dan_1128

Name	Class	Family	Strand
DNAREP1_DYak	RC	Helitron	+
Hoana1	DNA	hAT-hobo	-
(TCTG)n	Simple_repeat	Simple_repeat	+
Hoana1	DNA	hAT-hobo	-

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TCGTGTATTAGCTCGTTCATCTCCAACTGACAAATATACATTAGTGAAAGGTAAGTTTATTTTATTTAAAGAAAAGATTAAATAGCAGTGAACGAGACATCTCCAACCCTATAAAGTATATATATTCTGGATCAGAATGACCTCCTGCGTTATATTAGCATGTCCGTCTGTCCGTCTGACTGTCTGTTTGTTTCTAAGAAAATTGGTCTATCAGCTTTAAAGCTATCGAGTTGAAACTATATCCTATATCT ************************************************.....((............(((((....(((((((((((..(((.((((..........(((((.(((....(((((((...)))))))......))).)))))..............)))))))...)))).))))))))))))....))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	V105 male body	M044 female body	V055 head
..........................CTGACAAATATACATTAGTGAAAGGC.......................................................................................................................................................................................................	26	1	1	1.00	1	0	1	0	0
.......TTAGCTCGTTCATCTCCAACT...............................................................................................................................................................................................................................	21	0	1	1.00	1	1	0	0	0
.......TTAGCTCGTTCATCTCCAACTGAC............................................................................................................................................................................................................................	24	0	1	1.00	1	1	0	0	0
..........................................................................................................................................................TTAGCATGTCCGTCTGTCCGTCTGAC.......................................................................	26	0	1	1.00	1	1	0	0	0
..........GCTCGTTCATCTCCAACTGAC............................................................................................................................................................................................................................	21	0	1	1.00	1	1	0	0	0
..........................................................................................................................................................TTAGCATGTCCGTCTGTCCGTC...........................................................................	22	0	3	0.67	2	2	0	0	0
.............................................................................................................................................................GCATGTCCGTCTGTCCGTCTG.........................................................................	21	0	20	0.55	11	0	0	11	0
........................................................................................................................................................TATTAGCATGTCCGTCTGTCCGTCTG.........................................................................	26	0	3	0.33	1	0	0	1	0
..........................................................................................................................................................TTAGCATGTCCGTCTGTCCGTCTG.........................................................................	24	0	3	0.33	1	1	0	0	0
..........................................................................................................................................................TTAGCATGTCCGTCTGTCCGTCT..........................................................................	23	0	3	0.33	1	1	0	0	0
............................................................................................................................................................AGCATGTCCGTCTGTCCGTCTG.........................................................................	22	0	20	0.20	4	0	4	0	0
..........................................................................................................................................................TTAGCATGTCCGTCTGTCCGTCTGC........................................................................	25	1	20	0.15	3	3	0	0	0
............................................................................ATTAAGTAGCAGCGACCGAG...........................................................................................................................................................	20	3	7	0.14	1	0	0	0	1
..........................................................................................................................................................TTAGCATGTCCGACTGTCCGTCTGC........................................................................	25	2	20	0.10	2	2	0	0	0
..........................................................................................................................................................TTAGCATGTCCGACTGTCCGTCTG.........................................................................	24	1	15	0.07	1	1	0	0	0
..........................................................................................................................................................TTAGCATGTCTGTCTGTCCGTCT..........................................................................	23	1	20	0.05	1	1	0	0	0
.....................................................................................................................ATATATCACCTGGATCAGA...................................................................................................................	19	3	20	0.05	1	0	0	1	0
........................................................................................................................................................TATTAGCATGTCCGTCTGTCCGC............................................................................	23	1	20	0.05	1	1	0	0	0

AGCACATAATCGAGCAAGTAGAGGTTGACTGTTTATATGTAATCACTTTCCATTCAAATAAAATAAATTTCTTTTCTAATTTATCGTCACTTGCTCTGTAGAGGTTGGGATATTTCATATATATAAGACCTAGTCTTACTGGAGGACGCAATATAATCGTACAGGCAGACAGGCAGACTGACAGACAAACAAAGATTCTTTTAACCAGATAGTCGAAATTTCGATAGCTCAACTTTGATATAGGATATAGA ************************************************.....((............(((((....(((((((((((..(((.((((..........(((((.(((....(((((((...)))))))......))).)))))..............)))))))...)))).))))))))))))....))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V055 head	V105 male body	M044 female body	V106 head
....................................................................................................................................GTCTTAGTGGAGGACGCAAA...................................................................................................	20	2	7	0.14	1	1	0	0	0
.........TCTGGCAAGTAGAGGATGA...............................................................................................................................................................................................................................	19	3	7	0.14	1	1	0	0	0
..............................................................................................................................................................................AGACTTACAGGCAAACAAGG.........................................................	20	3	15	0.07	1	0	0	1	0
...............................................................................................GTGTAGAGGTTGGGATATTTCATAT...................................................................................................................................	25	1	20	0.05	1	0	1	0	0
.................................................................................................GTAGAGGTTGGGATATTTCATATAT.................................................................................................................................	25	0	20	0.05	1	0	1	0	0
..............................................................................................................................................................GTACAGGCAGACAGGCAGACTG.......................................................................	22	0	20	0.05	1	0	0	0	1

Species	Coordinate	ID	Alignment
droAna3	scaffold_13045:1052905-1053155 +	dan_1128	TCGTGTATTAGCTCGTTCATCTCCAA---CTG------ACAAATATACAT-------------TAGT---------G--A-------AAGGTAAGTTTATTTTAT--T-TAAAGAA-----AAGATTAAATAGCAG-TGAACGA-GACATCTCCAACCCTATAAAGTATATATATTCTGGATCAGAATGACCTCCTGCGTTATATTAG-CATGTCCGTCTGTCCGTCTGACTGTCTGTTTGTT----TCTAAGAAAATTGGTCTATCAGCTTTAAAGCTATCG-------------------------------AGTTGAAACT-------------------------------------ATATCCT--ATAT----CT
droBip1	scf7180000391713:48-295 +		TTTTTCTTTATTCTGTTCATCTGTGG------------CTTTTTATACCC-------------TTGC---------A--G-------AGGGTATTATAATTTTGG--T-CA----A-----AAGTGTGCAACGCAG-TGAAGGA-GACATCTCCGACCCTATAAAGTATATATATTCTTGATCAGGATCACCTCCTGAGTTGATATGAGCATGTCCGTCTGTCCGTCTGTCCGTCTGTCTGTT----TCTACGCAAACTAGTCTCTCAGTTTTAAAGCTATCG-------------------------------TCTTGAAACT-------------------------------------TTGCAC---ACACCCTTCT
droKik1	scf7180000302764:3478-3712 -		TTTTTTATTAGTTGCTCC--------------------ATTTTTATACCC-------------TTGC--------------------AGGGTATTATAATTTCAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-GACCTTTCCGACCCTATAAAGTATATATATTCTTGATCAGCATCAACAGCCGAGTCGATCTAGCCATGTCCGTCTGTCCGTCTGTCCACCTGTCCGTT----TCTACGCAAACTAGTCCCTCAGTTTTAAAGCTATCT-------------------------------AAATGAAACT-------------------------------------TTGCATA--TAGT----CT
droFic1	scf7180000453388:5559-5803 -		TCATGTATCAGCACTATG-TCAGCA---CCAG------ATATTTATACCC-------------TTGC---------A--GAG-CAAAAGGGTATTATAATTTTAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-AACACCTCAGACCCCATAAAGTATATATATTCTTGATCAGCATCACGAGTAGAATCAGAATA--------CGTCTGAACGTCTGTCCGTCTGTCTGTT----TCTCTTCAAACTAGTCTCTCAGTTTTAAAGCTATCT-------------------------------TGCTGAAAAT-------------------------------------TTTTTCA--AAAG----GT
droEle1	scf7180000487263:13930-14162 +		GTATA--TTA-CTCGTT--------------G------ATTTTTATACCC-------------TTGC---------A--G-------AGGGTATTATAATTTCAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-GACATCTCCGACCCTATAAAGTATATATATTCTTGATCAGCATCACTAGGCGAGTCGATCTAGCCATGTCCGTCTGTCCGTCCGTCTGTCCGTCCGTT----TCTACGCAAACTAGTCTCTCAGTTTTAAAGCTATCT-------------------------------GCATGAAACT-------------------------------------TTCCCA---AAAG----TT
droRho1	scf7180000775370:82-330 -		TTTGGTTTTGGTTTTTTCATTTGTA---TATA-----CATTTTTATACCC-------------TTGC---------A--G-------AGGGTATTATAATTTTGG--T-CA----A-----AAGTGTGCAACGCAG-TGAAGGAAGGCATCTCCGACCCTATAAAGTATATATATTCTTGATCAGGATCACCTCCTGAGTTGATATAGCCATGTCCGTCTGTCCGTCTGTCCGTCTGTCTGTT----TCTACGCAAACTAGTCTCTCAGTTTTAAAGCTATCG-------------------------------AATTGAAACT-------------------------------------TTTCAC---ACAC----CC
droBia1	scf7180000301743:75141-75393 +		TTGTATATTAAAATATATACATATTA-----------CATTTTAATACCC-------------TTGC---------A--G-------AGGGTATGATGATTTCAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-GACTTTTCCGACCCCATATAATATATATATTCTTGATCAGCGTCACTAGACGAGTCGATCTAGCCATGACCGTCTGTCCGTCCGTCTGTCCGTCCGTT----TCTACGCAAACTAGTCTGTCAGTTTTAAAGCTATCA-------------------------------GGCCGGATCT-----------------------------GACAACT-ATATAAT--ATAG----CT
droTak1	scf7180000415870:140758-141004 +		TTATATATAAGTTTGTTA-TTCGCG---AACA------ATTTTTATACCC-------------TTGC---------A--G-------AGGGTATTATGATTTCAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-GACGTTTCCGACCCCATAAAGTATATATATTCTTGATCAGCATCACAAGACGAGTCGATCTAGCCATGTCCGTCTGTCCGTCTGTCCGTCTGTCTGTT----TCTACGCAAACTAGTCTCTCAGTTTTTGAGCTATCG-------------------------------GGACGAAACT-------------------------------------TTCGCAA--AAGT----CT
droEug1	scf7180000407129:46165-46394 -		TTTTGTA--------------------------------TTTTTATACCCGTTACTC--------GT---------A--GAG-TAAAAGGGTATACTAGATTCGT--T-GA----A-----AAGTATGTAACAGAT-AGAAGGA-AGCTTTTGCGACCCTATAAAGTATATATATTCTTGATCAGGATCAATAGCGAAGTCGATTGAGCCATGTCCGTCTGTCCGTCCGTCCGTCCGTCCGTG--TCCGTATGAACG--------------------------CTGAGATCTCAGGAACTATAGCAGATA-CAAAGTTGAGATT-------------------------------------A------------------
dm3	chr3R:27895145-27895332 +		A--------------------------------------------------------------------------------G-TAAGAGGGTATACTAGATTCGT--T-GA----A-----AAGTATGTAACAGGC-AGAAGGA-AGCGTTTCCGAACATATAAAGTATATATATTCTTGATCAGGATCAATAGCCGAGTCGAACTGGCCATGTCCGACTGTCCGTCTTATTGTC------------CGCGTGAGAG--------------------------TCTCGATCTCAGAAACTATTAAAGCTA-GAAGGTTGAGA----------------------------------------------------------
droSim2	2l:20636048-20636257 +		CAACT---------------------------------------------GCCACGCCCACACTTTT---------G--A-------AAAATATA-TATAT-TGG--TCGG----A-----AAGTATGTAACAGGC-AGAAGGA-AGCCATTTCGACTATATAAAGTATATATATTCTTGATCAGGATCAATTGCCGAGTCGATCTAGCCATGTCCGTCTGTCCGTCTG-CCGTCTGTCCGTA--------TGAACG--------------------------TCGAGATCTCGGGAACTATAAAAGCTA-GAAGGTTGAGATT--------------------------------------------------------
droSec2	scaffold_74:125765-125992 +		TGATGTAGC---CAGT----------------------GTAGTTATACCCGTTACTC--------GT---------A--GAG-TAAAAGGGTATGCTCGATTCGT--T-GA----A-----AAGTGTATAACAGGC-AG-------AAATATTCAACCATACAAAGTATATATATTCTTGATCAGGATCAATAGACGAGTCTATCTGGCCATGTATGTACATCAGTCCGTCGGTCCGTTTGTC----AGTATGAATG--------------------------TCG-GATCTCAAGAACTATAAAAGCTA-GAAGGTTGAGATT-------------------------------------A------------------
droYak3	2R:233950-234188 +		TTCGATGTT----TAT---------------------TATTTTTATACCCGTTACTC--------GT---------A--GAG-TAAAAGGGTATACTAGATTCGT--T-GA----A-----AAGTATGTAACAGGC-AGAAGGA-ATTGTTTCCGACCATATAAAGTATATATATTCTTGATCAGGATCAATAGCCGAGTCGATATGACCATGTCCGTCTGTCCGTCCGTTTGTCTGTCTGTCCGTCCGTATGAACG--------------------------CTGTGATCTCAGTAACTACACAAGCTA-GAAAGTTGAGATT-------------------------------------A------------------
droEre2	scaffold_4690:565187-565405 +		A--------------------------------------------------------------------------------G-TAAAAGGGTATACTAGATTCGT--T-GA----A-----AAGTATGTAATAGGGCAGAAGGA-AACGTTTCCGACCATATAAAGTATATATATTCTTGATCAGGATCAATAGCCGAGGCAAACTGGCCATGTCCGTCTGTCCGTCCATCTGTCCGTCCATCTGTCCGTATGAACG--------------------------AATCGATCTCAGGAACTACACAAGCTACAAAAGCTGAAGTT-------------------------------------CTAAAGTCCATAA----CT
dp5	Unknown_group_418:2000-2176 +		TCGCGGGTCAGCTC---------------------------GTTATACCCGATACTC--------AA---------AATAAG-TATTGGGGCATATTAGATTTGTGGT-GA----GAATGGATGTGTGTAACGTCT-CGAAGGA-ATCGTTTCCGACCCCATAAAGTATATATATTCTTGATCAGCATCAATAGCCGAGTCGATTGAGCCCTGTCTGTCTGTCCGTCTG-------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_2471:2678-2888 -		TTGTGTATCAATCCATTCGTGTGCA---GGTG------GTTTTTATACCCGATACTC--------AA---------AATGAG-TATTGGAGTATATTAGATTTGAGGT-AA----AAGTGTATGTGTGTAACGTCC-AGAAGGA-ATCGTTTCCGACCCCATAAAGTATATATATTCTTGATCAGCATCAATAGCCGAGTCGATAGAGCCCTGTCTGTCTGTCCGTCCGTCCGTCTGTCCGTC----CC-----------------------------------------------------------------------------------------------------------------------------------
droWil2	scf2_1100000004949:1636352-1636604 -		TG---CATTAGATCGATGAACTGCGG---CTGGGAGGTATTTTTATACCC-------------TTGT---------A--A-----AAAGAGTATATTAATTTTGG--T-CA----G-----AAGTGTGCAACGCAT-AGAAGGA-AGCATCTCCGACCATATAAAGTATATATATTCTTGATCATCACGACGAGACGAGTTCAAATAGCCATGTCCGC-CGTCCGTCTGTCCGTCCGTCTGGA----TCAACGCAAACTCCTCCTAGACCGTTAGAGCTACAG-------------------------------AGCTGAAATT-------------------------------------TTGCATG-TATAT----CG
droVir3	scaffold_13049:24944180-24944406 -		TTGTCGATCTGTTTATCGATTTTGAA---CTT------TTTATTATACCC-------------TTGC---------A--G-------AGGGTATTATAATTTTGT--T-TT----G-----AAATGTGTAACGCAT-AGAAGGA-GACATCTCCGACCCCATAAAGTACATATATTCTTAATCAGCATCAACAGCCGAGTCGATATAGCCATGTCCGTCTGTCCGTCTGTCT--------GTT----TCTATGCGAACTAGTCTCTCAGTTTTAAAGCTATCT-------------------------------TAATGAAACT--------------------------------------------------------
droMoj3	scaffold_6680:24106375-24106651 -		TCGTGTATTCGTGTGTTCGTTTTTTGCATATA---TATATATTTATACCC-------------TGAACCTATTGAAAATGGGAAATCAGGGTATAATGGTTTTGT----TA----A-----AAGTATGTAACAGGC-AGAACGA-GGCGTGGCAGACCCCATAAAGTATATATATTCTTGATCAGGGCGACGAGCTGAGTTGATTTGGACCTGTCCGTCTGTCTGTCCGTCCGTCCGTCCGTA----TGTATGAACG--------------------------CGTCGATCTCAGAAGATATAAGAGCTA-GAGACTTGAAATT----------------------------------GTTTTTCCT---AGGT----CC
droGri2	scaffold_2533:606-828 -		T-------------------------------------------ATACGC-------------TTGC---------G--G-------AGGGTATGCTAATTTTGT--T-TT----C-----ACGTTTGCAACGCAT-TAGAGGA-GACGTCTCCGATCCCATTAAGTATATATATTCTTGATCAGCAACACTAGCCGAGTTGAAGTAGCCATACCTGTTTGCCTGTCTGTCTGA----------------------A---------CTGTCTTAAAGTTATCC-------------------------------TGATGAGAATTGGTATATATCCGTCGGGCTAGCGTATCGAACTAAT-ATATCAT--CCAG----CT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

TCGTGTATTAGCTCGTTCATCTCCAA---CTG------ACAAATATACAT-------------TAGT---------G--A-------AAGGTAAGTTTATTTTAT--T-TAAAGAA-----AAGATTAAATAGCAG-TGAACGA-GACATCTCCAACCCTATAAAGTATATATATTCTGGATCAGAATGACCTCCTGCGTTATATTAG-CATGTCCGTCTGTCCGTCTGACTGTCTGTTTGTT----TCTAAGAAAATTGGTCTATCAGCTTTAAAGCTATCG-------------------------------AGTTGAAACT-------------------------------------ATATCCT--ATAT----CT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.............................CTG------ACAAATATACAT-------------TAGT---------G--A-------AAGGC................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	1	0
.......TTAGCTCGTTCATCTCCAA---CT.............................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
.......TTAGCTCGTTCATCTCCAA---CTG------AC....................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0
............................................................................................................................................................................................................TTAG-CATGTCCGTCTGTCCGTCTGAC.....................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0
..........GCTCGTTCATCTCCAA---CTG------AC....................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
............................................................................................................................................................................................................TTAG-CATGTCCGTCTGTCCGTC.........................................................................................................................................................	22	3	0.67	2	0	2	0	0	0	0
...............................................................................................................................................................................................................G-CATGTCCGTCTGTCCGTCTG.......................................................................................................................................................	21	20	0.55	11	11	0	0	0	0	0
..........................................................................................................................................................................................................TATTAG-CATGTCCGTCTGTCCGTCTG.......................................................................................................................................................	26	3	0.33	1	1	0	0	0	0	0
............................................................................................................................................................................................................TTAG-CATGTCCGTCTGTCCGTCTG.......................................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0
............................................................................................................................................................................................................TTAG-CATGTCCGTCTGTCCGTCT........................................................................................................................................................	23	3	0.33	1	0	1	0	0	0	0
..............................................................................................................................................................................................................AG-CATGTCCGTCTGTCCGTCTG.......................................................................................................................................................	22	20	0.20	4	0	0	0	0	4	0
............................................................................................................................................................................................................TTAG-CATGTCCGTCTGTCCGTCTGC......................................................................................................................................................	25	20	0.15	3	0	3	0	0	0	0
..........................................................................................................................................................................................................TATTAG-CATGTCCGTCTGTCCGC..........................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0

droBip1

TTTTTCTTTATTCTGTTCATCTGTGG------------CTTTTTATACCC-------------TTGC---------A--G-------AGGGTATTATAATTTTGG--T-CA----A-----AAGTGTGCAACGCAG-TGAAGGA-GACATCTCCGACCCTATAAAGTATATATATTCTTGATCAGGATCACCTCCTGAGTTGATATGAGCATGTCCGTCTGTCCGTCTGTCCGTCTGTCTGTT----TCTACGCAAACTAGTCTCTCAGTTTTAAAGCTATCG-------------------------------TCTTGAAACT-------------------------------------TTGCAC---ACACCCTTCT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TTTTTTATTAGTTGCTCC--------------------ATTTTTATACCC-------------TTGC--------------------AGGGTATTATAATTTCAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-GACCTTTCCGACCCTATAAAGTATATATATTCTTGATCAGCATCAACAGCCGAGTCGATCTAGCCATGTCCGTCTGTCCGTCTGTCCACCTGTCCGTT----TCTACGCAAACTAGTCCCTCAGTTTTAAAGCTATCT-------------------------------AAATGAAACT-------------------------------------TTGCATA--TAGT----CT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

TCATGTATCAGCACTATG-TCAGCA---CCAG------ATATTTATACCC-------------TTGC---------A--GAG-CAAAAGGGTATTATAATTTTAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-AACACCTCAGACCCCATAAAGTATATATATTCTTGATCAGCATCACGAGTAGAATCAGAATA--------CGTCTGAACGTCTGTCCGTCTGTCTGTT----TCTCTTCAAACTAGTCTCTCAGTTTTAAAGCTATCT-------------------------------TGCTGAAAAT-------------------------------------TTTTTCA--AAAG----GT	Size	Hit Count	Total Norm	Total
No Reads

droEle1

GTATA--TTA-CTCGTT--------------G------ATTTTTATACCC-------------TTGC---------A--G-------AGGGTATTATAATTTCAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-GACATCTCCGACCCTATAAAGTATATATATTCTTGATCAGCATCACTAGGCGAGTCGATCTAGCCATGTCCGTCTGTCCGTCCGTCTGTCCGTCCGTT----TCTACGCAAACTAGTCTCTCAGTTTTAAAGCTATCT-------------------------------GCATGAAACT-------------------------------------TTCCCA---AAAG----TT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TTTGGTTTTGGTTTTTTCATTTGTA---TATA-----CATTTTTATACCC-------------TTGC---------A--G-------AGGGTATTATAATTTTGG--T-CA----A-----AAGTGTGCAACGCAG-TGAAGGAAGGCATCTCCGACCCTATAAAGTATATATATTCTTGATCAGGATCACCTCCTGAGTTGATATAGCCATGTCCGTCTGTCCGTCTGTCCGTCTGTCTGTT----TCTACGCAAACTAGTCTCTCAGTTTTAAAGCTATCG-------------------------------AATTGAAACT-------------------------------------TTTCAC---ACAC----CC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TTGTATATTAAAATATATACATATTA-----------CATTTTAATACCC-------------TTGC---------A--G-------AGGGTATGATGATTTCAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-GACTTTTCCGACCCCATATAATATATATATTCTTGATCAGCGTCACTAGACGAGTCGATCTAGCCATGACCGTCTGTCCGTCCGTCTGTCCGTCCGTT----TCTACGCAAACTAGTCTGTCAGTTTTAAAGCTATCA-------------------------------GGCCGGATCT-----------------------------GACAACT-ATATAAT--ATAG----CT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TTATATATAAGTTTGTTA-TTCGCG---AACA------ATTTTTATACCC-------------TTGC---------A--G-------AGGGTATTATGATTTCAG--T-CA----G-----AAGTTTGCAACGCAG-TGAAGGA-GACGTTTCCGACCCCATAAAGTATATATATTCTTGATCAGCATCACAAGACGAGTCGATCTAGCCATGTCCGTCTGTCCGTCTGTCCGTCTGTCTGTT----TCTACGCAAACTAGTCTCTCAGTTTTTGAGCTATCG-------------------------------GGACGAAACT-------------------------------------TTCGCAA--AAGT----CT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TTTTGTA--------------------------------TTTTTATACCCGTTACTC--------GT---------A--GAG-TAAAAGGGTATACTAGATTCGT--T-GA----A-----AAGTATGTAACAGAT-AGAAGGA-AGCTTTTGCGACCCTATAAAGTATATATATTCTTGATCAGGATCAATAGCGAAGTCGATTGAGCCATGTCCGTCTGTCCGTCCGTCCGTCCGTCCGTG--TCCGTATGAACG--------------------------CTGAGATCTCAGGAACTATAGCAGATA-CAAAGTTGAGATT-------------------------------------A------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

A--------------------------------------------------------------------------------G-TAAGAGGGTATACTAGATTCGT--T-GA----A-----AAGTATGTAACAGGC-AGAAGGA-AGCGTTTCCGAACATATAAAGTATATATATTCTTGATCAGGATCAATAGCCGAGTCGAACTGGCCATGTCCGACTGTCCGTCTTATTGTC------------CGCGTGAGAG--------------------------TCTCGATCTCAGAAACTATTAAAGCTA-GAAGGTTGAGA----------------------------------------------------------	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
.....................................................................................................TCGT--T-GA----A-----AAGTATGTAACAGGC-AGA................................................................................................................................................................................................................................................	26	20	11.50	230	0	0	0	0	0	0	1	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	4	0	3	0	0	0	0	0	3	0	2	0	3	0	3	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	7	0	0	0	0	0	0	0	0	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	10	0	0	0	0	6	6	8	0	0	0	0	0	0	0	0	0	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	2	0	0	3	0	0	5	1	5	0	0	0	0	0	0	37	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	28	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	1	0	46	0	0	0	0	0	0	0	0	0	0	29	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	6	0	0	0	0	0	0
.....................................................................................................................................................................................................................TCCGACTGTCCGTCTTATTGTC------------CGCG.................................................................................................................................	26	1	7.00	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	2	1	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
....................................................................................................................................................................................................................................TATTGTC------------CGCGTGAGAG--------------------------TCTCGATC.........................................................................................	25	1	7.00	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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	3	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................ATTGTC------------CGCGTGAGAG--------------------------TCTCG............................................................................................	21	1	6.00	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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	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
.......................................................................................................................................................................................AGGATCAATAGCCGAGTCGAACTGGC...........................................................................................................................................................................	26	7	5.00	35	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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	1	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	1	0	7	0	6	3	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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
.................................................................................................................................................................................................................................................................................................TCTCAGAAACTATTAAAGCTA-GAAGGT...............................................................	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	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	2	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	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
....................................................................................................TTCGT--T-GA----A-----AAGTATGTAACAGGC-...................................................................................................................................................................................................................................................	24	20	4.45	89	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	3	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	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	1	1	0	11	0	0	0	0	0	0	1	0	0	0	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	4	0	0	0	0	0	0	0	0	0	40	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................TTGATCAGGATCAATAGCCGAGTC...................................................................................................................................................................................	24	20	4.20	84	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	2	0	0	0	0	0	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	1	0	0	0	0	0	0	0	0	0	0	14	0	0	0	0	0	0	0	0	3	6	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	32	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	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	9	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0	0	0
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.............................................................................................................................................................................ATTCTTGATCAGGATCAATAG..........................................................................................................................................................................................	21	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................T-GA----A-----AAGTATGTAACAGGC-AGAAGGA-...........................................................................................................................................................................................................................................	26	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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
....................................................................................................................................................................................ATCAGGATCAATAGCCGAGTCGA.................................................................................................................................................................................	23	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................TATTCTTGATCAGGATCAATAGCCG.......................................................................................................................................................................................	25	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................ATATTCTTGATCAGGATCAATAGC.........................................................................................................................................................................................	24	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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	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

droSim2

CAACT---------------------------------------------GCCACGCCCACACTTTT---------G--A-------AAAATATA-TATAT-TGG--TCGG----A-----AAGTATGTAACAGGC-AGAAGGA-AGCCATTTCGACTATATAAAGTATATATATTCTTGATCAGGATCAATTGCCGAGTCGATCTAGCCATGTCCGTCTGTCCGTCTG-CCGTCTGTCCGTA--------TGAACG--------------------------TCGAGATCTCGGGAACTATAAAAGCTA-GAAGGTTGAGATT--------------------------------------------------------	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
............................................................................................................................................................................................................................................................................................CGAGATCTCGGGAACTATAAAAGC........................................................................	24	3	29.67	89	0	0	0	1	0	0	42	25	15	4	2	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCGTCT................................................................................................................................................................	25	20	5.30	106	0	0	4	3	0	0	0	2	0	0	97	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................CGAGATCTCGGGAACTATAAAAGCTA-.....................................................................	26	3	3.33	10	0	0	0	0	0	0	2	1	5	2	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................CGAGATCTCGGGAACTATAAAAGCT.......................................................................	25	3	2.67	8	0	0	1	0	0	0	3	3	1	0	0	0	0	0	0	0	0
..............................................................................................................G----A-----AAGTATGTAACAGGC-AGAAGGA-...........................................................................................................................................................................................................................................	24	3	1.67	5	0	0	0	0	0	0	1	4	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................CGGGAACTATAAAAGCTA-GAAGGT...............................................................	24	2	1.50	3	0	0	0	0	0	0	1	2	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCGTCTG...............................................................................................................................................................	26	20	1.15	23	0	0	1	5	0	0	0	0	0	0	17	0	0	0	0	0	0
...................................................................................................................................................................AAGTATATATATTCTTGATCAGGA.................................................................................................................................................................................................	24	20	1.05	21	0	0	0	0	0	0	21	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................TG-CCGTCTGTCCGTA--------TGAACG--------------------------TCGA.............................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.................................................................TT---------G--A-------AAAATATA-TATAT-TGG--TCGG----A-----...................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................CGGGAACTATAAAAGCTA-GAAGGTTG.............................................................	26	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................CAGGATCAATTGCCGAGTCGAT................................................................................................................................................................................	22	3	1.00	3	0	0	0	0	0	0	1	0	2	0	0	0	0	0	0	0	0
................................................................................................................................................................................................TGCCGAGTCGATCTAGCCATGTCC....................................................................................................................................................................	24	2	1.00	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................CGGGAACTATAAAAGCTA-GAAGGTT..............................................................	25	2	1.00	2	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TGTCCGTA--------TGAACG--------------------------TCGAGATCTCGGG....................................................................................	27	2	1.00	2	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................CGAGATCTCGGGAACTATAAAAG.........................................................................	23	4	1.00	4	0	0	0	0	0	0	1	1	2	0	0	0	0	0	0	0	0
.....................................................................................................................................................................GTATATATATTCTTGATCAGGAT................................................................................................................................................................................................	23	20	0.80	16	0	0	8	0	0	0	0	0	0	0	8	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................AGCTA-GAAGGTTGAGA..........................................................	16	20	0.75	15	0	0	0	0	0	0	15	0	0	0	0	0	0	0	0	0	0
..............................................................................................................G----A-----AAGTATGTAACAGGC-AGAA...............................................................................................................................................................................................................................................	21	8	0.75	6	0	0	0	0	6	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................TCGAGATCTCGGGAACTATAAAAGC........................................................................	25	3	0.67	2	0	0	0	0	0	0	0	1	0	0	1	0	0	0	0	0	0
..............................................................................................................................................................................................................AGCCATGTCCGTCTGTCCGTCT........................................................................................................................................................	22	3	0.67	2	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCCGTC.................................................................................................................................................................	26	20	0.65	13	0	0	0	0	0	0	0	0	1	0	11	1	0	0	0	0	0
.................................................................................................................................................................TAAAGTATATATATTCTTGATCAGGA.................................................................................................................................................................................................	26	20	0.50	10	0	0	0	0	0	0	10	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................TGCCGAGTCGATCTAGCCATGTCCG...................................................................................................................................................................	25	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
...................................................................................................................................................................AAGTATATATATTCTTGATCAGGAT................................................................................................................................................................................................	25	20	0.50	10	0	0	1	0	0	0	4	0	5	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................TTGCCGAGTCGATCTAGCC..........................................................................................................................................................................	19	2	0.50	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................CGGGAACTATAAAAGCTA-GAAGG................................................................	23	2	0.50	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................GTATATATATTCTTGATCAGGATCA..............................................................................................................................................................................................	25	20	0.50	10	0	0	0	2	0	0	8	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................TGCCGAGTCGATCTAGCCATGTCCGTC.................................................................................................................................................................	27	2	0.50	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
................................................................................................................................................................................................................CCATGTCCGTCTGTCCGTCT........................................................................................................................................................	20	6	0.50	3	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTC.....................................................................................................................................................................	22	20	0.40	8	0	0	0	0	0	0	0	6	0	0	2	0	0	0	0	0	0
.............................................................................................................................................................................................................................................TCCGTA--------TGAACG--------------------------TCGAGATCTCGGGA...................................................................................	26	3	0.33	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
.............................................................................................................................................................................................AATTGCCGAGTCGATC...............................................................................................................................................................................	16	3	0.33	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................TCGAGATCTCGGGAACTATAAAAGCTA-.....................................................................	27	3	0.33	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................A--------TGAACG--------------------------TCGAGATCTCGGGAACT................................................................................	24	6	0.33	2	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0
..........................................................................................................................................................................TATATTCTTGATCAGGATCAATTGCCGAGT....................................................................................................................................................................................	30	3	0.33	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................A--------TGAACG--------------------------TCGAGATCTCGGGAA..................................................................................	22	6	0.33	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
..............................................................................................................G----A-----AAGTATGTAACAGGC-AGAAGGA-A..........................................................................................................................................................................................................................................	25	3	0.33	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................CAGGATCAATTGCCGAGTCGA.................................................................................................................................................................................	21	3	0.33	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................TTCTTGATCAGGATCAATTGCCGAGT....................................................................................................................................................................................	26	3	0.33	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................CTTGATCAGGATCAATTGCCGAGT....................................................................................................................................................................................	24	3	0.33	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................CGGGAACTATAAAAGCT.......................................................................	17	10	0.30	3	0	0	0	0	0	0	1	1	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TGTCCGTA--------TGAACG--------------------------TCGA.............................................................................................	18	20	0.30	6	0	0	0	0	0	0	0	0	0	0	6	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCCGT..................................................................................................................................................................	25	20	0.30	6	0	0	0	0	0	0	0	2	0	0	3	0	1	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCC....................................................................................................................................................................	21	20	0.30	6	0	0	0	0	0	0	0	0	0	0	6	0	0	0	0	0	0
......................................................................................................................................................................................................GTCGATCTAGCCATGTCCGTCTGTC.............................................................................................................................................................	25	20	0.30	6	0	0	0	0	0	0	0	0	0	0	6	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................GATCTCGGGAACTATAAAAGCTA-.....................................................................	23	7	0.29	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................CGTA--------TGAACG--------------------------TCGAGATCTCGGGAACTA...............................................................................	28	4	0.25	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCGTC.................................................................................................................................................................	24	20	0.25	5	0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCGTCTT...............................................................................................................................................................	26	20	0.25	5	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................GATCTCGGGAACTATAAAAGCTA-GA...................................................................	25	4	0.25	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................CGGGAACTATAAAAGCTA-GAAGGTA..............................................................	25	4	0.25	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................CAGGATCAATTGCCGAGTCGATA...............................................................................................................................................................................	23	4	0.25	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................TCCGTA--------TGAACG--------------------------TCGAGATCTCGG.....................................................................................	24	4	0.25	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
................................................................................................................................................................................................................................................GTA--------TGAACG--------------------------TCGAGATCTCGGGAACTA...............................................................................	27	4	0.25	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................GAGTCGATCTAGCCATGTCCGTCT................................................................................................................................................................	24	20	0.25	5	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0
.......................................................................................................................................................................................................TCGATCTAGCCATGTCCGTCTGTCCG...........................................................................................................................................................	26	20	0.25	5	0	0	2	0	0	0	0	0	0	0	3	0	0	0	0	0	0
.............................................................................................................................................................................................................................................TCCGTA--------TGAACG--------------------------TCGAGATCTCGGGG...................................................................................	26	4	0.25	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................CGAGATCTCGGGAACTATAAAA..........................................................................	22	4	0.25	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
.......................................................................................................................................................................ATATATATTCTTGATCAGGATCAATT...........................................................................................................................................................................................	26	4	0.25	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................................TGTCCGTA--------TGAACG--------------------------TCGAGATC.........................................................................................	22	20	0.20	4	1	0	0	0	0	0	0	0	1	0	2	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................TGAACG--------------------------TCGAGATCTCGGGAACTATA.............................................................................	26	5	0.20	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................ATATTCTTGATCAGGATCAATTGCC........................................................................................................................................................................................	25	5	0.20	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCGT..................................................................................................................................................................	23	20	0.20	4	0	0	0	3	0	0	0	0	0	1	0	0	0	0	0	0	0
............................................................................................................................TATGTAACAGGC-AGAAGGA-A..........................................................................................................................................................................................................................................	20	20	0.20	4	0	0	0	0	0	0	0	2	0	2	0	0	0	0	0	0	0
.............................................................................................................................................................................................................TAGCCATGTCCGTCTGTCCGTCTG-T.....................................................................................................................................................	25	11	0.18	2	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................TGAACG--------------------------TCGAGATCTCGGGAACTAT..............................................................................	25	6	0.17	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................TGAACG--------------------------TCGAGATCTCGGGAACTA...............................................................................	24	6	0.17	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................................................................TA--------TGAACG--------------------------TCGAGATCTCGGGAACTA...............................................................................	26	6	0.17	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................TA--------TGAACG--------------------------TCGAGATCTCGGGA...................................................................................	22	6	0.17	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................CTAGCCATGTCCGTCTGTCCG...........................................................................................................................................................	21	20	0.15	3	1	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0
......................................................................................................................................................................................................................................CCGTCTGTCCGTA--------TGAACG--------------------------TCGA.............................................................................................	23	20	0.15	3	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TGTCCGTA--------TGAACG--------------------------TCGAGA...........................................................................................	20	20	0.15	3	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................AACTATAAAAGCTA-GAAGGTTGAGA..........................................................	25	20	0.15	3	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................GTCTGTCCGTA--------TGAACG--------------------------TCGAGA...........................................................................................	23	20	0.15	3	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
.................................................................................................................................................................TAAAGTATATATATTCTTGATCAGG..................................................................................................................................................................................................	25	20	0.15	3	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................CCGTCTGTCCGTA--------TGAACG--------------------------TCGAGA...........................................................................................	25	20	0.15	3	0	0	0	0	0	0	2	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................AACTATAAAAGCTA-GAAGGTTGA............................................................	23	20	0.15	3	0	0	0	0	0	0	0	0	0	2	1	0	0	0	0	0	0
....................................................................................................................................................................................................GAGTCGATCTAGCCATG.......................................................................................................................................................................	17	20	0.15	3	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
..........................................................................................................................AGTATGTAACAGGC-AGAAGGA-...........................................................................................................................................................................................................................................	21	20	0.15	3	0	0	0	0	0	0	1	0	1	0	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................GGAACTATAAAAGCTA-GAAGGTTGAGA..........................................................	27	20	0.15	3	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................GATCTCGGGAACTATAAAAGCT.......................................................................	22	7	0.14	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................TGAACG--------------------------TCGAGATCTCGG.....................................................................................	18	7	0.14	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..............................................................................................................................................................................................................AGCCATGTCCGTCTGTCCGTC.........................................................................................................................................................	21	7	0.14	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................TCCGTA--------TGAACG--------------------------TCGAGATCTCG......................................................................................	23	9	0.11	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................CGAGATCTCGGGAACTATAAAAGA........................................................................	24	9	0.11	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................CGATCTAGCCATGTCCGTCTGTCCGT..........................................................................................................................................................	26	20	0.10	2	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATG.......................................................................................................................................................................	18	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCG...................................................................................................................................................................	22	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
.......................................................................................................................................................................................................................................CGTCTGTCCGTA--------TGAACG--------------------------TCGAGA...........................................................................................	24	20	0.10	2	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0
........................................................................................................................................................................................................CGATCTAGCCATGTCCGTCTGTCCG...........................................................................................................................................................	25	20	0.10	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................CGTCTGTCCGTA--------TGAACG--------------------------TCGAGATC.........................................................................................	26	20	0.10	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................GATCTCGGGAACTATAAAA..........................................................................	19	10	0.10	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGT......................................................................................................................................................................	19	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................TATAAAAGCTA-GAAGGTTGAGA..........................................................	22	20	0.10	2	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................TCTGTCCGTA--------TGAACG--------------------------TCGAGATC.........................................................................................	24	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0
........................................................................................................................................................................................................................................................................................................AACTATAAAAGCTA-GAAGGTTGAG...........................................................	24	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
.................................................................................................................................................................TAAAGTATATATATTCTTGATCAGGAT................................................................................................................................................................................................	27	20	0.10	2	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................ATATATATTCTTGATCAGGAT................................................................................................................................................................................................	21	20	0.10	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................TATAAAAGCTA-GAAGGTTG.............................................................	19	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
.................................................................................................................................................................................TTGATCAGGATCAATTGCCGAGTT...................................................................................................................................................................................	24	11	0.09	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
..................................................................................................................................................................................................CCGAGTCGATCTAGCCATGT......................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................TATAAAAGCTA-GAAGGTTGAGATT--------------------------------------------------------	24	20	0.05	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TGTCCGTA--------TGAACG--------------------------TCGAGATCT........................................................................................	23	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................GTCGATCTAGCCATGTCCGTCT................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCCGTCTGT..............................................................................................................................................................	29	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCC....................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.........................................................................................................................................................................................................................................TCTGTCCGTA--------TGAACG--------------------------TCGAGA...........................................................................................	22	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................AGTCGATCTAGCCATGTCCGT..................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................................................TAGCCATGTCCGTCTGTCCG...........................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................GTCGATCTAGCCATGTCCGTCTG...............................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................CTGTCCGTA--------TGAACG--------------------------TCGAGAT..........................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................................................................TATATATATTCTTGATCAGGATCAAT............................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................GAACTATAAAAGCTA-GAAGGTTGAGA..........................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................GATCTAGCCATGTCCGTCTGTCCGT..........................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................GAACTATAAAAGCTA-GAAGGTTGAG...........................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCCGTCTG...............................................................................................................................................................	28	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................ACTATAAAAGCTA-GAAG.................................................................	17	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCATG.......................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCATGTCCG...................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................TCTAGCCATGTCCGTCTGTCCGT..........................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................AGTCGATCTAGCCATGTCCGTCTG...............................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
........................................................................................................................................................................................................................................GTCTGTCCGTA--------TGAACG--------------------------TCGAGATC.........................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................CCGAGTCGATCTAGCCATGTCCG...................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................................................................................................................................................................................CGAGTCGATCTAGCCATGTCCGTCTGT..............................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................................................................GAGTCGATCTAGCCATGTCCGTC.................................................................................................................................................................	23	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................GATCTAGCCATGTCCGTC.................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................ATAAAAGCTA-GAAGG................................................................	15	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................................................................................................................................................................................................TCTGTCCGTA--------TGAACG--------------------------TCGAGATCTC.......................................................................................	26	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................AGTCGATCTAGCCATGTCCG...................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................................TCTAGCCATGTCCGTCTGTCC............................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................TAAAGTATATATATTCTTGATCAG...................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................TCGATCTAGCCATGT......................................................................................................................................................................	15	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................ATTCTTGATCAGGATCA..............................................................................................................................................................................................	17	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................GGAACTATAAAAGCTA-GAAGGTTGAGATT--------------------------------------------------------	29	20	0.05	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................AGTCGATCTAGCCATGTCCGTCTGTC.............................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.......................................................................................................................................................................................................................................CGTCTGTCCGTA--------TGAACG--------------------------TCG..............................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................TAAAAGCTA-GAAGGTTGAGAT.........................................................	21	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................GTCGATCTAGCCATGT......................................................................................................................................................................	16	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................................................................TA--------TGAACG--------------------------TCGAGATC.........................................................................................	16	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................ATAAAAGCTA-GAAGGTT..............................................................	17	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..................................................................................................................................................................................................CCGAGTCGATCTAGCCAT........................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................................................................................................................................................................................................TCTGTCCGTA--------TGAACG--------------------------TCGAG............................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
...........................................................ACACTTTT---------G--A-------AAAATA...............................................................................................................................................................................................................................................................................................	16	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................AAGCTA-GAAGGTTGAGATT--------------------------------------------------------	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................GCCGAGTCGATCTAGCCA.........................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...................................................................................................................A-----AAGTATGTAACAGGC-AGAAGGA-...........................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................................................TAGCCATGTCCGTCTGTCCGG..........................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................GTATATATATTCTTGATCAGG..................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................CCGTA--------TGAACG--------------------------TCGAGATCTC.......................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................GAGTCGATCTAGCCATGT......................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.....................................................................................................................................................................................................AGTCGATCTAGCCATGT......................................................................................................................................................................	17	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.....................................................................................................................................................................................................AGTCGATCTAGCCATGTCCGTC.................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TGTCCGTA--------TGAACG--------------------------TCGAGAT..........................................................................................	21	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................ATAAAAGCTA-GAAGGTTGAGAT.........................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TGTCCGTA--------TGAACG--------------------------TCGAGATCTC.......................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
.........................................................................................................................AAGTATGTAACAGGC-AGAAGGA-...........................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................AAAAGCTA-GAAGGTTGAGATT--------------------------------------------------------	21	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0

droSec2

TGATGTAGC---CAGT----------------------GTAGTTATACCCGTTACTC--------GT---------A--GAG-TAAAAGGGTATGCTCGATTCGT--T-GA----A-----AAGTGTATAACAGGC-AG-------AAATATTCAACCATACAAAGTATATATATTCTTGATCAGGATCAATAGACGAGTCTATCTGGCCATGTATGTACATCAGTCCGTCGGTCCGTTTGTC----AGTATGAATG--------------------------TCG-GATCTCAAGAACTATAAAAGCTA-GAAGGTTGAGATT-------------------------------------A------------------	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
.....................................................................................................................................................................GTATATATATTCTTGATCAGGATCA..............................................................................................................................................................................................	25	20	0.50	10	10	0	0	0
.....................................................................................................................................................................GTATATATATTCTTGATCAGGAT................................................................................................................................................................................................	23	20	0.40	8	7	0	1	0
....................................................................................................................................................................................................................................................................................................CAAGAACTATAAAAGCTA-GAAGGT...............................................................	24	8	0.38	3	3	0	0	0
.....................................................................................................................................................................GTATATATATTCTTGATCAGGATCAA.............................................................................................................................................................................................	26	20	0.30	6	6	0	0	0
.................................................................................................................................................................................................................................................................................................TCTCAAGAACTATAAAAGCTA-.....................................................................	21	8	0.13	1	0	0	1	0
....................................................................................................................................................................................................................................................................................................CAAGAACTATAAAAGCTA-GAAG.................................................................	22	8	0.13	1	1	0	0	0
.......................................................................................................................................................................ATATATATTCTTGATCAGGATCA..............................................................................................................................................................................................	23	20	0.10	2	2	0	0	0
.....................................................................................................................................................................GTATATATATTCTTGATCAGGATCAAT............................................................................................................................................................................................	27	20	0.10	2	2	0	0	0
......................................................................................................................................................................TATATATATTCTTGATCAGGATCAATA...........................................................................................................................................................................................	27	20	0.05	1	1	0	0	0
...........................................................................................................................................................................................................................................................................................................TATAAAAGCTA-GAAGGTTGAGATT-------------------------------------...................	24	20	0.05	1	0	0	1	0
...........................................................................................................................................................................................................................................................................................................TATAAAAGCTA-GAAGGTTGAG...........................................................	21	20	0.05	1	0	1	0	0

droYak3

TTCGATGTT----TAT---------------------TATTTTTATACCCGTTACTC--------GT---------A--GAG-TAAAAGGGTATACTAGATTCGT--T-GA----A-----AAGTATGTAACAGGC-AGAAGGA-ATTGTTTCCGACCATATAAAGTATATATATTCTTGATCAGGATCAATAGCCGAGTCGATATGACCATGTCCGTCTGTCCGTCCGTTTGTCTGTCTGTCCGTCCGTATGAACG--------------------------CTGTGATCTCAGTAACTACACAAGCTA-GAAAGTTGAGATT-------------------------------------A------------------	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
....................................................................................................TTCGT--T-GA----A-----AAGTATGTAACAGGC-AGA................................................................................................................................................................................................................................................	27	20	1.25	25	0	0	25	0	0	0	0	0	0	0	0
....................................................................................AAAAGGGTATACTAGATTCGT--T-GA----A-----AA.................................................................................................................................................................................................................................................................	27	20	0.85	17	0	0	0	0	0	0	17	0	0	0	0
.............................................................................................................................................................................................................TGACCATGTCCGTCTGTCCGT..........................................................................................................................................................	21	20	0.60	12	0	0	0	0	0	0	0	0	0	0	12
.......................................................TC--------GT---------A--GAG-TAAAAGGGTATACTAGAT.......................................................................................................................................................................................................................................................................................	26	20	0.60	12	0	0	0	0	0	0	12	0	0	0	0
.............................................................................................................................ATGTAACAGGC-AGAAGGA-AT.........................................................................................................................................................................................................................................	20	20	0.45	9	0	0	0	0	0	0	0	0	0	0	9
....................................................................................AAAAGGGTATACTAGATTCGT--T-GA----A-----AAGT...............................................................................................................................................................................................................................................................	29	20	0.45	9	0	0	0	0	0	0	9	0	0	0	0
....................................................................................................................................................................................................GAGTCGATATGACCATGTCCGTCTG...............................................................................................................................................................	25	20	0.35	7	0	3	4	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................GAGTCGATATGACCATGTCCGTCTGTC.............................................................................................................................................................	27	20	0.25	5	0	0	5	0	0	0	0	0	0	0	0
.............................................................................................................................................................................ATTCTTGATCAGGATCAATAGCCGAG.....................................................................................................................................................................................	26	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TGTCTGTCCGTCCGTATGAACG--------------------------CTGTGATC.........................................................................................	30	20	0.15	3	0	0	0	0	0	0	0	0	0	0	3
............................................................................................................................................................................................CAATAGCCGAGTCGATATGACCATGT......................................................................................................................................................................	26	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................CCGTCCGTATGAACG--------------------------CTGTGATCTCA......................................................................................	26	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................TGTCTGTCTGTCCGTCCGTATGAACG--------------------------C................................................................................................	27	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................TCGATATGACCATGTCCGTCTGTCCGTC.........................................................................................................................................................	28	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................TAGCCGAGTCGATATGACCA.........................................................................................................................................................................	20	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2
.................................................................................................................................................................................................................CATGTCCGTCTGTCCGTCCGTT.....................................................................................................................................................	22	20	0.10	2	1	1	0	0	0	0	0	0	0	0	0
...............................................................................GAG-TAAAAGGGTATACTAGATTCGT--.................................................................................................................................................................................................................................................................................	25	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................ACACAAGCTA-GAAAGTTGAGAT.........................................................	22	18	0.06	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................CAGGC-AGAAGGA-ATTGTTTCCGACC..............................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................CTGTCTGTCCGTCCGTATGA..............................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
...................................................................................................................A-----AAGTATGTAACAGGC-AGAAGGA-ATT........................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................TCTTGATCAGGATCAATAGCCGA......................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................CAGGC-AGAAGGA-ATTGTTTCCGAC...............................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................GTCCGTCCGTATGAACG--------------------------CTGTGAT..........................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................GTCCGTATGAACG--------------------------CTGTGATCTC.......................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................ATACCCGTTACTC--------GT---------A--GA...........................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................TAGCCGAGTCGATATGACCATGTCCGT..................................................................................................................................................................	27	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0
............................................................................................................................................................................................CAATAGCCGAGTCGATATGACCA.........................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................................................GGC-AGAAGGA-ATTGTTTT...................................................................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................CCATGTCCGTCTGTCCGTCCGTT.....................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................AACTACACAAGCTA-GAAAGTTGAGAC.........................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1
....................................................................................................................................................................................................................GTCCGTCTGTCCGTCCGTT.....................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

droEre2

A--------------------------------------------------------------------------------G-TAAAAGGGTATACTAGATTCGT--T-GA----A-----AAGTATGTAATAGGGCAGAAGGA-AACGTTTCCGACCATATAAAGTATATATATTCTTGATCAGGATCAATAGCCGAGGCAAACTGGCCATGTCCGTCTGTCCGTCCATCTGTCCGTCCATCTGTCCGTATGAACG--------------------------AATCGATCTCAGGAACTACACAAGCTACAAAAGCTGAAGTT-------------------------------------CTAAAGTCCATAA----CT	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.................................................................................................................................................AACGTTTCCGACCATATAAAG......................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1	0
.................................................................................G-TAAAAGGGTATACTAGATTCGT--.................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	1	0	0

dp5

TCGCGGGTCAGCTC---------------------------GTTATACCCGATACTC--------AA---------AATAAG-TATTGGGGCATATTAGATTTGTGGT-GA----GAATGGATGTGTGTAACGTCT-CGAAGGA-ATCGTTTCCGACCCCATAAAGTATATATATTCTTGATCAGCATCAATAGCCGAGTCGATTGAGCCCTGTCTGTCTGTCCGTCTG-------------------------------------------------------------------------------------------------------------------------------------------------------	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
..........................................................................................................................................................................................ATCAATAGCCGAGTCGATTG..............................................................................................................................................................................	20	20	1.45	29	0	29	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................AATAGCCGAGTCGATTGAGCC..........................................................................................................................................................................	21	20	1.30	26	0	26	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................ATAGCCGAGTCGATTGAGCC..........................................................................................................................................................................	20	20	1.20	24	0	23	0	0	0	1	0	0	0	0
....................................................................................................TTTGTGGT-GA----GAATGGATGTGT.............................................................................................................................................................................................................................................................	22	3	1.00	3	0	1	0	0	0	0	0	2	0	0
....................................................................................................TTTGTGGT-GA----GAATGGATGTGTG............................................................................................................................................................................................................................................................	23	3	0.67	2	0	1	0	0	0	0	0	1	0	0
...........................................................................................................................................................................................TCAATAGCCGAGTCGATTGA.............................................................................................................................................................................	20	20	0.55	11	0	11	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................TGAGCCCTGTCTGTCTGTCCGTC.........................................................................................................................................................	23	20	0.50	10	0	10	0	0	0	0	0	0	0	0
................................................................................................................................................................................CTTGATCAGCATCAATAGCCGAGTCGA.................................................................................................................................................................................	27	20	0.50	10	0	10	0	0	0	0	0	0	0	0
...............................................................................................TTAGATTTGTGGT-GA----GAATGG...................................................................................................................................................................................................................................................................	21	5	0.40	2	0	2	0	0	0	0	0	0	0	0
.........................................................................................................................................CGAAGGA-ATCGTTTCCGACCCCATAAAG......................................................................................................................................................................................................................	28	3	0.33	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................TGAGCCCTGTCTGTCTGTCCGTCTG-------------------------------------------------------------------------------------------------------------------------------------------------------	25	20	0.25	5	0	5	0	0	0	0	0	0	0	0
.................................................................................................AGATTTGTGGT-GA----GAATGG...................................................................................................................................................................................................................................................................	19	5	0.20	1	0	0	0	0	0	0	1	0	0	0
.............................................................................................................................................................................................AATAGCCGAGTCGATTGAGCCC.........................................................................................................................................................................	22	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.............................................................................................TATTAGATTTGTGGT-GA----GAAT.....................................................................................................................................................................................................................................................................	21	5	0.20	1	0	0	0	0	0	0	1	0	0	0
...................................................................................................ATTTGTGGT-GA----GAATGGATG................................................................................................................................................................................................................................................................	20	5	0.20	1	0	0	0	1	0	0	0	0	0	0
....................................................................................................TTTGTGGT-GA----GAATGGATG................................................................................................................................................................................................................................................................	19	5	0.20	1	0	1	0	0	0	0	0	0	0	0
............................................................................................ATATTAGATTTGTGGT-GA----G........................................................................................................................................................................................................................................................................	19	6	0.17	1	0	0	0	0	1	0	0	0	0	0
....................................................................................................TTTGTGGT-GA----GAATGGATGTGTGTT..........................................................................................................................................................................................................................................................	25	6	0.17	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................TGAGCCCTGTCTGTCTGTCCGT..........................................................................................................................................................	22	20	0.15	3	0	0	0	0	0	0	0	0	3	0
............................................................................................................................................................................................CAATAGCCGAGTCGATTGAGC...........................................................................................................................................................................	21	20	0.15	3	0	0	0	0	0	3	0	0	0	0
.......................................................................................................................................................................ATATATATTCTTGATCAGCA.................................................................................................................................................................................................	20	20	0.15	3	0	0	0	0	0	0	3	0	0	0
.............................................................................................................................................................................ATTCTTGATCAGCATCAATAGCCG.......................................................................................................................................................................................	24	20	0.15	3	0	0	0	0	0	0	0	0	3	0
..............................................................................................................................................................................TTCTTGATCAGCATCAATAGCCGAGTCG..................................................................................................................................................................................	28	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..................................................................................................................................................TCGTTTCCGACCCCATAAAGTATATATA..............................................................................................................................................................................................................	28	20	0.10	2	0	2	0	0	0	0	0	0	0	0
....................................................................................................................................................................................ATCAGCATCAATAGCCGAGTCGAT................................................................................................................................................................................	24	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.................................................................................................................................................................................TTGATCAGCATCAATAGCC........................................................................................................................................................................................	19	20	0.10	2	0	0	0	0	0	2	0	0	0	0
...............................................................................................................................................................................TCTTGATCAGCATCAATAGC.........................................................................................................................................................................................	20	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..................................................GATACTC--------AA---------AATAAG-TATTGGGG.................................................................................................................................................................................................................................................................................................	23	18	0.06	1	0	1	0	0	0	0	0	0	0	0
.................................................CGATACTC--------AA---------AATAAG-TATTGGGG.................................................................................................................................................................................................................................................................................................	24	18	0.06	1	0	1	0	0	0	0	0	0	0	0
.................................................CGATACTC--------AA---------AATAAG-TATTGGG..................................................................................................................................................................................................................................................................................................	23	19	0.05	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................TATATATTCTTGATCAGCA.................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................TCTTGATCAGCATCAATAGCC........................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0
.......................................................................................................................................................................................AGCATCAATAGCCGAGTCG..................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	1	0	0	0
.............................................................................................................................................................................ATTCTTGATCAGCATCAATAGC.........................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	1	0
....................................................................................................................................................GTTTCCGACCCCATAAAGTATA..................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................TGAGCCCTGTCTGTCTGTCC............................................................................................................................................................	20	20	0.05	1	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................TGAGCCCTGTCTGTCTGTC.............................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0	0	0	0
.......................................................................................................................................................TCCGACCCCATAAAGTATATATATT............................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................................TTGAGCCCTGTCTGTCTGTCCG...........................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	1	0
..............................................................................................................................................................................................ATAGCCGAGTCGATTGAGC...........................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................GTCGATTGAGCCCTGTCTGTCT................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................GAGTCGATTGAGCCCTGTCTGTC.................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................CGATTGAGCCCTGTCTGTCTG...............................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...............................................................................................................................................................................................TAGCCGAGTCGATTGAGCCC.........................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1	0	0	0	0
.............................................................................................................................................................................................................GAGCCCTGTCTGTCTGTCC............................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	1	0	0

droPer2

TTGTGTATCAATCCATTCGTGTGCA---GGTG------GTTTTTATACCCGATACTC--------AA---------AATGAG-TATTGGAGTATATTAGATTTGAGGT-AA----AAGTGTATGTGTGTAACGTCC-AGAAGGA-ATCGTTTCCGACCCCATAAAGTATATATATTCTTGATCAGCATCAATAGCCGAGTCGATAGAGCCCTGTCTGTCTGTCCGTCCGTCCGTCTGTCCGTC----CC-----------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
........................................................................................................................................................................................................CGATAGAGCCCTGTCTGTCTGTC.............................................................................................................................................................	23	19	0.16	3	0	3	0	0	0	0
.......................................................................................................................................................................................................................TGTCTGTCCGTCCGTCCGTCT................................................................................................................................................	21	20	0.15	3	0	3	0	0	0	0
........................................................................................................................................................................................................CGATAGAGCCCTGTCTGTCTGTCC............................................................................................................................................................	24	18	0.11	2	0	1	0	0	1	0
....................................................................................................................................................................................................GAGTCGATAGAGCCCTGTCT....................................................................................................................................................................	20	20	0.10	2	0	2	0	0	0	0
........................................................................................................................................................................................................CGATAGAGCCCTGTCTGTCTGTCCGT..........................................................................................................................................................	26	17	0.06	1	0	1	0	0	0	0
........................................................................................................................................................................................................CGATAGAGCCCTGTCTGTCTGTCCG...........................................................................................................................................................	25	18	0.06	1	0	1	0	0	0	0
....................................................TACTC--------AA---------AATGAG-TATTGGA..................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
........................................................................................................................................................................................................CGATAGAGCCCTGTCTGTC.................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0
..............................................................................TGAG-TATTGGAGTATATTAGA........................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................................................................TCAATAGCCGAGTCGATAGAGCCCTGT......................................................................................................................................................................	27	20	0.05	1	1	0	0	0	0	0
...........................................................................................................T-AA----AAGTGTATGTGTGTAACGTCC-...................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................AGTCGATAGAGCCCTGTCTGT..................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0
..............................................................................TGAG-TATTGGAGTATATTAGATT......................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0

droWil2

TG---CATTAGATCGATGAACTGCGG---CTGGGAGGTATTTTTATACCC-------------TTGT---------A--A-----AAAGAGTATATTAATTTTGG--T-CA----G-----AAGTGTGCAACGCAT-AGAAGGA-AGCATCTCCGACCATATAAAGTATATATATTCTTGATCATCACGACGAGACGAGTTCAAATAGCCATGTCCGC-CGTCCGTCTGTCCGTCCGTCTGGA----TCAACGCAAACTCCTCCTAGACCGTTAGAGCTACAG-------------------------------AGCTGAAATT-------------------------------------TTGCATG-TATAT----CG	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
................................................................................................................................................................................................................................................................................TAGAGCTACAG-------------------------------AGCTGAAATT-------------------------------------TTGC...............	25	20	0.65	13	0	0	0	13	0
..........................................TTATACCC-------------TTGT---------A--A-----AAAGAGT................................................................................................................................................................................................................................................................................................	21	3	0.33	1	0	0	1	0	0
......................................................................................................................................................................................................................................................................................TACAG-------------------------------AGCTGAAATT-------------------------------------TTGCATG-...........	22	20	0.10	2	0	0	0	2	0
...................................................................................................................................................................................................CGAGTTCAAATAGCCATGTCC....................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1
.............................................................................................................................................................CATATAAAGTATATATATTCT..........................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
............................................................................................................................................................................................................................................................................CCGTTAGAGCTACAG-------------------------------AGCTGA............................................................	21	20	0.05	1	1	0	0	0	0
..............................................................................................................................................................................................................................CCGTCTGTCCGTCCGTCTGGA----TCAACG...............................................................................................................................	27	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................TAGACCGTTAGAGCTACAG-------------------------------AGCTGAA...........................................................	26	20	0.05	1	0	1	0	0	0

droVir3

TTGTCGATCTGTTTATCGATTTTGAA---CTT------TTTATTATACCC-------------TTGC---------A--G-------AGGGTATTATAATTTTGT--T-TT----G-----AAATGTGTAACGCAT-AGAAGGA-GACATCTCCGACCCCATAAAGTACATATATTCTTAATCAGCATCAACAGCCGAGTCGATATAGCCATGTCCGTCTGTCCGTCTGTCT--------GTT----TCTATGCGAACTAGTCTCTCAGTTTTAAAGCTATCT-------------------------------TAATGAAACT--------------------------------------------------------	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
.........................................................................................................................AAATGTGTAACGCAT-AGAAGGA-GACAT......................................................................................................................................................................................................................................	27	20	1.70	34	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	8	0	0	0	0	0	0	0	12	0	0	0	0	14	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................TATATTCTTAATCAGCATCAACAGCC........................................................................................................................................................................................	26	20	0.55	11	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	11	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................TAATCAGCATCAACAGCCGAGTCGATA...............................................................................................................................................................................	27	20	0.25	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	2	0	0	0	2	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................G-----AAATGTGTAACGCAT-AGAAGGA-GACA.......................................................................................................................................................................................................................................	27	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	2	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
.......................................................................................................................................................................................................................................................TCTATGCGAACTAGTCTCTCAGTTT............................................................................................................	25	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	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
.................................................................................................................................................................................TTAATCAGCATCAACAGCCGAGTCGATA...............................................................................................................................................................................	28	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................TATATTCTTAATCAGCATCAACAGC.........................................................................................................................................................................................	25	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................TCAGCATCAACAGCCGAGTCGA.................................................................................................................................................................................	22	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................CAGCATCAACAGCCGAGTCGATATAG............................................................................................................................................................................	26	20	0.10	2	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
..................................................................................................................................................................................................................................................................TAGTCTCTCAGTTTTAAAGCTATCT-------------------------------..................................................................	25	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................................ATATTCTTAATCAGCATCAACAGCC........................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................TCTATGCGAACTAGTCTCTCAGTTTT...........................................................................................................	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	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
.......................................................................................................................................................................................................TCGATATAGCCATGTCCGTCTGT..............................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................................TT----TCTATGCGAACTAGTCTCT..................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................TGTAACGCAT-AGAAGGA-GACATCTC...................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................A-GACATCTCCGACCCCATAAAGT.....................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
.............................................................................................................................GTGTAACGCAT-AGAAGGA-GACAT......................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................CTTAATCAGCATCAACAGCCGAGTC...................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................TGTAACGCAT-AGAAGGA-GACA.......................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................TCCGACCCCATAAAGTACATATATTC...........................................................................................................................................................................................................	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	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
...........................................................................................................................................................................................TCAACAGCCGAGTCGATATAGCCATG.......................................................................................................................................................................	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	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
.........................................................................................................................AAATGTGTAACGCAT-AGAAGGA-GAC........................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................AATGTGTAACGCAT-AGAAGGA-GACATC.....................................................................................................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................TCTCTCAGTTTTAAAGCTATC..................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................GTT----TCTATGCGAACTAGTCTCTCAGT..............................................................................................................	26	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
.........................................................................................................................................................................................CATCAACAGCCGAGTCGATATAG............................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................AAATGTGTAACGCAT-AGAAGGA-GAG........................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.......................................................................................................................................................................................................TCGATATAGCCATGTCCGTCTGTCC............................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................................CAACAGCCGAGTCGATATAGCCATG.......................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................TCTATGCGAACTAGTCTCTCAGTT.............................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................CGATATAGCCATGTCCGTCTG...............................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................................................................................................................................................................TAGTCTCTCAGTTTTAAAGCTA....................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................TAACGCAT-AGAAGGA-GACATCT....................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................TCAGCATCAACAGCCGAGTCGATATAG............................................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................AATGTGTAACGCAT-AGAAGGA-GACA.......................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................TATATTCTTAATCAGCATCAACAG..........................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................TCAGCATCAACAGCCGAGTCG..................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droMoj3

TCGTGTATTCGTGTGTTCGTTTTTTGCATATA---TATATATTTATACCC-------------TGAACCTATTGAAAATGGGAAATCAGGGTATAATGGTTTTGT----TA----A-----AAGTATGTAACAGGC-AGAACGA-GGCGTGGCAGACCCCATAAAGTATATATATTCTTGATCAGGGCGACGAGCTGAGTTGATTTGGACCTGTCCGTCTGTCTGTCCGTCCGTCCGTCCGTA----TGTATGAACG--------------------------CGTCGATCTCAGAAGATATAAGAGCTA-GAGACTTGAAATT----------------------------------GTTTTTCCT---AGGT----CC	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.........CGTGTGTTCGTTTTTTGCA................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
...........................................................................................................................................................................................CGACGAGCTGAGTTGATTTGGA...........................................................................................................................................................................	22	6	0.17	1	1	0	0	0	0	0
..............................................................................................................................................................................................CGAGCTGAGTTGATTTGGA...........................................................................................................................................................................	19	6	0.17	1	1	0	0	0	0	0
............................................................................................................................................ACGA-GGCGTGGCAGACCCCATA.........................................................................................................................................................................................................................	22	6	0.17	1	0	0	0	1	0	0
..................................................................................................................................................................AAAGTATATATATTCTTGATCAGG..................................................................................................................................................................................................	24	20	0.10	2	2	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................AAGAGCTA-GAGACTTGAAATT----------------------------------GTT...................	24	14	0.07	1	1	0	0	0	0	0
..........................................................................................................................................................GACCCCATAAAGTATATAT...............................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
.........................................................................................................................................................................................................................................TCCGTCCGTA----TGTATGAACG--------------------------CGTC.............................................................................................	24	20	0.05	1	1	0	0	0	0	0
...........................................................................................................................................................................................................................................................TGAACG--------------------------CGTCGATCTCAGAAG..................................................................................	21	20	0.05	1	1	0	0	0	0	0
.......................................................................................................................................................................................AGGGCGACGAGCTGAGTTGATT...............................................................................................................................................................................	22	20	0.05	1	0	0	0	1	0	0

droGri2

T-------------------------------------------ATACGC-------------TTGC---------G--G-------AGGGTATGCTAATTTTGT--T-TT----C-----ACGTTTGCAACGCAT-TAGAGGA-GACGTCTCCGATCCCATTAAGTATATATATTCTTGATCAGCAACACTAGCCGAGTTGAAGTAGCCATACCTGTTTGCCTGTCTGTCTGA----------------------A---------CTGTCTTAAAGTTATCC-------------------------------TGATGAGAATTGGTATATATCCGTCGGGCTAGCGTATCGAACTAAT-ATATCAT--CCAG----CT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

-22.5	-22.5	-22.3	-22.3

dan_1128

scaffold_13045:1052955-1053105 +

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