dsi_8467

CDS [2r_8050058_8050425_+]; exon [2r_8050058_8050425_+]; intron [2r_8049723_8050057_+]

Name	Class	Family	Strand
AT_rich	Low_complexity	Low_complexity	+

--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## TCATTTTGGTATTCATATGCCTTTTAAAAATAGATAATCATTGATTTTTAATTTCATTTACATCGTGTTATCTTCTTTCTTAATTTAAATATTAAATATTTTGTTTAGCTCATATCTGTGTACATTTGTCCACCTGTTTCCTAAAGAAAACATTATTTTTGTCACACACTGTTTAACCGAATTTTCAATTGCTCTTCTAGATGCCATCAGTGGCAGTGGGAATGGGAACAGCAGTCGCAAGGAGAAGCGT ************************************************............(((.((((............((..(((((....((.((((.(((((...(((...(((.((....)).))).)))...))))).)))).)))))))..))...........)))))))....................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR553488 RT_0-2 hours eggs	M025 embryo	M053 female body	SRR553485 Chicharo_3 day-old ovaries	SRR902009 testis	GSM343915 embryo	SRR618934 dsim w501 ovaries
......................................................................................................................................................................................................................................GCAGTCGCAAGGAGAAGC..	18	0	1	1.00	1	0	0	1	0	0	0	0
..................................................................................................................................................................................................TTCTAGAACCCATCAGTG......................................	18	2	1	1.00	1	1	0	0	0	0	0	0
.........................................................................................................................................................................................................TGCCATCAGTGGCAGTGGGAATGGGA.......................	26	0	1	1.00	1	0	0	0	1	0	0	0
......................................................................................................................................................................................................................AGTGGAAATGGGAACAGCAGT...............	21	1	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................................................................................TTTTTGTCACACACTGTTTAACCG.......................................................................	24	0	1	1.00	1	0	1	0	0	0	0	0
.............................................................................................................................................................................................................ATCAGTGGCAGTGGGAAAGGGGAC.....................	24	2	1	1.00	1	0	0	0	0	0	1	0
.............................................................................TCTTAACTTATATATTAAATATA......................................................................................................................................................	23	3	11	0.27	3	3	0	0	0	0	0	0
......................................................................................................................................................................................................................................GCAGTCGTAAGGAGA.....	15	1	6	0.17	1	0	0	0	0	0	0	1
........................................................................................................................................................................CTGTTGAACCGAATGTT.................................................................	17	2	14	0.07	1	1	0	0	0	0	0	0
.......................................................................................................................................................................................................................................CAGTCGCAAGGCGAA....	15	1	20	0.05	1	1	0	0	0	0	0	0

AGTAAAACCATAAGTATACGGAAAATTTTTATCTATTAGTAACTAAAAATTAAAGTAAATGTAGCACAATAGAAGAAAGAATTAAATTTATAATTTATAAAACAAATCGAGTATAGACACATGTAAACAGGTGGACAAAGGATTTCTTTTGTAATAAAAACAGTGTGTGACAAATTGGCTTAAAAGTTAACGAGAAGATCTACGGTAGTCACCGTCACCCTTACCCTTGTCGTCAGCGTTCCTCTTCGCA ************************************************............(((.((((............((..(((((....((.((((.(((((...(((...(((.((....)).))).)))...))))).)))).)))))))..))...........)))))))....................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR553488 RT_0-2 hours eggs
.............................................................................AGAATTGAATATATAATTTAT........................................................................................................................................................	21	2	3	0.33	1	1

Species	Coordinate	ID	Alignment
droSim2	2r:8049858-8050107 +	dsi_8467	TCATTTTGGTA----TTCATAT---GCCTTTTAAAAATAGATAATCATTGATT-----TTTAATTTCATTTACATC--------------------------------GT----GTTA-------------------TCTTC--TTTCTTAATTTAAAT------------------ATTAAATATTTTGTTTAGCTCATATCTGT-----------GTACA--------TTTGT--CCACC----------TGTTTCCTAA-------------------------------------------------------------------------------------------------------------------AGAAAACATTATT-TTTGTCACACACTGTTTAACCGAATTTTCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAATGG---------GAA---CAGCAGTCGC--AAGGAGA----AGCGT
droSec2	scaffold_1:4896253-4896510 +		TCATTTTGGTA----TTCATAT---GCCTTTTAAAAATAGATAATCATTGAAT-----TTTAATTTCATTTACATC--------------------------------GT----GTTA-------------------TCTTC--TTTCTTAATTTAAAT------------------ATTAAATATTTTGTTTAGCTCATATCTGG-----------GTACA--------TTTGT--CCACC----------TGTTTCCTA------------------------------------GTCATCTC-----------------------------------------------------------------------TAGAAAACATTATT-TTTGTCAAACACTGTTTAACCGAATTTTCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAATGG---------GAA---CAGCAGTCGC--AAGGAGA----AGCGT
dm3	chr2R:7343642-7343921 +		CCATTTTGGTA----TTAATAT---GCCTTTTAAAAATAGATAATCATTGTTT-----TTTAATTTCATATACATC--------------------------------GTGTTAGTTTTTCTTAATATATCGTGTTATCTTCCTTTTCTTAATTTAAAT------------------ATAAAATATTTTGTTTAGCTT-------------------G------------TTTGT--CCACC----------TCTTTCCTAA--------------------------A-TCTTAAAGCCATCTC-----------------------------------------------------------------------TAGAAAAAATTATT-TTTGTCACACACTGTTTAACCGAATTTTCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAATGG---------AAA---CAGCAGTCGC--AAGGAGA----AGCGT
droEre2	scaffold_4845:18455430-18455615 -		CTATTTTTGTT----TC---CTTA----------AGTTATCTCC--------------------------------------------------------------------------------------------------CTATTCTTCATTTAAAACTATAGGGCTATTGA------------------------------------------------------------------AC----------------------------------------------ACACTTAAACTGATCTC-----------------------------------------------------------------------TGCAAAACTTTATTATCTGTCACACAATATTGAACCGAATCTCCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGT
droYak3	2R:9618704-9618972 -		CATA-----------------T---GCTTTCTA-AAATAAAAAAACACAGAT----------ATTTCATTAACATA--------------------------------GT----------------------------------TGAATTAATTTAAATTGATAGGGCTATGAAGCAATTCAAAATTTTGTTTAGCTCATCTCTGA-----------GTAAA--------TTTTTTACCACCGTTACTCACTACTTTCCTT---------------------------A-TCTTAATATGATCTC-----------------------------------------------------------------------TGCACAGCTTTTCTCTATGTCATACAATGTTAAAACGAGTTTGCA------------------------------------------------AT-------------------------TGCCCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGT
droEug1	scf7180000409462:1162892-1163107 -		TTATATTGCTT----AT---AGAA--CTTCGTA-AAATAA-CAATCAA----------------------------CATTTTATCGA-ATACCTACATA---------GT----TTTA------------------------AGTTCATTA---------------------------------------------------------------AATGCACAATAGCTTA----A--ACACT--------------------------------------------------------------------------------------------------------------------------------------------------TT-TATATAACAG------------GAA--AAAATTCCCCTTTCATAGTTTTTAAAATCGTAATTTTA-------------TC------------------------CTCCTTTTTC-----------------------AGATG---------------CCATCAACAGTGGCAGCGGCAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGA
droBia1	scf7180000302421:669063-669211 +		AAATATTTAGT----CT---AGTAA-ATTTCAG-ACTCATTTTG---T----------------------------TATCTGTTTAGAACTTAAATATG-TTTTTGTATT----ATTATTT-------------------------TTAAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAAACT--TG------------------------------------------------CT-------------------------TGCACTTAC-----------------------AGA-------------------AC---CTCTGGCGGTGGCAGCAT---------GTC---GTCCATGAGC--CACGAGA----GTCAG
droTak1	scf7180000415659:115867-115988 +		TGCTTTATAATTA--A----------ATTTTTG-AATTAAGTTA---T----------------------------TATTTAATTTA-ATTTGTATATATTTTC-------------------------------------CCTTTTTTTAATGTTTAT------------------C------------------------------------------TA--------AATGT--CCAAT----------TGTTTTCTAA-------------------------------------------------------------------------------------------------------------------AATG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTTTT--AATTTTT----TTATA
droEle1	scf7180000491214:2793358-2793447 +		ATTTTCTTAAC----C--ATATA-----------AAATGGGTTA--ATAGTTT-----TATAATTTCCTT-----------------------------------------------------------------------AACTTTTTTAATGCATAC------------------ATGGTAC-----ATGCAT-------------------------------------------------------------------TTTTTATCTAG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CT
droRho1	scf7180000779263:211346-211589 -		TATTCTAAATA----ATATTAT---A--TTTTAATACT----ACTCATTGCCTAATTGGTAAATTG----------------------------------CTTTTGCATT----GTTAATA-------------------------TC-TAATTAAAAT------------------TTAAACCATTCA--A----------------------AATGTACAATTTG---AT------------------------------------------------------------------------------------------------------------------------------------------------TTGAAACATTTATT-TTTATTAA-----------------------------------GGATATTAAGATTGTAACATTAAATTTTAACTCCCAT---------TTT-----CCACCTCTCCCCCTTAC-----------------------AGATG---------------CCATCACCAGTGGCAGTGGCAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGT
droFic1	scf7180000452523:1209113-1209338 +		GCATGTTGAAA----AG---GGA-----------TACTGGATAA---ACAATT-----TTTAAGTTTGCTTTCGAA--------------------------------GT----GTAATTT-------------------------TTAAAACAAAAAC------------------TTAAAATATTTT--T-AA---------------------------------------------------------------CTA-------------------------------------------------------------------------------------------------------------------AAGATAACATTATA-TTTCT----------ATGGCCTGATGCTAA------------------------------------------------ATTGTTCTTTTTCTCCATTGCAGCTCTGTTTATGCTG----------------------GGTCCTTGCTCACCCAGG--CGGC---CAATGGCATTCAGTACGG---------GA-----TGCAGTCGCCCAACCAGA----CGCAC
droKik1	scf7180000302469:613887-614096 -		AGTTTTATTTA----C----------ATTTTTTAAGAATTTTGTATATTT-----------------------------------------------------TTAT----------------------------------ATATTTTATATATT-----------------------TTAAATGGTTTTTTTTGTTTGTTTCTAGTGGTTTCGCCTGTACAATCGCCTA---------------------------------------------------------------------------------------------------------------------------------------------------------CAGTTTT-GGTATCAAAG------------------------------------------------------------------------------------------------------------GCCACCGGTGTGCCATTGTCCATA---------------GCCTCATCGGCAGCAGCGGCAGCAGCTTTAGGTGGCT---CCACAATCAT--AAGAAGTACTAGGAAT
droAna3	scaffold_13266:1054894-1054960 +		ATT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCAATTGT-----------------------AGATG---------------CCATCAACAGTGGCAGTGGCAACGG---------AAG---CAGCAGTCGC--AAGGAGA----AGCGA
droBip1	scf7180000396730:2052009-2052076 +		TTTAAA-T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCATCCGC-----------------------AGATG---------------CCATCAACAGTGGCAGTGGCAATGG---------A------AGCAGTCGC--AAGGAGA----AGCGA
dp5	3:4525277-4525360 +		TTCCATTCCTC----A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCTTT-----------------------AGACACCATCCACTCTGGCAGCGG---CAACGGCAACGGCAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGT
droPer2	scaffold_2:4714155-4714238 +		TTCCATTCCTC----A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCTTT-----------------------AGACACCATCCACTCTGGCAGCGG---CAACGGCAACGGCAACGG---------CAG---CAGCAGTCGC--AAGGAGA----AGCGT
droWil2	scf2_1100000004954:5070250-5070444 -		TTTGTA---GTTTAAT--TTAAA-----------AAATGTTACT--AT--------------------------------------------------A-TTTTTATTTT----AAT----------------------TTCCTTTACTTAA-----------------------------AATTTTTTA-----C----TTTTGT-----------TTTCA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGCTGACAAAATGAAGCAGCAGACGGATGCTCAACTGAAGC---------------------TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGTTGGAAGCC---------ATGAACCAGCAGTCGA--AATATGA----A----
droVir3	scaffold_12875:13141130-13141193 -		TAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTTGC-----------------------AGAGG---------------GCATCAGTGCTGGCAGTGGCAACGG---------GAG---CAGCAGTCGA--AAGGAGA----AGCGG
droMoj3	scaffold_6473:15713336-15713416 +		GTGCAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAA-----A------------------------------------------------AT-------------------------GGCTTTTATAGCTGCCAGT----------------------------TGAGAGCAG---TAAATTCAATAGCAACAG---------CAG---CAGCAGC------AGCAGC----AGCAA
droGri2	scaffold_11025:913-1101 +		TCATTTTCTTT----C----------CCTTTTCACGGCACCTACACATTGTT--------------------------------------------------------------------------------------------------------TAC------------------GTT--------------GCAC-------------------G------------TTCGT--CAGCG----------T---------TTTTTCCCCCGCTCGCTGCAAATGTA-----------------AACAAACATTATGTTGCG---CACGCACG------TGAGACTGTTCCATTGCCAAAACGTTCCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCC---CAGAGGCAGCAGCAGCAA---------CAA---CAGCAGCCACAGCAGCAAT----AGCAG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim2

TCATTTTGGTA----TTCATAT---GCCTTTTAAAAATAGATAATCATTGATT-----TTTAATTTCATTTACATC--------------------------------GT----GTTA-------------------TCTTC--TTTCTTAATTTAAAT------------------ATTAAATATTTTGTTTAGCTCATATCTGT-----------GTACA--------TTTGT--CCACC----------TGTTTCCTAA-------------------------------------------------------------------------------------------------------------------AGAAAACATTATT-TTTGTCACACACTGTTTAACCGAATTTTCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAATGG---------GAA---CAGCAGTCGC--AAGGAGA----AGCGT	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
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGTCGC--AAGGAGA----AGC..	18	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TG---------------CCAT---CAGTGGCAGTGGGAATGG---------GA................................	26	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................TT-TTTGTCACACACTGTTTAACCG...........................................................................................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSec2

TCATTTTGGTA----TTCATAT---GCCTTTTAAAAATAGATAATCATTGAAT-----TTTAATTTCATTTACATC--------------------------------GT----GTTA-------------------TCTTC--TTTCTTAATTTAAAT------------------ATTAAATATTTTGTTTAGCTCATATCTGG-----------GTACA--------TTTGT--CCACC----------TGTTTCCTA------------------------------------GTCATCTC-----------------------------------------------------------------------TAGAAAACATTATT-TTTGTCAAACACTGTTTAACCGAATTTTCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAATGG---------GAA---CAGCAGTCGC--AAGGAGA----AGCGT	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
.............................................................................................................................................................................................................................................................................................................................................................................................................................AATTTTCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AG......................................................................................	21	1	1.00	1	0	0	1	0

dm3

CCATTTTGGTA----TTAATAT---GCCTTTTAAAAATAGATAATCATTGTTT-----TTTAATTTCATATACATC--------------------------------GTGTTAGTTTTTCTTAATATATCGTGTTATCTTCCTTTTCTTAATTTAAAT------------------ATAAAATATTTTGTTTAGCTT-------------------G------------TTTGT--CCACC----------TCTTTCCTAA--------------------------A-TCTTAAAGCCATCTC-----------------------------------------------------------------------TAGAAAAAATTATT-TTTGTCACACACTGTTTAACCGAATTTTCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAATGG---------AAA---CAGCAGTCGC--AAGGAGA----AGCGT	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
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGTGGCAGTGGGAATGG---------AAA---C...........................	21	1	5.00	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGGAATGG---------AAA---CAGCAGTCGC--AAGGA...........	27	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AT---CAGTGGCAGTGGGAATG............................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGTGGGAATGG---------AAA---CAGC........................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGATG---------------CCAT---CAGTGGCAGTGGG................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droEre2

CTATTTTTGTT----TC---CTTA----------AGTTATCTCC--------------------------------------------------------------------------------------------------CTATTCTTCATTTAAAACTATAGGGCTATTGA------------------------------------------------------------------AC----------------------------------------------ACACTTAAACTGATCTC-----------------------------------------------------------------------TGCAAAACTTTATTATCTGTCACACAATATTGAACCGAATCTCCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGT	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
..............................................................................................................................................................................................................................................................................................................................................................................................................................ATCTCCA------------------------------------------------AT-------------------------TGCTCTTCT-----------------------AG......................................................................................	20	1	1.00	1	0	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATG---------------CCAT---CAGTGGCAGTGGGAACGG---------..................................	26	1	1.00	1	0	0	0	0	1	0	0

droYak3

CATA-----------------T---GCTTTCTA-AAATAAAAAAACACAGAT----------ATTTCATTAACATA--------------------------------GT----------------------------------TGAATTAATTTAAATTGATAGGGCTATGAAGCAATTCAAAATTTTGTTTAGCTCATCTCTGA-----------GTAAA--------TTTTTTACCACCGTTACTCACTACTTTCCTT---------------------------A-TCTTAATATGATCTC-----------------------------------------------------------------------TGCACAGCTTTTCTCTATGTCATACAATGTTAAAACGAGTTTGCA------------------------------------------------AT-------------------------TGCCCTTCT-----------------------AGATG---------------CCAT---CAGTGGCAGTGGGAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGT	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
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AG---CAGCAGTCGC--AAGGAGA----AGC..	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................................................AATATGATCTC-----------------------------------------------------------------------TGCACAGCTTTTCTC.................................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................G---CAGCAGTCGC--AAGGAGA----AGC..	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAGTGGGAACGG---------GAG---CAGCAGT.....................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................GATAGGGCTATGAAGCAATT....................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0

droEug1

TTATATTGCTT----AT---AGAA--CTTCGTA-AAATAA-CAATCAA----------------------------CATTTTATCGA-ATACCTACATA---------GT----TTTA------------------------AGTTCATTA---------------------------------------------------------------AATGCACAATAGCTTA----A--ACACT--------------------------------------------------------------------------------------------------------------------------------------------------TT-TATATAACAG------------GAA--AAAATTCCCCTTTCATAGTTTTTAAAATCGTAATTTTA-------------TC------------------------CTCCTTTTTC-----------------------AGATG---------------CCATCAACAGTGGCAGCGGCAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AAATATTTAGT----CT---AGTAA-ATTTCAG-ACTCATTTTG---T----------------------------TATCTGTTTAGAACTTAAATATG-TTTTTGTATT----ATTATTT-------------------------TTAAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAAACT--TG------------------------------------------------CT-------------------------TGCACTTAC-----------------------AGA-------------------AC---CTCTGGCGGTGGCAGCAT---------GTC---GTCCATGAGC--CACGAGA----GTCAG	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TGCTTTATAATTA--A----------ATTTTTG-AATTAAGTTA---T----------------------------TATTTAATTTA-ATTTGTATATATTTTC-------------------------------------CCTTTTTTTAATGTTTAT------------------C------------------------------------------TA--------AATGT--CCAAT----------TGTTTTCTAA-------------------------------------------------------------------------------------------------------------------AATG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTTTT--AATTTTT----TTATA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

ATTTTCTTAAC----C--ATATA-----------AAATGGGTTA--ATAGTTT-----TATAATTTCCTT-----------------------------------------------------------------------AACTTTTTTAATGCATAC------------------ATGGTAC-----ATGCAT-------------------------------------------------------------------TTTTTATCTAG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TATTCTAAATA----ATATTAT---A--TTTTAATACT----ACTCATTGCCTAATTGGTAAATTG----------------------------------CTTTTGCATT----GTTAATA-------------------------TC-TAATTAAAAT------------------TTAAACCATTCA--A----------------------AATGTACAATTTG---AT------------------------------------------------------------------------------------------------------------------------------------------------TTGAAACATTTATT-TTTATTAA-----------------------------------GGATATTAAGATTGTAACATTAAATTTTAACTCCCAT---------TTT-----CCACCTCTCCCCCTTAC-----------------------AGATG---------------CCATCACCAGTGGCAGTGGCAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GCATGTTGAAA----AG---GGA-----------TACTGGATAA---ACAATT-----TTTAAGTTTGCTTTCGAA--------------------------------GT----GTAATTT-------------------------TTAAAACAAAAAC------------------TTAAAATATTTT--T-AA---------------------------------------------------------------CTA-------------------------------------------------------------------------------------------------------------------AAGATAACATTATA-TTTCT----------ATGGCCTGATGCTAA------------------------------------------------ATTGTTCTTTTTCTCCATTGCAGCTCTGTTTATGCTG----------------------GGTCCTTGCTCACCCAGG--CGGC---CAATGGCATTCAGTACGG---------GA-----TGCAGTCGCCCAACCAGA----CGCAC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AGTTTTATTTA----C----------ATTTTTTAAGAATTTTGTATATTT-----------------------------------------------------TTAT----------------------------------ATATTTTATATATT-----------------------TTAAATGGTTTTTTTTGTTTGTTTCTAGTGGTTTCGCCTGTACAATCGCCTA---------------------------------------------------------------------------------------------------------------------------------------------------------CAGTTTT-GGTATCAAAG------------------------------------------------------------------------------------------------------------GCCACCGGTGTGCCATTGTCCATA---------------GCCTCATCGGCAGCAGCGGCAGCAGCTTTAGGTGGCT---CCACAATCAT--AAGAAGTACTAGGAAT	Size	Hit Count	Total Norm	Total
No Reads

droAna3

ATT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCAATTGT-----------------------AGATG---------------CCATCAACAGTGGCAGTGGCAACGG---------AAG---CAGCAGTCGC--AAGGAGA----AGCGA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
No Reads

droBip1

TTTAAA-T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCATCCGC-----------------------AGATG---------------CCATCAACAGTGGCAGTGGCAATGG---------A------AGCAGTCGC--AAGGAGA----AGCGA	Size	Hit Count	Total Norm	Total
No Reads

dp5

TTCCATTCCTC----A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCTTT-----------------------AGACACCATCCACTCTGGCAGCGG---CAACGGCAACGGCAACGG---------GAG---CAGCAGTCGC--AAGGAGA----AGCGT	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
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCCACTCTGGCAGCGG---CAACGGCAA....................................................	25	1	2.00	2	0	0	0	0	0	0	0	2	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACACCATCCACTCTGGCAGCGG---CAAC.........................................................	27	1	2.00	2	0	0	0	0	0	0	0	2	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTCTGGCAGCGG---CAACGGCAAC...................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	1	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCTGGCAGCGG---CAACGGC......................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	1
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAGTCGC--AAGGAGA----AGCGT	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTCTGGCAGCGG---CAACGGCAACGGC................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCCACTCTGGCAGCGG---CAACGGCAAC...................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACGG---------GAG---CAGCAGTCGC--AAGG............	22	1	1.00	1	0	0	0	0	0	0	0	0	0	1

droPer2

TTCCATTCCTC----A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCTTT-----------------------AGACACCATCCACTCTGGCAGCGG---CAACGGCAACGGCAACGG---------CAG---CAGCAGTCGC--AAGGAGA----AGCGT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACGGCAACGGCAACGG---------CAG---CA..........................	21	13	0.08	1	0	1	0	0	0	0

droWil2

TTTGTA---GTTTAAT--TTAAA-----------AAATGTTACT--AT--------------------------------------------------A-TTTTTATTTT----AAT----------------------TTCCTTTACTTAA-----------------------------AATTTTTTA-----C----TTTTGT-----------TTTCA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGCTGACAAAATGAAGCAGCAGACGGATGCTCAACTGAAGC---------------------TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGTTGGAAGCC---------ATGAACCAGCAGTCGA--AATATGA----A----	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAG....................................................	23	5	1.60	8	0	7	0	1	0
............................................................................................................................................................................................................................CA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGCTGA.................................................................................................................................................................................................................................................................................................................	25	6	1.17	7	1	6	0	0	0
..................................................................................................................................................................................................................................................................................................................................AGCAGACGGATGCTCAACTGAAG...............................................................................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................AGCAGACGGATGCTCAACTGAAGC---------------------T........................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	1	0
....................................................................................................................................................................................................................................................................................................................TGACAAAATGAAGCAGCAGACGGA............................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0
............................................................................................................................................................................................................................CA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGCTG..................................................................................................................................................................................................................................................................................................................	24	6	0.83	5	0	5	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGG.......................................................	20	6	0.83	5	0	4	0	0	1
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCA.....................................................	22	5	0.60	3	0	1	1	1	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAGCGT---CAGTGGCAGTTGGA...............................................	21	5	0.60	3	0	2	0	1	0
............................................................................................................................................................................................................................CA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGCTGACA...............................................................................................................................................................................................................................................................................................................	27	6	0.50	3	0	3	0	0	0
............................................................................................................................................................................................................................CA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGCT...................................................................................................................................................................................................................................................................................................................	23	6	0.50	3	0	2	0	1	0
...............................................................................................................................................................................................................................................................................................................................................................................TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAG....................................................	26	5	0.40	2	0	0	1	1	0
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTG........................................................	19	6	0.33	2	0	0	2	0	0
............................................................................................................................................................................................................................CA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGC....................................................................................................................................................................................................................................................................................................................	22	6	0.33	2	0	2	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................TTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGG.......................................................	21	6	0.33	2	0	0	0	2	0
.......................................................................................................................................................................................................................................................................................................................................................AGC---------------------TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGG.......................................................	26	6	0.33	2	0	2	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................AGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGTTGG................................................	24	5	0.20	1	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCAGCGT---CAGTGGCAGTTGGT...............................................	22	5	0.20	1	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCAGCGT---CAGTGGCAGTTGGAAGC............................................	25	5	0.20	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGTTGG................................................	27	5	0.20	1	0	0	1	0	0
.................................................................................................................................................................................................................................................................................................................................................................................TTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGT...................................................	25	5	0.20	1	0	0	0	1	0
....................................................................................................................................................................................................................................................................................................................................................................................GAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAG....................................................	21	5	0.20	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGTTG.................................................	26	5	0.20	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGT...................................................	27	5	0.20	1	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCAGCGT---CAGTGGCAGTTGGA...............................................	22	5	0.20	1	0	1	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................GAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGTTGG................................................	25	5	0.20	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................TGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGTTGG................................................	26	5	0.20	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAGT...................................................	24	5	0.20	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCGT---CAGTGGCAGTTGGAAGC............................................	22	5	0.20	1	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCAGCGT---CAGTGGCAGTTGGAAGCC---------T.................................	27	5	0.20	1	0	0	0	1	0
...............................................................................................................................................................................................................................................................................................................................................................................TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCA.....................................................	25	5	0.20	1	0	0	0	1	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCGT---CAGTGGCAGTTGGAAGCC---------A.................................	23	5	0.20	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................................................GC---------------------TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGCAG....................................................	28	5	0.20	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCAGTTGGAAGCC---------ATGAACCAG.........................	23	5	0.20	1	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCAGCGT---CAGTGGCAGTTGGAAGCC---------A.................................	27	5	0.20	1	0	0	1	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCAGTTGGAAGCC---------ATGAACCAGCAGTC....................	28	5	0.20	1	0	0	1	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCAGCGT---CAGTGGCAGTTGGAAGCC---------ATG...............................	29	5	0.20	1	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAGCC---------ATGAACCAGCAGTCGA--................	22	6	0.17	1	0	1	0	0	0
............................................................................................................................................................................................................................CA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGCTGACAT..............................................................................................................................................................................................................................................................................................................	28	6	0.17	1	0	1	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAGCC---------ATGAACCAGCAGTCGA--AA..............	24	6	0.17	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGCC---------ATGAACCAGCAGTCGA--................	21	6	0.17	1	0	1	0	0	0
.............................................................................................................................................................................................................T-----------TTTCA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGC....................................................................................................................................................................................................................................................................................................................	26	6	0.17	1	0	1	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAGTTGGAAGCC---------ATGAACCAG.........................	21	6	0.17	1	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGCC---------ATGAACCAGCAGTCGA--A...............	22	6	0.17	1	0	0	1	0	0
.............................................................................................................................................................................................................................A--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGCTGA.................................................................................................................................................................................................................................................................................................................	24	6	0.17	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGC......................................................	21	6	0.17	1	0	0	1	0	0
.........................................................................................................................................................................................................................TTTCA--------TTTAT--CCAAC----------------------------------------------AAATTTA----------GGC....................................................................................................................................................................................................................................................................................................................	25	6	0.17	1	0	1	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGAAGCC---------ATGAACCAGCAGTCGA--................	24	6	0.17	1	0	1	0	0	0
.......................................................................................................................................................................................................................................TTAT--CCAAC----------------------------------------------AAATTTA----------GGCTGA.................................................................................................................................................................................................................................................................................................................	22	6	0.17	1	0	1	0	0	0
.........................................................................................................................................................................................................................................AT--CCAAC----------------------------------------------AAATTTA----------GGCTGACA...............................................................................................................................................................................................................................................................................................................	22	6	0.17	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGG.......................................................	23	6	0.17	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................................................GC---------------------TGTTTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGG.......................................................	25	6	0.17	1	0	0	0	1	0
..................................................................................................................................................................................................................................................................................................................................................................................TTGAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTCAGCGT---CAGTGGA......................................................	21	6	0.17	1	0	1	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGAAGCC---------ATGAACCAGCAGTCGA--AA..............	26	6	0.17	1	0	1	0	0	0

droVir3

TAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTTGC-----------------------AGAGG---------------GCATCAGTGCTGGCAGTGGCAACGG---------GAG---CAGCAGTCGA--AAGGAGA----AGCGG	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
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................G---CAGCAGTCGA--AAGGAGA----A....	19	1	2.00	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGCAGTGGCAACGG---------GAG---............................	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
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACGG---------GAG---CAGCAGTCGA--AA..............	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
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGCAGTGGCAACGG---------GA................................	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	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCAACGG---------GAG---CAGCAGTC....................	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	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

droMoj3

GTGCAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAA-----A------------------------------------------------AT-------------------------GGCTTTTATAGCTGCCAGT----------------------------TGAGAGCAG---TAAATTCAATAGCAACAG---------CAG---CAGCAGC------AGCAGC----AGCAA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACAG---------CAG---CAGCAGC------AGCAGC----AGCA.	26	20	0.10	2	2	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAACAG---------CAG---CAGCAGC------AGCAGC----.....	24	20	0.05	1	0	0	0	0	0	1
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAATAGCAACAG---------CAG---CAGCA.......................	20	20	0.05	1	0	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAG---------CAG---CAGCAGC------AGCAG..........	20	20	0.05	1	1	0	0	0	0	0

droGri2

TCATTTTCTTT----C----------CCTTTTCACGGCACCTACACATTGTT--------------------------------------------------------------------------------------------------------TAC------------------GTT--------------GCAC-------------------G------------TTCGT--CAGCG----------T---------TTTTTCCCCCGCTCGCTGCAAATGTA-----------------AACAAACATTATGTTGCG---CACGCACG------TGAGACTGTTCCATTGCCAAAACGTTCCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCC---CAGAGGCAGCAGCAGCAA---------CAA---CAGCAGCCACAGCAGCAAT----AGCAG	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGCAA---------CAA---CAGCAGCC....................	18	20	0.05	1	1	0

dsi_8467

2r:8049908-8050057 +

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

-9.3	-9.2	-9.2