dvi_3417

Name	Class	Family	Strand
(ACTG)n	Simple_repeat	Simple_repeat	+

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## TTAATCAGTCAGTCAGTCAAGTTAATCAATCAATTAGTAAATCAATCAATCTGTCAGAAATTTTGGATCTCTATCAATCAAACGGCCATAATAGCAGTCAATCAGATAGTCAATCAATCAGTAACTCAATTAGTCTGTCAATCAATCAGTTAGTTAGTTTAAACTGTTCTTAGATGAAATCAATCTCCTTGCCTTTGACAGACCTACAATGTGGATAAACAGGTGCCGGACTCGGCGGGCACAGCTACAGC ************************************************((((((((......(((...(((((......((.((.......)).))......))))).........((((((((.((((((.(((.........)))))))))))))...))))(((......))).......))).....))))))))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060659 Argentina_testes_total	SRR060689 160x9_testes_total	M027 male body	SRR060676 9xArg_ovaries_total	SRR060668 160x9_males_carcasses_total	SRR060666 160_males_carcasses_total	SRR060669 160x9_females_carcasses_total	SRR060679 140x9_testes_total	SRR1106729 mixed whole adult body
......................................................................................................................................................................................................................ATAAACAGGTGCCGGACTCGGCG..............	23	0	1	1.00	1	1	0	0	0	0	0	0	0	0
.........................................................AATTTGTGGATCTCTATCAA..............................................................................................................................................................................	20	2	2	0.50	1	0	1	0	0	0	0	0	0	0
..................................................................................................................................................TAGTTAGTTAGTTTAAACTGT....................................................................................	21	1	3	0.33	1	0	0	0	1	0	0	0	0	0
......................................AAATCAATCAAAATGTCTGAAAT..............................................................................................................................................................................................	23	3	8	0.25	2	0	0	0	0	1	1	0	0	0
...............................................................................................................................................................................GAAATCAATCTCGTTGGCT.........................................................	19	2	4	0.25	1	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................TTTGACTGTCCTGCAATGTGG.....................................	21	3	6	0.17	1	0	0	1	0	0	0	0	0	0
........................................ATCAATCAAAATGTCTGAAATT.............................................................................................................................................................................................	22	3	13	0.15	2	0	0	0	0	1	0	1	0	0
...................................................................................................................AATCAGTAACTCACT.........................................................................................................................	15	1	20	0.05	1	0	0	0	0	0	0	0	0	1
.........................................................................................................AAAGGCATTCAATCAGTAAC..............................................................................................................................	20	3	20	0.05	1	0	0	0	0	0	0	0	1	0

AATTAGTCAGTCAGTCAGTTCAATTAGTTAGTTAATCATTTAGTTAGTTAGACAGTCTTTAAAACCTAGAGATAGTTAGTTTGCCGGTATTATCGTCAGTTAGTCTATCAGTTAGTTAGTCATTGAGTTAATCAGACAGTTAGTTAGTCAATCAATCAAATTTGACAAGAATCTACTTTAGTTAGAGGAACGGAAACTGTCTGGATGTTACACCTATTTGTCCACGGCCTGAGCCGCCCGTGTCGATGTCG ************************************************((((((((......(((...(((((......((.((.......)).))......))))).........((((((((.((((((.(((.........)))))))))))))...))))(((......))).......))).....))))))))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	GSM1528803 follicle cells	SRR060666 160_males_carcasses_total	M047 female body	M028 head	SRR060676 9xArg_ovaries_total
...........................................................................................................................................................GCAAATTTGACAATAAGCTAC...........................................................................	21	3	3	0.33	1	0	1	0	0	0
...............CAGTCCAATTAGTTAG............................................................................................................................................................................................................................	16	1	4	0.25	1	1	0	0	0	0
...............CACTCCAATTAGTTAGTTA.........................................................................................................................................................................................................................	19	2	8	0.25	2	2	0	0	0	0
..................................................................................................................................................................................TAGTTAGGGGAAGGGAAA.......................................................	18	2	10	0.10	1	0	0	1	0	0
...............................................................................................TCAGTTAGTCGATCAGTTAGTT......................................................................................................................................	22	1	12	0.08	1	0	0	0	1	0
......................................TTTAGTTTGTTAGACCGTCTA................................................................................................................................................................................................	21	3	20	0.05	1	0	0	0	0	1

Species	Coordinate	ID	Alignment
droVir3	scaffold_12855:1470306-1470556 -	dvi_3417	TT-AATCAGTCAGTCAGTCA----AGTTAATCAATCAATTAGTAA-----------------------------------------------------------------------------------------------------ATCAATCAATCTGT--------------------------------------------------------CAGAAATTTTGGATCTCTATCAATCA--------AACGGC--------CA----TAATA--------G----CAGT-CAATCAGATAGTCAATCAATCAGT--AACTCAA------------------------T--------TAGTCTGTCAATCAA----------------TCAGTTAG------------TTAGTTTAAACTGTT---------------------------------CTTAGATGAAA-------TCAATC----------------------------------------------------TC-----CTTGC--CTTTGACAGACCTACAATGTGGATAAACAGGTGCCGGACTCGGCGG-GCACAGCTACAGC
droMoj3	scaffold_6540:27213830-27214113 -		TT-TATCATTCAGTCT--CAGGTTATGCAATCAGTCTATTATGCA------AC---------------------------------------------------------------------------------------------CTAAGCTAATTGATGCTGATTGAATGCT-TTTTCTAAACCTCTCCTTATATCATTCGATAACAGTTCAGTAAATT----------TTTATCAATTGCTCA----ATCAGT----------------GCG-------------TTGT-CAATCAGAGGCTCATTC----AG----------------------------------TCATCG--------AGTCG---AATCA----GTATC----CTGAT--------------------CCATC-AATC--ATAAAT--AAACT--------------------------------ATAATTAATGTTCT--------------------------------------------------------------CTTTGGCAGACCTACAACGTGGACAAACAGGTGCCGGATTCGGCGG-GCACAGCCACGGC
droGri2	scaffold_14853:9888330-9888513 +		TC-AGTCAGTCGGTCAGTC-----AGTCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCAGTCGGT--------------------------------------------------------CAGTC------------AGTCACTAA--------GTCAGTCAGTCAGTCA----GTCAG--------T----CAGTC---------------------AGT--CAGTCAG----------------------------------------TTACTAAGTCA----GTCAG----TCAATTAGTTAGTCATTCAG----TT------------G---------------TCAGCTTCTCAATGCTTACAT-AAA-------TCAATT----------------------------------------------------TA-----CTTACGCTT----------------------------------------------------------
droWil2	scf2_1100000004511:3806321-3806417 +		AG-ATGAAACTATCCTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTTTCGAAGACCTATTCGGTGGATAAAATTGTGCCCGACAGTGCCT-GCACTTCCACCTC
dp5	XR_group8:2912638-2912862 +		TC-AGTCAGTCAATCAGTC-----AATCAATCAATCAATCAGCCGTAAATAACAACTAACTTACGGAACGACGACATTTTGTTGCAGCAATTTGCCCGAAAATGTCTCGGAATTCTACTGTTGCAACTTCTGTTGTTGCCAACGACATCAGTCAGTCAGT--------------------------------------------------------CAGTC------------AGTTAGTCG--------GTTAGT----------------CAG--------T----TAGT---------------------CAGT--CATGCAG------------------------T--------CATTCAGTCAAGCAA----------------TCAGTTAG------------CTAGTCCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_15:638324-638457 +		TT-GGTTAGCAAGTCAGTC-----ACTCAGTCACTCATTCAGTCA-----------------------------------------------------------------------------------------------------TTCACTCAGTGAGT--------------------------------------------------------CTGTG------------AATCAAACA--------GTCAGTCAATCGGTCA----GTCAG--------T----CAGT---------------------CAGT--CAGTCAG----------------------------------------TCAGTCAGTCA----GTCAG----TCATTCAG------------CAAGTT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droAna3	scaffold_13335:1748851-1748989 +		GTCGGTCA----GTCAGTCAG-TCAGTCTATCAGTCAGTTAGTCA-----------------------------------------------------------------------------------------------------ATCA----GTCAGT--------------------------------------------------------TAGTC------------AATCAGTCC--------GTTAGTCAATCAGTCA----GATAG--------T----CAAT-----------------C----AATCA------GTTAGT----CAAT----------------C----------------CG-CAGATAGTCAA----TCAATCAG----TTAG----TCAATCT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBip1	scf7180000394714:86154-86271 +		TC-AGTCAGTCAGTCAGTC-----AGTCAGTTAGTCAGTTAGTCA-----------------------------------------------------------------------------------------------------ATCAATCAATCAGT--------------------------------------------------------TAGTC------------AATCATTCA--------GTTAGTCAATCATTCA----ATTAG--------T----CAATC-------------ATTC----AGTTT------G--------------------------------------------------------TGAG----TTTAT--------------------CAAAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droKik1	scf7180000302696:1885619-1885779 +		TC-AGTCAGTCAGTCAGTC-----AGTCAATCAGTGAGTCAGTCG-----------------------------------------------------------------------------------------------------GACAATCAATCAGT--------------------------------------------------------CAGTT------------AGTCAGTCG--------GTCTATAAATCCCTCA----ATCAG--------T----CAGTC-------------AGCC----AATCA------G--------------------------------------------------------TGAG----TCAGT--------------------CAAGC-AATT--GGAGTT--CAACT--------------------------------TTAGT----------------------------------------------CTTCAAAAACTCG-----CTCGC--CTTTG-------------------------------------------------------
droFic1	scf7180000453872:503545-503653 +		GTCAGTCA----GTCAGTCAG-CAAGTCAATCAGCCAGTTAGTCA-----------------------------------------------------------------------------------------------------ATCAGTCATT------------------------------------------------------------TAGTC------------AATTAGTCA--------ATCAG--------T--------CAG--------T----CAGTC-------------AGTC----AGC----------------------------------------------------------CA----GTGAG----TCAAT--------------------CAGGC-AATT--GG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000490276:4096-4240 +		TC-AATAAATCAATAAATC-----AATAAATCAATAAATCAATAA-----------------------------------------------------------------------------------------------------ATCAATAAATCAAT--------------------------------------------------------AAATC------------AATAAATCA--------ATAAATCAATAAATCA----ATAAA--------T----CAAT-----------------A----AAT------------------CAATAAA------------------------TCAATAAATCA----ATAAATCAATAAATCAA----TAAATCAATAAAT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1	scf7180000779914:687905-688061 -		TC-AATCAGTCAGTCAGTC-----AGTCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCAGTCAGT--------------------------------------------------------CAGTC------------AGTCAGTCA--------GTCAGTCAGTCAGTCA----GTCAG--------T----CAGTC-------------AGTC----AGTCA------GTTAGT----CAGTCAG--------T----C----AGTCAGTCATTCAGTCA----GTTAG----TCAAT--------------------CAGTC-AGTT--AG---------------T-------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBia1	scf7180000302193:4603781-4604018 +		GT-TATTAA---GAAAGTTAA-GTTATTATAAAAGTAATTAGAAA-----------------------------------------------------------------------------------------------------ATAAAAAAGTTGACGTAGGATAAAAAGTGTCTT-----------------------ATCAACAGT-CAGAAAATC------------ATGTGTTAA--------ACTAACAAATTGCTAA----TTAAT---------------------------------------------------------------------------T--------TAGTATATCTGTGAA----------------TGAA------------C----GTGCCAAAACTATT--AG-----------TG--------------------ACT--GA-------TTAATC----------------------------------------------------TCCTACCT------CCATTCCAGACCTATTGCGTCAATAAACAGGTGGCCGACTCTGCCT-GCACAGCCTCGGC
droTak1	scf7180000410393:20934-21105 +		TC-TGTCAGTCTGTCAGTC-----TGTCAGTCTGTCAGTCTGTCA-----------------------------------------------------------------------------------------------------GTCTGTCAGTCTGT--------------------------------------------------------CAGTC------------TGTCAGTCT--------GTCAGTCTGTCAGTCT----GTCAG--------T----CTGT-----------------C----AGTCT------GTCAGT--------CTG------------------------TCAGTCTG--------TCAGTCTGTCAGTCTG----TCAGTCTGTCCGTTTC-----TATGCGAACTAG-----TCTCT---------------------------------------------------------------------------------CAGTT---T--------------T----------------------------------------------------------
droEug1	scf7180000409762:74937-75149 -		TA-AGTCTGTCAGTCTGTC-----AGTCTGTCAGTCTGTCAGTCT-----------------------------------------------------------------------------------------------------GTCAGTCTGTCAGT--------------------------------------------------------CTGTC------------AGTCTCTCA--------GTCTGTCAGCCTGTCC----ATCTG--------T----CAGTC-------------TGTG----AGTCT------GTGAGTTTGTCAGT----------------CTGTTGGTCTGTCTCTCAA----------------TCAG------------TCTGTCAGTTTA-----TT--AG-----------TCTGTCCATC-----------------TAACTGTCCTTCA--GTCT--------------------------------------------------------------GTCTGACAGACTGTAAGTCTGGACTGACAG------------------------------
dm3	chrX:17884505-17884640 -		TC-AGTCAGTCAATCAATC-----AGTCAGTCAGTCAGTCAGTCC-----------------------------------------------------------------------------------------------------GTCAGTCAGTCGGT--------------------------------------------------------CAGTC------------AGTTAGTCA--------GCCAGCTAGTCAGTTA----GC-----------------------------------------TAGT--CATTCAT------------------------T--------CAGTCAGTCAATCAGTCA----GTGTG----TCAAT--------------------CTGAC-AATT--GG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSim2	x:14689583-14689827 -		TC-AGCTAGTGTGTCTGTC-----AGTTAGTCAGTTAGTCAGTTA-----------------------------------------------------------------------------------------------------GTCACTTAGTCAGT--------------------------------------------------------AAGTC------------AGTTAGTCA--------CTTAGTCAGTAAGCCA----GTTTG--------T----CAGT---------------------TAGT------------------CAGTTGGTCAGTTAGTCGCTA--------AGTCG--------GCTAGTCAG----TCTGTCAG----TTAG----TCAGTTA-----------G---------------TCAGCCCCC------ACAGAACAAAGTT----------GTCTGCCCGATATAGGCCACAATGTGGGGCTGTAAACAAAACTTGAACA-------------------------------------------------------CTCGACGGAGCACTGACATAAC
droSec2	scaffold_37:101741-101993 -		CC-AGTGGGTCAGTTAGTC-----AGTTGGTCATTTAGTCGCTAA-----------------------------------------------------------------------------------------------------GTCGGCTAGTCAGT--------------------------------------------------------CTGTC------------AGTTAGTCA--------GTTGGTCACTTAGTCGCTAAGTCGGCTAGGCAGTCTGTCAGT---------------------TAGT------------------CAGTTGGTCATTTAGTCGCTA--------AGTCG--------GCTAGGCAG----TCTGTCAG----T------------TA-----------G---------------TCAGCCCCC------ACAGAACAAAGTT----------GTCTGCCCGATATAGGCCACAATGTGGGGCTGTAAACAAAACTTGAACA-------------------------------------------------------CTCGACGGAGCACTGACATAAC
droYak3	X:16503420-16503586 -		TC-AGTCAGTCAGTCAGTC-----AGTCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCTGTCAGT--------------------------------------------------------TAGAC------------AGTCAGTCA--------GTTAGTCGGCCAGCTA----GTCAG--------T----TAGC---------------------TAGT------------------CAGTCAG------------------------TCAGTTAGTCA----GTGAG----TCAAT--------------------CAGGC-AATT--GG--------------------------------------------------------------------------------AGTTTTTAACCAAACTTCAATA---TT-----TTTAC--CT----------------------------------------------------------
droEre2	scaffold_4690:8212287-8212420 -		GTCAGTCA----GTCAGTCAG-TCAATCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCAGTCAGT--------------------------------------------------------CAG----------------TCAGTCA----GTCAGTCAGTCAGTCAGTC-------------------------------------------------AGT------------------CAGTCGGTCCGTCAGTCAG------------TTAGTCAGCCA----GCTAG----TCAGCCAG----C--------TA---------------G---------------T-------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

TT-AATCAGTCAGTCAGTCA----AGTTAATCAATCAATTAGTAA-----------------------------------------------------------------------------------------------------ATCAATCAATCTGT--------------------------------------------------------CAGAAATTTTGGATCTCTATCAATCA--------AACGGC--------CA----TAATA--------G----CAGT-CAATCAGATAGTCAATCAATCAGT--AACTCAA------------------------T--------TAGTCTGTCAATCAA----------------TCAGTTAG------------TTAGTTTAAACTGTT---------------------------------CTTAGATGAAA-------TCAATC----------------------------------------------------TC-----CTTGC--CTTTGACAGACCTACAATGTGGATAAACAGGTGCCGGACTCGGCGG-GCACAGCTACAGC	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
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAAACAGGTGCCGGACTCGGCG...............	23	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

TT-TATCATTCAGTCT--CAGGTTATGCAATCAGTCTATTATGCA------AC---------------------------------------------------------------------------------------------CTAAGCTAATTGATGCTGATTGAATGCT-TTTTCTAAACCTCTCCTTATATCATTCGATAACAGTTCAGTAAATT----------TTTATCAATTGCTCA----ATCAGT----------------GCG-------------TTGT-CAATCAGAGGCTCATTC----AG----------------------------------TCATCG--------AGTCG---AATCA----GTATC----CTGAT--------------------CCATC-AATC--ATAAAT--AAACT--------------------------------ATAATTAATGTTCT--------------------------------------------------------------CTTTGGCAGACCTACAACGTGGACAAACAGGTGCCGGATTCGGCGG-GCACAGCCACGGC	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

TC-AGTCAGTCGGTCAGTC-----AGTCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCAGTCGGT--------------------------------------------------------CAGTC------------AGTCACTAA--------GTCAGTCAGTCAGTCA----GTCAG--------T----CAGTC---------------------AGT--CAGTCAG----------------------------------------TTACTAAGTCA----GTCAG----TCAATTAGTTAGTCATTCAG----TT------------G---------------TCAGCTTCTCAATGCTTACAT-AAA-------TCAATT----------------------------------------------------TA-----CTTACGCTT----------------------------------------------------------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
..................................................................................................................................................................................................................................................................GTCAGTCA----GTCAG--------T----CAGTC---------------------AGT--C................................................................................................................................................................................................................................................................................................	23	20	0.05	1	1	0
............................AGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCAGTC...................................................................................................................................................................................................................................................................................................................................................................................................................................................................	28	20	0.05	1	0	1
........................AGTCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................	28	20	0.05	1	0	1
......................................................................................................................................................................................................................................................................GTCA----GTCAG--------T----CAGTC---------------------AGT--CAGTC............................................................................................................................................................................................................................................................................................	23	20	0.05	1	1	0

droWil2

AG-ATGAAACTATCCTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTTTCGAAGACCTATTCGGTGGATAAAATTGTGCCCGACAGTGCCT-GCACTTCCACCTC	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.G-ATGAAACTATCCTTTG-----AAGAGT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	8.00	8	0	0	8	0	0
.G-ATGAAACTATCCTTTG-----AAGA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	7.00	7	0	0	6	1	0
...........ATCCTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA.................................................................	25	1	4.00	4	0	0	3	1	0
.................TG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--............................................................	22	1	2.00	2	0	0	2	0	0
.....GAAACTATCCTTTG-----AAGAGT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	2.00	2	0	0	1	1	0
...............TTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--............................................................	24	1	2.00	2	0	0	2	0	0
.......AACTATCCTTTG-----AAGAGT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	2.00	2	0	0	0	2	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTTCGAAGACCTATTCGGTGG......................................	22	1	2.00	2	0	0	1	1	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTCGAAGACCTATTCGGT........................................	19	1	2.00	2	0	0	0	2	0
..............CTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--C...........................................................	26	1	2.00	2	0	0	1	1	0
.........................AGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--............................................................	19	1	2.00	2	0	0	0	2	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTCGGTGGATAAAATTGTGCC.........................	22	1	2.00	2	0	0	0	2	0
...........ATCCTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------...................................................................	23	1	2.00	2	0	0	1	1	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTTCGAAGACCTATTCGGTG.......................................	21	1	2.00	2	0	0	1	1	0
..........TATCCTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA.................................................................	26	1	2.00	2	0	0	2	0	0
............................GTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTTTCGAAGAC.................................................	27	1	1.00	1	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCTATTCGGTGGATAAAATTGT............................	22	1	1.00	1	0	0	1	0	0
......AAACTATCCTTTG-----AAGAGT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0
............TCCTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA.................................................................	24	1	1.00	1	0	0	0	1	0
....TGAAACTATCCTTTG-----AAGAGT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0
.........CTATCCTTTG-----AAGAGTTCCCC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0
...ATGAAACTATCCTTTG-----AAGAGT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	1	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGGATAAAATTGTGCCCGAC.....................	22	1	1.00	1	0	0	0	1	0
..............CTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--............................................................	25	1	1.00	1	0	0	0	1	0
.G-ATGAAACTATCCTTTG-----AAGAGTT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	1	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACCTATTCGGTGGATAAAATTGTGCC.........................	27	1	1.00	1	0	0	0	1	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACCTATTCGGTGGATAA..................................	18	1	1.00	1	0	0	0	1	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GA--CTTTCGAAGACCTATTCGGTGGA.....................................	25	1	1.00	1	0	0	0	1	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGTGCCCGACAGTGCCT-GCA..........	21	1	1.00	1	0	1	0	0	0
..............................TCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTTTCGAA....................................................	22	1	1.00	1	0	1	0	0	0
AG-ATGAAACTATCCTTTG-----AAGA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGAAGACCTATTCGGTGGAT....................................	20	1	1.00	1	0	0	0	1	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCGAAGACCTATTCGGTG.......................................	19	1	1.00	1	0	0	0	1	0
............................GTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTTTCGAAG...................................................	25	1	1.00	1	0	1	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACCTATTCGGTGGATAAAATTGTGCCC........................	28	1	1.00	1	0	0	0	1	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTTCGAAGACCTATTCGGT........................................	20	1	1.00	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTATTCGGTGGATAAAATTGTGCCC........................	25	1	1.00	1	0	0	1	0	0
............................GTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTTTCGAA....................................................	24	1	1.00	1	0	1	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGGTGGATAAAATTGTGCCC........................	20	1	1.00	1	0	0	0	1	0
....TGAAACTATCCTTTG-----AAGAGTT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0
............................GTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTTTCGA.....................................................	23	1	1.00	1	0	0	0	1	0
............TCCTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--............................................................	27	1	1.00	1	0	0	1	0	0
................TTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTT.........................................................	26	1	1.00	1	0	0	1	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCTATTCGGTGGATAAAATTGTG...........................	23	1	1.00	1	0	0	0	1	0
...........ATCCTTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--............................................................	28	1	1.00	1	0	0	1	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGCCCGACAGTGCCT-GCA..........	20	1	1.00	1	0	1	0	0	0
.....GAAACTATCCTTTG-----AAGA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GA--CTTTCGAAGACCTATTCGGT........................................	22	1	1.00	1	0	0	0	1	0
................TTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAG................................................................	21	1	1.00	1	0	0	1	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GA--CTTTCGAAGACCTATTCG..........................................	20	1	1.00	1	0	0	1	0	0
....TGAAACTATCCTTTG-----AAGAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGAAGACCTATTCGGTGGA.....................................	19	1	1.00	1	0	0	1	0	0
............................GTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--CTTTCGAAGACC................................................	28	1	1.00	1	0	0	1	0	0
................TTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGGA--............................................................	23	1	1.00	1	0	0	1	0	0
...............TTTG-----AAGAGTTCCCCTACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA.................................................................	21	1	1.00	1	0	0	1	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACCTATTCGGTGGATAAAAT...............................	21	1	1.00	1	0	0	0	1	0

dp5

TC-AGTCAGTCAATCAGTC-----AATCAATCAATCAATCAGCCGTAAATAACAACTAACTTACGGAACGACGACATTTTGTTGCAGCAATTTGCCCGAAAATGTCTCGGAATTCTACTGTTGCAACTTCTGTTGTTGCCAACGACATCAGTCAGTCAGT--------------------------------------------------------CAGTC------------AGTTAGTCG--------GTTAGT----------------CAG--------T----TAGT---------------------CAGT--CATGCAG------------------------T--------CATTCAGTCAAGCAA----------------TCAGTTAG------------CTAGTCCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

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

No Reads

droPer2

TT-GGTTAGCAAGTCAGTC-----ACTCAGTCACTCATTCAGTCA-----------------------------------------------------------------------------------------------------TTCACTCAGTGAGT--------------------------------------------------------CTGTG------------AATCAAACA--------GTCAGTCAATCGGTCA----GTCAG--------T----CAGT---------------------CAGT--CAGTCAG----------------------------------------TCAGTCAGTCA----GTCAG----TCATTCAG------------CAAGTT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
..............CAGTC-----ACTCAGTCACTCAT..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	0	0	0	1	0

droAna3

GTCGGTCA----GTCAGTCAG-TCAGTCTATCAGTCAGTTAGTCA-----------------------------------------------------------------------------------------------------ATCA----GTCAGT--------------------------------------------------------TAGTC------------AATCAGTCC--------GTTAGTCAATCAGTCA----GATAG--------T----CAAT-----------------C----AATCA------GTTAGT----CAAT----------------C----------------CG-CAGATAGTCAA----TCAATCAG----TTAG----TCAATCT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
....GTCA----GTCAGTCAG-TCAGTC....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0

droBip1

TC-AGTCAGTCAGTCAGTC-----AGTCAGTTAGTCAGTTAGTCA-----------------------------------------------------------------------------------------------------ATCAATCAATCAGT--------------------------------------------------------TAGTC------------AATCATTCA--------GTTAGTCAATCATTCA----ATTAG--------T----CAATC-------------ATTC----AGTTT------G--------------------------------------------------------TGAG----TTTAT--------------------CAAAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TC-AGTCAGTCAGTCAGTC-----AGTCAATCAGTGAGTCAGTCG-----------------------------------------------------------------------------------------------------GACAATCAATCAGT--------------------------------------------------------CAGTT------------AGTCAGTCG--------GTCTATAAATCCCTCA----ATCAG--------T----CAGTC-------------AGCC----AATCA------G--------------------------------------------------------TGAG----TCAGT--------------------CAAGC-AATT--GGAGTT--CAACT--------------------------------TTAGT----------------------------------------------CTTCAAAAACTCG-----CTCGC--CTTTG-------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GTCAGTCA----GTCAGTCAG-CAAGTCAATCAGCCAGTTAGTCA-----------------------------------------------------------------------------------------------------ATCAGTCATT------------------------------------------------------------TAGTC------------AATTAGTCA--------ATCAG--------T--------CAG--------T----CAGTC-------------AGTC----AGC----------------------------------------------------------CA----GTGAG----TCAAT--------------------CAGGC-AATT--GG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TC-AATAAATCAATAAATC-----AATAAATCAATAAATCAATAA-----------------------------------------------------------------------------------------------------ATCAATAAATCAAT--------------------------------------------------------AAATC------------AATAAATCA--------ATAAATCAATAAATCA----ATAAA--------T----CAAT-----------------A----AAT------------------CAATAAA------------------------TCAATAAATCA----ATAAATCAATAAATCAA----TAAATCAATAAAT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TC-AATCAGTCAGTCAGTC-----AGTCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCAGTCAGT--------------------------------------------------------CAGTC------------AGTCAGTCA--------GTCAGTCAGTCAGTCA----GTCAG--------T----CAGTC-------------AGTC----AGTCA------GTTAGT----CAGTCAG--------T----C----AGTCAGTCATTCAGTCA----GTTAG----TCAAT--------------------CAGTC-AGTT--AG---------------T-------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

GT-TATTAA---GAAAGTTAA-GTTATTATAAAAGTAATTAGAAA-----------------------------------------------------------------------------------------------------ATAAAAAAGTTGACGTAGGATAAAAAGTGTCTT-----------------------ATCAACAGT-CAGAAAATC------------ATGTGTTAA--------ACTAACAAATTGCTAA----TTAAT---------------------------------------------------------------------------T--------TAGTATATCTGTGAA----------------TGAA------------C----GTGCCAAAACTATT--AG-----------TG--------------------ACT--GA-------TTAATC----------------------------------------------------TCCTACCT------CCATTCCAGACCTATTGCGTCAATAAACAGGTGGCCGACTCTGCCT-GCACAGCCTCGGC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TC-TGTCAGTCTGTCAGTC-----TGTCAGTCTGTCAGTCTGTCA-----------------------------------------------------------------------------------------------------GTCTGTCAGTCTGT--------------------------------------------------------CAGTC------------TGTCAGTCT--------GTCAGTCTGTCAGTCT----GTCAG--------T----CTGT-----------------C----AGTCT------GTCAGT--------CTG------------------------TCAGTCTG--------TCAGTCTGTCAGTCTG----TCAGTCTGTCCGTTTC-----TATGCGAACTAG-----TCTCT---------------------------------------------------------------------------------CAGTT---T--------------T----------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TA-AGTCTGTCAGTCTGTC-----AGTCTGTCAGTCTGTCAGTCT-----------------------------------------------------------------------------------------------------GTCAGTCTGTCAGT--------------------------------------------------------CTGTC------------AGTCTCTCA--------GTCTGTCAGCCTGTCC----ATCTG--------T----CAGTC-------------TGTG----AGTCT------GTGAGTTTGTCAGT----------------CTGTTGGTCTGTCTCTCAA----------------TCAG------------TCTGTCAGTTTA-----TT--AG-----------TCTGTCCATC-----------------TAACTGTCCTTCA--GTCT--------------------------------------------------------------GTCTGACAGACTGTAAGTCTGGACTGACAG------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

TC-AGTCAGTCAATCAATC-----AGTCAGTCAGTCAGTCAGTCC-----------------------------------------------------------------------------------------------------GTCAGTCAGTCGGT--------------------------------------------------------CAGTC------------AGTTAGTCA--------GCCAGCTAGTCAGTTA----GC-----------------------------------------TAGT--CATTCAT------------------------T--------CAGTCAGTCAATCAGTCA----GTGTG----TCAAT--------------------CTGAC-AATT--GG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	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
..........................TCAGTCAGTCAGTCAGTCC-----------------------------------------------------------------------------------------------------GTCAGT........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	3	0.67	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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
..........................................................................................................................................................................................................................GTC------------AGTTAGTCA--------GCCAGC................................................................................................................................................................................................................................................................................................................................................................	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	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
...........................CAGTCAGTCAGTCAGTCC-----------------------------------------------------------------------------------------------------GTCAGT........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	3	0.33	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	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
.............TCAATC-----AGTCAGTCAGTCAGT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	7	0.14	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	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
..............CAATC-----AGTCAGTCAGTCAGT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	9	0.11	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	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
................ATC-----AGTCAGTCAGTCAGTCAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	9	0.11	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
.............TCAATC-----AGTCAGTCAGTCT...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	17	0.06	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSim2

TC-AGCTAGTGTGTCTGTC-----AGTTAGTCAGTTAGTCAGTTA-----------------------------------------------------------------------------------------------------GTCACTTAGTCAGT--------------------------------------------------------AAGTC------------AGTTAGTCA--------CTTAGTCAGTAAGCCA----GTTTG--------T----CAGT---------------------TAGT------------------CAGTTGGTCAGTTAGTCGCTA--------AGTCG--------GCTAGTCAG----TCTGTCAG----TTAG----TCAGTTA-----------G---------------TCAGCCCCC------ACAGAACAAAGTT----------GTCTGCCCGATATAGGCCACAATGTGGGGCTGTAAACAAAACTTGAACA-------------------------------------------------------CTCGACGGAGCACTGACATAAC

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

No Reads

droSec2

CC-AGTGGGTCAGTTAGTC-----AGTTGGTCATTTAGTCGCTAA-----------------------------------------------------------------------------------------------------GTCGGCTAGTCAGT--------------------------------------------------------CTGTC------------AGTTAGTCA--------GTTGGTCACTTAGTCGCTAAGTCGGCTAGGCAGTCTGTCAGT---------------------TAGT------------------CAGTTGGTCATTTAGTCGCTA--------AGTCG--------GCTAGGCAG----TCTGTCAG----T------------TA-----------G---------------TCAGCCCCC------ACAGAACAAAGTT----------GTCTGCCCGATATAGGCCACAATGTGGGGCTGTAAACAAAACTTGAACA-------------------------------------------------------CTCGACGGAGCACTGACATAAC	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
...............................CATTTAGTCGCTAA-----------------------------------------------------------------------------------------------------GTCGG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	0	1	0
.......................................................................................................................................................................................................................................................................................................................................................CATTTAGTCGCTA--------AGTCG--------G......................................................................................................................................................................................................................................	19	2	0.50	1	0	0	1	0

droYak3

TC-AGTCAGTCAGTCAGTC-----AGTCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCTGTCAGT--------------------------------------------------------TAGAC------------AGTCAGTCA--------GTTAGTCGGCCAGCTA----GTCAG--------T----TAGC---------------------TAGT------------------CAGTCAG------------------------TCAGTTAGTCA----GTGAG----TCAAT--------------------CAGGC-AATT--GG--------------------------------------------------------------------------------AGTTTTTAACCAAACTTCAATA---TT-----TTTAC--CT----------------------------------------------------------	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
............................................A-----------------------------------------------------------------------------------------------------GTCAGTCTGTCAGT--------------------------------------------------------TAGA....................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0

droEre2

GTCAGTCA----GTCAGTCAG-TCAATCAGTCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTCAGTCAGTCAGT--------------------------------------------------------CAG----------------TCAGTCA----GTCAGTCAGTCAGTCAGTC-------------------------------------------------AGT------------------CAGTCGGTCCGTCAGTCAG------------TTAGTCAGCCA----GCTAG----TCAGCCAG----C--------TA---------------G---------------T-------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.TCAGTCA----GTCAGTCAG-TCAAT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	7	0.14	1	0	0	0	0	0	1	0
...AGTCA----GTCAGTCAG-TCAA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	17	0.06	1	0	0	0	0	0	1	0
..............................TCAGTCAGTCAGTCA-----------------------------------------------------------------------------------------------------GTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	1	0	0	0

dvi_3417

scaffold_12855:1470356-1470506 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads