dmo_1060

Name	Class	Family	Strand
(CA)n	Simple_repeat	Simple_repeat	+

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CAAAGGCAAGGGCAACGGCAATGGCAATGAAAGGGAACCGATGGAAGTTGGTAATGGATATTGAACTTCGTCTCTAGCTCTCTGTTGTTTAGTACACCCACACACACATACACGCACACCCTCACAACTGCACACACACACATATACACACTCACACACACGCAAAGTCAACAGACAGACCCCCTTCAGCATATATAGACACAACTAAGTCTAAGTCCTAGTTTAATAGCAAGTATCGATTAACGATTTAA ****************************************************************************************************************************........................................(((........)))....*****************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V056 head	V049 head	M060 embryo
..............................................................................TCTCTGTTGTTTGGTGCACCC........................................................................................................................................................	21	2	1	1.00	1	1	0	0	0
..............................................................................................................................ACTGCACACACACACATATAC........................................................................................................	21	0	1	1.00	1	1	0	0	0
............................................................................................................................................................CACACGCAAAGTCAACAGACAGACCCCC...................................................................	28	0	1	1.00	1	1	0	0	0
...........................................................ATTGAACTTCGTCAGGAGCTC...........................................................................................................................................................................	21	3	5	0.20	1	0	1	0	0
........AGGGCAACGGCACTGGCA.................................................................................................................................................................................................................................	18	1	6	0.17	1	0	1	0	0
.....................................................CTGGATAAAGAACTTCGTC...................................................................................................................................................................................	19	3	14	0.07	1	1	0	0	0
...........................................................ATTGAACTTCATCACCAGCT............................................................................................................................................................................	20	3	14	0.07	1	0	0	1	0
........................................................................................................................................CGCACATATACACACTCACACA.............................................................................................	22	1	18	0.06	1	0	0	0	1

GTTTCCGTTCCCGTTGCCGTTACCGTTACTTTCCCTTGGCTACCTTCAACCATTACCTATAACTTGAAGCAGAGATCGAGAGACAACAAATCATGTGGGTGTGTGTGTATGTGCGTGTGGGAGTGTTGACGTGTGTGTGTGTATATGTGTGAGTGTGTGTGCGTTTCAGTTGTCTGTCTGGGGGAAGTCGTATATATCTGTGTTGATTCAGATTCAGGATCAAATTATCGTTCATAGCTAATTGCTAAATT *****************************************************************........................................(((........)))....****************************************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V049 head	M046 female body
.............................................................................................................................TTGACGTGGGTGTGTGTAT...........................................................................................................	19	1	8	0.13	1	1	0
................................................ACCATTCCATCTAACTTGA........................................................................................................................................................................................	19	3	19	0.05	1	0	1

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6496:9513027-9513277 +	dmo_1060	CA----A-----A---------GGCAAGGG-CAAC--GGC-AATGGCAATG------AAAG----GGAACC---------------G--------ATGGAAGTTGG---TAATGGATATTGAACTTCGTCTC---------------TAGCTCT-CTGTTGTTTAGT--------------------------A--------C------------ACCCACACACACATACACGCACACCCTC--------------------------------------AC---------------AACTGCACA----C--ACACACAT-----ATACACACTCACACACACGCAA------------AGTCA-------------------------ACAGACAGACCCCCTTCAGCATATATAGACACAACTA------------------------------AGT-CTAAG--TCCTAGTT-TAATAGCAAGTATCGATTAA---------------CGATTT-----------------------------------------------------------AA
droVir3	scaffold_12875:14067934-14068129 +		CA----A-----T---------GGCA-------------------------CCACCGAAAA----GGAGCA---------------G--------ACGGAAGTTGG---TAATGGACATTGAATC----CTC---------------TATCTAA-CTGTTGTTTATT--------------------------A--------G------------ACACACAAATACACACACAAACACACG--------------------------------------CAC--A-------------------CA----C-------------------ACAAACACACACAGATCC------------CC-------------------------------------------TCTGCATATATAGACACACCTA------------------------------AGT-CTAAG--CCCTAGTT-TAATGGAAAGTATCGATTAA---------------CGATTT-----------------------------------------------------------AA
droGri2	scaffold_15245:17168650-17168875 -		CA----G-----C---------AATGGCAG----------------------------CAG----CGAGCA---------------G--------GCGGAACTTGG---TAATGGACACTGAAA--------------------------------TGTTCTT---A--------------------------A--------T------------ATTTAGATACACATACACAAGCACACAC---------------------------AAACA---CACAC--A-------------------CA----C-------------------ACAAACACATACACGTCCCCTTTCCCTTGCACACTCTATTCCGCTCTCTTCTCACTCCC-TGTCT-----------C----TGTATGCACACACCTA------------------------------GGTGCTAAG--TC-TAGTTTAAATTGAAAGTATCGATTAA---------------CGATTT-----------------------------------------------------------AA
droWil2	scf2_1100000004513:2600884-2601067 +		CC----T-----CCTTTTGCCCCACA---------------------------------------------------------------------------------------------------------------------------------------------------------------CAC----AC---ACACACACACACACACACA-------------------------------CACACACACACACACACACACACA----CAC-----ACACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACC--------------T---------TT-----TTCT--TCAGTTT-CTGTGGAAACTGCGTGT-CTA---------------AAATTTAATGAAATCGTGAAAATATTGTGAAAC--------------------------------GA
dp5	XL_group1a:6000713-6000884 +		CA----G-----C---------GGCAGAGG-CAAC--GGC-AGCAACAGAG------CAAG----ATAAAC---------------CACAAGAGGAGGGAGCGGAGCGGTTGGGGTCGGGTCGGGTCGGTCC---------------A-----A-AATCTAGAGCAA--------------------------GTTGG--CGG------------------AATTGCAGACACATACGCACGG-------------T---------------------CACCC--AC-----------ATTTGTACA----------------CACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA----------------------------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_18:1023897-1024091 +		CA----A-----A---------GCAAAATG-CACATGGGCTAGTGGCAATG------ACAGG-AACGTGCC---------------T--------GCAAA----GA---AAATTAACA-----CATCGCCCCCTATGCAGGTCCCAATACCCCT-CCGTGGGTCCGC------ACACCAC----ACAC---------------------------------CAATCCACACAGACACACACAC-------------AC------------A---------CAC--AC-----------ACACACA------C------ACAC--ACA-----CACACACACACACACAC------------ACACA-------------------------------------------------CC--AGA------GAGA------------TCC-------------------------------------------------------------------------------------------------------------------------------------
droAna3	scaffold_13337:2680628-2680738 -		AC----A-----C---------AC--------------------------------------------------------------------------------------------------------------------------------------------------------------ACACACACACAC---ACACACACACACACAAACA-------------------------------CACACACACACACACACACACACA----AAC-----ACACACACACACA-C------G------CACA------CACACA-------------------------------------------------------------------------CGCA--CACGCACACAC--ACA------CGCA----------------------------------------------------------------------------------------------------------------------------------------------------
droBip1	scf7180000395200:21132-21241 -		TA----C-----A---------CTCA---------------------------------------------------------------------------------------------------------------------------------------------------------C----ACAC-T--A---------------------------------CACACACACACACACACTATACACACACACACATATATACACATA----CAC-----CCACAAAGAAAGATC------G------CAGA------CAGCCA-------------------------------------------------------------------------C--A--TCAGTATACAT--ACA------CACA---------------------------------------------------------------------------------------------------------------------------------------------------A
droKik1	scf7180000299277:434479-434639 +		TT----A-----G---------TGCT-------------------------CC-----------------------------------------------------------------------------------------------------------------------------TCTTA-----------------------------------CACACTTACACACACACACAC-------------------------------A-------CACAC--ACA-----------------CACAAGT--ACATTCCC-----ACAC------------------------------ACACTCCAAGTCAGAAGAACCTCCCCCCCCGGTAACAAAATATAACTA--GCACG------------------------------------------AAC-ATAAT--CCAAAGT-TTATAGAAAAGAAGTAACCGA---------------AAATTC-----------------------------------------------------------AG
droFic1	scf7180000451789:243911-244062 -		CA----C-----C---------C--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATCCACACACATACGCTCAC--------------------------------------ACACAC-----------ATTTACACA----C------ACAC-----ACTCA--------------------------------------------------------------------CACA--CACATTTACAC--ACA------CCCA-------GCAGATCC----------------AAAAGAACAAGGC-CAATAAAAGAGAAAAAACTAAACTGAAACTAAACAAC-------------------------------------AGTCAAACTTC-------ACTTGATGAAA
droEle1	scf7180000491087:213663-213804 +		TC----TGACACA---------CACA-------------------------------------------------------------------------------------------------------------------------------------------------------------------CACAC---ACACAC------------------ACACACACACACACACACACAC-------------AC------------A---------CAC--AC-----------ACACACA------C------ACAC--ACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA-----CCACGGATCCAGAGTGTAC-------AAAA------------------------------------------------------------------------------GCAAATTTTCTGGTTTC-------ATTGCAACCAT
droRho1	scf7180000779368:15019-15149 +		AC----A-----C---------G---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CACACACACACGCACACACACACGC--------------------------------------AC---------------ACACACACG----C--ACACCCAC-----ACGCACACGCACACACACGCAC------------ACCCC-------------------------ACACACATACTCGCACTA--ACACGT--TCA------CACT-------GCTGAGC---------C-------AAAG--CCTTC-----------------------------------------ACTC-----------------------------------------------------------AA
droBia1	scf7180000302193:855835-856004 +		GC----A-----GC--------CGCAGCGG-CAT----------------------GAAAA----TAAGCA---------------G--------AGGCAAAATTG-------------------------------------------------CATTGAATGTCAAGCGGTA-CGCACACACACACACACAC---ACACACACACACACACACA-------------------------------CACACACACACACACACACACACA----CAC-----ACACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA----------------------------------------------------------------------------------------------------------------------------------------------------
droTak1	scf7180000415381:115337-115455 +		TGG---C-----C---------AACA-------------------------C------------------------------------------------------------------------------------------------------------------------------ACACACACACACACAC---ACACACACACACACACACA-------------------------------CACACACACACACACACACACACA----CAC-----ACACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA----------------------------------------------------------------------------------------------------------------------------------------------------
droEug1	scf7180000409524:743398-743534 +		GG----C-----C---------AGCG-------------------------CACAAAAAAA----GAACCA---------------A--------ACAAAGCAGCA---CAATAAATATTGAAA-------T---------------A-----A-CATTTATTTGCA--------------------------A--------C------------ACACACACACACACACACACACACACAC--------------------------------------AC---------------ACACACACA----C--ACA------CACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA----------------------------------------------------------------------------------------------------------------------------------------------------
dm3	chrX:10077040-10077173 +		CT----C-----C---------AGCT-------------------------C------------------------------------------------------------------------------------------------------------------------------AT----ACTC-C--ACTTGG--CAC------------------ACACACACACACACACACACAC-------------A---------------------CACAC--AC-----------ACGCGTACA------------CAC----A-------------------------------------------------------------------------CTCA--GGGACACGCGC--ACA------CACATT---CCGCATA------GGATTC-------AAAG---------------------GAT-------------------------------------------------------C-------CAAGCTTCGCTCTTCAGCA-----CA
droSim2	x:4657137-4657272 -		AG----A-----A---------GTCGAGCGGG---------------------------------------------------------------ACGTGGCGGTG--------CAA-------------------------------------------------------------ATAGAGATTGGCTCAG---TCATGC-CATTCAATCACATACACACACACACACACACACAC-------------------------------A-------CACAC--ACACGC-------------AAA----C--ACACACAC-----ACACA--------------------------------------------------------------------CACG--CAAACACACAC--ACA------GACA----------------------------------------------------------------------------------------------------------------------------------------------------
droSec2	scaffold_10:2911957-2912098 -		TGTTCAG-----C---------CACA---------------------------------------------------------------------------------------------------------------------------------------------------------CACACACACATACAC---ACACACACACACACACACA-------------------------------CACACACACACACACACACACACA----CAC-----ACACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACATTTTGCCACTGGTC---------C-------AAAA------------------------------------------------------------------------------A--------------------------------CA
droYak3	X:12052299-12052425 -		TT----C--------------------------------------------------------------------------------------------------A---TAATTGACAGCTAATTTCGGTTA---------------T-----A-AATATATATATA--------------------------A--------C------------ACACACACACACACACACACACACACAC--------------------------------------AC---------------ACACACACA----C--ACACACAC-----ACACACACACACACACACACAC------------ACACA-------------------------------------------------AC--AAA------CAAA----------------------------------------------------------------------------------------------------------------------------------------------------
droEre2	scaffold_4845:14969966-14970137 -		CA----A-----C---------GGCAACGG-CAGC--GAC-AATGGCAACA------ACATTAAACGTGTTTACACCATGTCCGACCAGTTGATATGCCA---------------------ACTG----CCC---------------GACCTGTCCTGTCCCCCACT--------------------------G------------------------CACACA-------------------------------CTCCCTCACACACACA----GGC-----ACACTCGC-------------ACA----C--ACACACAC-----ACACA--------------------------------------------------------------------CACT--CACAGGGATGC--GTA------GCCA----------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

CA----A-----A---------GGCAAGGG-CAAC--GGC-AATGGCAATG------AAAG----GGAACC---------------G--------ATGGAAGTTGG---TAATGGATATTGAACTTCGTCTC---------------TAGCTCT-CTGTTGTTTAGT--------------------------A--------C------------ACCCACACACACATACACGCACACCCTC--------------------------------------AC---------------AACTGCACA----C--ACACACAT-----ATACACACTCACACACACGCAA------------AGTCA-------------------------ACAGACAGACCCCCTTCAGCATATATAGACACAACTA------------------------------AGT-CTAAG--TCCTAGTT-TAATAGCAAGTATCGATTAA---------------CGATTT-----------------------------------------------------------AA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
...........................................................................................................................................................................................................................................................................................................ACTGCACA----C--ACACACAT-----ATAC.........................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................CACACGCAA------------AGTCA-------------------------ACAGACAGACCCCC...............................................................................................................................................................................	28	1	1.00	1	1	0	0	0	0	0

droVir3

CA----A-----T---------GGCA-------------------------CCACCGAAAA----GGAGCA---------------G--------ACGGAAGTTGG---TAATGGACATTGAATC----CTC---------------TATCTAA-CTGTTGTTTATT--------------------------A--------G------------ACACACAAATACACACACAAACACACG--------------------------------------CAC--A-------------------CA----C-------------------ACAAACACACACAGATCC------------CC-------------------------------------------TCTGCATATATAGACACACCTA------------------------------AGT-CTAAG--CCCTAGTT-TAATGGAAAGTATCGATTAA---------------CGATTT-----------------------------------------------------------AA	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
.......................................................CGAAAA----GGAGCA---------------G--------ACGGAAGT.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................AA----GGAGCA---------------G--------ACGGAAGTTGG---T......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGGAAAGTATCGATTAA---------------CGATT..............................................................	23	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................GACATTGAATC----CTC---------------TATCTAA-CTGTTGT..................................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	2.00	2	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	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
........................................................GAAAA----GGAGCA---------------G--------ACGGAAGT.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................CTC---------------TATCTAA-CTGTTGTTTATT--------------------------A--------G------------.............................................................................................................................................................................................................................................................................................................................................................................	24	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	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
...........................................................................................................................................................................................................................................................................................................................................................CC------------CC-------------------------------------------TCTGCATATATAGACACAC...........................................................................................................................................................	23	1	1.00	1	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
............................................................A----GGAGCA---------------G--------ACGGAAGTTG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	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
............................................................................................................................C----CTC---------------TATCTAA-CTGTTGT..................................................................................................................................................................................................................................................................................................................................................................................................................................	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	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAAGTATCGATTAA---------------CGAT...............................................................	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
........................................................................................................GG---TAATGGACATTGAATC----...................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	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
..........................................................AAA----GGAGCA---------------G--------ACGGAAGTTGG---T......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	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
............T---------GGCA-------------------------CCACCGAAAA----GGAGCA---------------..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	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
.................................................................GGAGCA---------------G--------ACGGAAGTTGG---TA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAG--CCCTAGTT-TAATGGAAAGTAT.........................................................................................	24	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	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
........................................................................................................................................................................................................................................CAAACACACG--------------------------------------CAC--A-------------------CA----C-------------------ACAAACACA................................................................................................................................................................................................................................................	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	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
.................................................................GGAGCA---------------G--------ACGGAAGTTGC---.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	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
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAATGGAAAGTATCGATTAA---------------CGAT...............................................................	24	1	1.00	1	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
....................................................................GCA---------------G--------ACGGAAGTTGG---TAATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	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
CA----A-----T---------GGCA-------------------------CCACCGAAAA----GGAGCA---------------..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................CTAA-CTGTTGTTTATT--------------------------A--------G------------AC...........................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................GAAAA----GGAGCA---------------G--------ACGGAAGTT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	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
..........................................................................................................................ATC----CTC---------------TATCTAA-CTGTTGT..................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGT-CTAAG--CCCTAGTT-TAATGGAA..............................................................................................	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
.......................................................................................................TGG---TAATGGACATTGAATC----...................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGTT-TAATGGAAAGTATCG.......................................................................................	19	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AG--CCCTAGTT-TAATGGAAAG............................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................................................................................................................................................................................CAGATCC------------CC-------------------------------------------TCTGCATATATA..................................................................................................................................................................	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	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
...................................................CCACCGAAAA----GGAGCA---------------G--------AC...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	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
............................................................................................................................................................................................................................................................................................................................................................C------------CC-------------------------------------------TCTGCATATATAGACACACCTA------------------------------AGT-CTAAG--CCCTAGTT-TAA...................................................................................................	44	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................GT-CTAAG--CCCTAGTT-TAATGGAA..............................................................................................	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	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
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAGTT-TAATGGAAAGTATCGAT.....................................................................................	22	1	1.00	1	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
........................CA-------------------------CCACCGAAAA----GGAGCA---------------G--------AC...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	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
.................................................................GGAGCA---------------G--------ACGGAAGTTGG---.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	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
..........................................................AAA----GGAGCA---------------G--------ACGGAAGT.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	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
.................................................................................................................................................................................................................................................................................................................................................ACACACAGATCC------------CC-------------------------------------------TCTGCAT.......................................................................................................................................................................	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
.................................................................GGAGCA---------------G--------ACGGAAGTTGG---TAATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAG--CCCTAGTT-TAATGGAAA.............................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................TATCTAA-CTGTTGTTTATT--------------------------...................................................................................................................................................................................................................................................................................................................................................................................................	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	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
...........................................................................................................................................................................................................................ACAAATACACACACAAACACACG--------------------------------------............................................................................................................................................................................................................................................................................................................	23	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	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
......................................................................................................................................................................................................................................CACAAACACACG--------------------------------------CAC--A-------------------CA----C-------------------.........................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
....................................................................................................................................................................................................................................CACACAAACACACG--------------------------------------CAC--A-------------------CA----.............................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0

droGri2

CA----G-----C---------AATGGCAG----------------------------CAG----CGAGCA---------------G--------GCGGAACTTGG---TAATGGACACTGAAA--------------------------------TGTTCTT---A--------------------------A--------T------------ATTTAGATACACATACACAAGCACACAC---------------------------AAACA---CACAC--A-------------------CA----C-------------------ACAAACACATACACGTCCCCTTTCCCTTGCACACTCTATTCCGCTCTCTTCTCACTCCC-TGTCT-----------C----TGTATGCACACACCTA------------------------------GGTGCTAAG--TC-TAGTTTAAATTGAAAGTATCGATTAA---------------CGATTT-----------------------------------------------------------AA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
..............................................................................................................................................................................................................................................................................................................................................AACACATACACGTCCCCTTTCCCT..............................................................................................................................................................................................................................	24	1	1.00	1	1	0
.............................G----------------------------CAG----CGAGCA---------------G--------GCGGAACTTG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1
................................................................................................................................................................................................................................................................................................................................................................................................ACTCCC-TGTCT-----------C----TGTATGCAC...............................................................................................................................................................	21	1	1.00	1	1	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGAAAGTATCGATTAA---------------CG.................................................................	20	1	1.00	1	1	0
.............................................................................................................TAATGGACACTGAAA--------------------------------TGTTC...................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	1	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAATTGAAAGTATCGATTAA---------------CGATT..............................................................	26	1	1.00	1	1	0

droWil2

CC----T-----CCTTTTGCCCCACA---------------------------------------------------------------------------------------------------------------------------------------------------------------CAC----AC---ACACACACACACACACACA-------------------------------CACACACACACACACACACACACA----CAC-----ACACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACC--------------T---------TT-----TTCT--TCAGTTT-CTGTGGAAACTGCGTGT-CTA---------------AAATTTAATGAAATCGTGAAAATATTGTGAAAC--------------------------------GA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
................................................................................................................................................................................................AC---ACACACACACACACACACA-------------------------------CA...........................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................................................................................................................................ACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACA..........................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................ACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACA........................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0

dp5

CA----G-----C---------GGCAGAGG-CAAC--GGC-AGCAACAGAG------CAAG----ATAAAC---------------CACAAGAGGAGGGAGCGGAGCGGTTGGGGTCGGGTCGGGTCGGTCC---------------A-----A-AATCTAGAGCAA--------------------------GTTGG--CGG------------------AATTGCAGACACATACGCACGG-------------T---------------------CACCC--AC-----------ATTTGTACA----------------CACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA----------------------------------------------------------------------------------------------------------------------------------------------------

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

CA----A-----A---------GCAAAATG-CACATGGGCTAGTGGCAATG------ACAGG-AACGTGCC---------------T--------GCAAA----GA---AAATTAACA-----CATCGCCCCCTATGCAGGTCCCAATACCCCT-CCGTGGGTCCGC------ACACCAC----ACAC---------------------------------CAATCCACACAGACACACACAC-------------AC------------A---------CAC--AC-----------ACACACA------C------ACAC--ACA-----CACACACACACACACAC------------ACACA-------------------------------------------------CC--AGA------GAGA------------TCC-------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droAna3

AC----A-----C---------AC--------------------------------------------------------------------------------------------------------------------------------------------------------------ACACACACACAC---ACACACACACACACAAACA-------------------------------CACACACACACACACACACACACA----AAC-----ACACACACACACA-C------G------CACA------CACACA-------------------------------------------------------------------------CGCA--CACGCACACAC--ACA------CGCA----------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.....................................................................................................................................................................................................................................................................................................ACA-C------G------CACA------CACACA-------------------------------------------------------------------------CGCA--C.............................................................................................................................................................................	20	11	0.18	2	0	2	0	0	0	0
......................................................................................................................................................................................................................................................................................................CA-C------G------CACA------CACACA-------------------------------------------------------------------------CGCA--C.............................................................................................................................................................................	19	15	0.13	2	0	2	0	0	0	0
.....................................................................................................................................................................................................................................................................................................ACA-C------G------CACA------CACACA-------------------------------------------------------------------------CGCA--CA............................................................................................................................................................................	21	10	0.10	1	1	0	0	0	0	0

droBip1

TA----C-----A---------CTCA---------------------------------------------------------------------------------------------------------------------------------------------------------C----ACAC-T--A---------------------------------CACACACACACACACACTATACACACACACACATATATACACATA----CAC-----CCACAAAGAAAGATC------G------CAGA------CAGCCA-------------------------------------------------------------------------C--A--TCAGTATACAT--ACA------CACA---------------------------------------------------------------------------------------------------------------------------------------------------A	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TT----A-----G---------TGCT-------------------------CC-----------------------------------------------------------------------------------------------------------------------------TCTTA-----------------------------------CACACTTACACACACACACAC-------------------------------A-------CACAC--ACA-----------------CACAAGT--ACATTCCC-----ACAC------------------------------ACACTCCAAGTCAGAAGAACCTCCCCCCCCGGTAACAAAATATAACTA--GCACG------------------------------------------AAC-ATAAT--CCAAAGT-TTATAGAAAAGAAGTAACCGA---------------AAATTC-----------------------------------------------------------AG	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CA----C-----C---------C--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATCCACACACATACGCTCAC--------------------------------------ACACAC-----------ATTTACACA----C------ACAC-----ACTCA--------------------------------------------------------------------CACA--CACATTTACAC--ACA------CCCA-------GCAGATCC----------------AAAAGAACAAGGC-CAATAAAAGAGAAAAAACTAAACTGAAACTAAACAAC-------------------------------------AGTCAAACTTC-------ACTTGATGAAA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TC----TGACACA---------CACA-------------------------------------------------------------------------------------------------------------------------------------------------------------------CACAC---ACACAC------------------ACACACACACACACACACACAC-------------AC------------A---------CAC--AC-----------ACACACA------C------ACAC--ACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA-----CCACGGATCCAGAGTGTAC-------AAAA------------------------------------------------------------------------------GCAAATTTTCTGGTTTC-------ATTGCAACCAT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AC----A-----C---------G---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CACACACACACGCACACACACACGC--------------------------------------AC---------------ACACACACG----C--ACACCCAC-----ACGCACACGCACACACACGCAC------------ACCCC-------------------------ACACACATACTCGCACTA--ACACGT--TCA------CACT-------GCTGAGC---------C-------AAAG--CCTTC-----------------------------------------ACTC-----------------------------------------------------------AA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

GC----A-----GC--------CGCAGCGG-CAT----------------------GAAAA----TAAGCA---------------G--------AGGCAAAATTG-------------------------------------------------CATTGAATGTCAAGCGGTA-CGCACACACACACACACAC---ACACACACACACACACACA-------------------------------CACACACACACACACACACACACA----CAC-----ACACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA----------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TGG---C-----C---------AACA-------------------------C------------------------------------------------------------------------------------------------------------------------------ACACACACACACACAC---ACACACACACACACACACA-------------------------------CACACACACACACACACACACACA----CAC-----ACACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA----------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

GG----C-----C---------AGCG-------------------------CACAAAAAAA----GAACCA---------------A--------ACAAAGCAGCA---CAATAAATATTGAAA-------T---------------A-----A-CATTTATTTGCA--------------------------A--------C------------ACACACACACACACACACACACACACAC--------------------------------------AC---------------ACACACACA----C--ACA------CACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACA----------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

CT----C-----C---------AGCT-------------------------C------------------------------------------------------------------------------------------------------------------------------AT----ACTC-C--ACTTGG--CAC------------------ACACACACACACACACACACAC-------------A---------------------CACAC--AC-----------ACGCGTACA------------CAC----A-------------------------------------------------------------------------CTCA--GGGACACGCGC--ACA------CACATT---CCGCATA------GGATTC-------AAAG---------------------GAT-------------------------------------------------------C-------CAAGCTTCGCTCTTCAGCA-----CA	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
...........................................................................................................................................................................................C-C--ACTTGG--CAC------------------ACACACACACACACACACACAC-------------A---------------------C.............................................................................................................................................................................................................................................................................................................	35	1	25.00	25	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	3	18	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................ACTTGG--CAC------------------ACACACACACACACACACACAC-------------A---------------------CAC...........................................................................................................................................................................................................................................................................................................	35	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................ACACAC-------------A---------------------CACAC--AC-----------ACGCGTA...................................................................................................................................................................................................................................................................................	21	6	0.17	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	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
..................................................................................................................................................................................................................................CACACACACACACACAC-------------A---------------------CACAC--AC-----------AC........................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................G--CAC------------------ACACACACACACACA........................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................................ACAC-------------A---------------------CACAC--AC-----------ACGCGTACG------------.....................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................................................C------------------ACACACACACACACACACACAC-------------A---------------------..............................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................................................................TGG--CAC------------------ACACACACACACA..........................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................CAC------------------ACACACACACACACACACACAC-------------A---------------------CACAC--AC-----------AC........................................................................................................................................................................................................................................................................................	35	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................AC------------------ACACACACACACACACACACAC-------------A---------------------C.............................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................................................CACACACACAC-------------A---------------------CACAC--AC-----------ACGC......................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

AG----A-----A---------GTCGAGCGGG---------------------------------------------------------------ACGTGGCGGTG--------CAA-------------------------------------------------------------ATAGAGATTGGCTCAG---TCATGC-CATTCAATCACATACACACACACACACACACACAC-------------------------------A-------CACAC--ACACGC-------------AAA----C--ACACACAC-----ACACA--------------------------------------------------------------------CACG--CAAACACACAC--ACA------GACA----------------------------------------------------------------------------------------------------------------------------------------------------	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
......................................................................................................................................................................................................................................................................................CACAC--ACACGC-------------AAA----C--ACACACAC-----AC...........................................................................................................................................................................................................................................................	25	3	1.00	3	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0
............................CGGG---------------------------------------------------------------ACGTGGCGGTT--------..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	15	9	0.11	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0

droSec2

TGTTCAG-----C---------CACA---------------------------------------------------------------------------------------------------------------------------------------------------------CACACACACATACAC---ACACACACACACACACACA-------------------------------CACACACACACACACACACACACA----CAC-----ACACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACACACAC--ACA------CACATTTTGCCACTGGTC---------C-------AAAA------------------------------------------------------------------------------A--------------------------------CA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
...................................................................................................................................................................................................................................................................................CAC-----ACACACACACACA-C------A------CACA------CA.................................................................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0
.......................ACA---------------------------------------------------------------------------------------------------------------------------------------------------------CACACACACATACAC---AC.............................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	1	0
.....................................................................................................................................................................................................................................................................................C-----ACACACACACACA-C------A------CACA------CACA...............................................................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0
......................................................................................................................................................................................................................................................................................................CA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACACA........................................................................................................................................................................	24	20	0.05	1	1	0	0	0
............................................................................................................................................................................................................................................................................................CACACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------....................................................................................................................................................................................	24	20	0.05	1	1	0	0	0
....................................................................................................................................................................................................................................................................................................CACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CACA..........................................................................................................................................................................	24	20	0.05	1	1	0	0	0
....................................................................................................................................................................................................................CACA-------------------------------CACACACACACACAC..............................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0
..................................................................................................................................................................................................................CACACA-------------------------------CACACACACACAC................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0
................................................................................................................................................................................................................................................................................................CACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--..............................................................................................................................................................................	24	20	0.05	1	1	0	0	0
..................................................................................................................................................................................................................................................................................................CACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CACA--CA............................................................................................................................................................................	24	20	0.05	1	1	0	0	0
...............................................................................................................................................................................................CAC---ACACACACACACACACA..............................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	1
..............................................................................................................................................................................................................................................................................................CACACACACA-C------A------CACA------CACACA-------------------------------------------------------------------------CA..................................................................................................................................................................................	24	20	0.05	1	1	0	0	0

droYak3

TT----C--------------------------------------------------------------------------------------------------A---TAATTGACAGCTAATTTCGGTTA---------------T-----A-AATATATATATA--------------------------A--------C------------ACACACACACACACACACACACACACAC--------------------------------------AC---------------ACACACACA----C--ACACACAC-----ACACACACACACACACACACAC------------ACACA-------------------------------------------------AC--AAA------CAAA----------------------------------------------------------------------------------------------------------------------------------------------------

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

No Reads

droEre2

CA----A-----C---------GGCAACGG-CAGC--GAC-AATGGCAACA------ACATTAAACGTGTTTACACCATGTCCGACCAGTTGATATGCCA---------------------ACTG----CCC---------------GACCTGTCCTGTCCCCCACT--------------------------G------------------------CACACA-------------------------------CTCCCTCACACACACA----GGC-----ACACTCGC-------------ACA----C--ACACACAC-----ACACA--------------------------------------------------------------------CACT--CACAGGGATGC--GTA------GCCA----------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

dmo_1060

scaffold_6496:9513077-9513227 +

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

-1.6	-1.6	-1.1