dsi_5668

Name	Class	Family	Strand
DNAREP1_DYak	RC	Helitron	+

ACCAAATGCTTCTGCTATCTTGGATCGCTGCTATCAATCATTTTCTGAAGGTAAGAAAAAAACCCTAGCCATAACAAAGTTTTATACCCGCTTCTCAAAGAGGGTATCAAAAGGGTATATTTGAATGTATGTAACATGTAGAAAAATGCGTTTTAGACCCTATATGGTATATACACTACTTTCATTTACTTTCGTTTACTTTCTTTTTGTGGATTACTAGCCGAGTCGATTTGCCAATGCTCGTCTGTCC ************************************************...........(((((.............(((.((((((.(((....))).)))))).)))))))).((..((((((((((((.(((((((..................))))))).)))))))).....))))..))............************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O001 Testis	SRR553487 NRT_0-2 hours eggs	SRR618934 dsim w501 ovaries	SRR553485 Chicharo_3 day-old ovaries
..................................................................................................................GTATATTTGAATGTATGTA.....................................................................................................................	19	0	1	1.00	1	1	0	0	0
......................................CATTTTATGAAGGTAATACAAAA.............................................................................................................................................................................................	23	3	2	0.50	1	0	1	0	0
......................................................................................................................................................................................................................TACTAGCCGAGTCGA.....................	15	0	4	0.25	1	0	0	1	0
.....................................................................................................................................................................................................................TTAGTAGCCGAGTCGATATGTCAAT............	25	3	4	0.25	1	0	0	0	1
...............................................AAGGTAAGAAAAAAA............................................................................................................................................................................................	15	0	8	0.13	1	0	0	1	0
...........................................................................................................................................................................................................................GCCGAGTCGAATTGCGA..............	17	2	20	0.05	1	0	0	1	0

TGGTTTACGAAGACGATAGAACCTAGCGACGATAGTTAGTAAAAGACTTCCATTCTTTTTTTGGGATCGGTATTGTTTCAAAATATGGGCGAAGAGTTTCTCCCATAGTTTTCCCATATAAACTTACATACATTGTACATCTTTTTACGCAAAATCTGGGATATACCATATATGTGATGAAAGTAAATGAAAGCAAATGAAAGAAAAACACCTAATGATCGGCTCAGCTAAACGGTTACGAGCAGACAGG ************************************************...........(((((.............(((.((((((.(((....))).)))))).)))))))).((..((((((((((((.(((((((..................))))))).)))))))).....))))..))............************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR553486 Makindu_3 day-old ovaries	M024 male body	SRR618934 dsim w501 ovaries	SRR902009 testis	SRR553485 Chicharo_3 day-old ovaries	M053 female body	SRR553488 RT_0-2 hours eggs	SRR1275483 Male prepupae	SRR553487 NRT_0-2 hours eggs	M023 head
.......CGAAGACGATAGGAC....................................................................................................................................................................................................................................	15	1	16	0.44	7	2	0	0	0	1	0	2	1	1	0
....................ACGTAGGCACGATAGTTAGT..................................................................................................................................................................................................................	20	3	3	0.33	1	0	1	0	0	0	0	0	0	0	0
....................................................................GGTATTGTGTCAAAAT......................................................................................................................................................................	16	1	3	0.33	1	0	0	1	0	0	0	0	0	0	0
.......................................................ATTTTTTGGGGTCGGTATTGTG.............................................................................................................................................................................	22	3	3	0.33	1	0	0	0	1	0	0	0	0	0	0
.............................................................GGGGATCGGTATTGT..............................................................................................................................................................................	15	1	3	0.33	1	1	0	0	0	0	0	0	0	0	0
..............................................................GGGATCGGTATTGTCAC...........................................................................................................................................................................	17	2	10	0.20	2	2	0	0	0	0	0	0	0	0	0
..............................................................GGGATCGGTATTGTC.............................................................................................................................................................................	15	1	6	0.17	1	0	0	0	0	1	0	0	0	0	0
.GGTTTACGACGACGAAATAAC....................................................................................................................................................................................................................................	21	3	8	0.13	1	0	0	0	0	0	1	0	0	0	0
...............................................................................................................................................................................................................................TCGGCTAAACACTTACGAG........	19	3	20	0.10	2	0	1	0	0	0	0	0	0	0	1

Species	Coordinate	ID	Alignment
droSim2	2l:16733759-16734008 +	dsi_5668	AC---CAAATGCTTCTGCTATC-TTGGA--------------------------------TCG-------------C-------T------------------------------------------------------------------------------------------GCTATCAATCATTTT----------------------------CTGAAGGTAAG-A--------AAAAAACC-----CTAGC----------------------------------CATAACAAAGTTTTATACCCGCTTCTCAA----AGAGG-GTATCAAAAGGGTATATT---------T-------GAATGTATGTAACATGTAGAAAAATGCGTTTTAGACCCTATAT-----------------------GGTATATACAC-TACTTTCATTTACTTTCGTTTACTT----TCTTTTTGTGGATTACTAGCCGAGTCGATTTGCCAATGCTCGTCTGTCC
droSec2	scaffold_7:810637-810843 +		AC---CAAATGCTTCTGCTATC-TTGGA--------------------------------TCG-------------C-------T------------------------------------------------------------------------------------------GG-----ATCATTTT----------------------------CTGAAGGTAAG-A--------AAAATACC-----GTAGC----------------------------------CATAACAAAATTTTATACCCGTTACTTAA----AAAGG-GTATCAAAAGGGTATACTATATTC-----------GAATGTATGTTACATGTATAAATATGCATTTTCGACCCTTTAT-----------------------GGAA--------------------------TATACTT----TTTTT------------------GTCGATTTGCCAATGCTCGTCTATGC
dm3	chr2L:17182542-17182782 +		AC---CAAATGCTTCTGCTATC-TTGGA--------------------------------TAG-------------C-------T------------------------------------------------------------------------------------------GCTATCAATAATTTT----------------------------TTAAAGGTAAG-A--------AA-AAACC-----ATAGC----------------------------------CACAATAAAGATTTATACCCGTTACTCAA----A--GA-ATA---AAAGCGTATACTATATTTG-----------AATGTATGTTACATGAGGAAAGATGCATTTCCGACCCTATAT-----------------------CGTATATAAACATACA------TACT---ATATACTT----TCTTTTTGAGGATTACTAGCGGTGTCGATTTGCCAATGCTCGTCTGTCT
droEre2	scaffold_4845:20771781-20772002 -		ACTTCTAAATGTTTCTGCAG----------------------------------------------------------------------------------------------------------------------------------C------AATTCTCTAAAAATCT--GCTATCAAATT----------------------------------------TAG-A--------AAATATTT-----TTATTTT----AAT----------------------------TATATGGAATTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATACTAGATTCGCTG-------AAAAGTATGTAACAGGTAGAAGGAAACGATTC-----CCATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCAAGAGCCGAGTCGATCTGGCCATGTCCGCCTGTCC
droYak3	v2_chr2h_random_004:739249-739468 -		AC---AAGAGACTTCTGTTACG---GTA--------------------------------TTT-------------T-------T------------------------------------------------------------------------------------------GCTTTCAAACATTA------------------------------T-------AG-A--------AATATAAA-----GTAGC-TGTTT-------------------------------CTCACGTTTTTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATACTAGATTCGTTG-------AAAAGTATGTAACAGGCAGAAGAAAGCGTTTCCGACCATATAA-----------------------AGTA--------------------------TATATAT----TCTTGGTCAGGATCAATAGCCGAGTCGATCTGGCCATGTCCGTCTGTCC
droEug1	scf7180000409766:794012-794237 +		AC---TAAATAAATCTG---TC-TTAGA--------------------------------T--------------AC-------T------------------------------------------------------------------------------------------GCTATCTACTTTTAA----------------------------CATTAGGCAAA-CCTAATGCTAA------GCAACG----------------AAA------------------------AGGATATTTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATACTAGATTCGTTG-------AAAAGTATGTAACAGATAGAAGGAAGCTTTTGCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCAATAGCGAAGTCGATTGAGCCATGTCCGTCTGTCC
droBia1	scf7180000301585:109877-110106 -		AC---CAAAT----CTGT------------------------------------------------------------------T-----------------------------GCTTCTGAGCCTTCCATTTTCGATTGTTCCCTGTCATCACTGT----------------TG-------AC-ATTTT----------------------------CTT---------------------------------------A--ATG--AATT------------------------GTTATAATTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATACTAGATTCGTCG-------GAAAGTATGTAACAGGTAAAAGGAAGCGTTTCCGACCCCATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCACTAGCCGAGTCGATCTAGCCATGTCCGTCTGTCC
droTak1	scf7180000415911:8521-8752 +		AA------ATATTTTTTTAAGT-TTGGACTGAAACAATTATGGGTGTTATTTTTATCTGAAAG-------------C-------T----------------------------------------------------------------------------------------TG-------GC-------------------AAAAATAATAATTTTT------------------------------------------------------------------------------GAGTATTTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATATTAGATTCGTGC-------AAAAGTATGTAACAGGTAGAAGGAAGCGTTTCCGACCCTATAA-----------------------ACTA--------------------------TATATAT----TCTTGATCGGGATCACTAGCCGAGTCGATCTAGCCATGTCCGTCTGTCC
droEle1	scf7180000491278:1647655-1647859 -		AA------ATGTTATGGCTATC---AGA--------------------------------TTG-------------C-------T----------------------------------------------------------------------------------------TA-------ACAATTTC----------------------------TTAAAGGTATA-A--------CA-AGGCA-----ATAAA----------------------------------CAC--ATTATTTTTATACCCTT-----GC----A--G----------AGGGTATTATAATTTCAGTC-------AGAAGTTTGCAACGCAGTAAAGGAGACATCTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCATCACTAGTAGAGTCGATCTAGCCATGTCCGTCTGTCC
droRho1	scf7180000775566:195-418 -		CC---TA-GTGTCTCTTCCATCATTGAA--------------------------------CTG-------------C-------T----------------------------------------------------------------GT------AGTTTCCT------------------AAATTTT----------------------------CAGGAC--------TGAAGCTGA------TCGACTTAG-----------------------------------------CTGTAGTTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATATTGTATTCGTGC-------AAAAGTATGTAACAGGTAGAAGGAAGCGTTTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGTTCAGGATCACTAGCCGAGTCGATCTAGCCATGTCCGTCTGTCC
droFic1	scf7180000454077:752938-753157 +		AC---CTAGAAACACTTA--TA-AAATA--------------------------------ATG-------------T-------A------------------------------------------------------------------------------------------GCTATCAAACA----------------------------------------------TAAACATAA------CAAACATAACCTATTTTTG--AATT------------------------TTAATCATTATACCCTT-----GC----A--GA-GCA---AAAGGGTATTATAATTTCAGTC-------AGAAGTTTGCAACGCATTGAAGGAGACACCTTAGACCCCATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCATCACCATCTGAATCGAAATATGTATGTACGTCTGTCC
droKik1	scf7180000300109:853-1070 +		AA---TCGATTCTCCTGTTAAT-GCTGA--------------------------------TCAAGA-ATATAT---TTGATTTAT-------------GGG---------------------------------------------GTCGG------AA--------------------------------------------------------------------------------ATGACTCC-----TTCAT---C--CAG--AAAA------------------------AGTATTATTATACCCTT-----G------------------CAGGGTATTATAATTTCAGTC-------AGAAGTTTGCAACGCAGTGAAGGAGACGTTTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCATCAACAGCCGAGTCGATCTAGCCATGTCCGTCTGTCC
droAna3	scaffold_13770:604086-604295 -		AT---TGTAGTATCTGGATATC-TTGGA--------------------------------T--------------A----TTCCT------------------------------------------------------------------------------------------GCTACCAAGTT--TT----------------------------CTAAAC--------T------------------------------------------------GCGTCCTACTGCCACTATATATTTATACCCTT-----GC----A--G----------AGGGTATTATAATTTTGGTC-------AAAAGTGTGCAACGCAGTGAAGGAGACATCTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCACCTCCTGAGTCGATATGAGCATGTCCGTCTGTCC
droBip1	scf7180000396651:9217-9443 -		AA---AAAATGCACCTGCAACT-TTTCA--------------------------------GCG-------------A-------T------------------------------------------GCATA----------------------------------------------AACAATGTCCTT----------------------------CGTGAAT-TAATA--------AA-CAAGC-----ATTGCCTTG--TTGGACGAT------------------------ATAATTTTTATACCCTT-----GC----A--G----------AGGGTATTATAATTTTGTCC-------AAAAGTGTGCAACGCAGTGAAGGAGACATCTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCACCTCCTGAGTTGATATGAGCATGTCCGTCTGTCC
dp5	Unknown_group_189:15525-15746 +		CC---AA-AT-CATTTACGACT-TTTTT--------------------------------TTG-------------T-------T----------------------------------------------------------------AT------AAT---------------------------TTT----------------------------C--GAC--------T-----------------ACG----------------TGTAAGAACTCAGA--------C----ATAGTTTTTATACCCGATACTCAA----AATGA-GTA---TTGGGGTATATTAGATTTGTGGTGAAAATCGATGTGTGTAACGTCCAGAAGGAATCGTTTCCGACCCCATAA-----------------------AGTA--------------------------TATAAAT----TATTAATCAGCATCAATAGTCGAGTCGATTGAGCCCTGTCTGTCTGTCC
droPer2	scaffold_2:289157-289395 +		TC---CAGATTCAACAGCTAAT-GTTGA--------------------------------CCG-------------T-------A------------------------------------------------------------------------------------------ACCAAAAATGTATATAAGAAGGCACTATAAAAATA----------------------GAAAC------------------GT----------------------------------CACA-AAAATATTTATACCCGATACTCAA----AATAA-GTA---TAGGCGTATATTAGATTTGTGGTAAAAGTGGATGTGTGTAACGTCCAGAAGGAAGCGTTTCCGACTCCATAA-----------------------AGTA--------------------------TATATAT----TCGTGATCAGCATCAATAGCCGAGTCGATTGAGCCATGTCTGTCTGTCC
droWil2	scf2_1100000006243:469-688 +		CC---AA-ATGCACATTCTATT-T--AA--------------------------------TCG---TTTTTATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CTTACA-----GTTA-------------------------GACTTCTATTCAAAATACATTTTTATACCCTT-----GC-----------AA---AAAGGGTATATTAATTTTGGTC-------AGAAGTGTGCAACGCATAGAAGGAAGCATTTCCGACCATATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCACGACGAGACGAGTTCAAATAGCCATGTCCGTCCGTCC
droVir3	scaffold_12855:5913245-5913502 +	dvi_4135	ACA--CAAATACATTTGCTGTG-CTG--------------------------------------------------T-------G----------------------------------------------------------------GT------AAGTTAAT------------------TATTTATAAGAAATTAATTTAAAAATAAAAGT---TTAAAAGTATA----------CA-AAGTT-----GTTGT---------------------------------------TACATTATTATACCCAGAACCCATTAAAAATGG-GTA---TAAGGGTATATTGTATTTGTGCAAAATCCAAATGTATGTTACAGGCAGAAGGAAGCATTTCAGACCCCATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCATTAATAGCCGAGTCGATCTAGCCATGTCCGTCTGTCT
droMoj3	scaffold_6500:29856425-29856676 +		TA---------CTTGTTTTATA-TTGTA--------------------------------CTA-------------C-------ATCTATTTCTCTTTGAAATAAAAAACAATGGCTACTG-------------------------------------------------------------------------------------------------------------------------------T--------------AAC--AATA------------------------GGGATAATTATACCCTGAACCCATTTTCAATGGGAAA---TCAGGGTATAATGGTTTTGTTG-------AAATGTATGTAACAGGCAGAAGGAGGCGTGGAAGACCCCACAAGTATATATATACAAGTATATACAAGTA--------------------------TATATAT----TCTTGATCAGGGTGACGAGCTGAGTTGATTTGGCCCTGTCCGTCTGTCT
droGri2	scaffold_15203:11719020-11719195 +		CT---AA-TT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAACATATTTTTATACCCTGAACCCGCTAAAAATTGGTAT---AAAGGGTATACAACTTTTGACC-------AACTGTATGTAACATGCAGAAGGAAGCATCTCCGAACCCATAA-----------------------AGTA--------------------------CATATATATAATCTTGATCAGGATCAACAGCCGACTCGATATAGACATGTCCTTCTGTCC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim2

AC---CAAATGCTTCTGCTATC-TTGGA--------------------------------TCG-------------C-------T------------------------------------------------------------------------------------------GCTATCAATCATTTT----------------------------CTGAAGGTAAG-A--------AAAAAACC-----CTAGC----------------------------------CATAACAAAGTTTTATACCCGCTTCTCAA----AGAGG-GTATCAAAAGGGTATATT---------T-------GAATGTATGTAACATGTAGAAAAATGCGTTTTAGACCCTATAT-----------------------GGTATATACAC-TACTTTCATTTACTTTCGTTTACTT----TCTTTTTGTGGATTACTAGCCGAGTCGATTTGCCAATGCTCGTCTGTCC	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
.....................................................................................................................................................................................................................................................................................................................................................GTATATT---------T-------GAATGTATGTA.................................................................................................................................................	19	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TACTAGCCGAGTCGA.....................	15	4	0.25	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................................................................AAGGTAAG-A--------AAAAAA....................................................................................................................................................................................................................................................................................	15	8	0.13	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

AC---CAAATGCTTCTGCTATC-TTGGA--------------------------------TCG-------------C-------T------------------------------------------------------------------------------------------GG-----ATCATTTT----------------------------CTGAAGGTAAG-A--------AAAATACC-----GTAGC----------------------------------CATAACAAAATTTTATACCCGTTACTTAA----AAAGG-GTATCAAAAGGGTATACTATATTC-----------GAATGTATGTTACATGTATAAATATGCATTTTCGACCCTTTAT-----------------------GGAA--------------------------TATACTT----TTTTT------------------GTCGATTTGCCAATGCTCGTCTATGC	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

dm3

AC---CAAATGCTTCTGCTATC-TTGGA--------------------------------TAG-------------C-------T------------------------------------------------------------------------------------------GCTATCAATAATTTT----------------------------TTAAAGGTAAG-A--------AA-AAACC-----ATAGC----------------------------------CACAATAAAGATTTATACCCGTTACTCAA----A--GA-ATA---AAAGCGTATACTATATTTG-----------AATGTATGTTACATGAGGAAAGATGCATTTCCGACCCTATAT-----------------------CGTATATAAACATACA------TACT---ATATACTT----TCTTTTTGAGGATTACTAGCGGTGTCGATTTGCCAATGCTCGTCTGTCT	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
....................TC-TTGGA--------------------------------TAG-------------C-------T------------------------------------------------------------------------------------------GCTATGG...................................................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droEre2

ACTTCTAAATGTTTCTGCAG----------------------------------------------------------------------------------------------------------------------------------C------AATTCTCTAAAAATCT--GCTATCAAATT----------------------------------------TAG-A--------AAATATTT-----TTATTTT----AAT----------------------------TATATGGAATTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATACTAGATTCGCTG-------AAAAGTATGTAACAGGTAGAAGGAAACGATTC-----CCATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCAAGAGCCGAGTCGATCTGGCCATGTCCGCCTGTCC	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGATCAGGATCAAGAGCCGAGTCGATC...................	27	1	1.00	1	0	0	0	0	0	0	1
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAGGATCAAGAGCCG...........................	15	4	0.25	1	0	0	0	0	0	0	1
.....................................................................................................................................................................................................................................................................................................................................................GTATACTAGATTCGCTG-------A...........................................................................................................................................................	18	15	0.07	1	0	0	0	0	0	1	0

droYak3

AC---AAGAGACTTCTGTTACG---GTA--------------------------------TTT-------------T-------T------------------------------------------------------------------------------------------GCTTTCAAACATTA------------------------------T-------AG-A--------AATATAAA-----GTAGC-TGTTT-------------------------------CTCACGTTTTTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATACTAGATTCGTTG-------AAAAGTATGTAACAGGCAGAAGAAAGCGTTTCCGACCATATAA-----------------------AGTA--------------------------TATATAT----TCTTGGTCAGGATCAATAGCCGAGTCGATCTGGCCATGTCCGTCTGTCC	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
.....AAGAGACTTCTGTTACG---GT..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................TAACAGGCAGAAGAAAGCGTTTCCGA.........................................................................................................................	26	20	0.95	19	0	0	0	0	0	0	0	0	0	0	19
....................................................................................................................................................................................................................................................................................................................................................................................TGTAACAGGCAGAAGAAAGCGTTTCCG..........................................................................................................................	27	20	0.65	13	0	0	0	0	0	0	0	0	0	0	13
............................................................................................................................................................................................................................................................................................................................TCGT----A--GA-GTA---AAAGGGTATACTAGATTC.......................................................................................................................................................................	28	20	0.45	9	0	9	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................GCAGAAGAAAGCGTTTCCGACCATA....................................................................................................................	25	20	0.20	4	0	4	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................AAGGGTATACTAGATTCGTTG-------............................................................................................................................................................	21	20	0.20	4	0	4	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................TATGTAACAGGCAGAAGAAAGCGTT..............................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................TTATACCCGTTACTCGT----A--GA-GTA---AAA......................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................AAGGGTATACTAGATTCGTTG-------AAAAGTAT....................................................................................................................................................	29	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................CTCGT----A--GA-GTA---AAAGGGT..................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................TCGT----A--GA-GTA---AAAGGGTATACTAGATTCG......................................................................................................................................................................	29	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATATAT----TCTTGGTCAGGATCAG.................................	22	20	0.05	1	0	0	0	0	0	1	0	0	0	0	0

droEug1

AC---TAAATAAATCTG---TC-TTAGA--------------------------------T--------------AC-------T------------------------------------------------------------------------------------------GCTATCTACTTTTAA----------------------------CATTAGGCAAA-CCTAATGCTAA------GCAACG----------------AAA------------------------AGGATATTTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATACTAGATTCGTTG-------AAAAGTATGTAACAGATAGAAGGAAGCTTTTGCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCAATAGCGAAGTCGATTGAGCCATGTCCGTCTGTCC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AC---CAAAT----CTGT------------------------------------------------------------------T-----------------------------GCTTCTGAGCCTTCCATTTTCGATTGTTCCCTGTCATCACTGT----------------TG-------AC-ATTTT----------------------------CTT---------------------------------------A--ATG--AATT------------------------GTTATAATTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATACTAGATTCGTCG-------GAAAGTATGTAACAGGTAAAAGGAAGCGTTTCCGACCCCATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCACTAGCCGAGTCGATCTAGCCATGTCCGTCTGTCC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AA------ATATTTTTTTAAGT-TTGGACTGAAACAATTATGGGTGTTATTTTTATCTGAAAG-------------C-------T----------------------------------------------------------------------------------------TG-------GC-------------------AAAAATAATAATTTTT------------------------------------------------------------------------------GAGTATTTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATATTAGATTCGTGC-------AAAAGTATGTAACAGGTAGAAGGAAGCGTTTCCGACCCTATAA-----------------------ACTA--------------------------TATATAT----TCTTGATCGGGATCACTAGCCGAGTCGATCTAGCCATGTCCGTCTGTCC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AA------ATGTTATGGCTATC---AGA--------------------------------TTG-------------C-------T----------------------------------------------------------------------------------------TA-------ACAATTTC----------------------------TTAAAGGTATA-A--------CA-AGGCA-----ATAAA----------------------------------CAC--ATTATTTTTATACCCTT-----GC----A--G----------AGGGTATTATAATTTCAGTC-------AGAAGTTTGCAACGCAGTAAAGGAGACATCTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCATCACTAGTAGAGTCGATCTAGCCATGTCCGTCTGTCC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CC---TA-GTGTCTCTTCCATCATTGAA--------------------------------CTG-------------C-------T----------------------------------------------------------------GT------AGTTTCCT------------------AAATTTT----------------------------CAGGAC--------TGAAGCTGA------TCGACTTAG-----------------------------------------CTGTAGTTATACCCGTTACTCGT----A--GA-GTA---AAAGGGTATATTGTATTCGTGC-------AAAAGTATGTAACAGGTAGAAGGAAGCGTTTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGTTCAGGATCACTAGCCGAGTCGATCTAGCCATGTCCGTCTGTCC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AC---CTAGAAACACTTA--TA-AAATA--------------------------------ATG-------------T-------A------------------------------------------------------------------------------------------GCTATCAAACA----------------------------------------------TAAACATAA------CAAACATAACCTATTTTTG--AATT------------------------TTAATCATTATACCCTT-----GC----A--GA-GCA---AAAGGGTATTATAATTTCAGTC-------AGAAGTTTGCAACGCATTGAAGGAGACACCTTAGACCCCATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCATCACCATCTGAATCGAAATATGTATGTACGTCTGTCC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AA---TCGATTCTCCTGTTAAT-GCTGA--------------------------------TCAAGA-ATATAT---TTGATTTAT-------------GGG---------------------------------------------GTCGG------AA--------------------------------------------------------------------------------ATGACTCC-----TTCAT---C--CAG--AAAA------------------------AGTATTATTATACCCTT-----G------------------CAGGGTATTATAATTTCAGTC-------AGAAGTTTGCAACGCAGTGAAGGAGACGTTTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCATCAACAGCCGAGTCGATCTAGCCATGTCCGTCTGTCC	Size	Hit Count	Total Norm	Total
No Reads

droAna3

AT---TGTAGTATCTGGATATC-TTGGA--------------------------------T--------------A----TTCCT------------------------------------------------------------------------------------------GCTACCAAGTT--TT----------------------------CTAAAC--------T------------------------------------------------GCGTCCTACTGCCACTATATATTTATACCCTT-----GC----A--G----------AGGGTATTATAATTTTGGTC-------AAAAGTGTGCAACGCAGTGAAGGAGACATCTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCACCTCCTGAGTCGATATGAGCATGTCCGTCTGTCC	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
....................................................................................T------------------------------------------------------------------------------------------GCTACCAAGTT--TT----------------------------CTAAAC--------T------------------------------------------------GCGTCC..........................................................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0
.................................................................................................................................................................................TACCAAGTT--TT----------------------------CTAAAC--------T------------------------------------------------GCGTCCTACT......................................................................................................................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0
.T---TGTAGTATCTGGATATC-TTGGA--------------------------------T--------------A----.........................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................AAGTGTGCAACGCAGTGAAGGAGA..................................................................................................................................	24	20	0.75	15	0	0	0	0	15	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACCTCCTGAGTCGATATGAGC..............	22	20	0.75	15	0	0	0	0	0	15
....................................................................................T------------------------------------------------------------------------------------------GCTACCAAGTT--TT----------------------------CTAAAC--------T------------------------------------------------GCGTC...........................................................................................................................................................................................................................................	26	20	0.10	2	1	1	0	0	0	0

droBip1

AA---AAAATGCACCTGCAACT-TTTCA--------------------------------GCG-------------A-------T------------------------------------------GCATA----------------------------------------------AACAATGTCCTT----------------------------CGTGAAT-TAATA--------AA-CAAGC-----ATTGCCTTG--TTGGACGAT------------------------ATAATTTTTATACCCTT-----GC----A--G----------AGGGTATTATAATTTTGTCC-------AAAAGTGTGCAACGCAGTGAAGGAGACATCTCCGACCCTATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGGATCACCTCCTGAGTTGATATGAGCATGTCCGTCTGTCC	Size	Hit Count	Total Norm	Total
No Reads

dp5

CC---AA-AT-CATTTACGACT-TTTTT--------------------------------TTG-------------T-------T----------------------------------------------------------------AT------AAT---------------------------TTT----------------------------C--GAC--------T-----------------ACG----------------TGTAAGAACTCAGA--------C----ATAGTTTTTATACCCGATACTCAA----AATGA-GTA---TTGGGGTATATTAGATTTGTGGTGAAAATCGATGTGTGTAACGTCCAGAAGGAATCGTTTCCGACCCCATAA-----------------------AGTA--------------------------TATAAAT----TATTAATCAGCATCAATAGTCGAGTCGATTGAGCCCTGTCTGTCTGTCC	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
...............................................................................................................................................................................................................................................................................................................................................................TTTGTGGTGAAAATCGATGTGTG...................................................................................................................................................	23	3	6.00	18	0	11	0	0	0	0	2	5	0	0
...............................................................................................................................................................................................................................................................................................................................................................TTTGTGGTGAAAATCGATGTGTGT..................................................................................................................................................	24	3	4.67	14	0	11	0	0	0	0	3	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................GAAGGAATCGTTTCCGACCCCA....................................................................................................................	22	20	4.30	86	0	83	3	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................TTTGTGGTGAAAATCGATGTGTGTAACG..............................................................................................................................................	28	3	1.67	5	0	5	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................TTTGTGGTGAAAATCGATGTGTGTA.................................................................................................................................................	25	3	1.67	5	0	5	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................TTTGTGGTGAAAATCGATGTGT....................................................................................................................................................	22	3	1.33	4	0	4	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................TCGTTTCCGACCCCATAA-----------------------AGTA--------------------------TAT.........................................................	25	20	0.85	17	0	17	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................GAAGGAATCGTTTCCGACCCC.....................................................................................................................	21	20	0.75	15	0	0	15	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................TATACCCGATACTCAA----AATG.................................................................................................................................................................................................	20	20	0.65	13	0	13	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................TCGTTTCCGACCCCATAA-----------------------AGT.......................................................................................	21	20	0.55	11	0	11	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................TTTGTGGTGAAAATCGATGTGTGTAA................................................................................................................................................	26	3	0.33	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................TTGTGGTGAAAATCGATGTGT....................................................................................................................................................	21	3	0.33	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................TTGTGGTGAAAATCGATGTGTG...................................................................................................................................................	22	3	0.33	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGAGCCCTGTCTGTCTGTCC	21	20	0.30	6	0	0	0	0	0	0	6	0	0	0
..................................................................................................................................................................................................................................................................................................................................................GGGGTATATTAGATTTGTGG...................................................................................................................................................................	20	20	0.30	6	0	0	0	0	0	0	0	0	6	0
...............................................................................................................................................................................................................................................................................................................................................................................ATGTGTGTAACGTCCAGAAGGA....................................................................................................................................	22	20	0.25	5	0	5	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................TTTGTGGTGAAAATCGATGTGTGTAAA...............................................................................................................................................	27	5	0.20	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCGATTGAGCCCTGTCTG.......	19	20	0.20	4	0	4	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................AGAAGGAATCGTTTCCGACCCCAT...................................................................................................................	24	20	0.15	3	0	3	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................A---TTGGGGTATATTAGATTTGT.....................................................................................................................................................................	21	20	0.15	3	0	0	0	0	3	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................TTGGGGTATATTAGATTTGTGG...................................................................................................................................................................	22	20	0.15	3	0	3	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................CAA----AATGA-GTA---TTGGGGT..................................................................................................................................................................................	18	20	0.15	3	0	0	0	0	3	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAGCATCAATAGTCGAGTCGATTG..................	25	14	0.14	2	0	0	0	0	0	0	0	2	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CATCAATAGTCGAGTCGATTG..................	21	15	0.13	2	0	0	0	0	0	0	0	0	2	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAATAGTCGAGTCGATTGAGCCCTGTC.........	27	8	0.13	1	0	0	0	0	0	0	0	0	1	0
...................................................................................................................................................................................................................................................................................................................................................................................................GAATCGTTTCCGACCCCATAA-----------------------..........................................................................................	21	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................GATACTCAA----AATGA-GTA---TTGGGGTA.................................................................................................................................................................................	25	20	0.10	2	0	2	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................TGTGTGTAACGTCCAGAAGGAATCG................................................................................................................................	25	20	0.10	2	0	2	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................CCAGAAGGAATCGTTTCCGA.........................................................................................................................	20	20	0.10	2	0	0	0	0	0	0	2	0	0	0
............................................................................................................................................................................................................................................................................................................................TCAA----AATGA-GTA---TTGGGGTA.................................................................................................................................................................................	20	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATCAATAGTCGAGTCGATT...................	21	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAGTCGAGTCGATTGAGCC..............	20	15	0.07	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAATAGTCGAGTCGATTGA.................	20	15	0.07	1	0	0	0	0	0	0	0	0	1	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CATCAATAGTCGAGTCGATT...................	20	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................TAGTTTTTATACCCGATACTC...........................................................................................................................................................................................................	21	17	0.06	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................TAGTTTTTATACCCGATACTCAA----AA...................................................................................................................................................................................................	25	17	0.06	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAGCATCAATAGTCGAGTCG......................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGAGCCCTGTCTGTCTGTC.	19	20	0.05	1	0	0	0	0	0	0	0	0	1	0
...............................................................................................................................................................................................................................................................................................................TTATACCCGATACTCAA----AATGA-...............................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................GTTTCCGACCCCATAA-----------------------AGT.......................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................GGGGTATATTAGATTTGTGGT..................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................TAACGTCCAGAAGGAATCGTTTCCG..........................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................CGTCCAGAAGGAATCGTTTCCGAC........................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................GTCCAGAAGGAATCGTTTCCGACCCC.....................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAGCATCAATAGTCGAGTCGA.....................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................TGGGGTATATTAGATTTGTGGT..................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................AGAAGGAATCGTTTCCGACCC......................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................ATGTGTGTAACGTCCAGAAGG.....................................................................................................................................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCGATTGAGCCCTGTCT........	20	20	0.05	1	0	0	0	0	0	0	1	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGAGTCGATTGAGCCCTGTC.........	20	20	0.05	1	0	0	0	0	0	1	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTGAGCCCTGTCTGTCTGT..	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................A----AATGA-GTA---TTGGGGTATATT.............................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................................................TATTAGATTTGTGGTGAAAA.............................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGAGCCCTGTCTGTCTGTC.	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................TACTCAA----AATGA-GTA---TTGGGGTAT................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGAGCCCTGTCTGTCTG...	17	20	0.05	1	0	0	0	0	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGATTGAGCCCTGTCTGTCTGTC.	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATCAATAGTCGAGTCGAT....................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................TTTTATACCCGATACTCAA----AATGA-...............................................................................................................................................................................................	24	20	0.05	1	0	0	1	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................AGAAGGAATCGTTTCCGACCCC.....................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................TTTTTATACCCGATACTCAA----.....................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

TC---CAGATTCAACAGCTAAT-GTTGA--------------------------------CCG-------------T-------A------------------------------------------------------------------------------------------ACCAAAAATGTATATAAGAAGGCACTATAAAAATA----------------------GAAAC------------------GT----------------------------------CACA-AAAATATTTATACCCGATACTCAA----AATAA-GTA---TAGGCGTATATTAGATTTGTGGTAAAAGTGGATGTGTGTAACGTCCAGAAGGAAGCGTTTCCGACTCCATAA-----------------------AGTA--------------------------TATATAT----TCGTGATCAGCATCAATAGCCGAGTCGATTGAGCCATGTCTGTCTGTCC	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.........................................................................................................................................................................................................................................................................................................................................................................................CGTCCAGAAGGAAGCGTTT.............................................................................................................................	19	20	0.10	2	0	0	0	0	0	2
...............................................................................................................................................................................................................................................................................................................................................................TTTGTGGTAAAAGTGGATGTGTGTAA................................................................................................................................................	26	20	0.10	2	0	0	0	0	0	2
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGATCAGCATCAATAGCCGAGTCG......................	25	11	0.09	1	0	1	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGATCAGCATCAATAGCCGA..........................	21	16	0.06	1	0	0	1	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGATCAGCATCAATAGCCG...........................	20	16	0.06	1	0	1	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................GGTAAAAGTGGATGTGTGTAACGT.............................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................GTATATTAGATTTGTGGTAA................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1
...........................................................................................................................................................................................................................................................................................................................................................................................TCCAGAAGGAAGCGTTTCCG..........................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATCAGCATCAATAGCCGAGTCGA.....................	24	20	0.05	1	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................TAAAAGTGGATGTGTGTAACG..............................................................................................................................................	21	20	0.05	1	0	0	0	1	0	0

droWil2

CC---AA-ATGCACATTCTATT-T--AA--------------------------------TCG---TTTTTATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CTTACA-----GTTA-------------------------GACTTCTATTCAAAATACATTTTTATACCCTT-----GC-----------AA---AAAGGGTATATTAATTTTGGTC-------AGAAGTGTGCAACGCATAGAAGGAAGCATTTCCGACCATATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCACGACGAGACGAGTTCAAATAGCCATGTCCGTCCGTCC	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.....................................................................TTATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CT......................................................................................................................................................................................................................................................................................	24	20	1.25	25	0	13	1	11	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAT----TCTTGATCAGCACGACGA...............................	21	20	0.50	10	10	0	0	0	0
....................................................................TTTATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CT......................................................................................................................................................................................................................................................................................	25	20	0.15	3	0	3	0	0	0
.....................................................................TTATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CTTA....................................................................................................................................................................................................................................................................................	26	20	0.10	2	0	0	0	2	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................T----TCTTGATCAGCACGACGAGA.............................	21	20	0.10	2	0	2	0	0	0
......................................................................TATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CTT.....................................................................................................................................................................................................................................................................................	24	20	0.10	2	0	2	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAAATAGCCATGTCCGTCCGTCC	24	20	0.10	2	0	0	2	0	0
.............................................................................................................................................................................................................................................................................................................................................................ATTTTGGTC-------AGAAGTGTGCAACG..............................................................................................................................................	23	20	0.10	2	0	2	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................ATTTTGGTC-------AGAAGTGTGCAACGC.............................................................................................................................................	24	20	0.10	2	0	2	0	0	0
..................................................................TTTTTATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------C.......................................................................................................................................................................................................................................................................................	26	14	0.07	1	0	1	0	0	0
..............................................................................................................................................................................................................................................................TA-------------------------GACTTCTATTCAAAATACATTTTT........................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................AGTGTGCAACGCATAGAAGGAAGC.................................................................................................................................	24	20	0.05	1	0	0	0	0	1
................................................................................................................................................................................................................................................................................................................................................................TTGGTC-------AGAAGTGTGCAACGCATAGAAG......................................................................................................................................	28	20	0.05	1	0	1	0	0	0
........................................................................TATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CT......................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	1	0
..............................................................................................................................................................................................................................................................TA-------------------------GACTTCTATTCAAAATACATTTT.........................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AT----TCTTGATCAGCACGACGAG..............................	21	20	0.05	1	0	0	1	0	0
...................................................................TTTTATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CTT.....................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................GTGCAACGCATAGAAGGAAGCATTTCCG..........................................................................................................................	28	20	0.05	1	0	1	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGATCAGCACGACGAGACGAG.........................	21	20	0.05	1	0	0	0	0	1
.....................................................................TTATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------C.......................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
.......................................................................ATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CTT.....................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
......................................................................TATATA----ATCAT-------------GTT---------------------------------------------GTGGG------AA----------------------------------------------------------------------------------CT......................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGACGAGTTCAAATAGCCATG...........	21	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGATCAGCACGACGAGACGAG.........................	23	20	0.05	1	0	1	0	0	0
.............................................................................................................................................................................................................................................................TTA-------------------------GACTTCTATTCAAAATACATTT..........................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................TTAATTTTGGTC-------AGAAGTGTGC..................................................................................................................................................	22	20	0.05	1	0	1	0	0	0

droVir3

ACA--CAAATACATTTGCTGTG-CTG--------------------------------------------------T-------G----------------------------------------------------------------GT------AAGTTAAT------------------TATTTATAAGAAATTAATTTAAAAATAAAAGT---TTAAAAGTATA----------CA-AAGTT-----GTTGT---------------------------------------TACATTATTATACCCAGAACCCATTAAAAATGG-GTA---TAAGGGTATATTGTATTTGTGCAAAATCCAAATGTATGTTACAGGCAGAAGGAAGCATTTCAGACCCCATAA-----------------------AGTA--------------------------TATATAT----TCTTGATCAGCATTAATAGCCGAGTCGATCTAGCCATGTCCGTCTGTCT	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
...............................................................................................................................................................................................................................................................................................................................TTAAAAATGG-GTA---TAAGGGTATATTG............................................................................................................................................................................	26	20	4.45	89	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	89	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCAGAAGG.....................................................................................................................................	26	17	3.82	65	0	0	2	0	0	0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	4	9	1	1	0	2	0	1	2	0	28	3	5	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCAGAAGGA....................................................................................................................................	27	17	1.47	25	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	1	3	0	0	0	0	0	0	0	14	3	0	2	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
................................................................................................................................................................................................................................................................................................................................................................................TGTATGTTACAGGCAGAAGGAAGCATT..............................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCAGAAG......................................................................................................................................	25	17	1.00	17	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	2	1	0	0	0	0	0	1	0	10	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCGATCTAGCCATGTCCGTCT....	24	20	0.60	12	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	12	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCAGA........................................................................................................................................	23	17	0.24	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	3	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
................................................................................................................................................................................................................................................................................................................................................TAAGGGTATATTGTATTTGTG....................................................................................................................................................................	21	20	0.20	4	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	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................TTAAAAATGG-GTA---TAAGGG...................................................................................................................................................................................	19	20	0.20	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	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
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATAT----TCTTGATCAGCATTAATAG..............................	24	20	0.20	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	1	1	0	0	0	0	1	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
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCAGAAGGAA...................................................................................................................................	28	17	0.18	3	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	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCAGAA.......................................................................................................................................	24	17	0.18	3	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	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................TTAAAAATGG-GTA---TAAGGGTAT................................................................................................................................................................................	22	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................AATGG-GTA---TAAGGGTATATTG............................................................................................................................................................................	21	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCAG.........................................................................................................................................	22	17	0.12	2	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	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................T----TCTTGATCAGCATTAATAGCCGAG.........................	25	20	0.10	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	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCCGT......	25	20	0.10	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	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
................................................................................................................................................................................................................................................................................................................................................TAAGGGTATATTGTATTTGTGC...................................................................................................................................................................	22	20	0.10	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	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
......................................................................................................................................................................................................................................................................................................................................................................AAAATCCAAATGTATGTTACAGGCA..........................................................................................................................................	25	12	0.08	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCA..........................................................................................................................................	21	17	0.06	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATCAGCATTAATAGCCGAGT........................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................................................................................................................................AAGGGTATATTGTATTTGTGCAAAAT..............................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................................................................................................................................................................................................................................AGTA--------------------------TATATAT----TCTTGATCAGCATT...................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATATAT----TCTTGATCAGCATT...................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAT----TCTTGATCAGCATTAATAG..............................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................................................................................................................................................................................................................TCCAAATGTATGTTACAGGCAGAAGT.....................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATAT----TCTTGATCAGCATTAA.................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCGTCT....	25	20	0.05	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................AGTA--------------------------TATATAT----TCTTGATCAGCAT....................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................................................................................................................................................................................................ACAGGCAGAAGGAAGCATT..............................................................................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................TGTTACAGGCAGAAGGAAGCA................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAGCCGAGTCGATCTAGCCATGTCCG.......	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAT----TCTTGATCAGCATTAATAGC.............................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATAT----TCTTGATCAGCATTAATAGCCG...........................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................................ATTAAAAATGG-GTA---TAAGGGTATAT..............................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTTGATCAGCATTAATA...............................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAATAGCCGAGTCGATCTAGCCATGT..........	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................T----TCTTGATCAGCATTAATAGCCGAGTCG......................	28	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................TGTATGTTACAGGCAGAAGGAAGC.................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
.................................................................................................................................................................................................................................................................................................................................................................................................................................................TA--------------------------TATATAT----TCTTGATCAGCATTAATAG..............................	28	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAT----TCTTGATCAGCATTAATAGCC............................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................ATTAAAAATGG-GTA---TAAGGGT..................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATTAATAGCCGAGTCGA.....................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................................................................................................................................................................................TATATTGTATTTGTGCAAAAT..............................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................................................................................................................................................................................................................................................................................................................................................A--------------------------TATATAT----TCTTGATCAGCAT....................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTAGCCATGTCCGTCTGTCT	20	20	0.05	1	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
............................................................................................................................................................................................................................................................................................................................................................................CAAATGTATGTTACAGGCAGAAGGA....................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................................................................................................................................................................TATTGTATTTGTGCAAAATCCAAAT........................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................................................................................................................................................................TATTGTATTTGTGCAAAATCC............................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTTGATCAGCATTAATAGCCGAGTC.......................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................TATTTGTGCAAAATCCAAATGTATGT..................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAATAGCCGAGTCGATCTAGC...............	21	20	0.05	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAT----TCTTGATCAGCATTAATAGCCGA..........................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATATAT----TCTTGATCAGCATTAATAG..............................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCTAGCCATGTCCGTCTGTC.	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................CAAATGTATGTTACAGGCAGAAGG.....................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droMoj3

TA---------CTTGTTTTATA-TTGTA--------------------------------CTA-------------C-------ATCTATTTCTCTTTGAAATAAAAAACAATGGCTACTG-------------------------------------------------------------------------------------------------------------------------------T--------------AAC--AATA------------------------GGGATAATTATACCCTGAACCCATTTTCAATGGGAAA---TCAGGGTATAATGGTTTTGTTG-------AAATGTATGTAACAGGCAGAAGGAGGCGTGGAAGACCCCACAAGTATATATATACAAGTATATACAAGTA--------------------------TATATAT----TCTTGATCAGGGTGACGAGCTGAGTTGATTTGGCCCTGTCCGTCTGTCT	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
......................................................................................................................................................................................................................................................................................................................................................................................TAACAGGCAGAAGGAGGCGTG..............................................................................................................................	21	20	0.75	15	15	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAGGGTGACGAGCTGAGTTGA.....................	21	20	0.25	5	5	0	0	0	0	0
.....................................................................................................ATAAAAAACAATGGCTACTG-------------------------------------------------------------------------------------------------------------------------------.................................................................................................................................................................................................................................................................................	20	4	0.25	1	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................ATACCCTGAACCCATTTTCAA...................................................................................................................................................................................................	21	20	0.15	3	3	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................AAATGTATGTAACAGGCAGAAGG.....................................................................................................................................	23	20	0.15	3	3	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................TCAATGGGAAA---TCAGGGTATAATGGT..........................................................................................................................................................................	26	20	0.05	1	0	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTTGATCAGGGTGACGAGCTG...........................	22	20	0.05	1	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAT----TCTTGATCAGGGTGACGAGCC............................	24	20	0.05	1	0	0	0	0	1	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................T----TCTTGATCAGGGTGACGAGC.............................	21	20	0.05	1	0	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................................................................................ACAGGCAGAAGGAGGCGTGGAAG..........................................................................................................................	23	20	0.05	1	0	0	0	0	1	0
...............................................................................................................................................................................................................................................................................................................................TTTTCAATGGGAAA---TCAGGGTATAAT.............................................................................................................................................................................	26	20	0.05	1	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................ATTTTCAATGGGAAA---TCAGGGT..................................................................................................................................................................................	22	20	0.05	1	0	0	0	1	0	0
...................................................................................................................................................................................................................................................................................................................................................................TTG-------AAATGTATGTAACAGGCAGAAGGAG...................................................................................................................................	28	20	0.05	1	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGAGCTGAGTTGATTTGGCCC.............	21	20	0.05	1	0	0	1	0	0	0

droGri2

CT---AA-TT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAACATATTTTTATACCCTGAACCCGCTAAAAATTGGTAT---AAAGGGTATACAACTTTTGACC-------AACTGTATGTAACATGCAGAAGGAAGCATCTCCGAACCCATAA-----------------------AGTA--------------------------CATATATATAATCTTGATCAGGATCAACAGCCGACTCGATATAGACATGTCCTTCTGTCC	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

dsi_5668

2l:16733809-16733958 +

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

-27.6	-27.3	-27.1