dvi_10347

intron [Dvir\GJ12419-in]; exon [dvir_GLEANR_1239:6]; exon [dvir_GLEANR_1239:7]; CDS [Dvir\GJ12419-cds]; CDS [Dvir\GJ12419-cds]

Name	Class	Family	Strand
(TTG)n	Simple_repeat	Simple_repeat	+

##################################################------------------------------------------------################################################## TGGTCCACCAGGTGGGCTGCCCGCCTCGCTGCTGCCGCCGCCGCCAGCGGGTCAACAACAACAACAACAACAGCAGCAGCAGCAGCAACAGCCGCCACCAGGCATGCATCCAATGCTGCAGAGGCATTTGGCACCACCACCGCCGCAG ************************************************...............................((.((....)).))...************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060685 9xArg_0-2h_embryos_total	V053 head	M047 female body	SRR060670 9_testes_total	SRR060665 9_females_carcasses_total	SRR060667 160_females_carcasses_total	SRR060678 9x140_testes_total	SRR060686 Argx9_0-2h_embryos_total	SRR060687 9_0-2h_embryos_total
..............................................................................GCAGCAGCAACAGCCGCCACC.................................................	21	0	1	1.00	1	1	0	0	0	0	0	0	0	0
..................GCCCGCCTCGCTGATGCGGCA.............................................................................................................	21	3	6	0.17	1	0	1	0	0	0	0	0	0	0
...........................................................AACAACAACAACAGCAGCAGCAGCAGCA.............................................................	28	0	20	0.10	2	0	0	2	0	0	0	0	0	0
...ACCACCAGGAGGGCTGCCTGC............................................................................................................................	21	3	10	0.10	1	0	0	0	1	0	0	0	0	0
...................................................................CAACAGCAGCAGCAGCAGCAACAGC........................................................	25	0	20	0.05	1	0	0	0	0	0	0	0	0	1
....................................................CAACAACAACAACAACAACAGCAGCA......................................................................	26	0	20	0.05	1	0	0	1	0	0	0	0	0	0
............................................................ACAACAACAACAGCAGCAGCA...................................................................	21	0	20	0.05	1	0	0	0	0	0	0	0	1	0
.....................................................................ACAGCAGCAGCAGCAGCAACA..........................................................	21	0	20	0.05	1	0	0	0	0	0	0	1	0	0
.................................................................AACAACAGCAGCAGCAGCA................................................................	19	0	20	0.05	1	0	0	0	0	1	0	0	0	0
.......................................................CAACAACAACAACAACAGCAGCAGCA...................................................................	26	0	20	0.05	1	0	0	0	0	0	1	0	0	0

ACCAGGTGGTCCACCCGACGGGCGGAGCGACGACGGCGGCGGCGGTCGCCCAGTTGTTGTTGTTGTTGTTGTCGTCGTCGTCGTCGTTGTCGGCGGTGGTCCGTACGTAGGTTACGACGTCTCCGTAAACCGTGGTGGTGGCGGCGTC ************************************************...............................((.((....)).))...************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	GSM1528803 follicle cells	V116 male body	SRR060672 9x160_females_carcasses_total	M061 embryo	V053 head	SRR060679 140x9_testes_total	M027 male body	SRR060670 9_testes_total
..................................................................................................................CTACGGCTCCGTAAACCG................	18	2	16	0.69	11	11	0	0	0	0	0	0	0
......TGGTCCACCTTATGGGCGGA..........................................................................................................................	20	3	2	0.50	1	0	0	1	0	0	0	0	0
...............................................................................................................................ATCCGCGGTGGTGGCGGCTTC	21	3	3	0.33	1	0	1	0	0	0	0	0	0
.........TCCACCCAAAGGGCGAAGC........................................................................................................................	19	3	6	0.33	2	0	0	0	2	0	0	0	0
.........................................GCGGTGGCTCAGTTGTTG.........................................................................................	18	2	4	0.25	1	0	1	0	0	0	0	0	0
...................................................................................................................TACGGCTCCGTAAACCG................	17	2	20	0.10	2	2	0	0	0	0	0	0	0
.............................................................................................CGGTGGTCGGTACGTAGTGT...................................	20	3	14	0.07	1	0	0	0	0	1	0	0	0
.........................................................................GTCGTCGTCGTCGTTGTC.........................................................	18	0	20	0.05	1	0	0	0	0	0	0	0	1
........................................................TTGTTGTTGTTGTTGTCGT.........................................................................	19	0	20	0.05	1	0	0	0	0	0	1	0	0
................................................................GTTGTTGTCGTCGTCGTC..................................................................	18	0	20	0.05	1	0	0	0	0	0	1	0	0
.......................................................................................TGTCGGTGGTGGTGCGTAAG.........................................	20	3	20	0.05	1	0	0	0	0	1	0	0	0
..................................................CAGTTGTTGTTGTTGTTG................................................................................	18	0	20	0.05	1	0	0	0	0	0	0	1	0

Species	Coordinate	ID	Alignment
droVir3	scaffold_12963:3462003-3462150 -	dvi_10347	TGGTCCACCA---GGTGGG-----C----TG---C------------------------------CCG-CC---TCGCTGCTGCCGCCGCCGCCAGC-----GGGTCAACAACAAC---A---------------------A------------CAACAACAGCAGCAGCAGCAGCAACA------------------------------------------------GCC---GCCACC--------------AGGCATGCATCCAATGCTGCAGAGGCATTTGGCAC------------------------------CACCACCGCC-------------GCAG
droMoj3	scaffold_6500:13836119-13836260 -		TGGTCCAGCC---GGTGGG-----C----TT---C------------------------------CAG-CT---TCACTTCTACCTCC------ACCG--CCGGGTGGACAACAGC---A---------------------G------------CAGCAGCAGCAGCAGCAGCCGCAGCA------------------------------------------------CCC---TCCACC--------------GGGCATGCATCCAATGCTGCAGCGCCATTTGGC---------------------------------ACCGCCGCC-------------ACAG
droGri2	scaffold_15252:3019731-3019848 -		AGGTCAGC---------------------TG---C------------------------CC------G-CA---TCGCTGCTACCACCACCACCTCC-----GTC------------GCC------------C------------------------CAGCAG---------C---AACA------------------------------------------------GCTGCCTC---C--------------GGGCATGCATCCCATGCTGCAGCGCCATTTGGCAC---------------------------CAGCACCGCCGCC-------------ACAG
droWil2	scf2_1100000004837:1588667-1588813 -		TGGTCCACCG---GGAATGCAAGGAG----TACC--------------------ACCACCAACGC---A--GCA--GC---AGC--------------------AGCAACAACAAC------------AGCAGCAGCAACAGCAG------------CAGCAACAACAGCAGCAGCAA------CAGCA------------------GCAGCAACAGCAGCAGC---AACA-------ACAGCA----------------------------------------AC---------------------------------AACAGCAGCA---AC---A----GCC-
dp5	2:16449066-16449207 -		AGCAGCCGCT---GC--------------TG---C------------------------------CGCC--G--TCGCAG---CCGCTGCC---GCCGTACAGCAGCAGCAACAAC---A------------------------------------------A---------C------AGCAACAACAG-CAGCA--GCAGCAAC------------------AACAGCC---ACCGCA--------------AGTGGT------GGTGCCCCAGCCCCATCTGACGC---------------------------CCCAACAACAGCA-------------ACAG
droPer2	scaffold_0:3947782-3947920 +		AGCTGCCGCT---GC--------------TG---C------------------------------CGCC--G--TCGCAG---CCGCTGCC---GCCGTACAGCAGCAACAACAAC---A---------------------G------------CAACAACAGCAGCAGCAGCAACAACA------------------------------------------------GCC---CCCGCA--------------AGTGGT------GGTGCCCCAGCCCCATCTGACGC---------------------------CCCAACAACAGCA-------------ACAG
droAna3	scaffold_13266:14190086-14190224 +		GGCTA--CCATCGGCCAG------------A---TCACCCTCACGGCGATGTCCACTGCC----------------------------------------CAGC------AGCAGC---A---------------------A---------------CAGCAA---------C------AACAACAGCAA-CAGCA--GCAGCAAC------------------AACAGCA---GC-AGCAGCAA----------------------------------TCCCAGACCACG----GA--------------TG----CCAA---CAACA------ACACGTCGCAG
droBip1	scf7180000396708:1714833-1714975 -		CCGCCATGCA---GCAGC-----------------------------------------------A--------CCACC-------------------------TCCAGCAGC------A------------ACAGCAGCAGCAG---CAGTTGCAACAGCAA---------C------AACAACAGCAG-CAGCAGG--------AGCAGCAACAG---CAGCAACACTT-------GCAGCA----------------------A---CTGCATCAGCATGC---------------------------CGCTCAC-CACCACC-----------TGC-CTCAG
droKik1	scf7180000302392:163627-163762 +		TGGCCTCCCA---GGCAGCCATGGC-------------------------------------GGC---A--GCA--GC---TGCAGCGGCCTTCA---ATGCGGCGCAACAGCAGC---A---------------------G------------CAGCAACAGCATCAGCAGCAGCAACACCAGCAATCC-C--------------AGCA----------------------------GCAGCAA----------------------------------CAGCAAACCC------------------------------CACAACAGCA-------------GCA-
droFic1	scf7180000454107:1559460-1559594 -		TTGTTTACCA---GGCAGG-----C----GC---C--------------------------------------------------------------C------CCCAACTGCAGC---A---------------------G------------CAGCAGCAACAGCAGCAACAGCAACAACAGCAGCAG-C--------------AGCA----------------------------ACAGCAG----------------------------------CGACAGTCCCCGCAGCAACATCTATTGTTAGACGCTGG--CGTCGCTGTC-------------GACG
droEle1	scf7180000491232:145471-145604 -		CCATCACGCA---GACGACCACCAC----------------------GTTGCC-------------------------------CACTGTTGCCAGC---C---TGC---AGCAGC---A---------------------A------------CAGCAGCAACAGCAGCAGCAGCAACAACAGCAGCAG-C--------------AACA----------------------------ACAGCAACA-------GGGAGG------CATATCGCAGCC-----------------------------------------TACAAC-GCA-------------ACAG
droRho1	scf7180000779334:727974-728132 -		CAATCTGTCG---GTGAA-----GAT----GGCC--------------------GCCGCCCAGGC---A--GCC--GC---TGCTGCCGCCGCC---TACCAGAACCAGCAGCAAC---A---------------------GCAACAG------CAGCAGCAGCAACAGCAGCAGCAACACCACCAGCAG-C--------------AACAGCAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACAGCAGCAGCAGCACG--GCAA
droBia1	scf7180000301703:417259-417383 -		TGCACCACCC---GCCGGC------------GC-----------------------------------C--G---CGGGTCTGCCGCCACCCACACC-----GCCGCACCACCTGC---A---------------------G------------CAGCAGCAGCAGCAGCAGCAGCAACA------GCA---------------------------------------GCC--------------------------------------GCAGCAGCAGCACCAGGCAC------------------------------CACCA-----------CCACC-GCCGT
droTak1	scf7180000413903:77249-77387 +		TGC-CAAGCA---GGTGG-----------------------------------------------C-----GCA--GC---TGCAGCAG-----------------C------------ATCAGTCGCACCACCAGCAG---------------CAACAGCAA---------C------AGCAACAGCAG-CAGCA--GCA---------------------------GGA-------GCAGCAACAGCGCACCA-GCCTGCATCCGCAGATCCACCACCA------------------------------------CCACCAACAGCA-------------GCAG
droEug1	scf7180000409117:114576-114702 -		TCCA---------GG---------CCTGCCT---C---------------------CTGGTGCCC---A--A-----CAGCAAT--------------------CTCAACAGCAGCAGCA------------GCAGCAGCAACAG---CAGCAGCAACAGCAA---------C------AACAACAGCAGGC--------------AGCAGCGGCG------------GCT---GC-AGCAGCA----------------------------------------GC---------------------------------AGCAGCAGCC-------------GCA-
dm3	chr3L:17070499-17070642 -		TAGTTTAGCC---GCTGC-----------------------------------------------C-G-CG---TCCGTGCTGCA--------------------------ACAGC---A---------------------G------------CAGCAGCAACAGCAGCAGCAGCAACAACAACAGCAG-C--------------AGCAGCAACA------------GCA---CC-ACC--------------AGCAGC------TGCACCACA--------------------CACACCCACAGTCACCCGCCCAC-AGCCACGCCC-------------ACCA
droSim2	x:3664443-3664589 +		TAATCTATCG---GTTAA-----GAT----GGCC--------------------GCTGCTCAGGC---A--GCA--GC---TGCAGCAGCCGCC---TATCAAAATCAACAACAGC---A---------------------G------------CAGCAGCAACAGCAGCAGCAGCAACACCACCAGCAG-C--------------AGCAACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACAGCA------GCACG--GCAA
droSec2	scaffold_4:2744077-2744223 -		TAATCTATCG---GTTAA-----GAT----GGCC--------------------GCTGCTCAGGC---A--GCA--GC---TGCAGCAGCCGCC---TATCAAAATCAACAACAGC---A---------------------G------------CAGCAGCAACAGCAGCAGCAGCAACACCACCAGCAG-C--------------AGCAACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACAGCA------GCACG--GCAA
droYak3	2R:20188542-20188691 -		CAGGCCACCA---TTGGCC-----A----GA---TCACCCTGACGGCCATGTCCACGGCG-----------------CAGCAGCAGC-----------------AGCAACAGCAGC------------AGCAACAACAGCAGCAG------------CAGCAGCAACAGCAGCAACAA------CAGCAG-C--------------AGCAACAGCA------------GCA---GC-AGCAGCA----------------------------------------AC---------------------------------CACAGCAGCA-------------GCAG
droEre2	scaffold_4845:15922801-15922953 -		AAGACCGACA---AGAAG------C----TG---C-----------------C-CGATCCCTCG-------------CAGCAGCATC-----------------AGCAGCAGCAGC------------ATCAGCAGCAGCATCAGCAGCAGCAGCAGCATCAGCAGCAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------AGCATCAGCAGCAGCAGC---A------------------------------------------TCAGCAGCACCAGCAGG-CCCAG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

TGGTCCACCA---GGTGGG-----C----TG---C------------------------------CCG-CC---TCGCTGCTGCCGCCGCCGCCAGC-----GGGTCAACAACAAC---A---------------------A------------CAACAACAGCAGCAGCAGCAGCAACA------------------------------------------------GCC---GCCACC--------------AGGCATGCATCCAATGCTGCAGAGGCATTTGGCAC------------------------------CACCACCGCC-------------GCAG	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
........................................................................................................................................................................GCAGCAGCAACA------------------------------------------------GCC---GCCACC--------------............................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................AAC---A---------------------A------------CAACAACAGCAGCAGCAGCAGCA.........................................................................................................................................................................	28	20	0.10	2	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
.............................................................................................................................................................CAACAGCAGCAGCAGCAGCAACA------------------------------------------------GC....................................................................................................................	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
..........................................................................................................CAACAACAAC---A---------------------A------------CAACAACAGCAGCA..................................................................................................................................................................................	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
..................................................................................................................AC---A---------------------A------------CAACAACAGCAGCAGCA...............................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................ACAGCAGCAGCAGCAGCAACA------------------------------------------------......................................................................................................................	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
...........................................................................................................................................................AACAACAGCAGCAGCAGCA............................................................................................................................................................................	19	20	0.05	1	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
.............................................................................................................CAACAAC---A---------------------A------------CAACAACAGCAGCAGCA...............................................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

TGGTCCAGCC---GGTGGG-----C----TT---C------------------------------CAG-CT---TCACTTCTACCTCC------ACCG--CCGGGTGGACAACAGC---A---------------------G------------CAGCAGCAGCAGCAGCAGCCGCAGCA------------------------------------------------CCC---TCCACC--------------GGGCATGCATCCAATGCTGCAGCGCCATTTGGC---------------------------------ACCGCCGCC-------------ACAG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
...........................................................................................................................................................................................................................................................................ATGCTGCAGCGCCATTTGGC---------------------------------A.........................	21	1	1.00	1	1	0	0	0	0	0
.......................................................................................................GGTGGACAACAGC---A---------------------G------------CAGCA...........................................................................................................................................................................................	20	3	0.33	1	1	0	0	0	0	0
...........................................................................................................GACAACAGC---A---------------------G------------CAGCAGCAGCAGCAGCA...............................................................................................................................................................................	28	15	0.13	2	2	0	0	0	0	0
...........................................................................................................GACAACAGC---A---------------------G------------CAGCAGCAGCAGCAGC................................................................................................................................................................................	27	20	0.05	1	1	0	0	0	0	0
...........................................................................................................................................................AGCAGCAGCAGCAGCAGCCGC..........................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0

droGri2

AGGTCAGC---------------------TG---C------------------------CC------G-CA---TCGCTGCTACCACCACCACCTCC-----GTC------------GCC------------C------------------------CAGCAG---------C---AACA------------------------------------------------GCTGCCTC---C--------------GGGCATGCATCCCATGCTGCAGCGCCATTTGGCAC---------------------------CAGCACCGCCGCC-------------ACAG	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
.................................................................................................................................................................AG---------C---AACA------------------------------------------------GCTGCCTC---C--------------GGGCAT......................................................................................	22	1	1.00	1	1	0
..................................C------------------------CC------G-CA---TCGCTGCTACCACC..................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1

droWil2

TGGTCCACCG---GGAATGCAAGGAG----TACC--------------------ACCACCAACGC---A--GCA--GC---AGC--------------------AGCAACAACAAC------------AGCAGCAGCAACAGCAG------------CAGCAACAACAGCAGCAGCAA------CAGCA------------------GCAGCAACAGCAGCAGC---AACA-------ACAGCA----------------------------------------AC---------------------------------AACAGCAGCA---AC---A----GCC-	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
..GTCCACCG---GGAATGCAAGGA.................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0
......ACCG---GGAATGCAAGGAG----TACC--------------------A...................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	1	0
...................................................................................................................................AGCAGCAACAGCAG------------CAGCAACAACAGC................................................................................................................................................................................	27	10	0.10	1	0	1	0	0	0
......................................................................................................................................................................CAGCAGCAGCAA------CAGCA------------------GCA........................................................................................................................................	20	20	0.10	2	0	0	0	2	0
............................................................................................................................................................................................A------------------GCAGCAACAGCAGCAGC---AACA-------ACAGC.......................................................................................................	27	10	0.10	1	0	1	0	0	0
........................................................................................................AGCAACAACAAC------------AGCAGCAGCA................................................................................................................................................................................................................	22	20	0.10	2	0	0	0	2	0
........................................................................................................................................................................................CAGCA------------------GCAGCAACAGCAGCA............................................................................................................................	20	20	0.10	2	0	0	0	2	0
.................................................................................................................................................................................................................AGCAACAGCAGCAGC---AACA-------ACA.........................................................................................................	22	20	0.10	2	0	0	0	0	2
......................................................................................................................................AGCAACAGCAG------------CAGCAACAACA..................................................................................................................................................................................	22	20	0.10	2	0	0	0	0	2
....................................................................................................................................................................................................................................ACA-------ACAGCA----------------------------------------AC---------------------------------AACAGCAGCA---A.............	22	12	0.08	1	0	0	0	1	0
.....................................................................................................................................................................................................................ACAGCAGCAGC---AACA-------ACAGCA----------------------------------------AC---------------------------------AA.........................	25	15	0.07	1	0	0	0	1	0
..........................................................................................................................................................................AGCAGCAA------CAGCA------------------GCAGCAACAGCA...............................................................................................................................	25	17	0.06	1	0	0	0	1	0
..........................................................................................................................................................................AGCAGCAA------CAGCA------------------GCAGCAACAGC................................................................................................................................	24	19	0.05	1	0	1	0	0	0
..........................................................................................................................................ACAGCAG------------CAGCAACAACAGCAGCAGCA.........................................................................................................................................................................	27	19	0.05	1	0	0	0	1	0
.............................................................................................................................................................................AGCAA------CAGCA------------------GCAGCAACAGC................................................................................................................................	21	20	0.05	1	0	0	0	1	0
....................................................................................................................................................................................................................AACAGCAGCAGC---AACA-------ACAGCA----------------------------------------AC---------------------------------A..........................	25	20	0.05	1	0	0	1	0	0
........................................................................................................AGCAACAACAAC------------AGCAGCAGC.................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	1	0
....................................................................................................................................................................AACAGCAGCAGCAA------CAGCA------------------...........................................................................................................................................	19	20	0.05	1	0	0	0	0	1
..........................................................................................................................................ACAGCAG------------CAGCAACAACAGCAGCA............................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
...........................................................................................................................................CAGCAG------------CAGCAACAACAGCAG..............................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
...............................................................................................................................................................................................................................C---AACA-------ACAGCA----------------------------------------AC---------------------------------AACAGCAGCA---..............	23	20	0.05	1	0	0	0	0	1
.........................................................................................................................................AACAGCAG------------CAGCAACAACAGCAGCA............................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
...................................................................................................................................................................CAACAGCAGCAGCAA------CAGC..............................................................................................................................................................	19	20	0.05	1	0	0	0	0	1
.........................................................................A--GC---AGC--------------------AGCAACAACAAC------------AGC.......................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1
..............................................................................................................AACAAC------------AGCAGCAGCAACAGCA..........................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0

dp5

AGCAGCCGCT---GC--------------TG---C------------------------------CGCC--G--TCGCAG---CCGCTGCC---GCCGTACAGCAGCAGCAACAAC---A------------------------------------------A---------C------AGCAACAACAG-CAGCA--GCAGCAAC------------------AACAGCC---ACCGCA--------------AGTGGT------GGTGCCCCAGCCCCATCTGACGC---------------------------CCCAACAACAGCA-------------ACAG	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
................................................................................................................................................................................................AGCA--GCAGCAAC------------------AACAGCC---AC..............................................................................................................	21	5	0.20	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................CAACAACAG-CAGCA--GCAGCAAC------------------A.........................................................................................................................	23	20	0.10	2	0	2	0	0	0	0	0	0	0	0
............................................................................................................GCAACAAC---A------------------------------------------A---------C------AGCAACAACAG-CAGC.......................................................................................................................................................	26	13	0.08	1	0	0	1	0	0	0	0	0	0	0
................................................................................................................CAAC---A------------------------------------------A---------C------AGCAACAACAG-CAGCA--GC..................................................................................................................................................	25	14	0.07	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................CAAC---A------------------------------------------A---------C------AGCAACAACAG-CAGCA--G...................................................................................................................................................	24	14	0.07	1	0	0	0	1	0	0	0	0	0	0
..............................................................................................................AACAAC---A------------------------------------------A---------C------AGCAACAACAG-CAGCA--....................................................................................................................................................	25	16	0.06	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................GCAACAACAG-CAGCA--GCAG................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0	0	0	0	0
............................................................................................................................................................................C------AGCAACAACAG-CAGCA--GC..................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...................................................................................................................C---A------------------------------------------A---------C------AGCAACAACAG-CAGC.......................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................AGCAACAACAG-CAGCA--GCAGC...............................................................................................................................................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0

droPer2

AGCTGCCGCT---GC--------------TG---C------------------------------CGCC--G--TCGCAG---CCGCTGCC---GCCGTACAGCAGCAACAACAAC---A---------------------G------------CAACAACAGCAGCAGCAGCAACAACA------------------------------------------------GCC---CCCGCA--------------AGTGGT------GGTGCCCCAGCCCCATCTGACGC---------------------------CCCAACAACAGCA-------------ACAG	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
....................................................................................................................................................................................................................................................................................CCCCATCTGACGC---------------------------CCCAACAACAGC..................	25	1	1.00	1	0	1	0	0	0	0
............................................................................................................ACAACAAC---A---------------------G------------CAACAACAGCAGC...................................................................................................................................................................................	23	11	0.09	1	0	0	1	0	0	0
..........................................................................................................................................................CAACAACAGCAGCAGCAGCAA...........................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
.....................................................................................................AGCAGCAACAACAAC---A---------------------G------------CAA.............................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
..............................................................................................................AACAAC---A---------------------G------------CAACAACAGCAGC...................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0

droAna3

GGCTA--CCATCGGCCAG------------A---TCACCCTCACGGCGATGTCCACTGCC----------------------------------------CAGC------AGCAGC---A---------------------A---------------CAGCAA---------C------AACAACAGCAA-CAGCA--GCAGCAAC------------------AACAGCA---GC-AGCAGCAA----------------------------------TCCCAGACCACG----GA--------------TG----CCAA---CAACA------ACACGTCGCAG	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
........................................................................................................................................................................................................AGCAAC------------------AACAGCA---GC-AGC..........................................................................................................	18	20	0.25	5	0	5	0	0	0	0
......................................................................................................................................................................................................GCAGCAAC------------------AACAGCA---GC-AGCAGC.......................................................................................................	23	20	0.20	4	0	4	0	0	0	0
.............................................................................................................................................................CAGCAA---------C------AACAACAGCAA-CAGC.......................................................................................................................................................	22	13	0.15	2	0	2	0	0	0	0
........................................................................................................................................................................................................AGCAAC------------------AACAGCA---GC-AGCAGC.......................................................................................................	21	20	0.15	3	0	3	0	0	0	0
...................................................................................................................................................................................AACAACAGCAA-CAGCA--GCAGCAAC------------------A.........................................................................................................................	25	8	0.13	1	0	0	0	0	0	1
....................................................................................................................................................................................ACAACAGCAA-CAGCA--GCAGCAAC------------------..........................................................................................................................	23	10	0.10	1	0	1	0	0	0	0
.................................................................................................................................................................AA---------C------AACAACAGCAA-CAGCA--GC..................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0
................................................................................................................................................................................................AGCA--GCAGCAAC------------------AACAGCA---GC-.............................................................................................................	21	20	0.05	1	0	1	0	0	0	0
...................................................................................................................................................................................................A--GCAGCAAC------------------AACAGCA---GC-.............................................................................................................	18	20	0.05	1	0	1	0	0	0	0
......................................................................................................................................................................................AACAGCAA-CAGCA--GCAGCAAC------------------..........................................................................................................................	21	20	0.05	1	1	0	0	0	0	0
............................................................................................................................................................................................AA-CAGCA--GCAGCAAC------------------AACA......................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
....................................................................................................CAGC------AGCAGC---A---------------------A---------------CAGCAA---------C------.......................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0
.......................................................................................................................................................................................ACAGCAA-CAGCA--GCAGCAAC------------------..........................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
....................................................................................................CAGC------AGCAGC---A---------------------A---------------CAGCAA---------C------AAC....................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
................................................................................................................................................................................................AGCA--GCAGCAAC------------------AACAGCA---GC-AGCA.........................................................................................................	25	20	0.05	1	0	0	0	0	0	1
................................................................................................................................................................................................AGCA--GCAGCAAC------------------AACAGCA---GC-AGC..........................................................................................................	24	20	0.05	1	0	0	0	0	0	1
......................................................................................................................................................................................AACAGCAA-CAGCA--GCAGCAAC------------------A.........................................................................................................................	22	20	0.05	1	1	0	0	0	0	0
...........................................................................................................................................................................................CAA-CAGCA--GCAGCAAC------------------AACAGCA---................................................................................................................	23	20	0.05	1	1	0	0	0	0	0
......................................................................................................................................................................................................GCAGCAAC------------------AACAGCA---GC-AGCA.........................................................................................................	21	20	0.05	1	1	0	0	0	0	0
....................................................................................................................................................................................ACAACAGCAA-CAGCA--GCAGC...............................................................................................................................................	20	20	0.05	1	0	0	1	0	0	0
.........................................................................................................................................................................................................GCAAC------------------AACAGCA---GC-AGCAGCA......................................................................................................	21	20	0.05	1	0	0	0	1	0	0
...........................................................................................................................................................................................CAA-CAGCA--GCAGCAAC------------------AACAGCA---GC-A............................................................................................................	26	20	0.05	1	0	1	0	0	0	0

droBip1

CCGCCATGCA---GCAGC-----------------------------------------------A--------CCACC-------------------------TCCAGCAGC------A------------ACAGCAGCAGCAG---CAGTTGCAACAGCAA---------C------AACAACAGCAG-CAGCAGG--------AGCAGCAACAG---CAGCAACACTT-------GCAGCA----------------------A---CTGCATCAGCATGC---------------------------CGCTCAC-CACCACC-----------TGC-CTCAG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TGGCCTCCCA---GGCAGCCATGGC-------------------------------------GGC---A--GCA--GC---TGCAGCGGCCTTCA---ATGCGGCGCAACAGCAGC---A---------------------G------------CAGCAACAGCATCAGCAGCAGCAACACCAGCAATCC-C--------------AGCA----------------------------GCAGCAA----------------------------------CAGCAAACCC------------------------------CACAACAGCA-------------GCA-	Size	Hit Count	Total Norm	Total
No Reads

droFic1

TTGTTTACCA---GGCAGG-----C----GC---C--------------------------------------------------------------C------CCCAACTGCAGC---A---------------------G------------CAGCAGCAACAGCAGCAACAGCAACAACAGCAGCAG-C--------------AGCA----------------------------ACAGCAG----------------------------------CGACAGTCCCCGCAGCAACATCTATTGTTAGACGCTGG--CGTCGCTGTC-------------GACG	Size	Hit Count	Total Norm	Total
No Reads

droEle1

CCATCACGCA---GACGACCACCAC----------------------GTTGCC-------------------------------CACTGTTGCCAGC---C---TGC---AGCAGC---A---------------------A------------CAGCAGCAACAGCAGCAGCAGCAACAACAGCAGCAG-C--------------AACA----------------------------ACAGCAACA-------GGGAGG------CATATCGCAGCC-----------------------------------------TACAAC-GCA-------------ACAG	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CAATCTGTCG---GTGAA-----GAT----GGCC--------------------GCCGCCCAGGC---A--GCC--GC---TGCTGCCGCCGCC---TACCAGAACCAGCAGCAAC---A---------------------GCAACAG------CAGCAGCAGCAACAGCAGCAGCAACACCACCAGCAG-C--------------AACAGCAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACAGCAGCAGCAGCACG--GCAA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TGCACCACCC---GCCGGC------------GC-----------------------------------C--G---CGGGTCTGCCGCCACCCACACC-----GCCGCACCACCTGC---A---------------------G------------CAGCAGCAGCAGCAGCAGCAGCAACA------GCA---------------------------------------GCC--------------------------------------GCAGCAGCAGCACCAGGCAC------------------------------CACCA-----------CCACC-GCCGT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TGC-CAAGCA---GGTGG-----------------------------------------------C-----GCA--GC---TGCAGCAG-----------------C------------ATCAGTCGCACCACCAGCAG---------------CAACAGCAA---------C------AGCAACAGCAG-CAGCA--GCA---------------------------GGA-------GCAGCAACAGCGCACCA-GCCTGCATCCGCAGATCCACCACCA------------------------------------CCACCAACAGCA-------------GCAG	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TCCA---------GG---------CCTGCCT---C---------------------CTGGTGCCC---A--A-----CAGCAAT--------------------CTCAACAGCAGCAGCA------------GCAGCAGCAACAG---CAGCAGCAACAGCAA---------C------AACAACAGCAGGC--------------AGCAGCGGCG------------GCT---GC-AGCAGCA----------------------------------------GC---------------------------------AGCAGCAGCC-------------GCA-	Size	Hit Count	Total Norm	Total
No Reads

dm3

TAGTTTAGCC---GCTGC-----------------------------------------------C-G-CG---TCCGTGCTGCA--------------------------ACAGC---A---------------------G------------CAGCAGCAACAGCAGCAGCAGCAACAACAACAGCAG-C--------------AGCAGCAACA------------GCA---CC-ACC--------------AGCAGC------TGCACCACA--------------------CACACCCACAGTCACCCGCCCAC-AGCCACGCCC-------------ACCA	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
..............................................................................................................................................................................GCAACAACAACAGCAG-C--------------AGCAG.......................................................................................................................................	22	20	0.45	9	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................CAGCAGCAACAACAACAGCAG-C--------------AGT.........................................................................................................................................	25	20	0.30	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	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	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
................................................................................................................................................................................AACAACAACAGCAG-C--------------AGCAGC......................................................................................................................................	21	20	0.20	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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
............................................................................................................................................................................CAGCAACAACAACAGCAG-C--------------AG..........................................................................................................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
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...................................................................................CA--------------------------ACAGC---A---------------------G------------CAGCAGCAACAGCAGC................................................................................................................................................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................GCAACAGCAGCAGCAGCA.........................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................AGCAG-C--------------AGCAGCAACA------------GC....................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................CAGCAGCAACAACAACAGCAG-C--------------............................................................................................................................................	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	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................CAGCAGCAGCAACAACAACAGCAG-C--------------............................................................................................................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................GC---A---------------------G------------CAGCAGCAACAGCA..................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................CAACAGCAG-C--------------AGCAGCAACA------------......................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................A---------------------G------------CAGCAGCAACAGCAGCAGCA............................................................................................................................................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSim2

TAATCTATCG---GTTAA-----GAT----GGCC--------------------GCTGCTCAGGC---A--GCA--GC---TGCAGCAGCCGCC---TATCAAAATCAACAACAGC---A---------------------G------------CAGCAGCAACAGCAGCAGCAGCAACACCACCAGCAG-C--------------AGCAACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACAGCA------GCACG--GCAA	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
.......................................................................................................................................................................................CCAGCAG-C--------------AGCAACAACA------------GCA---................................................................................................................	21	13	1.15	15	0	0	0	0	15	0	0	0	0	0	0	0	0	0	0	0	0
.....TATCG---GTTAA-----GAT----GGCC--------------------GCTGCTCA............................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
............................................................................................................................................................................CAGCAACACCACCAGCAG-...........................................................................................................................................................	18	8	1.00	8	0	0	0	0	0	8	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................AGCAACAGCAGCAGCAGCA.........................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
................................................................................................................................................................................................................CAACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------.......................	20	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................CAGCAGCAACAGCAGCAGC.............................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................................................................................AACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACAGC..................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
..............................................................................................................AACAGC---A---------------------G------------CAGCAGCAACAGC...................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
.......................................................................................................................A---------------------G------------CAGCAGCAACAGCAGCAGC.............................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
.................A-----GAT----GGCC--------------------GCTGCTG.............................................................................................................................................................................................................................................................................................	15	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................ACCAGCAG-C--------------AGCAAC......................................................................................................................................	15	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

TAATCTATCG---GTTAA-----GAT----GGCC--------------------GCTGCTCAGGC---A--GCA--GC---TGCAGCAGCCGCC---TATCAAAATCAACAACAGC---A---------------------G------------CAGCAGCAACAGCAGCAGCAGCAACACCACCAGCAG-C--------------AGCAACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACAGCA------GCACG--GCAA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
..........................................................................................................................................................................AGCAGCAACACCACCAGCAG-C--------------............................................................................................................................................	21	10	0.10	1	0	0	1	0
..............................................................................................................AACAGC---A---------------------G------------CAGCAGCAACAGCAGCAGC.............................................................................................................................................................................	27	16	0.06	1	0	1	0	0
................................................................................................................................................................................................................CAACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACAGCA------...........	26	17	0.06	1	0	0	1	0
..........................................................................................................CAACAACAGC---A---------------------G------------CAGCAGCAACAGCA..................................................................................................................................................................................	26	17	0.06	1	0	0	1	0
.................................................................................................................................................................................................................AACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------AC.....................	21	20	0.05	1	0	1	0	0
.......................................................................................................................A---------------------G------------CAGCAGCAACAGCAGCA...............................................................................................................................................................................	19	20	0.05	1	0	0	1	0
..............................................................................................................AACAGC---A---------------------G------------CAGCAGCAACAGCAGCA...............................................................................................................................................................................	25	20	0.05	1	0	0	1	0
...............................................................................................................................................................GCAACAGCAGCAGCAGCAA........................................................................................................................................................................	19	20	0.05	1	0	0	1	0
.....................................................................................................................................................................................................................ACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------ACA....................	18	20	0.05	1	0	0	0	1
.................................................................................................................................................................................................................AACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------.......................	19	20	0.05	1	0	0	1	0
......................................................................................................................................................................................ACCAGCAG-C--------------AGCAACAACA------------......................................................................................................................	19	20	0.05	1	0	0	1	0
.................................................................................................................AGC---A---------------------G------------CAGCAGCAACAGCAGCAGCAGCA.........................................................................................................................................................................	28	20	0.05	1	0	0	0	1
................................................................................................................................................................................................................CAACAACA------------GCA---GC-AGCAGCA-------------------------------------------------------------------------------.......................	20	20	0.05	1	0	0	1	0

droYak3

CAGGCCACCA---TTGGCC-----A----GA---TCACCCTGACGGCCATGTCCACGGCG-----------------CAGCAGCAGC-----------------AGCAACAGCAGC------------AGCAACAACAGCAGCAG------------CAGCAGCAACAGCAGCAACAA------CAGCAG-C--------------AGCAACAGCA------------GCA---GC-AGCAGCA----------------------------------------AC---------------------------------CACAGCAGCA-------------GCAG	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
.........................................................GCG-----------------CAGCAGCAGC-----------------AGCAACAGCA........................................................................................................................................................................................................................................	23	7	0.14	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................G-C--------------AGCAACAGCA------------GCA---GC-AGCAG........................................................................................................	22	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................G-C--------------AGCAACAGCA------------GCA---GC-AGCAGCA----------------------------------------..............................................................	24	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................AGCAGCAACAGCAGCAACAA------CAGCAG-C--------------............................................................................................................................................	27	15	0.07	1	0	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................GCAGCAACAA------CAGCAG-C--------------AGCAACAGCA------------GC....................................................................................................................	29	18	0.06	1	0	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................AACAA------CAGCAG-C--------------AGCAACAGC...................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
..........................................................................................................................................................................................GCAG-C--------------AGCAACAGCA------------GCA---GC-AGCAG........................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................GCAGCAACAA------CAGCAG-C--------------AGCAACAG....................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................GCAACAACAGCAGCAG------------CAGCAGC......................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................AGCAACAGCAGC------------AGCAACA...................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................AACAGCAGC------------AGCAACAACAGCAGCA..........................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................................................AGCAGCAG------------CAGCAGCAACAGCAGCAAC..........................................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1
............................................................................................................................................................................CAACAA------CAGCAG-C--------------AGCAACAGCA------------G.....................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................G-C--------------AGCAACAGCA------------GCA---GC-A............................................................................................................	18	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................AGCAGCAACAA------CAGCAG-C--------------AGCAACAGC...................................................................................................................................	27	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.............................................................................CAGCAGCAGC-----------------AGCAACAGCAGC------------..........................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................AACAGCAGCAACAA------CAGCAG-C--------------AGC.........................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................CAACAGCAGCAACAA------CAGCAG-C--------------A...........................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................AACAGCAGC------------AGCAACAACAGCAGC...........................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..................................................................................................................GC------------AGCAACAACAGCAGCAG------------C............................................................................................................................................................................................	20	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0

droEre2

AAGACCGACA---AGAAG------C----TG---C-----------------C-CGATCCCTCG-------------CAGCAGCATC-----------------AGCAGCAGCAGC------------ATCAGCAGCAGCATCAGCAGCAGCAGCAGCATCAGCAGCAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------AGCATCAGCAGCAGCAGC---A------------------------------------------TCAGCAGCACCAGCAGG-CCCAG	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.....................................................................................................................................................................GCAGCAGCAGCAGCA------T---------------------------CA---GCA............................................................................................................................	21	20	0.30	6	6	0	0	0	0	0	0
.................................................................................................................................................................AGCAGCAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------A......................................................................................	28	18	0.22	4	2	0	0	0	1	1	0
...........................................................................................................................................CATCAGCAGCAGCAGCAGCATCAGC......................................................................................................................................................................................	25	5	0.20	1	0	0	0	0	0	1	0
..................................................................................................................................................................GCAGCAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------A......................................................................................	27	19	0.16	3	3	0	0	0	0	0	0
................................................................................................................................................................CAGCAGCAGCAGCAGCAGCA------T---------------------------CA---GC.............................................................................................................................	25	20	0.10	2	0	1	0	0	0	0	1
........................................................................................................................................................................................................................................................................CAGCAGCAGCAGC---A------------------------------------------TCAGCA.................	20	20	0.10	2	2	0	0	0	0	0	0
.................................................................................................................................................................AGCAGCAGCAGCAGCAGCA------T---------------------------CA---GCA............................................................................................................................	25	20	0.10	2	0	0	0	0	2	0	0
.................................................................................................................................................................AGCAGCAGCAGCAGCAGCA------T---------------------------C...................................................................................................................................	21	20	0.10	2	2	0	0	0	0	0	0
......................................................................................C-----------------AGCAGCAGCAGC------------ATCAGCA...................................................................................................................................................................................................................	20	20	0.10	2	2	0	0	0	0	0	0
......................................................................................................................................AGCAGCATCAGCAGCAGCA.................................................................................................................................................................................................	19	20	0.10	2	1	0	0	0	0	1	0
.............................................................................................................................................................................................................................AGC-----------------------------------AGCATCAGCAGCAGCA.......................................................................	19	20	0.10	2	1	0	0	0	0	1	0
.................................................................................................................................................................AGCAGCAGCAGCAGCAGCA------T---------------------------CA---GC.............................................................................................................................	24	20	0.10	2	2	0	0	0	0	0	0
..............................................................................AGCAGCATC-----------------AGCAGCAGCA........................................................................................................................................................................................................................................	19	20	0.10	2	1	0	0	0	0	1	0
..............................................................................................................AGCAGC------------ATCAGCAGCAGCATCAGC........................................................................................................................................................................................................	24	11	0.09	1	1	0	0	0	0	0	0
.............................................................................................................................................................................AGCAGCA------T---------------------------CA---GCAGC-----------------------------------AGCATCAGC..............................................................................	24	11	0.09	1	1	0	0	0	0	0	0
...................................................................................................................................................................................A------T---------------------------CA---GCAGC-----------------------------------AGCATCAGCAGCA..........................................................................	22	12	0.08	1	0	0	0	0	0	1	0
................................................................................................................................ATCAGCAGCAGCATCAGCAGCA....................................................................................................................................................................................................	22	12	0.08	1	0	0	0	0	0	1	0
....................................................................................................................................................................AGCAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------AGC....................................................................................	27	17	0.06	1	0	0	0	0	0	1	0
...............................................................................................................................................AGCAGCAGCAGCAGCATCAGCAGCAGC................................................................................................................................................................................	27	17	0.06	1	0	0	0	0	0	1	0
................................................................................................................................................................................AGCA------T---------------------------CA---GCAGC-----------------------------------AGCATCA................................................................................	19	19	0.05	1	0	0	0	0	0	1	0
.................................................................................................................AGC------------ATCAGCAGCAGCATCA..........................................................................................................................................................................................................	19	19	0.05	1	0	0	0	0	0	1	0
..................................................................................................................................................................GCAGCAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------.......................................................................................	26	20	0.05	1	1	0	0	0	0	0	0
........................................................................................................................................CAGCATCAGCAGCAGCAGC...............................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0	0
...............................................................................................................................................................................................................................C-----------------------------------AGCATCAGCAGCAGCAGC---..................................................................	19	20	0.05	1	0	0	0	0	1	0	0
.................................................................................................................................................CAGCAGCAGCAGCATCAGCAGCAGC................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	1	0
................................................................................................................................................GCAGCAGCAGCAGCATCAGCAGCAGC................................................................................................................................................................................	26	20	0.05	1	1	0	0	0	0	0	0
....................................................................................................................................................................AGCAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------A......................................................................................	25	20	0.05	1	1	0	0	0	0	0	0
..........................................................................................................................................................................AGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------AGC....................................................................................	21	20	0.05	1	1	0	0	0	0	0	0
...........................................................................................................AGCAGCAGC------------ATCAGCAGCAGC..............................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0	0
........................................................................................................AGCAGCAGCAGC------------ATCAGCAGCAGCA.............................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	1	0	0
.....................................................................................................................................................................GCAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------AGC....................................................................................	26	20	0.05	1	1	0	0	0	0	0	0
..............................................................................................................AGCAGC------------ATCAGCAGCAGCA.............................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0
.............................................................................................................................................................CATCAGCAGCAGCAGCAGCAGC.......................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	1	0
.....................................................................................................................................................................GCAGCAGCAGCAGCA------T---------------------------CA---GC.............................................................................................................................	20	20	0.05	1	0	0	0	0	0	1	0
......................................................................................C-----------------AGCAGCAGCAGC------------ATCAGCAGCAG...............................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0	0
......................................................................................................................................................................CAGCAGCAGCAGCA------T---------------------------CA---GCAGC-----------------------------------AGC....................................................................................	25	20	0.05	1	0	0	0	0	0	1	0
..........................................................................................................................................................CAGCATCAGCAGCAGCAGC.............................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0	0
.....................................................................................................................................................AGCAGCAGCATCAGCAGCAGC................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0	0

dvi_10347

scaffold_12963:3462053-3462100 -

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

-4.1	-3.3	-3.3