dan_1667

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TTGGAGCAGCGATGCAGGACTCTACGTGCCTGGCACTCATATGCGAAGACGTAGAGTCGCAAATAATAGAAGATCGTCCTTTATCATTCCTAAATCACCTTCCTCTGCCTGTAATATACAGGGTAGTGTTTGCATGCCCCATATTTCTGGCGACTCGGTCTATGTCGGAAATGTCTCCAAACTGCCCATCGCCTGCGTGAGTGTCTCGCTGCTACTTTTCCCAGTTGTAGGAGGAGGCATCACAGCTGTAT ***********************************************************************************************************...........(((((((....)).))))).((((((((((((((...)))...))))))))))).**************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	V039 embryo	V055 head	M044 female body
.............................................................................................................TGTAATATACAGGGTAGTGTTTGC......................................................................................................................	24	0	1	1.00	1	0	1	0	0
..............CAGGACTCTACGTGCCTGGCACTC.....................................................................................................................................................................................................................	24	0	1	1.00	1	1	0	0	0
...................................................................................TCCTTCCTAAATCACCTTCCTCTGC...............................................................................................................................................	25	1	1	1.00	1	1	0	0	0
..............................................................AGAATAGATGATCGTCCT...........................................................................................................................................................................	18	2	2	0.50	1	0	0	1	0
..........................................................................................................................................................TCGGTCTATGTCGGAAATGTC............................................................................	21	0	5	0.20	1	0	0	0	1
..........................TGCTTGGCACACATATGCGT.............................................................................................................................................................................................................	20	3	16	0.06	1	0	1	0	0
................................................................GAAAGAAGATCGTCCTGTA........................................................................................................................................................................	19	3	20	0.05	1	0	0	0	1
.............................................................................................................................................................GTCTATGTCGGAAATGTCTCCAAACTG...................................................................	27	0	20	0.05	1	0	0	0	1
................................................................................................................................................................TATGTCGGAAATGTCTCCAAACTG...................................................................	24	0	20	0.05	1	0	0	0	1

AACCTCGTCGCTACGTCCTGAGATGCACGGACCGTGAGTATACGCTTCTGCATCTCAGCGTTTATTATCTTCTAGCAGGAAATAGTAAGGATTTAGTGGAAGGAGACGGACATTATATGTCCCATCACAAACGTACGGGGTATAAAGACCGCTGAGCCAGATACAGCCTTTACAGAGGTTTGACGGGTAGCGGACGCACTCACAGAGCGACGATGAAAAGGGTCAACATCCTCCTCCGTAGTGTCGACATA **************************************************************************...........(((((((....)).))))).((((((((((((((...)))...))))))))))).***********************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	M044 female body	V055 head	V039 embryo
.......................................................................................................................................CGGGGTATAAAGACCGCTGAGCCAGAT.........................................................................................	27	0	1	1.00	1	1	0	0	0
..............................................................................................................................................TAAAGACCGCTGAGCCAGATACAGCCT..................................................................................	27	0	1	1.00	1	0	1	0	0
..........CTACGTCCTGAGATGCACGGACCTT........................................................................................................................................................................................................................	25	1	1	1.00	1	1	0	0	0
.......................................................................................AGGATTTCGGGGAAGGAGA.................................................................................................................................................	19	2	3	0.33	1	1	0	0	0
......................................................................................AATGAATTAGTGGAAGGAG..................................................................................................................................................	19	2	7	0.14	1	0	0	0	1
............................................................................................................................................................................................AGCGGACGCACTCTCCG..............................................	17	2	12	0.08	1	0	0	1	0
.........................................................................................GATTTAATGGACGGAGAAGGA.............................................................................................................................................	21	3	15	0.07	1	0	0	1	0
............................................................................................................................................................CCAGATACAGCCTTTACAGAGGTT.......................................................................	24	0	20	0.05	1	1	0	0	0

Species	Coordinate	ID	Alignment
droAna3	scaffold_13260:1610554-1610804 +	dan_1667	TTGGAGCAGCGATGCAGGACTC-----------------------------TACGTGCCTGGCACTCATATGCGAAGACGTAGA--GTCGCAAATAATAGAAGATCGTCCTTTATCATTCCTAAATCACC-TTCCTCTGCCTGTAATATACAGGGTA--------------GTGTTTGCATGCCCCATATTTCTG-----------------------------------GCGACTCGGTCTATGTCGGAAATGTCTCCAAACTGCCCATCGCCTGCGTGAGTGTCTCGCTGCTACTTTTCCCAGTTGTAGGAGGAGGCATCACA----GCTGTAT
droBip1	scf7180000393624:35334-35622 +		TTGGAGCAGCGATGTAAGACGCTGGAGGCTATGAACGTGGCCATGGCTGCATACGC---------CCACATGGGAAGGCGTCGA--GGTGCAAATAATAGTAGATCATCCTTTATTGTTACTAATTTGCT-TCCCTCTGCCTGTGCTCTATGCGGTGGATGGTCCCATATAAT----------------------------------GAGATCCGCCTTGGTGAGGCCAGGCGACTCGGTCTTTGTCGAAAGTGTCTGCAAACGGGCCATCACATGCGTGAATGCCTTGCTGCTAATTGTCGCAGTTGTGGAAGGAGGCATCACAGCCTGCTGCA-
droKik1	scf7180000300971:34445-34463 +		TTGGAGAAGAGGTGCAGGA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droFic1	scf7180000452594:639-812 +		TTGGAGCAGCGATGCAGAATATTGGAGACTATGGATTTCGCCATGGCAAGCTATGCGTCTGGAAATCAGGTGGAAAATAACAGA--ACGTCCAATTCTCGTAGATCTGCTTTTGCTGCCACAAATATTAA-CCCTGAGATTTGTTCGTTCTGTAATGCTT-------------------------------------------------------------------------------------------------CTGGT-----CAC---------------------------------------------------------TCTATTCAT
droEle1	scf7180000490421:7077-7137 +		CTGGAGCAGCATTGGAGT----------TAATGGACTT----------ACATACAAGCCTGGCTA-----------------------------GATTCGTAGATTCGCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1	scf7180000779351:12972-13282 -		CTGGAGCAGCGATGCAGG----------------------CCATGGCCGCATACGCGCCAGGCACTCAGGTGGGAAGACGTAGA--GTTGCTAATAACAGTAGATCCGCCTTCATTATTACTAATGCCCC-TCCCGCTACCTGTATATTATGCGGTGGGAGGTCCCATGAGGTGCCTGCGTGTCCAAGGTTTCTGCTGTTGTCCCCTGAGAGCCGCCTAGGCGAGGCTAGGCGACTTGGTCTTTGTCTAAAATGTCTCAGAACCGGCCATCATCTGCGAGACTGCGTCGCTAATAATTGCCACAGCTGTGGGAGACGGCATCACAGTTTGCTGCAT
droBia1	scf7180000302116:123735-123929 +		A--------------------------------------------------------------------------------------------------GTAGATCCACCTTCATTATTACTAATTCACTATTCCACAATTTG---------AATTGGGTGATTCCATAAAGTGCTTGCGTATCGAAGCTTTCTACTGTTGCATCCTGAGAGCCTCCTAGGAGAGCCAAGGCGA-----CCTTTGTCGAAAATGTCTCCGAAAGGTCCATCAACTGCGCGAATGCGTGGAAAT-CATT----------------------------TATGTTGGAT
droTak1	scf7180000415444:993-1325 +		CTGGAGCAGCGATGCAGGACTCTCGAGGCTGTGGATGTGGCCATGGCCGCATACGCGCCAGGCACTCAGGTGGGAAGACGTAGA--GTTGCTAATAACAGTAGATCCGCCTTCATTATTACTAATGCGCC-TCCCGCTACCTGTATATTATGCGGTGGGAGGTCCCATGAGGTGCCTGCGTGTCCAAGGTTTCTGCTGTTGTCCCCAGAGAGCCGCCTAGGCGAGGCTAGGCGACTTGGTCTTTGTCGAAAATGTCTCAGAACCGGCCATCACCTGCGAGACTGCGTCGCTAATAATTGCCACAGCTGTGGGAGACGGCATCACAGTTTGCTGCAT
droEug1	scf7180000409676:92679-92743 +		TAGAAGGTAGA------------------------------------------------------------------------------------------------------------------------------------------------------------------GTCTGCGCTTGAAATGTTTCCA-----------------------------------GAGCCATAGTCTGCGCTTGAAATGTTTCCAGA--------------------------------------------------------------------------
dm3	chr3RHet:125797-125904 +		CTGGAGCAGCGATGTAGGACTT-GGAGGCCGTGGATTGCGCCATGGCAACCTATGCGCCAGGCGTTCAGGTGGGCAGAAATCGTTCGACGCTAGCGCCAGTAGATCGTC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSim2	node_45269:136-203 -		CTGGAACAGCGATGTAGGACTTT----------GATTGCGCCATGGCAACCTATGCGCCAGGCGTTCAGGTGGGCAGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSec2	scaffold_518:638-934 +		CTGGAACAGCGATGAAGGACTTTGGAGGCC-TGGATT-----------------GCGCCAGGCGTTCAGGTGGGCAGAAATCG--------------------TTCGACGCTAGTTGCTACCACCCAAAA-TTCTCTTGGTTGCATGCTTTGCCATAGTGCAGAGCATGCCATATATTATTGCCCGCAATTTAGAGACTTAGCGCCAGTAGATCGTCTGCGCGAGGCAAAGAGACTAGCACTTTGCCTAAATTGCCTAAAGGCAGGTCATCAGCTACGGCAATGCAGTTCGAGCCGCTGCCGCACCTGTGGAATCAGGCATCACACGCTGCTCCAT
droYak3	v2_chrUn_796:41061-41318 -		CTGGAGCAGCGATGTAGGACTTTGGAGGCCGTGGATTGCGCCATGGCAACCTATGCGCCAGGCGTTCAGGTGGGCAGAAATCG--------------------TTTGACGCTAGTTGCTACCACCCAAAA-TTCTCTTGGTTGCATGCTTTGCTAAGGTGCAGAGCATGCCATATATTATTGCCCGCAATTTAGAGACTTAGCGCCAGTAGATCGTCTGCGCGAGGTAAAGAGACTAGCACTTTGCCTAAATTGCCTAAAGGCAGGTCATCAGCTACGG---------------------------------------------------------
droEre2	scaffold_4784:25418945-25419049 -		CTGGAGCAGTGATGCAGGACTCTGGAGAC-ATGGATTT--------CGACCTATGCGCTTGGCAGCCAGGTGGGAACTGATCGT--ACATCTCATATGCAAAGGTCATCCTTTCTC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp5	2:13412559-13412600 +		TTGGAGCAGCTGTGCAGGATTTGAGATTC-----------------------------CTGGCTGT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CATAT
droPer2	scaffold_3162:1889-1989 +		TTGGAGA---------------------CGATGGACTTTTCTATGGCAAGCTATGCGTTGAGCAGTCAGGTGGGCAGAAGTAGA--AAGCACAATAATTCTAGGTCCACTTTGGTTACAACTAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3	scaffold_12936:292937-293134 +		TTGGAGCAACGCTGCAGAACCCCAGAGAGTGTGGATTATGCTATGGGAACATATAAGCCGAGCTCTCAGGTGGGCGAACACATA--AAAACAAACTCCAGTAGGACATCACTCATTGCTACTAACTCATT-GGCTGCTGTTTGCGTATTTTGTAATGGTGAACAGCATAATATATGGCAATGCCCAAGATTTGG-------------------------------------CAATTTG--------------------------------------------------------------------------------------------------
droMoj3	scaffold_6067:7513-7535 +		TTGCAAGAGCGGTGTCGAATGCT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

TTGGAGCAGCGATGCAGGACTC-----------------------------TACGTGCCTGGCACTCATATGCGAAGACGTAGA--GTCGCAAATAATAGAAGATCGTCCTTTATCATTCCTAAATCACC-TTCCTCTGCCTGTAATATACAGGGTA--------------GTGTTTGCATGCCCCATATTTCTG-----------------------------------GCGACTCGGTCTATGTCGGAAATGTCTCCAAACTGCCCATCGCCTGCGTGAGTGTCTCGCTGCTACTTTTCCCAGTTGTAGGAGGAGGCATCACA----GCTGTAT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.............................................................................................................................................TGTAATATACAGGGTA--------------GTGTTTGC.............................................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0
..............CAGGACTC-----------------------------TACGTGCCTGGCACTC.............................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................................TCGGTCTATGTCGGAAATGTC................................................................................	21	5	0.20	1	1	0	0	0	0	0
..............................................................................................................................................................................................................................................GTCTATGTCGGAAATGTCTCCAAACTG.......................................................................	27	20	0.05	1	1	0	0	0	0	0
.................................................................................................................................................................................................................................................TATGTCGGAAATGTCTCCAAACTG.......................................................................	24	20	0.05	1	1	0	0	0	0	0

droBip1

TTGGAGCAGCGATGTAAGACGCTGGAGGCTATGAACGTGGCCATGGCTGCATACGC---------CCACATGGGAAGGCGTCGA--GGTGCAAATAATAGTAGATCATCCTTTATTGTTACTAATTTGCT-TCCCTCTGCCTGTGCTCTATGCGGTGGATGGTCCCATATAAT----------------------------------GAGATCCGCCTTGGTGAGGCCAGGCGACTCGGTCTTTGTCGAAAGTGTCTGCAAACGGGCCATCACATGCGTGAATGCCTTGCTGCTAATTGTCGCAGTTGTGGAAGGAGGCATCACAGCCTGCTGCA-	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TTGGAGAAGAGGTGCAGGA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

TTGGAGCAGCGATGCAGAATATTGGAGACTATGGATTTCGCCATGGCAAGCTATGCGTCTGGAAATCAGGTGGAAAATAACAGA--ACGTCCAATTCTCGTAGATCTGCTTTTGCTGCCACAAATATTAA-CCCTGAGATTTGTTCGTTCTGTAATGCTT-------------------------------------------------------------------------------------------------CTGGT-----CAC---------------------------------------------------------TCTATTCAT	Size	Hit Count	Total Norm	Total
No Reads

droEle1

CTGGAGCAGCATTGGAGT----------TAATGGACTT----------ACATACAAGCCTGGCTA-----------------------------GATTCGTAGATTCGCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CTGGAGCAGCGATGCAGG----------------------CCATGGCCGCATACGCGCCAGGCACTCAGGTGGGAAGACGTAGA--GTTGCTAATAACAGTAGATCCGCCTTCATTATTACTAATGCCCC-TCCCGCTACCTGTATATTATGCGGTGGGAGGTCCCATGAGGTGCCTGCGTGTCCAAGGTTTCTGCTGTTGTCCCCTGAGAGCCGCCTAGGCGAGGCTAGGCGACTTGGTCTTTGTCTAAAATGTCTCAGAACCGGCCATCATCTGCGAGACTGCGTCGCTAATAATTGCCACAGCTGTGGGAGACGGCATCACAGTTTGCTGCAT	Size	Hit Count	Total Norm	Total
No Reads

droBia1

A--------------------------------------------------------------------------------------------------GTAGATCCACCTTCATTATTACTAATTCACTATTCCACAATTTG---------AATTGGGTGATTCCATAAAGTGCTTGCGTATCGAAGCTTTCTACTGTTGCATCCTGAGAGCCTCCTAGGAGAGCCAAGGCGA-----CCTTTGTCGAAAATGTCTCCGAAAGGTCCATCAACTGCGCGAATGCGTGGAAAT-CATT----------------------------TATGTTGGAT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CTGGAGCAGCGATGCAGGACTCTCGAGGCTGTGGATGTGGCCATGGCCGCATACGCGCCAGGCACTCAGGTGGGAAGACGTAGA--GTTGCTAATAACAGTAGATCCGCCTTCATTATTACTAATGCGCC-TCCCGCTACCTGTATATTATGCGGTGGGAGGTCCCATGAGGTGCCTGCGTGTCCAAGGTTTCTGCTGTTGTCCCCAGAGAGCCGCCTAGGCGAGGCTAGGCGACTTGGTCTTTGTCGAAAATGTCTCAGAACCGGCCATCACCTGCGAGACTGCGTCGCTAATAATTGCCACAGCTGTGGGAGACGGCATCACAGTTTGCTGCAT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TAGAAGGTAGA------------------------------------------------------------------------------------------------------------------------------------------------------------------GTCTGCGCTTGAAATGTTTCCA-----------------------------------GAGCCATAGTCTGCGCTTGAAATGTTTCCAGA--------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

CTGGAGCAGCGATGTAGGACTT-GGAGGCCGTGGATTGCGCCATGGCAACCTATGCGCCAGGCGTTCAGGTGGGCAGAAATCGTTCGACGCTAGCGCCAGTAGATCGTC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	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
..................................................................................GTTCGACGCTAGCGCCAGTAGATCGTC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	27	2	62.00	124	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	2	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	3	9	0	2	3	2	2	6	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	1	1	1	0	5	0	0	2	0	1	0	0	0	0	0	0	0	0	2	0	1	0	0	0	0	0	5	0	1	6	0	0	1	0	2	1	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	0	0	0	0	0	0	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	4	2	13	0	0	0	0	0	0	2	4	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	8	8	8	0	0	0	0	0	1
..................................................................................GTTCGACGCTAGCGCCAGTAGATC......................................................................................................................................................................................................................................	24	2	47.50	95	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	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	1	5	0	0	0	0	0	0	0	1	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	0	0	3	0	1	0	8	0	0	3	0	5	0	0	3	0	0	0	1	0	0	0	0	0	0	0	0	0	6	0	1	6	3	0	4	1	0	1	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	1	0	5	0	0	0	0	0	0	0	8	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	3	0	2	0	0	0	0	0	3
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...............................................................................ATCGTTCGACGCTAGCGCCAGTAGATCG.....................................................................................................................................................................................................................................	28	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........CGATGTAGGACTT-GGAGGCCGTG...............................................................................................................................................................................................................................................................................................................	23	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................AATCGTTCGACGCTAGCGCCAGTAG.........................................................................................................................................................................................................................................	25	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	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
..................................................................................GTTCGACGCTAGCGCCAGTAGATT......................................................................................................................................................................................................................................	24	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

CTGGAACAGCGATGTAGGACTTT----------GATTGCGCCATGGCAACCTATGCGCCAGGCGTTCAGGTGGGCAGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	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
.TGGAACAGCGATGTAGGACTTT----------G..............................................................................................................................................................................................................................................................................................................	23	9	709.00	6381	0	0	0	0	0	0	3066	14	3135	138	0	0	20	8	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	27	13	257.31	3345	0	0	0	3	0	0	283	2433	155	458	13	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	28	13	29.08	378	0	0	0	0	0	0	29	297	7	41	2	0	2	0	0	0	0
.TGGAACAGCGATGTAGGACTTT----------...............................................................................................................................................................................................................................................................................................................	22	9	17.33	156	0	0	0	0	0	0	41	1	106	5	0	0	2	1	0	0	0
CTGGAACAGCGATGTAGGACTTT----------G..............................................................................................................................................................................................................................................................................................................	24	9	13.33	120	0	0	0	0	0	0	49	1	69	1	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAG...........................................................................................................................................................................................................................................................................	26	13	11.85	154	0	0	0	2	0	0	5	57	18	70	1	0	1	0	0	0	0
.TGGAACAGCGATGTAGGACTTT----------GA.............................................................................................................................................................................................................................................................................................................	24	1	11.00	11	0	0	0	0	0	0	1	0	2	0	0	0	7	1	0	0	0
.TGGAACAGCGATGTAGGACTT..........................................................................................................................................................................................................................................................................................................................	21	10	10.10	101	0	0	0	0	63	0	12	1	23	1	0	0	0	1	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTT..............................................................................................................................................................................................................................................................................	24	13	9.00	117	0	0	0	0	0	0	6	71	5	34	1	0	0	0	0	0	0
.........................................CATGGCAACCTATGCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	29	13	7.77	101	0	0	0	0	0	0	6	78	2	14	0	0	1	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTT..............................................................................................................................................................................................................................................................................	23	13	5.92	77	0	0	0	0	0	0	10	28	6	32	1	0	0	0	0	0	0
.....................................GCGCCATGGCAACCTATGCGCC.....................................................................................................................................................................................................................................................................................	22	12	5.42	65	0	0	0	0	65	0	0	0	0	0	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGT...............................................................................................................................................................................................................................................................................	22	13	4.92	64	0	0	0	0	64	0	0	0	0	0	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGGT.........................................................................................................................................................................................................................................................................	28	11	4.55	50	0	0	0	0	0	0	1	30	4	15	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGGACT...........................................................................................................................................................................................................................................................................................................................	20	10	4.40	44	0	0	0	0	0	0	17	0	22	1	0	0	0	4	0	0	0
.....................................................TGCGCCAGGCGTTCAGGTGGGCAGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	25	8	3.13	25	0	0	0	0	0	0	1	8	10	6	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCA............................................................................................................................................................................................................................................................................	25	13	2.46	32	0	0	0	0	0	0	1	12	0	16	2	0	1	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGGTGG.......................................................................................................................................................................................................................................................................	30	11	1.73	19	0	0	0	0	0	0	1	18	0	0	0	0	0	0	0	0	0
...................................TTGCGCCATGGCAACCTATGCGCCAGG..................................................................................................................................................................................................................................................................................	27	12	1.67	20	0	0	0	1	0	0	11	0	8	0	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGGA.........................................................................................................................................................................................................................................................................	28	12	1.58	19	0	0	0	1	0	0	1	10	1	6	0	0	0	0	0	0	0
....................................TGCGCCATGGCAACCTATGCGCCAGG..................................................................................................................................................................................................................................................................................	26	12	1.50	18	0	0	0	0	0	0	6	0	11	1	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTC.............................................................................................................................................................................................................................................................................	24	13	1.38	18	0	0	0	1	0	0	1	7	1	8	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGT..........................................................................................................................................................................................................................................................................	27	13	1.31	17	0	0	1	0	0	0	1	8	4	1	2	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTCAG...........................................................................................................................................................................................................................................................................	27	13	1.08	14	0	0	0	0	0	0	0	2	0	12	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGGACTTT----------GT.............................................................................................................................................................................................................................................................................................................	24	9	1.00	9	0	0	0	0	0	0	0	0	4	1	0	0	1	3	0	0	0
.........CGATGTAGGACTTT----------GAT............................................................................................................................................................................................................................................................................................................	17	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...GAACAGCGATGTAGGACTTT----------G..............................................................................................................................................................................................................................................................................................................	21	9	1.00	9	0	0	0	0	0	0	4	1	3	0	1	0	0	0	0	0	0
.........................................CATGGCAACCTATGCGCCAGGCGTT..............................................................................................................................................................................................................................................................................	25	13	0.85	11	0	0	0	0	0	0	0	5	0	5	1	0	0	0	0	0	0
.TGGAACAGCGATGTAGGA.............................................................................................................................................................................................................................................................................................................................	18	12	0.83	10	0	0	0	0	0	0	4	0	4	2	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGGAC............................................................................................................................................................................................................................................................................................................................	19	10	0.80	8	0	0	0	0	0	0	1	0	5	0	0	0	0	2	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTCAGGT.........................................................................................................................................................................................................................................................................	29	11	0.64	7	0	0	0	0	0	0	0	5	1	1	0	0	0	0	0	0	0
...................................................TATGCGCCAGGCGTTCAGGTGGGCAGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	27	8	0.63	5	0	0	0	0	0	0	1	0	1	0	0	0	3	0	0	0	0
.........CGATGTAGGACTTT----------G..............................................................................................................................................................................................................................................................................................................	15	13	0.62	8	0	0	0	0	0	0	4	0	4	0	0	0	0	0	0	0	0
.......................................................CGCCAGGCGTTCAGGTG........................................................................................................................................................................................................................................................................	17	12	0.58	7	0	0	0	0	0	0	0	0	0	0	7	0	0	0	0	0	0
...................................TTGCGCCATGGCAACCTATGCGCCA....................................................................................................................................................................................................................................................................................	25	12	0.58	7	0	0	0	0	0	0	0	0	0	0	5	0	1	1	0	0	0
.TGGAACAGCGATGTAGGACTTT----------T..............................................................................................................................................................................................................................................................................................................	23	9	0.56	5	0	0	0	0	0	0	3	0	2	0	0	0	0	0	0	0	0
CTGGAACAGCGATGTAGGACTTT----------...............................................................................................................................................................................................................................................................................................................	23	9	0.56	5	0	0	0	0	0	0	1	0	4	0	0	0	0	0	0	0	0
...............................................AACCTATGCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	23	13	0.54	7	0	0	0	0	0	0	0	5	1	1	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGA..........................................................................................................................................................................................................................................................................	27	13	0.54	7	0	0	0	0	0	0	0	2	2	2	1	0	0	0	0	0	0
........................................................GCCAGGCGTTCAGGTG........................................................................................................................................................................................................................................................................	16	12	0.50	6	0	0	0	0	0	0	0	0	0	0	6	0	0	0	0	0	0
...................................................TATGCGCCAGGCGTTCAGGTGG.......................................................................................................................................................................................................................................................................	22	12	0.50	6	0	0	0	0	0	0	0	2	3	1	0	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTCAGGTGG.......................................................................................................................................................................................................................................................................	31	11	0.45	5	0	0	0	0	0	0	1	4	0	0	0	0	0	0	0	0	0
CTGGAACAGCGATGTAGGACT...........................................................................................................................................................................................................................................................................................................................	21	10	0.40	4	0	0	0	0	0	0	1	1	2	0	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGGACA...........................................................................................................................................................................................................................................................................................................................	20	10	0.40	4	0	0	0	0	0	0	1	0	2	0	0	0	0	1	0	0	0
.........................................CATGGCAACCTATGCGCCAGGCGTTCAG...........................................................................................................................................................................................................................................................................	28	13	0.38	5	0	0	0	0	0	0	0	0	0	4	1	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTCA............................................................................................................................................................................................................................................................................	26	13	0.38	5	0	0	0	0	0	0	0	2	0	2	1	0	0	0	0	0	0
...................................................TATGCGCCAGGCGTTCAGGTGGGCAG...................................................................................................................................................................................................................................................................	26	8	0.38	3	0	0	0	0	0	0	0	0	0	0	0	0	2	1	0	0	0
...................................................TATGCGCCAGGCGTTCAGGTGGGCA....................................................................................................................................................................................................................................................................	25	8	0.38	3	0	0	0	0	0	0	0	1	1	0	0	0	1	0	0	0	0
.....................................................TGCGCCAGGCGTTCAGGTGGGCA....................................................................................................................................................................................................................................................................	23	8	0.38	3	0	0	0	0	0	0	0	0	1	1	0	0	1	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGGTG........................................................................................................................................................................................................................................................................	29	11	0.36	4	0	0	0	0	0	0	0	2	2	0	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGGACTTT----------GC.............................................................................................................................................................................................................................................................................................................	24	9	0.33	3	0	0	0	0	0	0	1	0	0	0	0	0	2	0	0	0	0
........GCGATGTAGGACTTT----------G..............................................................................................................................................................................................................................................................................................................	16	12	0.33	4	0	0	0	0	0	0	1	0	3	0	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGGACTTT----------A..............................................................................................................................................................................................................................................................................................................	23	9	0.33	3	0	0	0	0	0	0	1	0	1	0	0	0	0	1	0	0	0
..............................................CAACCTATGCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	24	13	0.31	4	0	0	0	0	0	0	0	3	0	1	0	0	0	0	0	0	0
...................................TTGCGCCATGGCAACCTATGCGCC.....................................................................................................................................................................................................................................................................................	24	12	0.25	3	0	0	0	1	0	0	0	0	0	0	1	0	1	0	0	0	0
...................................................TATGCGCCAGGCGTTCAGGTGGGC.....................................................................................................................................................................................................................................................................	24	8	0.25	2	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0
..................................ATTGCGCCATGGCAACCTATGCGCCAGG..................................................................................................................................................................................................................................................................................	28	12	0.25	3	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0
.......AGCGATGTAGGACTTT----------G..............................................................................................................................................................................................................................................................................................................	17	12	0.25	3	0	0	0	0	0	0	1	0	2	0	0	0	0	0	0	0	0
...................................TTGCGCCATGGCAACCTATGCGCCAGGA.................................................................................................................................................................................................................................................................................	28	12	0.25	3	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0
.....................................................TGCGCCAGGCGTTCAGGTGGGCAG...................................................................................................................................................................................................................................................................	24	8	0.25	2	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0
.............................................GCAACCTATGCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	25	13	0.23	3	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTC.............................................................................................................................................................................................................................................................................	25	13	0.23	3	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0
.....ACAGCGATGTAGGACTTT----------G..............................................................................................................................................................................................................................................................................................................	19	9	0.22	2	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0
................................................ACCTATGCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	22	14	0.21	3	0	0	0	0	0	0	0	2	1	0	0	0	0	0	0	0	0
......CAGCGATGTAGGACTTT----------G..............................................................................................................................................................................................................................................................................................................	18	11	0.18	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
.........................................CATGGCAACCTATGCGCCAGGCGTTCAGGT.........................................................................................................................................................................................................................................................................	30	11	0.18	2	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGG..............................................................................................................................................................................................................................................................................................................................	17	12	0.17	2	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0
...................................TTGCGCCATGGCAACCTATGCGCCAGGC.................................................................................................................................................................................................................................................................................	28	12	0.17	2	0	0	0	1	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................GATTGCGCCATGGCAACCTATGCGCCAGG..................................................................................................................................................................................................................................................................................	29	12	0.17	2	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0
...................................TTGCGCCATGGCAACCTATGCGCCAGA..................................................................................................................................................................................................................................................................................	27	12	0.17	2	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0
............................................GGCAACCTATGCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	26	13	0.15	2	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0
.........................................CATGGCAACCTATGCGCCAGGCGTTC.............................................................................................................................................................................................................................................................................	26	13	0.15	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
................................................ACCTATGCGCCAGGCGTTCA............................................................................................................................................................................................................................................................................	20	14	0.14	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
...................................................TATGCGCCAGGCGTTC.............................................................................................................................................................................................................................................................................	16	14	0.14	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
...............................................AACCTATGCGCCAGGCGTTCAGGTGGGC.....................................................................................................................................................................................................................................................................	28	7	0.14	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
......................................................GCGCCAGGCGTTCAGG..........................................................................................................................................................................................................................................................................	16	15	0.13	2	0	0	0	0	0	0	1	1	0	0	0	0	0	0	0	0	0
....................................................ATGCGCCAGGCGTTCAGGTGGGCA....................................................................................................................................................................................................................................................................	24	8	0.13	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................................TATGCGCCAGGCGTTCAGGTGGGA.....................................................................................................................................................................................................................................................................	24	8	0.13	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.....................................................TGCGCCAGGCGTTCAGGTGGGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	25	8	0.13	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
................................................ACCTATGCGCCAGGCGTTCAGGTGGGCAGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	30	8	0.13	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGGACTTT----------GAA............................................................................................................................................................................................................................................................................................................	25	9	0.11	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...........................................................AGGCGTTCAGGTGGGC.....................................................................................................................................................................................................................................................................	16	9	0.11	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
CTGGAACAGCGATGTAGGACG...........................................................................................................................................................................................................................................................................................................................	21	10	0.10	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.TGGAACAGCGATGTAGGACGA..........................................................................................................................................................................................................................................................................................................................	21	10	0.10	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
CTGGAACAGCGATGTAGGACTT..........................................................................................................................................................................................................................................................................................................................	22	10	0.10	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGGTGA.......................................................................................................................................................................................................................................................................	30	11	0.09	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTCAGGTGA.......................................................................................................................................................................................................................................................................	31	11	0.09	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.TGGAACAGCGATGTAGGAAA...........................................................................................................................................................................................................................................................................................................................	20	11	0.09	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTCAGGTA........................................................................................................................................................................................................................................................................	30	11	0.09	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
..................................................CTATGCGCCAGGCGTTCAGGTG........................................................................................................................................................................................................................................................................	22	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................TGCGCCATGGCAACCTATGCGCCAGGC.................................................................................................................................................................................................................................................................................	27	12	0.08	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.....................................................TGCGCCAGGCGTTCAGGTGG.......................................................................................................................................................................................................................................................................	20	12	0.08	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...................................................TATGCGCCAGGCGTTCAGGTG........................................................................................................................................................................................................................................................................	21	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGTA.........................................................................................................................................................................................................................................................................	28	12	0.08	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
....................................TGCGCCATGGCAACCTATGCGCCAGGCGT...............................................................................................................................................................................................................................................................................	29	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................................TATGCGCCAGGCGTTCAGGT.........................................................................................................................................................................................................................................................................	20	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.....................................................TGCGCCAGGCGTTCAGGTG........................................................................................................................................................................................................................................................................	19	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................................TATGCGCCAGGCGTTCAGGTGGTA.....................................................................................................................................................................................................................................................................	24	12	0.08	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
..................................ATTGCGCCATGGCAACCTATGCGCCA....................................................................................................................................................................................................................................................................................	26	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................TGCGCCATGGCAACCTATGCGCCAGA..................................................................................................................................................................................................................................................................................	26	12	0.08	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...................................TTGCGCCATGGCAACCTATGCGCCAGGCGTT..............................................................................................................................................................................................................................................................................	31	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................GATTGCGCCATGGCAACCTATGCGCCA....................................................................................................................................................................................................................................................................................	27	12	0.08	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGGC.........................................................................................................................................................................................................................................................................	28	12	0.08	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCAGGAA........................................................................................................................................................................................................................................................................	29	12	0.08	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
....................................TGCGCCATGGCAACCTATGCGCCAG...................................................................................................................................................................................................................................................................................	25	12	0.08	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
........................................................GCCAGGCGTTCAGGTGG.......................................................................................................................................................................................................................................................................	17	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................TTGCGCCATGGCAACCTATGCGCCAGGCGT...............................................................................................................................................................................................................................................................................	30	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.TGGAACAGCGATGTA................................................................................................................................................................................................................................................................................................................................	15	12	0.08	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.TGGAACAGCGATGTAG...............................................................................................................................................................................................................................................................................................................................	16	12	0.08	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
......CAGCGATGTAGGACT...........................................................................................................................................................................................................................................................................................................................	15	12	0.08	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
....................................TGCGCCATGGCAACCTATGCGCCAGGCG................................................................................................................................................................................................................................................................................	28	12	0.08	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
....................................................ATGCGCCAGGCGTTCAGGTG........................................................................................................................................................................................................................................................................	20	12	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................CCAGGCGTTCAGGTGG.......................................................................................................................................................................................................................................................................	16	13	0.08	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTATA...........................................................................................................................................................................................................................................................................	27	13	0.08	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
...........................................TGGCAACCTATGCGCCAGGCGTTCATT..........................................................................................................................................................................................................................................................................	27	13	0.08	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCC.....................................................................................................................................................................................................................................................................................	17	13	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..........................................ATGGCAACCTATGCGCCAGGCGTTATT...........................................................................................................................................................................................................................................................................	27	13	0.08	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.......................................................CGCCAGGCGTTCAGGT.........................................................................................................................................................................................................................................................................	16	13	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
........................................................GCCAGGCGTTCAGGT.........................................................................................................................................................................................................................................................................	15	13	0.08	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

CTGGAACAGCGATGAAGGACTTTGGAGGCC-TGGATT-----------------GCGCCAGGCGTTCAGGTGGGCAGAAATCG--------------------TTCGACGCTAGTTGCTACCACCCAAAA-TTCTCTTGGTTGCATGCTTTGCCATAGTGCAGAGCATGCCATATATTATTGCCCGCAATTTAGAGACTTAGCGCCAGTAGATCGTCTGCGCGAGGCAAAGAGACTAGCACTTTGCCTAAATTGCCTAAAGGCAGGTCATCAGCTACGGCAATGCAGTTCGAGCCGCTGCCGCACCTGTGGAATCAGGCATCACACGCTGCTCCAT	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
........................................................................................................................................................................................................................................GACTAGCACTTTGCCTAAATTGCCT...............................................................................	25	20	3.45	69	69	0	0	0
.............................................................................................................................................................................ATATTATTGCCCGCAATTTAGAGACT.........................................................................................................................................	26	20	2.90	58	0	0	58	0
.............................................................................................................................................................................ATATTATTGCCCGCAATTTAGAGAC..........................................................................................................................................	25	20	2.00	40	26	0	14	0
........................................................................................................................................................................................................................................GACTAGCACTTTGCCTAAATTGC.................................................................................	23	20	1.25	25	25	0	0	0
.........................................................................................................................................TGGTTGCATGCTTTGCCATAGTGCAGA............................................................................................................................................................................	27	20	0.95	19	19	0	0	0
...............................................................................................................TAGTTGCTACCACCCAAAA-TTCTC........................................................................................................................................................................................................	24	20	0.70	14	14	0	0	0
...............................................................................................................TAGTTGCTACCACCCAAAA-TTCTCTTG.....................................................................................................................................................................................................	27	20	0.40	8	8	0	0	0
.........................................................................................................................................................................................................................................ACTAGCACTTTGCCTAAATTGCCT...............................................................................	24	20	0.35	7	7	0	0	0
...................................TT-----------------GCGCCAGGCGTTCAGGTGG.......................................................................................................................................................................................................................................................................	21	3	0.33	1	1	0	0	0
.........................................................................................................................................................................................................................................ACTAGCACTTTGCCTAAATTGC.................................................................................	22	20	0.25	5	5	0	0	0
.............................................................................................................................................TGCATGCTTTGCCATAGTGCAGAGC..........................................................................................................................................................................	25	20	0.20	4	4	0	0	0
................................................................................................................................................................................................................................................................TAAAGGCAGGTCATCAGCTACGGCAA......................................................	26	20	0.20	4	4	0	0	0
..............................................................................................................................................................................TATTATTGCCCGCAATTTAGAGACT.........................................................................................................................................	25	20	0.20	4	3	0	1	0
..............................................................................................................................................................................TATTATTGCCCGCAATTTAGAGAC..........................................................................................................................................	24	20	0.15	3	3	0	0	0
..................................................................................................................................................................................................................................................................AAGGCAGGTCATCAGCTACGGCAATGC...................................................	27	20	0.15	3	3	0	0	0
........................................................................................................................................TTGGTTGCATGCTTTGCCATAGTG................................................................................................................................................................................	24	20	0.15	3	3	0	0	0
..............................................................................................................................................................................TATTATTGCCCGCAATTTAGAGACTT........................................................................................................................................	26	20	0.15	3	3	0	0	0
.........................................................................................................................................TGGTTGCATGCTTTGCCATAGTGC...............................................................................................................................................................................	24	20	0.15	3	3	0	0	0
......................................................................................................................................................................................................................................................................................................CGCTGCCGCACCTGTGGAATC.....................	21	20	0.10	2	1	0	1	0
................................................................................................................AGTTGCTACCACCCAAAA-TTCTC........................................................................................................................................................................................................	23	20	0.10	2	2	0	0	0
.........................................................................................................................................................................................................................................................................................................TGCCGCACCTGTGGAATCAGGCATC..............	25	20	0.10	2	2	0	0	0
......................................................................................................................................................................................................................................................................CAGGTCATCAGCTACGGCAATGCAG.................................................	25	20	0.10	2	2	0	0	0
........................................................................................................................................TTGGTTGCATGCTTTGCCATAGTGC...............................................................................................................................................................................	25	20	0.10	2	0	0	0	2
..............................................................................................................................................................TGCAGAGCATGCCATATATTATTGC.........................................................................................................................................................	25	20	0.05	1	1	0	0	0
.........................................................................................................................................TGGTTGCATGCTTTGCCATAGTGCA..............................................................................................................................................................................	25	20	0.05	1	1	0	0	0
................................................................................................................AGTTGCTACCACCCAAAA-TTCTCTTGGT...................................................................................................................................................................................................	28	20	0.05	1	1	0	0	0
..............................................................................................................................................GCATGCTTTGCCATAGTGCAG.............................................................................................................................................................................	21	20	0.05	1	1	0	0	0
......................................................................................................................................................TGCCATAGTGCAGAGCATGCCATAT.................................................................................................................................................................	25	20	0.05	1	1	0	0	0
.................................................................................................................................................................................................................................................................AAAGGCAGGTCATCAGCTACGGCAAT.....................................................	26	20	0.05	1	1	0	0	0
.....................................................................................................................................CTCTTGGTTGCATGCTTTGCCATAG..................................................................................................................................................................................	25	20	0.05	1	0	0	1	0
....................................................................................................................................................................................................................TCGTCTGCGCGAGGCAAAGA........................................................................................................	20	20	0.05	1	0	1	0	0
................................................................................TCG--------------------TTCGACGCTAGTTGCTAC.......................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0
................................................................................................................................................................................................................................................................TAAAGGCAGGTCATCAGCTACGGCAAT.....................................................	27	20	0.05	1	1	0	0	0
......................................................GCGCCAGGCGTTCAGGTGGGCAGA..................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0
.............................................................................................................................................................................................................CAGTAGATCGTCTGCGCGAGGCAAA..........................................................................................................	25	20	0.05	1	0	0	1	0
.................................................................TCAGGTGGGCAGAAATCG--------------------TTCGAC...................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1
.........................................................................................................................................TGGTTGCATGCTTTGCCATAGTGCAGAGCATG.......................................................................................................................................................................	32	20	0.05	1	0	0	0	1
............................................................................................................................................TTGCATGCTTTGCCATAGTGCAGAGCA.........................................................................................................................................................................	27	20	0.05	1	0	0	0	1
................................................................................................................................................................................................................................................................................................TCGAGCCGCTGCCGCACCTGTGGAATCAG...................	29	20	0.05	1	1	0	0	0
...........................................................................................................................................GTTGCATGCTTTGCCATAGTGCAGA............................................................................................................................................................................	25	20	0.05	1	1	0	0	0
.............................................................................................................................................................................................................CAGTAGATCGTCTGCGCGAGGCAAAGA........................................................................................................	27	20	0.05	1	1	0	0	0
.............................................................................................................................................................................................TTTAGAGACTTAGCGCCAGTAGATCGTC.......................................................................................................................	28	20	0.05	1	1	0	0	0
....................................................................................................................................................................................................................................................................................................GCCGCTGCCGCACCTGTGGAATCAGGC.................	27	20	0.05	1	1	0	0	0
........................................................GCCAGGCGTTCAGGTGGGCAGA..................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0
.............................................................................................................................................................................................................CAGTAGATCGTCTGCGCGAGGCAAAG.........................................................................................................	26	20	0.05	1	1	0	0	0
.........................................................................................................................................TGGTTGCATGCTTTGCCATAGTGCAGAGC..........................................................................................................................................................................	29	20	0.05	1	1	0	0	0
.............................................................................................................................................................................ATATTATTGCCCGCAATTTAG..............................................................................................................................................	21	20	0.05	1	1	0	0	0
..................................................................................................................................................................................................................................................................AAGGCAGGTCATCAGCTACGGCAATG....................................................	26	20	0.05	1	1	0	0	0
....................................T-----------------GCGCCAGGCGTTCAGGTGGGC.....................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0
......................................................................................................................................................TGCCATAGTGCAGAGCATGCCATATAT...............................................................................................................................................................	27	20	0.05	1	1	0	0	0
..............................................................................................................................................................................................TTAGAGACTTAGCGCCAGTAGATCG.........................................................................................................................	25	20	0.05	1	0	0	0	1
..........................................................................................................................................................................................................................................................................................................GCCGCACCTGTGGAATCAGGCATCA.............	25	20	0.05	1	1	0	0	0
..............................................................................................................................................................................................TTAGAGACTTAGCGCCAGTAGATCGT........................................................................................................................	26	20	0.05	1	1	0	0	0
............................................................................................................................................TTGCATGCTTTGCCATAGTGCAGAGC..........................................................................................................................................................................	26	20	0.05	1	0	0	1	0
................................................................TTCAGGTGGGCAGAAATCG--------------------TTCGACGC.................................................................................................................................................................................................................................	27	20	0.05	1	0	0	1	0
................................................................................................................................................................................TTATTGCCCGCAATTTAGAGACTT........................................................................................................................................	24	20	0.05	1	1	0	0	0

droYak3

CTGGAGCAGCGATGTAGGACTTTGGAGGCCGTGGATTGCGCCATGGCAACCTATGCGCCAGGCGTTCAGGTGGGCAGAAATCG--------------------TTTGACGCTAGTTGCTACCACCCAAAA-TTCTCTTGGTTGCATGCTTTGCTAAGGTGCAGAGCATGCCATATATTATTGCCCGCAATTTAGAGACTTAGCGCCAGTAGATCGTCTGCGCGAGGTAAAGAGACTAGCACTTTGCCTAAATTGCCTAAAGGCAGGTCATCAGCTACGG---------------------------------------------------------	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
......................................................................................................................................TCTTGGTTGCATGCTTTGCTAAGGTG................................................................................................................................................................................	26	1	2.00	2	0	1	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................TTTAGAGACTTAGCGCCAGTAGATCG.........................................................................................................................	26	20	1.25	25	0	25	0	0	0	0	0	0	0	0	0
...................................................................................................................................TTCTCTTGGTTGCATGCTTTGCTAAGG..................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................CGCGAGGTAAAGAGACTAGCACTTTGC..........................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................AAATCG--------------------TTTGACGCTAGTTGCTACCACC...................................................................................................................................................................................................................	28	2	1.00	2	0	2	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................AAAGAGACTAGCACTTTGCCTAAAT....................................................................................	25	20	0.50	10	0	10	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................TTTAGAGACTTAGCGCCAGTAGATC..........................................................................................................................	25	20	0.30	6	0	0	1	0	0	0	0	0	0	0	5
..............................................................................................................................................................................TATTATTGCCCGCAATTTAGAGACT.........................................................................................................................................	25	20	0.30	6	0	0	6	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................TTTAGAGACTTAGCGCCAGTAGAT...........................................................................................................................	24	20	0.25	5	0	5	0	0	0	0	0	0	0	0	0
.............................................................................AAATCG--------------------TTTGACGCTAGTTGCTACCA.....................................................................................................................................................................................................................	26	4	0.25	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................AAATCG--------------------TTTGACGCTAGTTGCTACC......................................................................................................................................................................................................................	25	4	0.25	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................TTTAGAGACTTAGCGCCAGTAGA............................................................................................................................	23	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
.................GACTTTGGAGGCCGTGGATTGCGCCAT....................................................................................................................................................................................................................................................................................................	27	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.TGGAGCAGCGATGTAGGACTTTGGAGG....................................................................................................................................................................................................................................................................................................................	27	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2
.........................................................................................................................................................................................GCAATTTAGAGACTTAGCGCCAGTAGA............................................................................................................................	27	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................AAAGAGACTAGCACTTTGCCTAAA.....................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................TGCCCGCAATTTAGAGACTTAGCGCCA.................................................................................................................................	27	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..............TAGGACTTTGGAGGCCGTGGATTG..........................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0
...............................TGGATTGCGCCATGGCAACCTATGCGCA.....................................................................................................................................................................................................................................................................................	28	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..GGAGCAGCGATGTAGGACTTTGGAGG....................................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................AAATTGCCTAAAGGCAGGTCATCAGC..............................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................TTGCCTAAAGGCAGGTCATCAGC..............................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...........ATGTAGGACTTTGGAGGCCGTGGATTG..........................................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................TGCCTAAATTGCCTAAAGGCAGG......................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................AAGAGACTAGCACTTTGCCT........................................................................................	20	20	0.05	1	1	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TAGCACTTTGCCTAAATTGCCTAAAGG..........................................................................	27	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................TGCCTAAAGGCAGGTCATCAGCTACGG---------------------------------------------------------	27	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............TGTAGGACTTTGGAGGCCGTGGATT...........................................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0

droEre2

CTGGAGCAGTGATGCAGGACTCTGGAGAC-ATGGATTT--------CGACCTATGCGCTTGGCAGCCAGGTGGGAACTGATCGT--ACATCTCATATGCAAAGGTCATCCTTTCTC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

dp5

TTGGAGCAGCTGTGCAGGATTTGAGATTC-----------------------------CTGGCTGT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CATAT

Size

Hit Count

Total Norm

Total

M022
Male-body

M040
Female-body

M059
Embryo

M062
Head

V043
Embryo

V051
Head

V112
Male-body

SRR902010
Ovary

SRR902011
Testis

SRR902012
CNS imaginal disc

No Reads

droPer2

TTGGAGA---------------------CGATGGACTTTTCTATGGCAAGCTATGCGTTGAGCAGTCAGGTGGGCAGAAGTAGA--AAGCACAATAATTCTAGGTCCACTTTGGTTACAACTAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
....................................TTTTCTATGGCAAGCTATGCGTTG....................................................................................................................................................................................................................................................................................	24	20	0.35	7	0	7	0	0	0	0
......................................................GCGTTGAGCAGTCAGGTGGGCA....................................................................................................................................................................................................................................................................	22	4	0.25	1	0	1	0	0	0	0
....................................TTTTCTATGGCAAGCTATGCGTTGAGC.................................................................................................................................................................................................................................................................................	27	20	0.20	4	0	3	1	0	0	0
....................................TTTTCTATGGCAAGCTATGCG.......................................................................................................................................................................................................................................................................................	21	20	0.10	2	0	2	0	0	0	0
..................................................................CAGGTGGGCAGAAGTAGA--AAGC......................................................................................................................................................................................................................................................	22	20	0.10	2	2	0	0	0	0	0
................................................................GTCAGGTGGGCAGAAGTAGA--..........................................................................................................................................................................................................................................................	20	16	0.06	1	0	0	0	0	0	1
..................................................................CAGGTGGGCAGAAGTAGA--A.........................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1

droVir3

TTGGAGCAACGCTGCAGAACCCCAGAGAGTGTGGATTATGCTATGGGAACATATAAGCCGAGCTCTCAGGTGGGCGAACACATA--AAAACAAACTCCAGTAGGACATCACTCATTGCTACTAACTCATT-GGCTGCTGTTTGCGTATTTTGTAATGGTGAACAGCATAATATATGGCAATGCCCAAGATTTGG-------------------------------------CAATTTG--------------------------------------------------------------------------------------------------	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
...........CTGCAGAACCCCAGAGAGTGT................................................................................................................................................................................................................................................................................................................	21	2	2.50	5	0	0	0	0	0	0	0	0	2	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................ATAAGCCGAGCTCTCAGGTGG.......................................................................................................................................................................................................................................................................	21	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	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
....................................................................................................................................................TTTGTAATGGTGAACAGCATAATA....................................................................................................................................................................	24	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	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
...........................................................................................................................ACTCATT-GGCTGCTGTTTGCG...............................................................................................................................................................................................	21	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	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
..........................................................................................CAAACTCCAGTAGGACATCA..................................................................................................................................................................................................................................	20	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	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
............................................................................................AACTCCAGTAGGACATCACTCATTGCT.........................................................................................................................................................................................................................	27	2	0.50	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
........ACGCTGCAGAACCCCAGAGAGT..................................................................................................................................................................................................................................................................................................................	22	2	0.50	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
......................................................................................................................TACTAACTCATT-GGCTGCTGTTTT.................................................................................................................................................................................................	24	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	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

droMoj3

TTGCAAGAGCGGTGTCGAATGCT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
TTGCAAGAGCGGTGTCGAA.............................................................................................................................................................................................................................................................................................................................	19	14	0.07	1	0	0	0	0	0	1

dan_1667

scaffold_13260:1610604-1610754 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-18.4	-17.9	-17.8