dgr_259

CDS [Dgri\GH17793-cds]; CDS [Dgri\GH17793-cds]; exon [dgri_GLEANR_2193:1]; exon [dgri_GLEANR_2193:2]; intron [Dgri\GH17793-in]

Name	Class	Family	Strand
Gypsy8-I_Dpse-int	LTR	Gypsy	+
(CAG)n	Simple_repeat	Simple_repeat	+

##################################################---------------------------------------------------------------################################################## TTCGCAAAGCTTCGGCGATGCCGGCTACGACAGCGACACCAGCAGCAGCAGTAGCAGCAGGAGCAGCAGCAGCAGCAGCAGCGCCAGCAACACCAGCAACGGCAACTATGCAGAAAGTGAGATGAGCTTCGAGGAGATCACCCAAGCAGCGGTGCGTGCAGCA ************************************************((....((.((.((.((.((....)).)).)).)).)).....................))..************************************************	Read size	Hit Count	Total Norm	Total	M041 female body	V109 male body
....................................................AGCAGCAGGAGCAGCAGCA............................................................................................	19	20	0.10	2	2	0
........................................................GCAGGAGCAGCAGCAGCAGCA......................................................................................	21	20	0.05	1	0	1
....................................................AGCAGCAGGAGCAGCAGCAGCA.........................................................................................	22	20	0.05	1	0	1
................................................................AGCAGCAGCAGCAGCAGCGCCA.............................................................................	22	20	0.05	1	1	0

Species	Coordinate	ID	Alignment
droGri2	scaffold_15081:948870-949032 +	dgr_259	TTCGCAAAGCTTCGGCGATG-CCGGCTA-----------------CGACA---GCGACAC---CAGC---------AGCAGCA------GTA---------------GCAGCA---------GGAGCAGCAGCAGCAGCAGCA------GCG---CCA------------GCAAC------ACCAGCAACGGCA---------------------------ACTATG----------C----------------------------AGAAAGTGAGATGA-----------------GC------TTC------GAGGA-GA----T-------------------CACCCAAGCA-------GCGGTGCGTGCAGCA
droVir3	scaffold_12928:2231189-2231350 -		TCCGCAG--CAGCAGCATCA-CCAGCAGCAGCAGCAGCATCAC--CAGCA---GCAGCAC---CAGC---------AGCAGCA------GCT---------------GCAGCT---------GCAGCAGCATCATCACCAGCA---------------------------GCAA---------CAGCAGCATCAGCA---C---------------------------------------------CTCCAG----------------------------------------CAACAGC---------AGC---AGCA-ACA----G-----CA-------------------GCAG-CAGCAGCAGCACCTCCAGCA
droMoj3	scaffold_6473:1195693-1195840 +		AGCAGCAGC-AAGAGCAA----CA---G-----------------CAACA---GCAACAG---CAGC---------AGCAACA------GCA---------------GCAGCAGCAGCAGCAGCAGC------AG---------CAGCAGCGGCA---------------GCAGC---AACAGCTGCAGCAGCAGCA---------------------------------------------------------G-CAGGAG------------------------------CAGGAGC---------AGCAGCA----ACA----G-----C-------------------AACA-------GCAGCAGTTGCAGCT
droWil2	scf2_1100000004540:1896767-1896922 +		AGCAAGGCT-ATTGGCAACA-GCAACAA---------CAACAG--AAACA---ACAACAC---CAGC---------AGCAGCA------GCT---------------GCAGCA---------GCAGCAACACCAACAGCAGCA------------------------------GC------AACAACAACAACAACA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------AGCAGCA----ACA----A-----CAA-------------TCGTGGA--ATA---GCAACAGTGGCAGCA
dp5	XR_group6:11693500-11693658 +		TCGCAAAAC-ATGTACAATCATCAGCAA-----------------CAGCA---G---CAG---CAAC---------AGCAGCA------GCA---GCA---------GCATCA---------GCAAC------AG---------CA------------GC---------------------AGCAGCAGCAGCAACA---AAAGCAACAGCAGCAGCAGCAGCCCAG----------CT--------GCTGTGGACT------------------------------GA-----------------CC------GAAAT-GC----T-------------------GGC-CCAGCA-------GCTGCACCAACAG--
droPer2	scaffold_20:1440526-1440686 +		TTCATTTTT-GGGGCCAA----CA--TA-----------------CAACA---G---CAG---CAGCAGCAGCAGCAGCAGCAGAAGGAGAA------------GCAGTAG------------------CAGCAG---------CAACAGAA------GC------AACAGCAAC------AGTGGCAACAACA---------------------------------------------CGCCCCAAAGGAGCAG-A------------------------------------AGGAGG---------------A-GGAGGA----A-----A-------------GGCCCAGGCA-------GAGGCAGAGGCAGTA
droAna3	scaffold_13248:1104510-1104663 +		GGCCGAGAGCTTCGGCGAAG-GAACCTA-----------------CGACA---G---CAG---CAGC---------AGCAGCA------GCA---------------GCAGCG---------ACAGCGGCGACTTCGACAGCAGCA------------------------G------------CAGCAGTAGCAGCG---------------------------AAA------------TGGGTCTCAGTGAGAACA----------------------------------------GT------TAC------GAGGA-GA----T-------------------CGCCCAGGCT-------GCTCTGCGTGCCGCT
droBip1	scf7180000393426:65313-65466 +		GGCCGAAAGCTTTGGCGAAG-GCACCTA-----------------CGACA---G---CAG---CGAC---------AGCGACA------GTG---CCG---------ACTTCG---------A------CACCAG---------CA------------GCAGCAGCAGCAG------------CAGCAGTAGCAGCG---------------------------AAA------------TGGGCCTCAGCGAGAACA----------------------------------------GC------TAC------GAGGA-GA----T-------------------CGCCCAGGCA-------GCGCTGCGTGCCGCC
droKik1	scf7180000302592:1842841-1842995 -		AGTGAAAAATGTCACCACCA-AC----A-----------------CAACA---ACG--AC---CAGC---------AGCAGTAGCAGCAGCA---GCA---------GCAACA---------GCAGCAGCATCAC---------------CACCATCA------------GCAAC------AGCAGCAGCAGCA---------------------------CCCAAA----------CA--------GGTGAGACCA------------------------------GCTCG-----------CGA---G---CA----ACT----G-----C-------------------AGCAA------CCAATACGACCAGCA
droFic1	scf7180000453927:1367338-1367488 +		AGCAGCAGC-------AA----CAG------------CAGCAG--CAACA---GCAACAT---CAGC---------AACAGCG------ACA---------------GCAGCA---------GCAGCAGCAGCAG---------CAACAGCAGCAACA------------GCAAC------AGCAGCAGCAGCAGCA---------------------------------------------------------A-CACGAGGAGGAG--------ATGA-----------------TG-----------------------ATGGGCGACC--AG------------CC---GCA-------GCTCAGCGAGGAGCA
droEle1	scf7180000491001:1676459-1676609 +		TCGTCGACC-ACCTGCCGCA-GCAGCAT---------CAG-----CAGCA---GCAACAT---CAGC---------CGCAGCA------GCA---------------TCAGCA---------GCAGCATAGGCCGCA---------------------------------GCAGC---ATCAGCAGCAGCA------------------------------------------------TAAGCCGCAGCAG----------------------------------------CATCAGC---------AGC---AGCA-ACA----T-----CA-------------GCCGCAGCA-------GCATTGGCCGCAGCA
droRho1	scf7180000779501:129109-129262 -		CAGCAG---CACCAGCAACA-CCAG-----------------------------CAGCAC---CAGC---------AGCAGCA------GCA---------------GCAG------------------CAGCAG---------CAACAGCA------GC------AACAGCAGC------AGCTGCAGCAGCAGCA---------------------------------------------------------G-CAGGCGGCGCAGCAACTGACATCCGCTTCCAACACA-----------CCA---G---CA----ACA----T-----C-------------------AGCAG------CCAAGGCCAGCGGCA
droBia1	scf7180000301754:1409718-1409870 +		CACAGGCC--CTGGGCAGCA-ACTCGCC-----------------CAAGA---GCAGCAC---CAGC---------AGCAGCA------GCA---------------GCAGCA---------GCAGCAGCAGCAGCAGTAGCAGCAACAGCAGCATTA------------GCAAC------AGCAGCAGCA----------------------------------------------------------------------------------------------------------GT---------CGCACCA-----------GCGACC--AG------------CCGACCC--ACAGCAACATTCCGCGCAGCA
droTak1	scf7180000415785:77114-77282 +		TCGGACAAA-TGCTGCAATA-TCAGCAA---------CCG-----CAACA---GCAACAA---CAGC---------AACAGCA------GCA---------------ACTGCA---------ACAGGAGCAACACCAG------CAACTGCA------AC------AGCAGCAGCAGCAACATCAGCAACTTTTGCA---------------------------------------------------GCAACAG-------------------------------------CTGCCGC---------AGCAGCG----ACG----G-----CAA-------------ACGTACAA-------GGAGTATTTGCAGCA
droEug1	scf7180000409765:70303-70472 +		ATCACCAACATGCGGCA----GCCGTTG---------CAGCAG-----------T-ATAT---CATC---------TACAGCAGCAGCAGCA---------------ACAGCA---------A------CAGCAG---------CAACTGCAGCAGCA------------GCAAC------AGCAGCAGCAGCAGCG------------------------GCCAAACAATACGGAC--A-ACGATCCA-------GTGGTT-----------------------C--------------------AG------GGAGA-TA----C-------------------TGGCGGTACT-------ACGGTGTCAGCAGCA
dm3	chr2R:7697884-7698035 +		ATCACAATGATCCATCGCTG--CTGCTG---------CGA-----CGACA---GCAACAC---GAGA---------AGAAGCA------GAA---------------GCGG------------------CGCAAG---------CAACAGAA------GC------AGCAGCAAC------ACCAACAACG--------------------------------------------------AGTATCAG-------CTAGTC-----------------------CAA----CGAATCCGATGCCT---G---CA----ACA----C---------------------C---CACA-------GCAGCGCCAGCAGCA
droSim2	3l:7655527-7655701 -		TCGCAAGT--TGCTGCTGCA-GCGG---------------CGG----GCAATAG---CGGTGGCAAC---------AGCAGCA------GCAACAACAACAACAACAACAG---------------CAGCGGCAA---------CAACAGCA------GC------AGCGGCAACAGCGACAGCGGCAATGATGGCA---------------------------------------------------------G-CATGAC--------------AG--------------GA---TC------CTC------GGGAA-CCATGGA-----C-------------AACCATCGCA-------GCAGTGTTAGCAGCA
droSec2	scaffold_4:2908057-2908211 +		TTCGAGCAGCATCAGCCGCA-CCAGTCG-----------------CATCA---GCAACAT---CAGC---------AGCAGCA------GCT---------------GCAGCA---------TCAGCAGCAGCAGCAG------CTGCAGCA---TCA------------GCAGC---AGCAGCAACATCAGCAGCAACAA---------------------------------------------AATCAG-------------------------------------------CAGC---------AGCAGCA-----------G---------------------CTACAACA-------GCAACATCAGCAGCA
droYak3	X:11306535-11306693 -		CGCCCA---CTTCGGCCGCA-GCAG---------------CGGTACAGCA---G---CAG---CAGC---------AGCAACA------ACA---------------GCAGCA---------GCAGCAGCAGCTACAGCAGCAGCAACAGCA------GC------AGCAGCAAC------AGCAACAACA---------------------------------------------------------------A-------------------------------------------C---------AGGTTGT-----------GGGAGG--AGTGGGCGTGGGCGCCCAGGCT--CA---GGGATCCGTGT-ACT
droEre2	scaffold_4845:18901732-18901886 +		CTCGCCCAAGAGCAGCAGCA-GCAG------------CAGCAG--CATCA---G---CAG---CAAC---------AGCAGCA------GCA---------------GCAG------------------CAGCAG---------CCACAGCA------GC------AGCAGCAGC------ATCAGCAGCATCAGCA---------------------------------------------------GCAGCGG-------------------------------------CAGCAGC---------GGCAGCA-----------GCGACC--AG------------CCCACAC--ACAGCAACATTCCGCGCAGCA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droGri2

TTCGCAAAGCTTCGGCGATG-CCGGCTA-----------------CGACA---GCGACAC---CAGC---------AGCAGCA------GTA---------------GCAGCA---------GGAGCAGCAGCAGCAGCAGCA------GCG---CCA------------GCAAC------ACCAGCAACGGCA---------------------------ACTATG----------C----------------------------AGAAAGTGAGATGA-----------------GC------TTC------GAGGA-GA----T-------------------CACCCAAGCA-------GCGGTGCGTGCAGCA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
...........................................................................................A---------------GCAGCA---------GGAGCAGCAGCA....................................................................................................................................................................................................................................................	19	20	0.10	2	2	0
..............................................................................................................GCA---------GGAGCAGCAGCAGCAGCA..............................................................................................................................................................................................................................................	21	20	0.05	1	0	1
...........................................................................................A---------------GCAGCA---------GGAGCAGCAGCAGCA.................................................................................................................................................................................................................................................	22	20	0.05	1	0	1
...............................................................................................................................AGCAGCAGCAGCAGCA------GCG---CCA------------................................................................................................................................................................................................................	22	20	0.05	1	1	0

droVir3

TCCGCAG--CAGCAGCATCA-CCAGCAGCAGCAGCAGCATCAC--CAGCA---GCAGCAC---CAGC---------AGCAGCA------GCT---------------GCAGCT---------GCAGCAGCATCATCACCAGCA---------------------------GCAA---------CAGCAGCATCAGCA---C---------------------------------------------CTCCAG----------------------------------------CAACAGC---------AGC---AGCA-ACA----G-----CA-------------------GCAG-CAGCAGCAGCACCTCCAGCA	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
.............................................................................................................................................................................................CATCAGCA---C---------------------------------------------CTCCAG----------------------------------------CAACAGC---------AGC---A...............................................................	26	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................CACCAGCA---------------------------GCAA---------CAGCAGCATCAGC......................................................................................................................................................................................	25	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	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
..................................................................................................................................ATCATCACCAGCA---------------------------GCAA---------CAGCAG.............................................................................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................AGCAGCATCATCACCAGCA---------------------------GCAA---------CAGCA..............................................................................................................................................................................................	28	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
.......................................................................................................................................................................................................................................................TCCAG----------------------------------------CAACAGC---------AGC---AGCA-ACA----G-----CA-------------------.........................	25	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........CAGCAGCATCA-CCAGCAGCAGCAGC.......................................................................................................................................................................................................................................................................................................................................................	25	3	0.33	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
.............................................................................................................................GCAGCATCATCACCAGCA---------------------------GCA.............................................................................................................................................................................................................	21	3	0.33	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
.............................................................................................................................................................................................................................................................................................................................................A-------------------GCAG-CAGCAGCAGCACCTCCA...	22	3	0.33	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
...............................................................................................................................AGCATCATCACCAGCA---------------------------GC..............................................................................................................................................................................................................	18	4	0.25	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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-------------------GCAG-CAGCAGCAGCACCTCC....	21	4	0.25	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
...........GCAGCATCA-CCAGCAGCAGCAGCA......................................................................................................................................................................................................................................................................................................................................................	24	5	0.20	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................CAGCAGCAGCATCAC--CAGCA---GCAGC................................................................................................................................................................................................................................................................................................................................	25	6	0.17	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....CAG--CAGCAGCATCA-CCAGCAGCAGC..........................................................................................................................................................................................................................................................................................................................................................	25	6	0.17	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............CAGCATCA-CCAGCAGCAGCAGCA......................................................................................................................................................................................................................................................................................................................................................	23	7	0.14	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
.............AGCATCA-CCAGCAGCAGCAGCA......................................................................................................................................................................................................................................................................................................................................................	22	7	0.14	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............CAGCATCA-CCAGCAGCAGCAG........................................................................................................................................................................................................................................................................................................................................................	21	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................AGCAC---CAGC---------AGCAGCA------GCT---------------...............................................................................................................................................................................................................................................................................	19	10	0.10	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
.....................................................................................................................................................................................................................................................................................................AACAGC---------AGC---AGCA-ACA----G-----CA-------------------.........................	19	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................................GC---AGCA-ACA----G-----CA-------------------GCAG-CAGCAGC.............	23	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
.......................AGCAGCAGCAGCAGCATCA................................................................................................................................................................................................................................................................................................................................................	19	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
..........AGCAGCATCA-CCAGCAGCA............................................................................................................................................................................................................................................................................................................................................................	19	11	0.09	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
................................AGCAGCATCAC--CAGCA---GCA..................................................................................................................................................................................................................................................................................................................................	19	11	0.09	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
...............................................................................AGCA------GCT---------------GCAGCT---------GCAGCAGCA.......................................................................................................................................................................................................................................................	22	13	0.08	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
.....................................................................................................................................ATCACCAGCA---------------------------GCAA---------CAGCA..............................................................................................................................................................................................	19	14	0.07	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
.............................................CAGCA---GCAGCAC---CAGC---------AGCAGCA------.................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................AACAGC---------AGC---AGCA-ACA----G-----CA-------------------GCAG-C...................	24	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
.............................................................................................................................................................................................................................................................................................................................A-ACA----G-----CA-------------------GCAG-CAGCAGCAGC..........	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............CATCA-CCAGCAGCAGCAGCA......................................................................................................................................................................................................................................................................................................................................................	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	1	0
..........................................................................................................................................................................................................................................................AG----------------------------------------CAACAGC---------AGC---AGCA-ACA----G-----CA-------------------GCAG-CA..................	28	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
........................................................................................................................................................................................................................................................................................................AGC---------AGC---AGCA-ACA----G-----CA-------------------GCAG-CA..................	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	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
......................................................................................................................................................................................................................................................................................................................C---AGCA-ACA----G-----CA-------------------GCAG-CAGCAGC.............	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................CAGCATCAC--CAGCA---GCAG.................................................................................................................................................................................................................................................................................................................................	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	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
..........................AGCAGCAGCAGCATCAC--CAGCA---A....................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............CAGCATCA-CCAGCAGCAG...........................................................................................................................................................................................................................................................................................................................................................	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	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
....................................................................................................................................................................................................................................................................................................................AGC---AGCA-ACA----G-----CA-------------------GCAG-CAGCA...............	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................AGC---------AGC---AGCA-ACA----G-----CA-------------------GCA......................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................AGCA---------------------------GCAA---------CAGCAGCATCAG.......................................................................................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

AGCAGCAGC-AAGAGCAA----CA---G-----------------CAACA---GCAACAG---CAGC---------AGCAACA------GCA---------------GCAGCAGCAGCAGCAGCAGC------AG---------CAGCAGCGGCA---------------GCAGC---AACAGCTGCAGCAGCAGCA---------------------------------------------------------G-CAGGAG------------------------------CAGGAGC---------AGCAGCA----ACA----G-----C-------------------AACA-------GCAGCAGTTGCAGCT	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..............................................................................CAACA------GCA---------------GCAGCAGCAGCAG..................................................................................................................................................................................................................................................................	21	20	0.20	4	4	0	0	0	0	0
..........................................................................................................................................................................GCAGC---AACAGCTGCAGCAGCAGCA---------------------------------------------------------G-C.........................................................................................................................	26	6	0.17	1	0	0	0	0	1	0
..............................................................................................................GCAGCAGCAGCAGCAGC------AG---------CAGCA.....................................................................................................................................................................................................................................	24	20	0.15	3	3	0	0	0	0	0
........................................................ACAG---CAGC---------AGCAACA------GCA---------------GC.............................................................................................................................................................................................................................................................................	20	20	0.10	2	0	0	0	0	2	0
.......................................................................................................................GCAGCAGC------AG---------CAGCAGCGGC................................................................................................................................................................................................................................	20	20	0.10	2	2	0	0	0	0	0
..............................................................................................................................................................................C---AACAGCTGCAGCAGCAGCA---------------------------------------------------------G-C.........................................................................................................................	22	18	0.06	1	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................CAGCA----ACA----G-----C-------------------AACA-------GCAGCAGT.......	22	18	0.06	1	1	0	0	0	0	0
........C-AAGAGCAA----CA---G-----------------CAACA---GCA..................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1
....................................................................................................................................................................................................................................................................AG------------------------------CAGGAGC---------AGCAGCA----ACA----G-----C-------------------A.........................	22	20	0.05	1	0	0	0	1	0	0
...........................................................................................................................................................................................AGCAGCAGCA---------------------------------------------------------G-CAGGAG------------------------------CAGGA.................................................................................	22	20	0.05	1	0	0	0	0	0	1
..............................................AACA---GCAACAG---CAGC---------AGC...........................................................................................................................................................................................................................................................................................................	18	20	0.05	1	1	0	0	0	0	0
...............................................................CAGC---------AGCAACA------GCA---------------GCAGCAGC.......................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
........................................................ACAG---CAGC---------AGCAACA------GCA---------------GCA............................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1	0
.....................................................................................................................CAGCAGCAGC------AG---------CAGCAGCGGC................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
..............................................................................................................................................................................................AGCAGCA---------------------------------------------------------G-CAGGAG------------------------------CAGGA.................................................................................	19	20	0.05	1	1	0	0	0	0	0
...............................................................CAGC---------AGCAACA------GCA---------------GCAGC..........................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0
.................................................................................................................................................AGCAGCGGCA---------------GCAGC---AACA....................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0
.........................................................................................................................................................................................................................................................................................................GC---------AGCAGCA----ACA----G-----C-------------------AACA-------G..............	19	20	0.05	1	1	0	0	0	0	0
..................................................................................................................................................GCAGCGGCA---------------GCAGC---AACAGC..................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0

droWil2

AGCAAGGCT-ATTGGCAACA-GCAACAA---------CAACAG--AAACA---ACAACAC---CAGC---------AGCAGCA------GCT---------------GCAGCA---------GCAGCAACACCAACAGCAGCA------------------------------GC------AACAACAACAACAACA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------AGCAGCA----ACA----A-----CAA-------------TCGTGGA--ATA---GCAACAGTGGCAGCA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
..............................................................................................................................................................................................AACAACA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------AGCA..................................................................	25	20	0.20	4	0	0	0	4	0
..................................................................................................................................................................................................ACA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------AGC...................................................................	20	20	0.20	4	0	0	0	4	0
..............................................AACA---ACAACAC---CAGC---------AGCAGCA------GC...............................................................................................................................................................................................................................................................................................	24	9	0.11	1	0	0	0	1	0
..........................................................................................................................................................................................................................................................AA----------------------------------------CAACAGC---------AGCAGCA----AC.........................................................	18	20	0.10	2	0	0	0	2	0
...................................................................................................................................................................................................CA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------AGCAG.................................................................	21	20	0.10	2	0	0	0	2	0
.................................................A---ACAACAC---CAGC---------AGCAGCA------GC...............................................................................................................................................................................................................................................................................................	21	20	0.10	2	0	0	0	2	0
.......................AACAA---------CAACAG--AAACA---ACAACA...............................................................................................................................................................................................................................................................................................................................	22	13	0.08	1	0	1	0	0	0
................................................................................................................................ACACCAACAGCAGCA------------------------------GC------AAC..................................................................................................................................................................................................	20	14	0.07	1	0	0	0	1	0
.................................................................................................................................CACCAACAGCAGCA------------------------------GC------AACAACA..............................................................................................................................................................................................	23	18	0.06	1	0	0	0	1	0
................................................................................................................................................................................................CAACA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------AGCAGCA----...........................................................	26	20	0.05	1	0	1	0	0	0
.....................................................................................................................................AACAGCAGCA------------------------------GC------AACAACAACAACA........................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
.................................................................................................................................CACCAACAGCAGCA------------------------------GC------AAC..................................................................................................................................................................................................	19	20	0.05	1	0	0	0	1	0
.............................................................................................................................................................................................CAACAACA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------AGC...................................................................	25	20	0.05	1	0	0	0	1	0
.........................................................................................................................................................................................................................................................CAA----------------------------------------CAACAGC---------AGCAGCA----A..........................................................	18	20	0.05	1	0	0	0	1	0
.................................................A---ACAACAC---CAGC---------AGCAGC........................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	1	0
......................................................................................................................................................................................................................................................CAACAA----------------------------------------CAACAGC---------AGCAGCA----...........................................................	20	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................CA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------AGCAGCA----ACA----A-----C.............................................	28	20	0.05	1	0	0	0	1	0
.....................................................................................................................................................................................................................................................................................................AACAGC---------AGCAGCA----ACA----A-----CAA-------------T.............................	21	20	0.05	1	0	0	0	0	1
................................................CA---ACAACAC---CAGC---------AGCAGCA------G................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	1	0
.........................................................................................................................................................................................ACAACAACAACA---A---------------------------------------------CAACAA----------------------------------------CAACAGC---------......................................................................	26	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................................................ACAA----------------------------------------CAACAGC---------AGCAGCA----ACA----A-----CA............................................	24	20	0.05	1	0	0	0	1	0
...........................................................................................................................................AGCA------------------------------GC------AACAACAACAACAACA---A---------------------------------------------CAACA...............................................................................................................................	28	20	0.05	1	0	0	0	1	0
........................................................................................................................................AGCAGCA------------------------------GC------AACAACAACAACAAC......................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0

dp5

TCGCAAAAC-ATGTACAATCATCAGCAA-----------------CAGCA---G---CAG---CAAC---------AGCAGCA------GCA---GCA---------GCATCA---------GCAAC------AG---------CA------------GC---------------------AGCAGCAGCAGCAACA---AAAGCAACAGCAGCAGCAGCAGCCCAG----------CT--------GCTGTGGACT------------------------------GA-----------------CC------GAAAT-GC----T-------------------GGC-CCAGCA-------GCTGCACCAACAG--	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
..........................AA-----------------CAGCA---G---CAG---CAAC---------AGCA..........................................................................................................................................................................................................................................................................................................	19	20	0.25	5	0	0	0	0	5	0	0	0	0	0
............................................................................................................................................................................................GCAGCAACA---AAAGCAACAGC.......................................................................................................................................................................	20	4	0.25	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................A---GCA---------GCATCA---------GCAAC------AG---------CA------------GC---------------------AGC..................................................................................................................................................................................................	24	5	0.20	1	0	1	0	0	0	0	0	0	0	0
.........................CAA-----------------CAGCA---G---CAG---CAAC---------AGC...........................................................................................................................................................................................................................................................................................................	19	20	0.10	2	0	0	1	0	0	0	0	0	1	0
...............................................................................................................CA---------GCAAC------AG---------CA------------GC---------------------AGCAGCAGC............................................................................................................................................................................................	22	20	0.10	2	0	2	0	0	0	0	0	0	0	0
................................................................AAC---------AGCAGCA------GCA---GCA---------GCATC..........................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................AAC------AG---------CA------------GC---------------------AGCAGCAGCAGCA........................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.......................AGCAA-----------------CAGCA---G---CAG---CAAC---------AGCAGCA------GC...............................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	1
......................CAGCAA-----------------CAGCA---G---CAG---CAAC---------A.............................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...........................A-----------------CAGCA---G---CAG---CAAC---------AGCAGC........................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	1	0	0	0	0	0	0
...............................................................................................GCA---------GCATCA---------GCAAC------AG---------CA------------GC---------------------AA...................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	1	0	0	0	0	0
...........................................................G---CAAC---------AGCAGCA------GCA---GCA---------GCATC..........................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0
.........................................................................................................................................................................................................AAGCAACAGCAGCAGCAGCA.............................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
..............................................................................................................TCA---------GCAAC------AG---------CA------------GC---------------------AGCAGCAGC............................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	1	0	0	0	0	0
...........................................................................................................................CAAC------AG---------CA------------GC---------------------AGCAGCAGCA...........................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
............................................................................................................................AAC------AG---------CA------------GC---------------------AGCAGCAGCAG..........................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.................................................................................................A---------GCATCA---------GCAAC------AG---------CA------------GC---------------------AGT..................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
........................GCAA-----------------CAGCA---G---CAG---CAAC---------AGCAGCA------GC...............................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	1
.............................................CAGCA---G---CAG---CAAC---------AGCAGC........................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................GCAAC------AG---------CA------------GC---------------------AGCAGCAGCA...........................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0

droPer2

TTCATTTTT-GGGGCCAA----CA--TA-----------------CAACA---G---CAG---CAGCAGCAGCAGCAGCAGCAGAAGGAGAA------------GCAGTAG------------------CAGCAG---------CAACAGAA------GC------AACAGCAAC------AGTGGCAACAACA---------------------------------------------CGCCCCAAAGGAGCAG-A------------------------------------AGGAGG---------------A-GGAGGA----A-----A-------------GGCCCAGGCA-------GAGGCAGAGGCAGTA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
..............................................................................................................................................................................................................................................................................................................................................................CAGGCA-------GAGGCAGAGGCAGT.	20	5	0.20	1	0	0	0	0	1	0
.................................................A---G---CAG---CAGCAGCAGCAGCAGCA..........................................................................................................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0	0	0
.............................................CAACA---G---CAG---CAGCAGCAGCA................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
...........................A-----------------CAACA---G---CAG---CAGCAGCAGCA................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0

droAna3

GGCCGAGAGCTTCGGCGAAG-GAACCTA-----------------CGACA---G---CAG---CAGC---------AGCAGCA------GCA---------------GCAGCG---------ACAGCGGCGACTTCGACAGCAGCA------------------------G------------CAGCAGTAGCAGCG---------------------------AAA------------TGGGTCTCAGTGAGAACA----------------------------------------GT------TAC------GAGGA-GA----T-------------------CGCCCAGGCT-------GCTCTGCGTGCCGCT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
...............................................................................AGCA------GCA---------------GCAGCG---------ACAGCGGC........................................................................................................................................................................................................................................................	21	3	0.33	1	0	0	1	0	0	0
...........................................................G---CAGC---------AGCAGCA------GCA---------------GCAGCG---------AC..............................................................................................................................................................................................................................................................	23	6	0.17	1	0	1	0	0	0	0
..............................................................................CAGCA------GCA---------------GCAGCG---------ACAGC...........................................................................................................................................................................................................................................................	19	6	0.17	1	0	0	1	0	0	0
..........................................................AG---CAGC---------AGCAGCA------GCA---------------GCAGC..........................................................................................................................................................................................................................................................................	21	20	0.15	3	0	3	0	0	0	0
..........................................................................................................................................CAGCAGCA------------------------G------------CAGCAGTAGCA........................................................................................................................................................................................	20	20	0.15	3	0	2	0	0	0	1
.....................................................G---CAG---CAGC---------AGCAGCA------GCA---------------GCA............................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
............................................................................................................................................GCAGCA------------------------G------------CAGCAGTAGCAGC......................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
..........................................................................................................................................CAGCAGCA------------------------G------------CAGCAGTAGC.........................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1

droBip1

GGCCGAAAGCTTTGGCGAAG-GCACCTA-----------------CGACA---G---CAG---CGAC---------AGCGACA------GTG---CCG---------ACTTCG---------A------CACCAG---------CA------------GCAGCAGCAGCAG------------CAGCAGTAGCAGCG---------------------------AAA------------TGGGCCTCAGCGAGAACA----------------------------------------GC------TAC------GAGGA-GA----T-------------------CGCCCAGGCA-------GCGCTGCGTGCCGCC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AGTGAAAAATGTCACCACCA-AC----A-----------------CAACA---ACG--AC---CAGC---------AGCAGTAGCAGCAGCA---GCA---------GCAACA---------GCAGCAGCATCAC---------------CACCATCA------------GCAAC------AGCAGCAGCAGCA---------------------------CCCAAA----------CA--------GGTGAGACCA------------------------------GCTCG-----------CGA---G---CA----ACT----G-----C-------------------AGCAA------CCAATACGACCAGCA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AGCAGCAGC-------AA----CAG------------CAGCAG--CAACA---GCAACAT---CAGC---------AACAGCG------ACA---------------GCAGCA---------GCAGCAGCAGCAG---------CAACAGCAGCAACA------------GCAAC------AGCAGCAGCAGCAGCA---------------------------------------------------------A-CACGAGGAGGAG--------ATGA-----------------TG-----------------------ATGGGCGACC--AG------------CC---GCA-------GCTCAGCGAGGAGCA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TCGTCGACC-ACCTGCCGCA-GCAGCAT---------CAG-----CAGCA---GCAACAT---CAGC---------CGCAGCA------GCA---------------TCAGCA---------GCAGCATAGGCCGCA---------------------------------GCAGC---ATCAGCAGCAGCA------------------------------------------------TAAGCCGCAGCAG----------------------------------------CATCAGC---------AGC---AGCA-ACA----T-----CA-------------GCCGCAGCA-------GCATTGGCCGCAGCA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CAGCAG---CACCAGCAACA-CCAG-----------------------------CAGCAC---CAGC---------AGCAGCA------GCA---------------GCAG------------------CAGCAG---------CAACAGCA------GC------AACAGCAGC------AGCTGCAGCAGCAGCA---------------------------------------------------------G-CAGGCGGCGCAGCAACTGACATCCGCTTCCAACACA-----------CCA---G---CA----ACA----T-----C-------------------AGCAG------CCAAGGCCAGCGGCA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CACAGGCC--CTGGGCAGCA-ACTCGCC-----------------CAAGA---GCAGCAC---CAGC---------AGCAGCA------GCA---------------GCAGCA---------GCAGCAGCAGCAGCAGTAGCAGCAACAGCAGCATTA------------GCAAC------AGCAGCAGCA----------------------------------------------------------------------------------------------------------GT---------CGCACCA-----------GCGACC--AG------------CCGACCC--ACAGCAACATTCCGCGCAGCA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TCGGACAAA-TGCTGCAATA-TCAGCAA---------CCG-----CAACA---GCAACAA---CAGC---------AACAGCA------GCA---------------ACTGCA---------ACAGGAGCAACACCAG------CAACTGCA------AC------AGCAGCAGCAGCAACATCAGCAACTTTTGCA---------------------------------------------------GCAACAG-------------------------------------CTGCCGC---------AGCAGCG----ACG----G-----CAA-------------ACGTACAA-------GGAGTATTTGCAGCA	Size	Hit Count	Total Norm	Total
No Reads

droEug1

ATCACCAACATGCGGCA----GCCGTTG---------CAGCAG-----------T-ATAT---CATC---------TACAGCAGCAGCAGCA---------------ACAGCA---------A------CAGCAG---------CAACTGCAGCAGCA------------GCAAC------AGCAGCAGCAGCAGCG------------------------GCCAAACAATACGGAC--A-ACGATCCA-------GTGGTT-----------------------C--------------------AG------GGAGA-TA----C-------------------TGGCGGTACT-------ACGGTGTCAGCAGCA	Size	Hit Count	Total Norm	Total
No Reads

dm3

ATCACAATGATCCATCGCTG--CTGCTG---------CGA-----CGACA---GCAACAC---GAGA---------AGAAGCA------GAA---------------GCGG------------------CGCAAG---------CAACAGAA------GC------AGCAGCAAC------ACCAACAACG--------------------------------------------------AGTATCAG-------CTAGTC-----------------------CAA----CGAATCCGATGCCT---G---CA----ACA----C---------------------C---CACA-------GCAGCGCCAGCAGCA	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
...................................................................................................................................................................................................................................................TATCAG-------CTAGTC-----------------------CAA----CGAATCCGA.............................................................................	24	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................................................................................................................................AATCCGATGCCT---G---CA----ACA----C---------------------C---..........................	20	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................TATCAG-------CTAGTC-----------------------CAA----CGAATCCGAT............................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
....................................................................................................................................................................................................................................................................TC-----------------------CAA----CGAATCCGATGCCT---G---CA----ACA----C---------------------C---..........................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................CGA-----CGACA---GCAACAC---GAGA---------AGAAGCA------.................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................AGA---------AGAAGCA------GAA---------------GCGG------------------CGCAAG---------CAACA.....................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................ACCAACAACG--------------------------------------------------AGTATCAG-------CTAGTC-----------------------.............................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................................................................................................................................................ACA-------GCAGCGCCAGCAGCA	18	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................AG---------CAACAGAA------GC------AGCAGCA.............................................................................................................................................................................................................	19	7	0.14	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	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

droSim2

TCGCAAGT--TGCTGCTGCA-GCGG---------------CGG----GCAATAG---CGGTGGCAAC---------AGCAGCA------GCAACAACAACAACAACAACAG---------------CAGCGGCAA---------CAACAGCA------GC------AGCGGCAACAGCGACAGCGGCAATGATGGCA---------------------------------------------------------G-CATGAC--------------AG--------------GA---TC------CTC------GGGAA-CCATGGA-----C-------------AACCATCGCA-------GCAGTGTTAGCAGCA	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
.................................................AATAG---CGGTGGCAAC---------AGCAGCA------GCAACA...........................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................AACAG---------------CAGCGGCAA---------CAAC......................................................................................................................................................................................................................................	18	7	0.14	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................CAA---------CAACAGCA------GC------AGCGGC..............................................................................................................................................................................................................	19	12	0.08	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0

droSec2

TTCGAGCAGCATCAGCCGCA-CCAGTCG-----------------CATCA---GCAACAT---CAGC---------AGCAGCA------GCT---------------GCAGCA---------TCAGCAGCAGCAGCAG------CTGCAGCA---TCA------------GCAGC---AGCAGCAACATCAGCAGCAACAA---------------------------------------------AATCAG-------------------------------------------CAGC---------AGCAGCA-----------G---------------------CTACAACA-------GCAACATCAGCAGCA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
...........................................................................................................GCAGCA---------TCAGCAGCAGCAGCAG------C.........................................................................................................................................................................................................................................	23	10	0.10	1	0	0	1	0
...................................................................................................................................................................................GCAGCAACATCAGCAGCAAC...................................................................................................................................................................................	20	13	0.08	1	0	0	1	0

droYak3

CGCCCA---CTTCGGCCGCA-GCAG---------------CGGTACAGCA---G---CAG---CAGC---------AGCAACA------ACA---------------GCAGCA---------GCAGCAGCAGCTACAGCAGCAGCAACAGCA------GC------AGCAGCAAC------AGCAACAACA---------------------------------------------------------------A-------------------------------------------C---------AGGTTGT-----------GGGAGG--AGTGGGCGTGGGCGCCCAGGCT--CA---GGGATCCGTGT-ACT	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
.................GCA-GCAG---------------CGGTACAGCA---G---CA...............................................................................................................................................................................................................................................................................................................................	20	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
.....................................................G---CAG---CAGC---------AGCAACA------ACA---------------GCAG...........................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................ACAGCA---G---CAG---CAGC---------AGCAACA------ACA---------------GC.............................................................................................................................................................................................................................................................................	26	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................CAGCA------GC------AGCAGCAAC------AGC..................................................................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................GCAGCAACAGCA------GC------AGCAGCAAC------A....................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................GCAGCAACAGCA------GC------AGCAGCAAC------AGCA.................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................GCAACA------ACA---------------GCAGCA---------GCAGCAGC........................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................AACA------ACA---------------GCAGCA---------GCAGCAGCAGC.....................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................................................CA---G---CAG---CAGC---------AGCAACA------ACA---------------GCAGC..........................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1

droEre2

CTCGCCCAAGAGCAGCAGCA-GCAG------------CAGCAG--CATCA---G---CAG---CAAC---------AGCAGCA------GCA---------------GCAG------------------CAGCAG---------CCACAGCA------GC------AGCAGCAGC------ATCAGCAGCATCAGCA---------------------------------------------------GCAGCGG-------------------------------------CAGCAGC---------GGCAGCA-----------GCGACC--AG------------CCCACAC--ACAGCAACATTCCGCGCAGCA	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
..CGCCCAAGAGCAGCAGCA-GC...................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1	0
.................GCA-GCAG------------CAGCAG--CATCA---G---CAG---CA.........................................................................................................................................................................................................................................................................................................................	24	20	0.55	11	8	0	0	0	2	1	0
.....................................................................................................................................................GCA------GC------AGCAGCAGC------ATCAGCAGCA...........................................................................................................................................................................................	24	20	0.55	11	8	0	0	0	2	1	0
.........GAGCAGCAGCA-GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	29	2	0.50	1	1	0	0	0	0	0	0
.......................................................................................................................................................A------GC------AGCAGCAGC------ATCAGCA..............................................................................................................................................................................................	19	20	0.45	9	0	0	0	0	2	7	0
.......................AG------------CAGCAG--CATCA---G---CAG---CA.........................................................................................................................................................................................................................................................................................................................	19	20	0.40	8	0	0	0	0	3	5	0
......................................................................................................................................................................AGCAGCAGC------ATCAGCAGCA...........................................................................................................................................................................................	19	20	0.40	8	0	0	0	0	3	5	0
...................A-GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	19	20	0.30	6	6	0	0	0	0	0	0
................................................................................................................................................CCACAGCA------GC------AGCAGCAGC------AT...................................................................................................................................................................................................	21	4	0.25	1	0	0	1	0	0	0	0
........................G------------CAGCAG--CATCA---G---CAG---CAAC---------AGCAGCA------.................................................................................................................................................................................................................................................................................................	27	4	0.25	1	0	0	0	0	1	0	0
..............GCAGCA-GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	24	20	0.25	5	5	0	0	0	0	0	0
.............AGCAGCA-GCAG------------CAGCAG--CATCA---G---CAG---CA.........................................................................................................................................................................................................................................................................................................................	28	18	0.22	4	2	0	0	0	1	1	0
................................................................AAC---------AGCAGCA------GCA---------------GCAG------------------C........................................................................................................................................................................................................................................................	18	20	0.20	4	0	0	0	0	0	4	0
.............................................CATCA---G---CAG---CAAC---------AGCAGCA------GCA---------------GCAG------------------.........................................................................................................................................................................................................................................................	27	5	0.20	1	0	0	0	0	0	1	0
..............GCAGCA-GCAG------------CAGCAG--CATCA---G---CAG---CA.........................................................................................................................................................................................................................................................................................................................	27	19	0.16	3	3	0	0	0	0	0	0
................AGCA-GCAG------------CAGCAG--CATCA---G---CAG---CA.........................................................................................................................................................................................................................................................................................................................	25	20	0.15	3	1	0	0	0	0	2	0
.....................GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	18	20	0.15	3	0	0	0	0	0	3	0
....................................................................................................................................................AGCA------GC------AGCAGCAGC------ATCAGCA..............................................................................................................................................................................................	22	20	0.15	3	1	0	0	0	0	2	0
.................GCA-GCAG------------CAGCAG--CATCA---G---C................................................................................................................................................................................................................................................................................................................................	20	20	0.15	3	3	0	0	0	0	0	0
....................................................................................................................................................AGCA------GC------AGCAGCAGC------ATCAGCAGCA...........................................................................................................................................................................................	25	20	0.15	3	1	0	0	0	0	2	0
............................................................................................................................................................................AGC------ATCAGCAGCATCAGCA---------------------------------------------------GCAG..............................................................................................................................	23	8	0.13	1	0	0	0	1	0	0	0
.............AGCAGCA-GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	25	20	0.10	2	2	0	0	0	0	0	0
..............................................................................................................................................................GC------AGCAGCAGC------ATCAGCAGCA...........................................................................................................................................................................................	21	20	0.10	2	0	0	0	0	2	0	0
.......................................................................................................................................................A------GC------AGCAGCAGC------ATCAGCAGCA...........................................................................................................................................................................................	22	20	0.10	2	1	0	0	0	0	1	0
.............AGCAGCA-GCAG------------CAGCAG--CATC.........................................................................................................................................................................................................................................................................................................................................	21	20	0.10	2	0	0	0	0	2	0	0
.....................................................................................................................................................GCA------GC------AGCAGCAGC------ATCAGCA..............................................................................................................................................................................................	21	20	0.10	2	0	0	0	0	0	2	0
.................GCA-GCAG------------CAGCAG--CATCA---G---CAG---C..........................................................................................................................................................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0	0	0
...............CAGCA-GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	23	20	0.10	2	0	0	0	0	2	0	0
.....................................................................................................................................................GCA------GC------AGCAGCAGC------ATCAGCAGC............................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0	0	0
........................................................................................................................................................................................AGCAGCATCAGCA---------------------------------------------------GCAGC.............................................................................................................................	18	20	0.10	2	2	0	0	0	0	0	0
..................................................................................................................................AGCAG---------CCACAGCA------GC------AGCA................................................................................................................................................................................................................	19	11	0.09	1	0	0	0	0	0	1	0
.........................................................................................................................................................................AGCAGC------ATCAGCAGCATCAGCA---------------------------------------------------GC................................................................................................................................	24	12	0.08	1	0	0	0	1	0	0	0
.........................................................................................................................................................................AGCAGC------ATCAGCAGCATCAGC......................................................................................................................................................................................	21	15	0.07	1	0	0	0	1	0	0	0
..............GCAGCA-GCAG------------CAGCAG--CATCA---G---.................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	1	0
................................................................................................................................................................................................CAGCA---------------------------------------------------GCAGCGG-------------------------------------CAGCAGC---------......................................................................	19	20	0.05	1	0	0	0	0	0	1	0
...............................................................CAAC---------AGCAGCA------GCA---------------GCAG------------------CAGCA....................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	1	0
........................G------------CAGCAG--CATCA---G---CAG---CAA........................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0
................AGCA-GCAG------------CAGCAG--CATCA---G---C................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0	0
...............................................................................................................................................................C------AGCAGCAGC------ATCAGCAGCA...........................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1	0
....................................................................................................................................................AGCA------GC------AGCAGCAGC------ATCAGC...............................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1	0
..............................................................................................................................................................................C------ATCAGCAGCATCAGCA---------------------------------------------------GC................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0
............CAGCAGCA-GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	1	0
......................CAG------------CAGCAG--CATCA---G---CAG---CA.........................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1	0
.................GCA-GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0
....................................................................................................................................................AGCA------GC------AGCAGCAGC------ATCAG................................................................................................................................................................................................	20	20	0.05	1	0	0	0	1	0	0	0
................AGCA-GCAG------------CAGCAG--CATCA---G---CA...............................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0
.....................................................................................................................................................GCA------GC------AGCAGCAGC------ATCAGC...............................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0
..................CA-GCAG------------CAGCAG--CATCA---G---CAG---CA.........................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	1	0	0	0
..............................................................................................................................................................GC------AGCAGCAGC------ATCAGCAGC............................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0	0
...........................................................G---CAAC---------AGCAGCA------GCA---------------GCA............................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	1	0	0
..................CA-GCAG------------CAGCAG--CATCA---G---CAG---...........................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0	0
..............GCAGCA-GCAG------------CAGCAG--CATC.........................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0	0
...................A-GCAG------------CAGCAG--CATCA---G---CAG---CA.........................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	1	0	0	0	0	0	0
..............GCAGCA-GCAG------------CAGCAG--CATCA---G---CAG---C..........................................................................................................................................................................................................................................................................................................................	26	20	0.05	1	1	0	0	0	0	0	0
.............AGCAGCA-GCAG------------CAGCAG--CATCA---G---C................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0
...........GCAGCAGCA-GCAG------------CAGCAG--CATCA---.....................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0	0

-13.1	-12.8	-12.4	-12.4

dgr_259

scaffold_15081:948920-948982 +

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