AGGA..........................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.............................................................................................................................................................................................................................................................................GGAAAAGAGGACCCAAAAGACCG....	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................CGCCGTTCCAAGGAAAAGAG..................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................AATACGGACACCATCATCATC......................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................AAAGAGGACCCAAAAGACCGA...	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
........................................................................................ATATTCGTCGCGATG---AGGACTCCGA....................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
................................................................................................CGCGATG---AGGACTCCGAC---AACCA------GC...................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
........................................................................................ATATTCGTCGCGATG---AGGA..........................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................................................ACCATCATCATCAAGCCTGCCGGC---------GG---T---------..................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................CGCACTTCGGATATTCGTCGCGATG---..............................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...............................................................................................................................................................................................................................................................................AAAAGAGGACCCAAAAGACC.....	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................GCCCAGG------ATGCTGGAGC------GGATG................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................GATAAT---CCCGACGAGACGATACTGCGC...................................	27	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
..........................................................................................................................................................TCATCATCAAGCCTGCCGGC---------GG---T---------..................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGAAAAGAG..................	27	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...................................................................................................................................GCACAAGATCAATACGGACACCATC............................................................................................................................................	25	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................CGAGACGATACTGCGCCGT................................	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
....................................................................................................ATG---AGGACTCCGAC---AACCA------GC...................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................AT---CCCGACGAGACGATACTGCGC...................................	23	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
....................................................................................................................................CACAAGATCAATACGGACACCA..............................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................GTTCCAAGGAAAAGAGGACCCAAAAGAC......	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.......................................................................GTTCTCACGCACTTCGGATATTCGTCGC.....................................................................................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................GCTGGAGC------GGATGATAAT---CCCGACG.................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGAAA......................	23	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0

droEre2

AAAAAGTCGCCCCACACCATACCGCCCAAGCCGCAAATCAAGCCAAAGCCTCG---TGTCACAC---AGAAGTTCTCACGCACTTCGGATATACGTCGGGATG---AGGACTCCGAC---AACCA------GCACAAGGTCAACACGGACACCATCATCATCAAGCCAGCCGGC---------GG---G---------GCACAGG------ATGCTGGAGC------GGATGATAAT---CCCGACGAGACGATACTGCGCCGTTCCAAGGAGAAGAGAACACAAAAGACCGACGC	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
..................................AAATCAAGCCAAAGCCTCG---T...............................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0	0
..........................................................................................................................................................................................................AGG------ATGCTGGAGC------GGATGATAAT---........................................................	23	1	1.00	1	0	0	0	0	1	0	0
......................................................................................................................................................................................................................................................................GTTCCAAGGAGAAGAGAACAC.............	21	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................................................................................................................................................................AT---CCCGACGAGACGATACTGCGCCGTT...............................	27	1	1.00	1	0	1	0	0	0	0	0
.........................................................................................................................................GGTCAACACGGACACCATCATCATCA.....................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0
..........................CAAGCCGCAAATCAAGCCAAAGCCT.....................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0
...........................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGA........................	21	1	1.00	1	0	0	0	0	1	0	0
...................................................................................................................................................................................................................................................................GCCGTTCCAAGGAGAAGAGA.................	20	1	1.00	1	0	0	0	0	1	0	0
.......................................AAGCCAAAGCCTCG---TGTCACAC---AGA..................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1	0	0
................................GCAAATCAAGCCAAAGCCTCG---T...............................................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................TCCAAGGAGAAGAGAACACAAAA.........	23	1	1.00	1	0	0	0	0	0	1	0
.........................................................GTCACAC---AGAAGTTCTCACGCACTT...................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0
............................................................................................................................................................................................................................................................ATACTGCGCCGTTCCAAGGAGAAGA...................	25	1	1.00	1	0	0	0	0	0	1	0
............................................................................................................GACTCCGAC---AACCA------GCACA................................................................................................................................................................	19	1	1.00	1	0	0	0	0	1	0	0
...............................................................................GCACTTCGGATATACGTCGGGATG---AG............................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1	0
..........................................................................................ATACGTCGGGATG---AGGACTCCGAC---AAC.............................................................................................................................................................................	27	1	1.00	1	0	0	0	0	1	0	0
....................................................................................................................................................................................................................................GATGATAAT---CCCGACGAGAC.............................................	20	1	1.00	1	0	0	0	0	1	0	0
....................................................................................................................................................................GCCAGCCGGC---------GG---G---------GCACAGG------A....................................................................................	21	1	1.00	1	0	0	0	0	1	0	0
.......................................AAGCCAAAGCCTCG---TGTCACAC---.....................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	1	0	0
..............................................................................................................................................................CATCAAGCCAGCCGGC---------GG---............................................................................................................	18	1	1.00	1	1	0	0	0	0	0	0
...............................................................................................TCGGGATG---AGGACTCCGAC---AACCA------GCA..................................................................................................................................................................	27	1	1.00	1	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................ATACTGCGCCGTTCCAAGGAGAAG....................	24	1	1.00	1	0	0	0	0	1	0	0
....................................................................................................................C---AACCA------GCACAAGGTCAACACGGACACC...............................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGAGAA.....................	24	1	1.00	1	0	0	0	0	1	0	0
.........................................................GTCACAC---AGAAGTTCTCACGCA......................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1	0
......................................................................................GGATATACGTCGGGATG---AGGACTCC......................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0	0
..........................................................................CTCACGCACTTCGGATATACGTCGG.....................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1	0	0
........................................................................................................................................................................GCCGGC---------GG---G---------GCACAGG------ATGCTGGAGC------GGA..................................................................	29	1	1.00	1	0	0	0	0	1	0	0
............................................................ACAC---AGAAGTTCTCACGCAC.....................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0
............................................................................................................................................CAACACGGACACCATCATC.........................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................GATACTGCGCCGTTCCAAGGAG.......................	22	1	1.00	1	0	0	0	0	1	0	0
........................................................................................................................................................................................................................................................GACGATACTGCGCCGTTCCAAGGA........................	24	1	1.00	1	1	0	0	0	0	0	0
.......................................................................................................................................................................................GG---G---------GCACAGG------ATGCTGGAGC------GGA..................................................................	23	1	1.00	1	0	0	0	0	1	0	0
....................................................G---TGTCACAC---AGAAGTTCTCACGCA......................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	1	0	0	0
.........................................GCCAAAGCCTCG---TGTCACAC---AGAAGT...............................................................................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................ATACTGCGCCGTTCCAAGGA........................	20	1	1.00	1	0	0	0	0	1	0	0

dmo_2029

scaffold_6540:22893406-22893556 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-26.8	-26.6	-26.5