dse_675

Name	Class	Family	Strand
(CAG)n	Simple_repeat	Simple_repeat	+
(CAG)n	Simple_repeat	Simple_repeat	+

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GGATTCCCACGACCGCCGCACGGCATGAATCCGCAGCAACAGCAGCAGCAGCAACAACAGCAACAGCAGCAGCAACATGGCCAAATGATGGGGCAAGGAAGGCCCGGTCGCTATAACGACTACGGCGGCGGCTTCCCCAATGACTTTGGCCTGGGACCCAATGGTCCGCAGCAGCAGCAGCAGGCGCAGCAACAGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAGCAAAAGGGTCCTGGCCC ************************************************************************************************************......................((..((((.....)))).....)).********************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V114 embryo	V115 head	V113 male body	M054 female body
..................................................................................AAATGATGGGGCAAGGACAGCC...................................................................................................................................................	22	2	1	1.00	1	1	0	0	0
..........................................................................ACATGGTCAAATGATGGGGCAA...........................................................................................................................................................	22	1	1	1.00	1	0	1	0	0
..............................................................................................................CTATAACGACTACGGCGGCGGC.......................................................................................................................	22	0	1	1.00	1	0	1	0	0
..........................................................................................................................................AATGACTTTGGCCTGGGAC..............................................................................................	19	0	1	1.00	1	1	0	0	0
................................................................AGCAGCAGCAACATGGTCAA.......................................................................................................................................................................	20	1	1	1.00	1	1	0	0	0
..........................................................................ACATGGCCAAATGATGGGGCAAGGACA......................................................................................................................................................	27	2	1	1.00	1	0	0	1	0
..........................................................AGCAACAGCAGCAGCAACA..............................................................................................................................................................................	19	0	20	0.20	4	4	0	0	0
.........................................................................................................................................................................AGCATCAGCAGCAGGCGCAGCA............................................................	22	1	14	0.07	1	1	0	0	0
.........CGACCGCCGCAAGGCATAG...............................................................................................................................................................................................................................	19	3	19	0.05	1	0	0	0	1
........................................AGCAGCAGCAGCAACAACAGC..............................................................................................................................................................................................	21	0	20	0.05	1	1	0	0	0
.................................CAGCAACAGCAGCAGCAGC.......................................................................................................................................................................................................	19	0	20	0.05	1	1	0	0	0
...........................................AGCAGCAGCAACAACAGCA.............................................................................................................................................................................................	19	0	20	0.05	1	1	0	0	0
.................................CAGCAACAGCAGCAGCAGCA......................................................................................................................................................................................................	20	0	20	0.05	1	0	1	0	0
....................................................AACAACAGCAACAGCAGCAGC..................................................................................................................................................................................	21	0	20	0.05	1	0	1	0	0

Species	Coordinate	ID	Alignment
droSec2	scaffold_1:7452030-7452280 +	dse_675	GGATTCCCA----CGACCGCCGCACGGCATGAATCCGCAGCA---------ACAGCAGCAGCA---GCAACAACAGCAACAG------------------C---AGCAGC-AACATGGCCAAATGATGGG------------------------------------GCAAGGAAGGC------------------CCG------GTCGCTATAACGACTACGG-CGGCGGCTTCCCCAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAGCA---GGCGC---------AGCAAC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAGCAAAAGGGTCCTGGCC------C
droSim2	2r:10651351-10651616 +		GGATTCCCA----CGACCGCCGCACGGCATGAATCCGCAGCA---------ACAGCAGCAGCA---GCAACAACAGCAACAGCA---GCAGCAACAGGCCC---AGCAGC-AACATGGTCAAATGATGGG------------------------------------ACAAGGACAGC------------------CGG------GTCGCTATAACGACTACGG-CGGCGGCTTCCCGAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAGCA---GGCGC---------AGCAAC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAGCAAAAGGGTCCTGGCC------C
dm3	chr2R:9927424-9927686 +		GGATTCCCA----CGACCGCCGCACGGCATGAATCCGCAGCA---------ACAGCAGCAGCA---GCAACAACAGCAGCAA------CAGCAACAGGCCC---AGCAGC-AACATGGTCAGATGATGGG------------------------------------ACAAGGACAGC------------------CGG------GTCGCTATAACGACTACGG-CGGCGGCTTTCCCAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAGCA---GGCGC---------AGCAAC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCATCAGCAAAAGGGTCCTGGCC------C
droEre2	scaffold_4845:15893439-15893698 -		GGATTCCCT----CGACCACCGCACGGCATGAATCCGCAGCA---------GCAGCAGCAACA---GCAGCA---GCAGCAG------CAGCAACAGGCCC---AGCAGC-AACATGGCCAAATGATGGG------------------------------------GCAAGGACAGC------------------CGG------GTCGCTATAACGACTACGG-CGGTGGCTTTCCCAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAGCA---GGCGC---------AGCAACAGCAGCAGCCGCAGCAGCAGCACCTGCCGCCTCAGTTCCACCAG---AAGGGTCCTGGTC------C
droYak3	2R:7025326-7025582 -		GGATTCCCC----CGACCGCCGCACGGCATGAATCCGCAGCA---------GCAGCAACAACA---GCAGCA---GCAGCAG------CAGCAACAGGCCC---AGCAGC-AGCATGGCCAAATGATGGG------------------------------------ACAAGGGCAGC------------------CGG------GTCGCTATAACGACTACGG-CGGCGGCTTCCCTAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCA------GGCGC---------AGCAACAGCAGCAGCCGCAGCAACAGCACCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGCC------C
droEug1	scf7180000409462:2907395-2907642 -		GGATTCCCC----CGTCCGCCCCACGGCATGAATCCCCAGCA---------GCAGCAGCAACA---GCAGCAACAACAGCAG------CAGCAACAGGCCC---AGCAGC-AACATGGTCAAATGATGGG------------------------------------------ACAGC------------------CGG------GACGATATAATGACTATGG-AGGCGGCTTTCCCAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAA------------------CAGCAGC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCATCAG---AAGGGTCCTGGCC------C
droBia1	scf7180000301592:83046-83302 +		GGATTCCCC----CGACCGCCGCACGGCATGAACCCCCAGCA---------GCAGCAGCAGCA---GCAACAACAGCAGCAG------CAACAGCAGGCCCAGCAGCAGC-AACACGGCCAGATGATGGG------------------------------------GCAAGGTCAGC------------------CGG------GTCGCTATAACGACTACGG-TGGCGGCTTCCCCAATGACTTTGCCCTGGGGCCC-AACGG---TCCGCAGCAGCA---GCAA------------------CAGCAGC---AGCAGCCGCAGCAGCAACACCTGCCGCCCCAGTTCCACCAG---AAGGGTCCTGGCC------C
droTak1	scf7180000415376:150264-150538 +		GGCTTCCCC----CGACCGCCGCACGGCATGAATCCCCAGCAGCAGCAGCAACAGCAGCAGCA---GCAACAACAGCAGCAG------CAGCAGCAGGCCCAGCAGCAGC-AACATGGCCAGATGATGGG------------------------------------CCAAGGTCAGC------------------CGG------GTCGCTACAACGACTACGG-TGGCGGCTTCCCCAATGACTTTGGCCTGGGACCC-AACGG---ACCGCAGCAGCA---GCAGCA---G------------CAGCAAC---AGCAGCCGCAGCAGCAACATCTGCCGCCGCAGTTCCACCAG---AAGGTTCCGGGCGGCGGTCC
droEle1	scf7180000491214:17536-17789 -		GGTTTCCCA----CGTCCCCCGCACGGCATGAACCCCCAGCA---------GCAGCAGCAGCA---ACAGCAGCAGCAGCAG------CAGCAACAGGCCC---AGCAGC-AACATGGCCAGATGATGGG------------------------------------GCAAGGACAGC------------------CGA------GTCGCTACAACGACTACGG-TGGCGGCTTCCCCAACGACTTTGGTCTGGGACCC-AATGG---ACCGCAGCAGCA---GCAA------------------CAGCAAC---AGCAGCCGCAGCAGCAACATCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGAC------C
droRho1	scf7180000777200:253554-253813 +		GGTTTTCCC----CGTCCCCCGCACGGCATGAACCCCCAGCA---------GCAGCAGCAACAGCAGCAACAACAGCAGCAG------CAGCAACAGGCCC---AGCAGC-AACATGGTCAGATGATGGG------------------------------------ACAAGGACAGC------------------CGG------GTCGCTATAACGACTACGG-TGGCGGCTTCCCCAATGACTTTGGCCTGGGACCC-AACGG---TCCGCAGCAGCA---GCAGCA---A------------CAGCAGC---AACAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGAC------C
droFic1	scf7180000453948:484079-484337 -		GGATTCCCC----CGCCC-CCGCACGGCATGAACCCGCAGCA---------GCAGCAGCAGC---------AA------CAG------CAGCAGCAGGCGC---AGCAGC-AACACGGCCAGATGATGGG------------------------------------ACAGGGACAAC------------------CGG------GTCGGTACAACGACTACGG-AGGTGGCTTCCCCAACGACTTTGGCCTGGGTCCC-AACGG---GCCGCAGCAGCA---GCAGCAGCAGGCGCAGCAGCAACAGCAGC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGCC------C
droKik1	scf7180000302385:47797-48053 +		GGTTTTCCG----CGTCCACCTCATGGCATGAATCCCCAGCA---------GCAGCAGCAACA---GCAGCA---GCAGGCT------CAGCAACAGGCGCAACAGCAGC-AGCATGGCCAGATGATGGG------------------------------------ACAAGGTCAGC------------------CGG------GTCGTTACAATGACTATGG-CGGCGGCTTTCCCAATGACTTTGGTCTAGGTCCC-AACAA---CCCCCAGCAGCA---GCAGCA---G------------CAACAAC---AACAGCCGCAGCAGCAACATTTGCCGCCTCAGTTCCACCAG---AAGGGTCCTGGTC------C
droAna3	scaffold_13266:5973384-5973643 -		GGCTTCCCC----CGCCCCCCGCATGGCATGAATCCGCAACA---------GCAGCAGCAGCA---GC---AACAGGCCCAGCA---GCAGCAGCAGGCGC---AGCAGC-AACACGGCCAGATGATGGG------------------------------------TCAGGGTCAGC------------------CGG------GACGTTACAATGACTATGG-CGGTGGCTTTCCCAATGACTTCGGCCTGGGTCCC-AATGG---ACCGCAGCAGCA---GCAGCA---A------------CAGCAACAGCAGCAGCCGCAGCAGCAGCACCTGCCGCCGCAGTTCCATCAA---AAAGGTCCTGGCC------C
droBip1	scf7180000395839:132251-132507 -		GGCTTCCCC----CGCCCGCCCCACGGCATGAATCCGCAGCA---------GCAGCAGCA---------GCAACAGGCCCAG------CAGCAGCAGGCGC---AGCAGC-AGCACGGCCAGATGATGGG------------------------------------TCAGGGTCAGC------------------CGG------GACGTTACAACGACTATGG-CGGTGGCTTTCCCAATGACTTTGGTCTGGGTCCC-AATGG---ACCGCAGCAGCA---GCAGCA---GCAGC---------AACAACAGCAGCAGCCGCAGCAGCAGCATCTGCCGCCGCAGTTCCACCAA---AAGGGTCCTGGCC------C
dp5	3:11208462-11208718 -		GGCTTCCCC----CGCCCCCCGCATGGCATGCAACCGCAGCA---------ACAGCAGCAGCA---GCAACAACAGCAGCAG------CAGCAGCAGGCCCAGCAGCAGC-AACATGGCCAGATGATGGGTGGCC---------------------------CTGGTCAGGGCCAGC------------------CCG------GACGCTACAACGACTATGG-GGGCGGCTTTCCGAACGACTTTGGCCTGGGTCCC-AATGG---CCCGCAGCAGC------------------------------AAC---AGCAGCCCCAGCAGCAGCATCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGCC------C
droPer2	scaffold_4:6612922-6613181 -		GGCTTCCCC----CGCCCCCCGCATGGCATGCAACCGCAGCA---------ACAGCAGCAGCA---GCAGCAACAACAGCAG------CAGCAGCAGGCCCAGCAGCAGCAAACATGGCCAGATGATGGTGGGCC---------------------------CTGGTCAGGGCCAGC------------------CCG------GACGCTACAACGACTATGGGGGGCGGCTTTCCGAACGACTTTGGCCTGGGTCCCCAATGG---CCCGCAGCAGC------------------------------AAC---AGCAGCCCCAGCAGCAGCATCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGCC------C
droWil2	scf2_1100000004558:1693064-1693317 -		GGCTTTCCAAGGCCGA-CACCGCACAACATGCAGCAACAACA---------TCAGCAGCA---------GCAACAGCAGCAGCAGCAACAACAACAG---C---AGCAAC-CACATGCTCAGATGATGGG------------------------------------C---GGTCAGC------------------CAGGAGGAGGACGCTATAATGATTTTGG-CGGTGGTTTTCCCAATGACTTTGGTCTCGGTCCA-AACAA---TCCCCAACAGCA---AC---------------------AGCAAC---AGCAGCCCCAACAGCAACACTTGCCACCACAATTCCATCAA---AAGGGTCCTGGTC------C
droVir3	scaffold_12875:1997941-1998194 -		GGCTTTCCA----CGTCCGCCGCACGGCATGCAGC---AGCA---------ACAGCCGCAACA---GCAACA---GCAGGCG------CCGCAGCAGCAGC---AGCAGC-AACATGGCCAAATGATGGGCGGTC---------------------------CGGGCCAAGGACAGCAGCAGCAGCAGCAGCAGCAGC------CGCGCTACAATGACTACGG-CGGCGGTTTTCCCAATGACTTCGCCATGGGCCCG-AATCC---CACGCAGCAGCA---------------------------------------------GCAGCAACACTTGCCGCCGCAGTTCCATCAA---AAGGCACCGGGCG------G
droMoj3	scaffold_6496:23264533-23264772 +		GGCTTTCCA----CGCCCACCCCACAGCATGCAGCAGCAGCA---------ACAGCAACA---------ACAACAGCAGCAA------CAGCAGCAGCCGCAGCAGCAGC-AGCATGGCCAGATG---------------------------------------------------------------------------------CGCTACAATGACTATGG-CGGCGGCTTTACCAATGACTTTTCGATGGGTCCG-AATCC---TGGGCAGCAGCAACAGCAGCA---GCCAC---------AGCAACAGCAGCCGCAGCAGCAGCAACACTTGCCGCCGCAGTTCCATCAA---AAGGCGCCGGGC--------
droGri2	scaffold_15112:4108404-4108683 -		GGTTTTCCA----CGTCCACCGCACAACA---ACCTGCAACA---------GCAGCAGCAACA---GCAGCA---GCAGCAA------CAGCCGCAGCAGC---AGCAGC-AACATGGTCAGCTGATGGGCGGCGGAGGTGGAGGAGGCGTGGCGCCTCCAGTTGGACAACAGCAGC------------------AGG------CACGTTACAGCGACTATGT-CAGCGGTTTTCCCAATGACTTCAACATGGGTCCA-CCCAATCCCGCCCAGCAGCA---ACAGCA---G------------CAGCAAC---AGCAGCAGCAGCAGCAACACTTGCCGCCGCAATTCCATCAG---CAGA----------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSec2

GGATTCCCA----CGACCGCCGCACGGCATGAATCCGCAGCA---------ACAGCAGCAGCA---GCAACAACAGCAACAG------------------C---AGCAGC-AACATGGCCAAATGATGGG------------------------------------GCAAGGAAGGC------------------CCG------GTCGCTATAACGACTACGG-CGGCGGCTTCCCCAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAGCA---GGCGC---------AGCAAC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAGCAAAAGGGTCCTGGCC------C	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
................................................................................................................................................................................................................CTATAACGACTACGG-CGGCGGC...................................................................................................................................................	22	1	1.00	1	0	0	0	1
.............................................................................................................................................................................................................................................AATGACTTTGGCCTGGGAC..........................................................................................................................	19	1	1.00	1	0	0	1	0
................................................................................................................ACATGGCCAAATGATGGG------------------------------------GCAAGGACA...........................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0
..........................................................................AGCAACAG------------------C---AGCAGC-AACA.......................................................................................................................................................................................................................................................................	19	20	0.20	4	0	0	4	0
.....................................................AGCAGCAGCA---GCAACAACAGC.............................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0
.....................................CAGCA---------ACAGCAGCAGCA---GC......................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	1	0
........................................................AGCAGCA---GCAACAACAGCA............................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	1	0
.....................................CAGCA---------ACAGCAGCAGCA---GCA.....................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	1
....................................................................AACAACAGCAACAG------------------C---AGCAGC-...........................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	1

droSim2

GGATTCCCA----CGACCGCCGCACGGCATGAATCCGCAGCA---------ACAGCAGCAGCA---GCAACAACAGCAACAGCA---GCAGCAACAGGCCC---AGCAGC-AACATGGTCAAATGATGGG------------------------------------ACAAGGACAGC------------------CGG------GTCGCTATAACGACTACGG-CGGCGGCTTCCCGAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAGCA---GGCGC---------AGCAAC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAGCAAAAGGGTCCTGGCC------C	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
...................................................................................................................TGGTCAAATGATGGG------------------------------------ACAAGGACAGC------------------.......................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................AGCAGCCGCAGCAGCAACACCTGCCGC.....................................	27	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................GCAGCAGCA---GCAGCA---GGCGC---------.........................................................................	20	9	0.11	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CAGCA---GCAGCA---GGCGC---------AGCA.....................................................................	20	13	0.08	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0

dm3

GGATTCCCA----CGACCGCCGCACGGCATGAATCCGCAGCA---------ACAGCAGCAGCA---GCAACAACAGCAGCAA------CAGCAACAGGCCC---AGCAGC-AACATGGTCAGATGATGGG------------------------------------ACAAGGACAGC------------------CGG------GTCGCTATAACGACTACGG-CGGCGGCTTTCCCAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAGCA---GGCGC---------AGCAAC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCATCAGCAAAAGGGTCCTGGCC------C	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
..................................................................................................................................................................................................................ATAACGACTACGG-CGGCGGCTTTCCCA............................................................................................................................................	27	1	5.00	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5
............................................................................................................................GATGGG------------------------------------ACAAGGACAGC------------------CGG------GTCGC.........................................................................................................................................................................	25	1	3.00	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................ATGATGGG------------------------------------ACAAGGACAGC------------------CGG------..............................................................................................................................................................................	22	1	3.00	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................AGGACAGC------------------CGG------GTCGCTATAAC...................................................................................................................................................................	22	1	3.00	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................GG------------------------------------ACAAGGACAGC------------------CGG------GTCGC.........................................................................................................................................................................	21	1	3.00	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.............................................................................................................................ATGGG------------------------------------ACAAGGACAGC------------------CGG------GT............................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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......................................................................................................................................................................................................................................................................................A---GCAGCA---GGCGC---------AGCAAC---AGT.............................................................	21	5	0.20	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	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
..............................................................A---GCAACAACAGCAGCAA------CAGCAAC...........................................................................................................................................................................................................................................................................................	24	5	0.20	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	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
.....................................................AGCAGCAGCA---GCAACAACAGCA............................................................................................................................................................................................................................................................................................................	22	20	0.20	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CAGCAGCA---GCAGCA---GGCGC---------AGC......................................................................	22	5	0.20	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	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
..................................................................GCAACAACAGCAGCAA------CAGCAACA..........................................................................................................................................................................................................................................................................................	24	5	0.20	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................AGATGATGGG------------------------------------ACAAGGACCAA------------------.......................................................................................................................................................................................	21	5	0.20	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	0	0	0	0	1	0	0	0	0
.............................................................CA---GCAACAACAGCAGCAA------CAG...............................................................................................................................................................................................................................................................................................	21	20	0.20	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................ACAACAGCAGCAA------CAGCAACA..........................................................................................................................................................................................................................................................................................	21	17	0.18	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droEre2

GGATTCCCT----CGACCACCGCACGGCATGAATCCGCAGCA---------GCAGCAGCAACA---GCAGCA---GCAGCAG------CAGCAACAGGCCC---AGCAGC-AACATGGCCAAATGATGGG------------------------------------GCAAGGACAGC------------------CGG------GTCGCTATAACGACTACGG-CGGTGGCTTTCCCAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAGCA---GGCGC---------AGCAACAGCAGCAGCCGCAGCAGCAGCACCTGCCGCCTCAGTTCCACCAG---AAGGGTCCTGGTC------C	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
......................................................................................................................CCAAATGATGGG------------------------------------GCAAGGACAGC------------------CGG------GT............................................................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0	0
................CCACCGCACGGCATGAATCCGCAGC.................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................CTCAGTTCCACCAG---AAGGGTCCTGGTC------C	28	1	1.00	1	1	0	0	0	0	0	0
............................ATGAATCCGCAGCA---------GCAGCA.................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0
.....................................................................................................................GCCAAATGATGGG------------------------------------GCAAGGACAGC------------------CGG------..............................................................................................................................................................................	27	1	1.00	1	0	0	0	0	1	0	0
..........................................................................................................................................................................................................................................................................................GCAGCA---GGCGC---------AGCAACAGCAGCAGC..........................................................	26	1	1.00	1	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................AGCAGCAGCCGCAGCAGCAGCA.............................................	22	20	0.05	1	0	0	0	0	0	1	0

droYak3

GGATTCCCC----CGACCGCCGCACGGCATGAATCCGCAGCA---------GCAGCAACAACA---GCAGCA---GCAGCAG------CAGCAACAGGCCC---AGCAGC-AGCATGGCCAAATGATGGG------------------------------------ACAAGGGCAGC------------------CGG------GTCGCTATAACGACTACGG-CGGCGGCTTCCCTAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCA------GGCGC---------AGCAACAGCAGCAGCCGCAGCAACAGCACCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGCC------C	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
............................ATGAATCCGCAGCA---------GCAGCAACAACA---GCAGCA---...............................................................................................................................................................................................................................................................................................................	32	1	4.00	4	0	0	0	0	0	0	0	0	0	0	4
...................................................................................................................TGGCCAAATGATGGG------------------------------------ACAAGGGC............................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................GACCC-AATGG---TCCGCAGCAGCA---GCA------GGC....................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................ATGATGGG------------------------------------ACAAGGGCAGC------------------C......................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
..........................................................................................................................................................................................................................................CCTAATGACTTTGGCCTGGGA...........................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................TGACTTTGGCCTGGGACCC-AATGG---TCCGC..........................................................................................................	29	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.......................................................CAACAACA---GCAGCA---GCA............................................................................................................................................................................................................................................................................................................	17	20	0.25	5	0	0	0	0	0	0	0	0	0	0	5
........................................................AACAACA---GCAGCA---GCAGCA.........................................................................................................................................................................................................................................................................................................	19	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
.....................................................................GCA---GCAGCAG------CAGCAACAGGC.......................................................................................................................................................................................................................................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0	0
........................................................AACAACA---GCAGCA---GCAGCAG------CAGCAACA..........................................................................................................................................................................................................................................................................................	28	11	0.09	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................ACAACA---GCAGCA---GCAGCAG------CAGCAAC...........................................................................................................................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................AGCA---GCAGCAG------CAGCAACAGG........................................................................................................................................................................................................................................................................................	21	18	0.06	1	0	1	0	0	0	0	0	0	0	0	0
........................................................AACAACA---GCAGCA---GCAGCAG------CAGC..............................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
......................................................GCAACAACA---GCAGCA---GCAGCAG------C.................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................CAGCAGCAGCCGCAGCAACA................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.....................................CAGCA---------GCAGCAACAACA---GC......................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

droEug1

GGATTCCCC----CGTCCGCCCCACGGCATGAATCCCCAGCA---------GCAGCAGCAACA---GCAGCAACAACAGCAG------CAGCAACAGGCCC---AGCAGC-AACATGGTCAAATGATGGG------------------------------------------ACAGC------------------CGG------GACGATATAATGACTATGG-AGGCGGCTTTCCCAATGACTTTGGCCTGGGACCC-AATGG---TCCGCAGCAGCA---GCAA------------------CAGCAGC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCATCAG---AAGGGTCCTGGCC------C	Size	Hit Count	Total Norm	Total
No Reads

droBia1

GGATTCCCC----CGACCGCCGCACGGCATGAACCCCCAGCA---------GCAGCAGCAGCA---GCAACAACAGCAGCAG------CAACAGCAGGCCCAGCAGCAGC-AACACGGCCAGATGATGGG------------------------------------GCAAGGTCAGC------------------CGG------GTCGCTATAACGACTACGG-TGGCGGCTTCCCCAATGACTTTGCCCTGGGGCCC-AACGG---TCCGCAGCAGCA---GCAA------------------CAGCAGC---AGCAGCCGCAGCAGCAACACCTGCCGCCCCAGTTCCACCAG---AAGGGTCCTGGCC------C	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GGCTTCCCC----CGACCGCCGCACGGCATGAATCCCCAGCAGCAGCAGCAACAGCAGCAGCA---GCAACAACAGCAGCAG------CAGCAGCAGGCCCAGCAGCAGC-AACATGGCCAGATGATGGG------------------------------------CCAAGGTCAGC------------------CGG------GTCGCTACAACGACTACGG-TGGCGGCTTCCCCAATGACTTTGGCCTGGGACCC-AACGG---ACCGCAGCAGCA---GCAGCA---G------------CAGCAAC---AGCAGCCGCAGCAGCAACATCTGCCGCCGCAGTTCCACCAG---AAGGTTCCGGGCGGCGGTCC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

GGTTTCCCA----CGTCCCCCGCACGGCATGAACCCCCAGCA---------GCAGCAGCAGCA---ACAGCAGCAGCAGCAG------CAGCAACAGGCCC---AGCAGC-AACATGGCCAGATGATGGG------------------------------------GCAAGGACAGC------------------CGA------GTCGCTACAACGACTACGG-TGGCGGCTTCCCCAACGACTTTGGTCTGGGACCC-AATGG---ACCGCAGCAGCA---GCAA------------------CAGCAAC---AGCAGCCGCAGCAGCAACATCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGAC------C	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GGTTTTCCC----CGTCCCCCGCACGGCATGAACCCCCAGCA---------GCAGCAGCAACAGCAGCAACAACAGCAGCAG------CAGCAACAGGCCC---AGCAGC-AACATGGTCAGATGATGGG------------------------------------ACAAGGACAGC------------------CGG------GTCGCTATAACGACTACGG-TGGCGGCTTCCCCAATGACTTTGGCCTGGGACCC-AACGG---TCCGCAGCAGCA---GCAGCA---A------------CAGCAGC---AACAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGAC------C	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GGATTCCCC----CGCCC-CCGCACGGCATGAACCCGCAGCA---------GCAGCAGCAGC---------AA------CAG------CAGCAGCAGGCGC---AGCAGC-AACACGGCCAGATGATGGG------------------------------------ACAGGGACAAC------------------CGG------GTCGGTACAACGACTACGG-AGGTGGCTTCCCCAACGACTTTGGCCTGGGTCCC-AACGG---GCCGCAGCAGCA---GCAGCAGCAGGCGCAGCAGCAACAGCAGC---AGCAGCCGCAGCAGCAACACCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGCC------C	Size	Hit Count	Total Norm	Total
No Reads

droKik1

GGTTTTCCG----CGTCCACCTCATGGCATGAATCCCCAGCA---------GCAGCAGCAACA---GCAGCA---GCAGGCT------CAGCAACAGGCGCAACAGCAGC-AGCATGGCCAGATGATGGG------------------------------------ACAAGGTCAGC------------------CGG------GTCGTTACAATGACTATGG-CGGCGGCTTTCCCAATGACTTTGGTCTAGGTCCC-AACAA---CCCCCAGCAGCA---GCAGCA---G------------CAACAAC---AACAGCCGCAGCAGCAACATTTGCCGCCTCAGTTCCACCAG---AAGGGTCCTGGTC------C	Size	Hit Count	Total Norm	Total
No Reads

droAna3

GGCTTCCCC----CGCCCCCCGCATGGCATGAATCCGCAACA---------GCAGCAGCAGCA---GC---AACAGGCCCAGCA---GCAGCAGCAGGCGC---AGCAGC-AACACGGCCAGATGATGGG------------------------------------TCAGGGTCAGC------------------CGG------GACGTTACAATGACTATGG-CGGTGGCTTTCCCAATGACTTCGGCCTGGGTCCC-AATGG---ACCGCAGCAGCA---GCAGCA---A------------CAGCAACAGCAGCAGCCGCAGCAGCAGCACCTGCCGCCGCAGTTCCATCAA---AAAGGTCCTGGCC------C	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
............................................................................................................................................................................................................................................................................CCGCAGCAGCA---GCAGCA---A------------CAGCAACAGC................................................................	28	1	1.00	1	0	1	0	0	0	0
..........................................................................................................................................................................................................................TATGG-CGGTGGCTTTCCCA............................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1
.........................................................................................................................GATGATGGG------------------------------------TCAGGGTCAGC------------------CGG------..............................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
........................................................................ACAGGCCCAGCA---GCAGCAGCA..........................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
........................................................................................................................................................................................................................................................................................................................GCAGCAGCCGCAGCAGCAGCACC...........................................	23	1	1.00	1	0	1	0	0	0	0
............................................................................................................................................................................................................................................................................CCGCAGCAGCA---GCAGCA---A------------CAG.......................................................................	21	8	0.50	4	1	0	0	1	0	2
...................................................................................................................................................................................................................................................................................................................CAACAGCAGCAGCCGCAGCAGC.................................................	22	5	0.20	1	0	1	0	0	0	0
..................................CCGCAACA---------GCAGCAGCAGCA---GC---...................................................................................................................................................................................................................................................................................................................	22	9	0.11	1	1	0	0	0	0	0
...................................................................................A---GCAGCAGCAGGCGC---AGCA..............................................................................................................................................................................................................................................................................	19	10	0.10	1	0	0	1	0	0	0
..............................................................................................................................................................................................................................................................................................CA---A------------CAGCAACAGCAGCAGCC.........................................................	20	13	0.08	1	0	1	0	0	0	0
...................................CGCAACA---------GCAGCAGCAGCA---GC---A..................................................................................................................................................................................................................................................................................................................	22	18	0.06	1	0	0	0	0	0	1
......................................................GCAGCAGCA---GC---AACAGGC............................................................................................................................................................................................................................................................................................................	18	19	0.05	1	0	1	0	0	0	0
................................................................................................................................................................................................................................................................................AGCAGCA---GCAGCA---A------------CAGCAACAGCA...............................................................	25	20	0.05	1	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................A---GCAGCA---A------------CAGCAACAGCAGCAGC..........................................................	24	20	0.05	1	0	1	0	0	0	0
.....................................CAACA---------GCAGCAGCAGCA---GC---A..................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0
....................................................................................................................................................................................................................................................................................GCA---GCAGCA---A------------CAGCAACAGC................................................................	20	20	0.05	1	0	1	0	0	0	0

droBip1

GGCTTCCCC----CGCCCGCCCCACGGCATGAATCCGCAGCA---------GCAGCAGCA---------GCAACAGGCCCAG------CAGCAGCAGGCGC---AGCAGC-AGCACGGCCAGATGATGGG------------------------------------TCAGGGTCAGC------------------CGG------GACGTTACAACGACTATGG-CGGTGGCTTTCCCAATGACTTTGGTCTGGGTCCC-AATGG---ACCGCAGCAGCA---GCAGCA---GCAGC---------AACAACAGCAGCAGCCGCAGCAGCAGCATCTGCCGCCGCAGTTCCACCAA---AAGGGTCCTGGCC------C	Size	Hit Count	Total Norm	Total
No Reads

dp5

GGCTTCCCC----CGCCCCCCGCATGGCATGCAACCGCAGCA---------ACAGCAGCAGCA---GCAACAACAGCAGCAG------CAGCAGCAGGCCCAGCAGCAGC-AACATGGCCAGATGATGGGTGGCC---------------------------CTGGTCAGGGCCAGC------------------CCG------GACGCTACAACGACTATGG-GGGCGGCTTTCCGAACGACTTTGGCCTGGGTCCC-AATGG---CCCGCAGCAGC------------------------------AAC---AGCAGCCCCAGCAGCAGCATCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGCC------C	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
...............................................................................................................................................................................................................................................CGACTTTGGCCTGGGTCCC-AATGG---CCCGC..........................................................................................................	29	1	1.00	1	0	0	1	0	0	0	0	0	0	0
...................................................................................................................................................................TGGTCAGGGCCAGC------------------CCG------GACG..........................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................GGGCCAGC------------------CCG------GACGCTACAACGA.................................................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0
..................................................................................................................ATGGCCAGATGATGGGTGGT....................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
............................................................GCA---GCAACAACAGCAGCAG------C.................................................................................................................................................................................................................................................................................................	20	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.....................................................................ACAACAGCAGCAG------CAGCAGC...........................................................................................................................................................................................................................................................................................	20	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.........................................A---------ACAGCAGCAGCA---GCAACAACAGCAGCA.........................................................................................................................................................................................................................................................................................................	28	14	0.07	1	0	1	0	0	0	0	0	0	0	0
....................................................................AACAACAGCAGCAG------CAGCAGC...........................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
......................................................................CAACAGCAGCAG------CAGCAGCAGGC.......................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................................................................ACAACAGCAGCAG------CAGCAG............................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

GGCTTCCCC----CGCCCCCCGCATGGCATGCAACCGCAGCA---------ACAGCAGCAGCA---GCAGCAACAACAGCAG------CAGCAGCAGGCCCAGCAGCAGCAAACATGGCCAGATGATGGTGGGCC---------------------------CTGGTCAGGGCCAGC------------------CCG------GACGCTACAACGACTATGGGGGGCGGCTTTCCGAACGACTTTGGCCTGGGTCCCCAATGG---CCCGCAGCAGC------------------------------AAC---AGCAGCCCCAGCAGCAGCATCTGCCGCCGCAGTTCCACCAG---AAGGGTCCTGGCC------C	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
......................................................................................................................................C---------------------------CTGGTCAGGGCCAGC------------------CCG------GACG..........................................................................................................................................................................	23	1	2.00	2	2	0	0	0	0	0
.............................................................................................................................................................................CAGC------------------CCG------GACGCTACAACG..................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................TCCACCAG---AAGGGTCCTGG.........	19	1	1.00	1	0	0	0	0	1	0
...................................................................CAGCAACAACAGCAG------CAGCAGCA..........................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0
....................................................................AGCAACAACAGCAG------CAGCAGC...........................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0
.......................................GCA---------ACAGCAGCAGCA---GCAGCAACAAC.............................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0

droWil2

GGCTTTCCAAGGCCGA-CACCGCACAACATGCAGCAACAACA---------TCAGCAGCA---------GCAACAGCAGCAGCAGCAACAACAACAG---C---AGCAAC-CACATGCTCAGATGATGGG------------------------------------C---GGTCAGC------------------CAGGAGGAGGACGCTATAATGATTTTGG-CGGTGGTTTTCCCAATGACTTTGGTCTCGGTCCA-AACAA---TCCCCAACAGCA---AC---------------------AGCAAC---AGCAGCCCCAACAGCAACACTTGCCACCACAATTCCATCAA---AAGGGTCCTGGTC------C	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.......................................................................................................................................................................................................................GATTTTGG-CGGTGGTTTTCCCAAT..........................................................................................................................................	24	1	1.00	1	0	0	0	1	0
............................................................................................................................GATGGG------------------------------------C---GGTCAGC------------------CAGGAGGAGGAC...........................................................................................................................................................................	26	1	1.00	1	0	0	0	1	0
...........................................................................................................................TGATGGG------------------------------------C---GGTCAGC------------------CAGGAGGAGG.............................................................................................................................................................................	25	1	1.00	1	0	0	1	0	0
..................................................................................................................................................................................................................ATAATGATTTTGG-CGGTGGT...................................................................................................................................................	20	1	1.00	1	0	0	1	0	0
.........................................................................................................................GATGATGGG------------------------------------C---GGTCAGC------------------CAGGA..................................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0
.................................GCAACAACA---------TCAGCAGCA---------GCAAC................................................................................................................................................................................................................................................................................................................	23	2	0.50	1	0	0	0	1	0
..................................................................................CAGCAACAACAACAG---C---AGCAAC-CA.........................................................................................................................................................................................................................................................................	24	2	0.50	1	0	0	0	1	0
.....................................................................................CAACAACAACAG---C---AGCAAC-CAC........................................................................................................................................................................................................................................................................	22	5	0.20	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................CAACAGCA---AC---------------------AGCAAC---AGCAGCC.........................................................	23	7	0.14	1	0	0	0	1	0
.........................................A---------TCAGCAGCA---------GCAACAGCAGCA.........................................................................................................................................................................................................................................................................................................	22	20	0.10	2	0	0	0	2	0
................................AGCAACAACA---------TCAGCAGCA---------.....................................................................................................................................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2	0
......................................................................................AACAACAACAG---C---AGCAAC-C..........................................................................................................................................................................................................................................................................	19	14	0.07	1	0	0	0	1	0
..................................CAACAACA---------TCAGCAGCA---------GCAA.................................................................................................................................................................................................................................................................................................................	21	16	0.06	1	0	0	0	1	0
........................................CA---------TCAGCAGCA---------GCAACAGCA............................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	1	0
......................................................GCAGCA---------GCAACAGCAGCAGC.......................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	1	0
............................................................................CAGCAGCAGCAACAACAACAG---C---AGCA..............................................................................................................................................................................................................................................................................	26	20	0.05	1	0	0	0	1	0
..............................GCAGCAACAACA---------TCAGCAGCA---------.....................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1
.......................................ACA---------TCAGCAGCA---------GCAACA...............................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	1	0
.............................................................................AGCAGCAGCAACAACAACAG---C---AGCA..............................................................................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0

droVir3

GGCTTTCCA----CGTCCGCCGCACGGCATGCAGC---AGCA---------ACAGCCGCAACA---GCAACA---GCAGGCG------CCGCAGCAGCAGC---AGCAGC-AACATGGCCAAATGATGGGCGGTC---------------------------CGGGCCAAGGACAGCAGCAGCAGCAGCAGCAGCAGC------CGCGCTACAATGACTACGG-CGGCGGTTTTCCCAATGACTTCGCCATGGGCCCG-AATCC---CACGCAGCAGCA---------------------------------------------GCAGCAACACTTGCCGCCGCAGTTCCATCAA---AAGGCACCGGGCG------G	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
.......................................................................................................................................................................................................................................................................................................................................GCAACACTTGCCGCCGCAGTTCC............................	23	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................AACA---GCAGGCG------CCGCAGCAGCAGC---A.................................................................................................................................................................................................................................................................................	25	1	1.00	1	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
......................................................................................................................................................................................................................................................................................A---------------------------------------------GCAGCAACACTTGCCGCCGCAGT...............................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................CGCACGGCATGCAGC---AGCA---------ACAGCCGC...............................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................AGCAGC------CGCGCTACAATGAC................................................................................................................................................................	20	1	1.00	1	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
.................................................................................................................................................................................................................TACAATGACTACGG-CGGCG.....................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................AACATGGCCAAATGATGG.........................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................CA---------ACAGCCGCAACA---GCAA....................................................................................................................................................................................................................................................................................................................	18	6	0.17	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
......................................................................................................................................................................................................................................................................CC---CACGCAGCAGCA---------------------------------------------GCAGCA................................................	20	6	0.17	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................CG------CCGCAGCAGCAGC---AGCAGC-AACA.......................................................................................................................................................................................................................................................................	25	8	0.13	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
............................................................................................................................................................................................................................................................................ACGCAGCAGCA---------------------------------------------GCAGCAACA.............................................	20	12	0.08	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................GGACAGCAGCAGCAGCAGCAGC..........................................................................................................................................................................................	22	18	0.06	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
...........................................................................................CAGCAGCAGC---AGCAGC-AACA.......................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................G------CCGCAGCAGCAGC---AGCAGC-AAC........................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................GCAGCAGCAGCAGCAGCAGCAGC------CGC...........................................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
..........................................................................................................................................................................GGACAGCAGCAGCAGCAGCAG...........................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................CGCAGCAGCA---------------------------------------------GCAGCAACA.............................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

GGCTTTCCA----CGCCCACCCCACAGCATGCAGCAGCAGCA---------ACAGCAACA---------ACAACAGCAGCAA------CAGCAGCAGCCGCAGCAGCAGC-AGCATGGCCAGATG---------------------------------------------------------------------------------CGCTACAATGACTATGG-CGGCGGCTTTACCAATGACTTTTCGATGGGTCCG-AATCC---TGGGCAGCAGCAACAGCAGCA---GCCAC---------AGCAACAGCAGCCGCAGCAGCAGCAACACTTGCCGCCGCAGTTCCATCAA---AAGGCGCCGGGC--------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
....................................................................................................................................................................................................................................GGCTTTACCAATGACTTTTCGATG..............................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
................................................................................................................GCATGGCCAGATG---------------------------------------------------------------------------------CGCTACAATGACT...............................................................................................................................................................	26	1	1.00	1	0	0	0	0	1	0
.........................................................................................................GCAGC-AGCATGGCCAGATG---------------------------------------------------------------------------------CGC.........................................................................................................................................................................	22	1	1.00	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................TGGGCAGCAGCAACAGCA.............................................................................................	18	3	0.33	1	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................................AACAGCAGCA---GCCAC---------AGCAACA..................................................................	22	3	0.33	1	0	0	1	0	0	0
.......................................................................................................................................................................................................................................................................................ACAGCAGCA---GCCAC---------AGCAAC...................................................................	20	5	0.20	1	1	0	0	0	0	0
...................................AGCAGCA---------ACAGCAACA---------ACAACA...............................................................................................................................................................................................................................................................................................................	22	20	0.10	2	2	0	0	0	0	0
.....................................................AGCAACA---------ACAACAGCAGCAA------C.................................................................................................................................................................................................................................................................................................	21	20	0.10	2	2	0	0	0	0	0
.................................................................................................................................................................................................................................................................................GCAGCAACAGCAGCA---GCCAC---------A........................................................................	21	16	0.06	1	0	0	1	0	0	0
....................................................CAGCAACA---------ACAACAGCAGCAA------CAG...............................................................................................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
................................AGCAGCAGCA---------ACAGCAACA---------ACAACAG..............................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0
...................................................................................................................................................................................................................................................................................................................CAACAGCAGCCGCAGCAGC....................................................	19	20	0.05	1	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................AGCAACAGCAGCCGCAGCA......................................................	19	20	0.05	1	1	0	0	0	0	0
........................................CA---------ACAGCAACA---------ACAACAGCAGCAA------CA................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	1	0
.........................................A---------ACAGCAACA---------ACAACAGCAGCAA------CAGCA.............................................................................................................................................................................................................................................................................................	28	20	0.05	1	0	0	0	0	1	0
.........................................................ACA---------ACAACAGCAGCAA------CAGCAGCA..........................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	1	0
..............................GCAGCAGCAGCA---------ACAGCAACA---------ACAACAGC.............................................................................................................................................................................................................................................................................................................	29	20	0.05	1	0	0	0	0	1	0
...................................................ACAGCAACA---------ACAACAGCAGCAA------CAG...............................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	1	0
.........................................A---------ACAGCAACA---------ACAACAGCAGC..........................................................................................................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0
........................................CA---------ACAGCAACA---------ACAACAGCAGC..........................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	1	0
...........................................................A---------ACAACAGCAGCAA------CAGCAGC...........................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1	0
..................................CAGCAGCA---------ACAGCAACA---------ACAAC................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	1	0
..............................GCAGCAGCAGCA---------ACAGCAACA---------ACA..................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0

droGri2

GGTTTTCCA----CGTCCACCGCACAACA---ACCTGCAACA---------GCAGCAGCAACA---GCAGCA---GCAGCAA------CAGCCGCAGCAGC---AGCAGC-AACATGGTCAGCTGATGGGCGGCGGAGGTGGAGGAGGCGTGGCGCCTCCAGTTGGACAACAGCAGC------------------AGG------CACGTTACAGCGACTATGT-CAGCGGTTTTCCCAATGACTTCAACATGGGTCCA-CCCAATCCCGCCCAGCAGCA---ACAGCA---G------------CAGCAAC---AGCAGCAGCAGCAGCAACACTTGCCGCCGCAATTCCATCAG---CAGA----------------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
.........................................................................................................................GCTGATGGGCGGCGGAGGTG.............................................................................................................................................................................................................................................	20	1	1.00	1	1	0
............................................................................................................................................................................GCAGC------------------AGG------CACGTTACAGCG..................................................................................................................................................................	20	1	1.00	1	1	0
.....................................................................................................................................................GTGGCGCCTCCAGTTGGAC..................................................................................................................................................................................................................	19	1	1.00	1	1	0
...........................................................................................................................................................................................................................ATGT-CAGCGGTTTTCCCA............................................................................................................................................	18	1	1.00	1	1	0
..........................................................................................................................................GTGGAGGAGGCGTGGCGCCT............................................................................................................................................................................................................................	20	1	1.00	1	1	0
.................................................................................................................CATGGTCAGCTGATGGGCGGCGGA.................................................................................................................................................................................................................................................	24	1	1.00	1	1	0
............................................................................................................................................................................GCAGC------------------AGG------CACGTTACAGCGACTATG............................................................................................................................................................	26	1	1.00	1	1	0
.................................................................................................................................................................................................................................................................................................................................GCAGCAGCAACACTTGCCGCCG...................................	22	1	1.00	1	1	0
..............................................................................GCAA------CAGCCGCAGCAGC---AGCAGC-A..........................................................................................................................................................................................................................................................................	24	9	0.11	1	1	0
..........................................................................................................................................................................................................................................................................................ACAGCA---G------------CAGCAAC---AGCA............................................................	18	20	0.10	2	2	0
............................................................ACA---GCAGCA---GCAGCAA------CAGCC.............................................................................................................................................................................................................................................................................................	21	17	0.06	1	1	0
............................................................ACA---GCAGCA---GCAGCAA------CAG...............................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0
.................................................................................A------CAGCCGCAGCAGC---AGCAGC-A..........................................................................................................................................................................................................................................................................	21	20	0.05	1	1	0

-6.5	-6.5	-6.5	-6.1

dse_675

scaffold_1:7452080-7452230 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads