dgr_109

exon [dgri_GLEANR_1641:3]; CDS [Dgri\GH16740-cds]; CDS [Dgri\GH16740-cds]; exon [dgri_GLEANR_1641:4]; intron [Dgri\GH16740-in]

Name	Class	Family	Strand
TART_DV	LINE	Jockey	-
(TTG)n	Simple_repeat	Simple_repeat	+

##################################################------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## CAACAATTTGAACAGCGATAAGCAGGCATCTAAAGACAGCAGCAGCAAAGATAATGCAAACGATAAATCAGCAACGGCCACAGCAGAGTCAGCCTCACTAACAACAACAACAACACCAACAACAGCAACAACAAACCTGGCTGCCAATGCAAGTAAAAATGAAAACAATTCAACAACAACAACAACAACGACAGCAGCAACAGCAACGACAATAATAACAACAACGAAAGCGACAACAACAGCGCCAAGCTCACCTGCAAAAATCAATGTAACGGGCAGCACTCTGGACGCT ************************************************....(((...((........((....))....(((....(((((............................................)))))....))).........((((.....))))........................((....))....................))...)))..........************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M041 female body
..............................................................................................................................................................................................................................AACGAAAGCGACAACAACAGCGC...............................................	23	0	1	1.00	1	1
..........................................................................................................................................................................................................................................................................ATGTAACGGGCAGCACTCTGGAC...	23	0	1	1.00	1	1
..............................................................................................................................................................................................ACAGCAGCAACAGCAACGA...................................................................................	19	0	10	0.10	1	1
....................................................................................................................................................................................................GCAACAGGAACGACCATGATA...........................................................................	21	3	13	0.08	1	1

Species	Coordinate	ID	Alignment
droGri2	scaffold_14830:110080-110371 -	dgr_109	CAACAA--TTTGAACAGCGA---T----AAGCAGGCATCTAA--AGA--------------------------CAGCAGC---------------------------------------------------------------------------AGCA------------------------A-------------AGATAATGCAAAC----GATAAATCAGCAACGGCCACAG----------------------------------------------------------------------------------CAGAGTCAGCCTCACTAACAACAACA----------------AC---------------------------AAC---------------------------------------------------------ACCAACAACAGCAACAA---------------CAAACCTGGC-----------------------------------------------------------------------------------------------------------------------TGCC-AATGCAAGTAAAAATGAAAAC------AATTCAAC------------------------AACAACAACAACA-------ACGACAG-------------------------------------CAGCAACAGCAACG---A---CAA------------------------------TAATAACAACAACGAAAGC--------------------------------------------------------------------------------------------------------------------------------------GAC---A-ACAACAGC----------GC-CAA-----GCT-CACCTGCAAAAATCAATGTAACGGGCAG--CACTCTGGACGCT
droVir3	scaffold_12855:1727068-1727335 -		CAACAA--CTTGAGCACCGA---T----AAGCAGGCATCTAA--AGA--------------------------CAG---C---------------------------------------------------------------------------AGCA------------------------A-------------AGATAATGCAAAC----GATAAATCAGCGACGGCTACAG----------------------------------------------------------------------------------CAGAGTCTGCAACAGCAACAACAAC----------------------------------------------------------------------------------------------------------ACC--------------------------------------------------------AACAGCAAAGAC------------------------------------------------------------------------------------------TTTC-AATGCAAATGAAAATGAAAAT------ACATC---------------------------AACAACAGCAACA-------GCAACAACA-------------------------------------GCAACAAATGC---------------------------------A------------------------AC------------------AGCCACAA----CA----------------------------------------------------A---CAACTACAGC------------------------------------AAC---A-ACAACAAC----------GC-CAA-----GCA-CACCTGCTAAAATCAATGTAACGGGCAG--CACTTTGGACGCG
droMoj3	scaffold_6540:27443173-27443422 -		CAACAA--TTTGAGCGGCGA---T----AAGCAAGCATCTAA--AGA--------------------------CAGCAGC---------------------------------------------------------------------------AGCC------------------------A-------------AGATAATGCAGAC----GATAAATCAGCAACAGCTACAG----------------------------------------------------------------------------------CAGACTCTGCTACAGCAACACCAACA----------------GC---------------------------AA-----------------------------------------------------------------------------------------------------------------------CAGCTACGGCTACGGCTACAGCAACA---------------------------------GCA------------------------------GCAAC---TCCC-AATGCAAATGAAAATGAAAAT------AAAAC--------------------------------------------------------------------------------------------------AAC------------------------------------AA-------------------------------------------------------CAACAATAAC----------------------------------------------------------------------------------------------------G-ACATCAAC----------GC-CAA-----GCT-CACCTGCAAAAATCAATGTAACGGGCAG--CACTTTGGACGCG
droWil2	scf2_1100000004515:3348261-3348530 +		CAACAA--ATACAACAACAA---C----AAA--------------TA-----------------------------------------------------------------------------------------CAACAA------------CAATAACAACAACA---GCAA------------C--------AA-----------CAACAACAACA---GCAACAACAACAACAA-----CAACAACAA---CAACAACAGC--------------------------------------AGCAG---------CAAA----------------------------------A---------ACAACAACAACAACAACAACAACAAG------A---------------------------------------ACAACAA---------------------------------------------------------CA-GC----------AACAACAA---------C---------------------------------AACA------------------------------GCAACAAC----------------------------------------------------------------A---ACAAC---------------------------------------------AACAA--------------------------------CAACAACAACAACAACAACAACAA------------------CAACAACA---------------ACAAC-----------------------------------------------------------------------------------AACAACAACAACAACAACAACAACAACAACA-------ACAACAACAACA-----C---CAACAG------------------CA----------A--CA----------C
dp5	XR_group6:8816275-8816522 -		CAGCAC--CTAAAACAACAA---C----A-----------------A---------CAT--------------------CA---------------AC------------------------------------------------------------AACAACAACA---AA-------------------------------TCAAAC----AATA----------------------------------------ACACCAAA---------------------------A--A---------CAACACAAACAG---------CAACACCAACAACACCA----ACAATATC------ACCAACA------------------ACTAAACCAACATCCACAACAATGCCAC---------------------AAACAGAAA---------------------------------------------------------TA-AC----------ACCAACAA---------C---------------------------------AACA------------------------------ATAATACC----------------------------------------------------------------A---ACAAC---------------------------------------------AATAACAGCA--CCAACAACA---ACA---------------------------C------------------CAACAACAACAACA---------------TCAACAAGAA-----------------------------------------------------CAC---CAACA------------------------------------AAAACAAT----AACA-----------------C---CAA---------------------CA----------A-------------CA
droPer2	scaffold_2:5826550-5826849 -		CAGCAA--CAGCAGCAGAAA---C----A-----------------G---------CAG--------------------CA---------------GC------------------------------------------------------------AGCAACAGCA---GCAA------CAAC-------------AGCAACAGCA---------------GCAACAGCAGCAACAG-----C------AA-----------------------------------------------------------------------------CAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGCAACAGCAACAGCAGCAGCAGCAACAACAGCAACAGCAACAACAGCAACAGCAGCAGCAGCAGCAAGTT-----TTTGCTGTCAGCAGCATT--------AA--AGT------AAAAAGTGAAAACACATTAGCAGC---------------------------AGTAACAGCAAC----AGTT-----------------GCAACACC---------A-----------ACAACAAC------------------------------------AACAACTAATGCAACACCAGCAGCAACGCCA---------------GCAGCAACAG-----------------------------------------------------CAG---CAGCA------------------------------------ACAGCAAC----AGTA-----------------G---CAG---------------------CA----------G-------------CA
droAna3	scaffold_13337:19297496-19297764 -		CGGCAA--CAGGAACTGCAA---C----GGC-------------------------------------------------------------------------------------------------------------------CACAGCAACAGCAACTACAACTGGAACAGCAACAGCAACAGCAACTGCAA-------------CAGC------------------------AA-----C------TACAACTGCAACAGCAACTA---CAAGTGCAACAGCAACTTCA--ACTCCAACAGC-------------------------------------------------------------A------------------ACAAC------A---------------------------------------ATTA------------------------------------------------------------CA-AC----------AGAA---------------------------------------------------ACTAGAACA---------------------GCAACAGC-------------------------------------------------------------------AACTTAAAT----TACA-----------------ACAGCAGC---------TA--------GAACAGCAAC---A---G---CAATTACAACAGCAG---------------------------CTAGAACAA-----------------------------------------------------------------------------------------CAACAACAGCTACAACAGCATCACCAAAT------------------AC----AACA-----------------T---GAG---------------------CA----------G-------------CA
droBip1	scf7180000396708:4129112-4129388 +		AAACTA--CAAGAACAACAA---A----A-----------------A---------CTA--------------------CA---------------AC------------------------------------------------------------AACAACAACAAAAACTACAACAACAACAAAATCTACAA-------------C---------------------AAC---AA-----C------AAAAACTACAACAACAACAA---CAAAAACTACAACAACAACAAAACTACAACAAC-------------------------------------------------------------A------------------ACAAA------A---------------------------------------ACTA------------------------------------------------------------CA-AC----------AA---------------------------------------------------CAACAAAAACTACA------------------ACAACAAC----------------------------------------------------------------AAAAACTACAAC-------------A-----------ACAAC------------AA--------AAACTACAAC------------------------------------AACAACAAAAACTACAACAACAACAAAAACT---------------ACAACAACAA-----------------------------------------------------CAA---AAACT------------------------------------ACAACAACAAG-AAAA------AC------A--A-------------------------------------CAA--CAACCAGAA--CT
droKik1	scf7180000302698:119909-120173 +		CAGCAG--GTGAAGGAGGAA---C----A-----------------T---------CAG--------------------CA---------------GC------------------------------------------------------------AACAACATCA---GCAG------CAGCAAC--------AACATTCT-CCAGA----ATTAAGCCAACATCAACAGC-----------------AACAGCAACACCAGCAGCAA--------------------------------------------------------CATCAACAACAACATCA----------------AC---------------------------AA---CAACTTCA---------------------------------------ACAG---------------------------------------------------------CA-AC----------TTCAACAA---------C---------------------------------AGCA------------------------------GCAAATTC----------AACAACAGCAGAAAAA------TCAAC---------------------------AACAGCAGCAACA-------TCAACAAGA-------------------------------------GCAACTTCAAC---AACAG---------------------------------CAACTTCA---------AC------------------AACAGCAGCA--------------------------------------------------------ACATCAACA---------------------------------------GCACC---A-ACAACTTC---------A--A------------------------------------------------------C
droFic1	scf7180000453906:735686-735984 +		ACACGA--CCGCAGCAACAA---T----AGTCCGCCCC------------------------------------------------------------------------------------------------------------CGCAGCAACAGCAACAGCAGCAACAACAGCAGCAGCAGCAGCAATCGCAG-------------CAGC------------------------CGACTGTCAATGGCAGCAGCACTGCCAGCAGCAACAACAACAACAACAGCAAC---------------------------------------------------------------------------------------------------AA------------------CTCCATGCTACCGCCCGCTGTTCAGCAGAACAACAA---------------------------------------------------------CA-AT----------GCCAACAA---------C---------------------------------AACA------------------------------ACGAAAGC----------------------------------------------------------------A---ACAAC---------------------------------------------ACCAG-----CAGCAGCAGCAACAACA---------------------------C---------GAACAGCAGCAACAACAGCGGCAGC------------AACAGCG-----------------------------------------------------------G---CAACAACA---------------------------------ACAACAAC-------AACAATGCC------A--ATGCGGG---------------------CA----------G-------------CA
droEle1	scf7180000491023:493575-493869 +		CAACAT--CGATA-TATTAACTAC----AAA--------------AACAACAACAACAATATAGCAATATGTACGGCAAT---------------------------------------------------------------------------GGCA------AC------------------AAC--------AACATA--ACAA------------------------------G-----C------AA---ATGCAACAAC---------------------------A--A---------TATCTGACATAC---------CAATAACAACAGCAGCA----GCAATATT------TGCAGCA------------------ACAAA------A---------------------------------------GCAA------------------------------------------------------------CA-TC----------GGGC-------------------------------------------------CCATAAGAGCA---------------------ACAACAG-------------------------------------C------------------------AACACTAGCAACA----------GC---A-----------AC---------------AGC--------AACAGCAAC------------------------------------------------GGCA---------AC------------------AGCAACAGCA--------------------------------------------------------ACATCAACG------------------------------------G-GGCAAC---A-ACAACAGC------AACCGG-CAA-----GCTGTACTTGAACAAGTC---GTACTTGGCATCGTATTTTG----GA
droRho1	scf7180000766547:576-829 +		CAACAAATCACGGGCAGCGA---A----GCGTTGGCGCCATT--GT----------------------------T---------------------GCAGGAGTTAATAGGCCAAACTGTGCCAAATTGGCAGGCACAGCAG------------AAGCAACAACAGCA---GC------------AGC--------AA-----------CAAC---AG---CAACAGCAGCAACAACCA-----AAA--------------------------------------------------------------------------------CAGCAGCAACAACAGCA----------------G--------------------------------------------------------------------------------------------------------------------------------------------------CAACAACGGCAGCAACAGCAGCAACAACA---------------------------------GCA------------------------------GC-------------------------------------------------------------------AACAACAGCAGCA-----------------------------------------------------------------------------------------------------------------------ACAACAGCAGCAGCAACAGCAACAATACCAGCAGC-----------------------------------------------------------------A------------------------------------ACACCAAC----CAAA-----------------A---CAG---------------------CA----------G-------------CA
droBia1	scf7180000298389:1471431-1471730 -		CAACAG--CAGCAATATTCACCTC--------------------------------------------------------------------------------------------------------------------------TAAGGCAGCAACAACAACAGCAGAAGCAGAAGGAGCAGCAGCAACCACAA-------------CAGC------------------------GG-----C------AACACCAGCAGCAGCAACAG---CAGAAACAACAGCAACATCA--GCCACAGCAGC------------------------------AGCAAT-------------A---------GCAACAAAAGCAACAAAAGCAACAAC------A---------------------------------------GCAGCAA---------------------------------------------------------C--------------AGCAGCA------AC----------------------------------------------------------------------------------------------------------------------------------------------A---ACAGC---------------------------------------------AGC--------AACAGCACC---A---G---CAACAACAGCAACTA---------------------------CACCAGCGAC-------------------------------------------------------AACAGCAACTACAC-------------CAG---C------------------AACAACAGCAACTACACCAGCAACAGCAACA-------TCAGTCACAGC---A--G---CAA--------------------------------------CATTGG--GCC
droTak1	scf7180000415310:986341-986619 +		CAACAA--CTGAGCCAACAA---C----AAA--------------AA-----------------------------------------------------------------------------------------CAACAGAGCCCACAACAACAACAACAACAACGGAAACCAC----------------------------------------TA---CAACAACTACAACAACAG-----AACCAACTA---CTACAACAAC---------------------------A--A---------CAA---------CGGA----------------------------------A---------CCAACAACTACAACAACAACAACGGAACCAACTACT------------------------------------ACAA------------------------------------------------------------CA-AC----------CACTACA------------------------------------------------------------------------------ACAACAAC----------------------------------------------------------------GGAACCCACAAC-------T-----------------ACTACAACAACCACTACAACTACAGAA--CCCACCACT---ACAACAA---------------------------------CAACAGAA---------CC---A---------------ACTACTACTA-----------------------------------------------------CAA---CAACA------------------------------------GAACCAAC----TACTAC------------T--A---CAA---------------------CA-------------------------A
droEug1	scf7180000409631:95042-95284 +		CAAACA--AACAAACAA--A---CAAACAAACAAACAAACAAACAAA--------------------------CAACAAC---------------------------------------------------------------------------AACA------AC------------------AAC-------------AACAACAAC----AAC-------------------------------------------AACAAC---------------------------A--A---------CAACAACAACAACAACAACAACAACAACAACAACAAC----------------------------------------------AA--------------------------------------------------------------------------------------------------------------------CAACAACAACAACAACAACAACAACAACAACA------------------------------ACA------------------------------ACAACAA-------------------------------------C---------------------------AACAACAACAACA-------ACAACAA-------------------------------------CAACAACAACAAC---------------------------------A------------------------AC------------------AACAACAA--------------------------------------------------------CAA---CAACA------------------------------------ACAACAAC---A-ACAACAAC----------AA-CAC-----ACA-CAC-----------------------------------ACACA
dm3	chrX:1897983-1898241 +		CAACAA--TGG--ACTGCCG---T----G-----------------T---------CGA--------------------CG---------------AC------------------------------------------------------------GCCAGCAACAGGAGTGA----------------------------------T----GATG----------------------------------------ACGACGAC---------------------------G--A---------CGACACAATCAC---------AATCACAAGCAACATTAGCAC--------CACAACA---ACA------------------------GCAACT-----------------------------------------------------------------------------------------------------------------------ATCACTGCCACAACAAAA---------------------------------GCA------------------------------ACAAT---TT---AATACGAGAATAAACAGAAAA------ACAAC---------------------------AATTACAACAGCCACC----AC---AACA------GC-----------------A-----------CCAACAGC------------------------------------AACA------------------------------------------ACAGCA----ACAACAACAACA-------------------------------------------------------AC---------A--------------------------CGA---A-ACAGCAAC----------AT-CAA-----CTT-CAACAGCAACAATAACT----------A-------------TA
droSim2	3r:325021-325295 +		CAACAA--CACCAACCACAA---C----G-----------------A---------CAC--------------------CA---------------AC------------------------------------------------------------TACAACAACA---ACAA------CTAC-------------AACAACGCCAACTACAACGACA---CCAACTACAACAACAA-----TAACAACTA---CTACAACAAC------------------ACCAACTACA--------------------------------------ACAACACCAAC-------------C---------ACA------------------ACGACACCAACTACA------------------------------------ACTA------------------------------------------------------------CA-AC----------AACGCCA------------------------------------------------------------------------------ACTACAAC-------------------------------------------------------------------GACATCAAC----TACG-----------------ACAACACC---------AA--------CTACAACAACTAC---------------------------------AACTA---CAACAACACCAACAACAACAACT---------------ACAACA-----------------------------------------------------------A---CACCA------------------------------------ACACCAACTAC-AACA------ACGACAACT--A---CAA---------------------CA----------A-------------CG
droSec2	scaffold_21:116373-116631 +		CAACAA--TGTGAACAACAA---C----AAT--------------------------AA--------------------TGGTTCGCTTGTGGTCAGT---------------------------------------------------------GCGA------------------------A-------------AAACATGGCTAAT----AATAA----------------------------------A------AGTAAT---------------------------A--A---------GAATAACAG---CAAAT----------------------------------------------------------------------------------------------------------------GCAAAAACAACGAGGCCAGCAGCAGCAACAACAA--------------------------------------CAA--------------------------------------------------------------------------------------------------------------------------------------TGCGGCGACAGCGGCAGCTGCAGCAGCTACAACAACAACGAC-------------G-----------AC---------------AGC--------------------------------------------------------------------------AGAAGAACCG---------------GTAACA----ACAACAATAAC----------------------------------------------------A------------------------------------ACTACAAC----AACA-----------------G---CAG------CAGCAGCTGATGATGAGGATATATCCAG--CGATCTGAGCGAT
droYak3	3R:20639374-20639658 -		CAGCAA--CAGCAACAGATA---T----TACCAGCTGGCT--------------------------TGGTAAACGGCAAC---------------------------------------------------------------------------GGCA------AC------------------GGC--------AACATGATGCAAGT----GGCAAATCTGCATCTGCAGCAG----------------------------------------------------------------------------------CAGC------------------AGCA----GCAACAAC------CGCAGCA------------------GCGAA---------------------------------------------------------A-------------------CAGTCAGCAGCACATATTTGTCTGCCCCACCAGCAACC----------AGCAACTTCTTC----------------------------------------------------------------------------------------------------------------------------------------------------------TGCAACA----GC---A------ACAAC-----------------ATC-----------AGCAGC------------------------------------AGCA------------------------------------------GCAGCA----ACAACAGCAACAAACCAAACAGCGCCAGGCGCAAATAAAGTTGCCAATAAAGTCAG---CGGCA------------------------------------ACAACGGG----AGTA-----------------A---CGG---------------------CA----------G-------------CA
droEre2	scaffold_4820:8311792-8312040 +		CAACAG--ATATTACC--AG---C----TGG-------CT--------------------------TGGTAAACGGCAAT---------------------------------------------------------------------------GGCA------GC------------------GGC--------AACATGATGCAAGT----GGCAAATCTGCATCTGCAGCAG-----------------CAGCAGCAACAGCAGC------------------------------------------------------------------------------------------------------------------------GAA---------------------------------------------------------A-------------------CAGTCAGCAGCACATATTTGTCTGCCCCACCAGCAACC----------ATCAACTCCTTC----------------------------------------------------------------------------------------------------------------------------------------------------------TGCAACA----GC---AGCAGCAACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------GCAGCA----ACAACAGCAACAAACCAAACAGCGCCAGGCGCAAATAAAG------------------------------------------------------------TTGCCAAT----AAAG-----------------T---CAG---------------------CG----------G-------------CA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droGri2

CAACAA--TTTGAACAGCGA---T----AAGCAGGCATCTAA--AGA--------------------------CAGCAGC---------------------------------------------------------------------------AGCA------------------------A-------------AGATAATGCAAAC----GATAAATCAGCAACGGCCACAG----------------------------------------------------------------------------------CAGAGTCAGCCTCACTAACAACAACA----------------AC---------------------------AAC---------------------------------------------------------ACCAACAACAGCAACAA---------------CAAACCTGGC-----------------------------------------------------------------------------------------------------------------------TGCC-AATGCAAGTAAAAATGAAAAC------AATTCAAC------------------------AACAACAACAACA-------ACGACAG-------------------------------------CAGCAACAGCAACG---A---CAA------------------------------TAATAACAACAACGAAAGC--------------------------------------------------------------------------------------------------------------------------------------GAC---A-ACAACAGC----------GC-CAA-----GCT-CACCTGCAAAAATCAATGTAACGGGCAG--CACTCTGGACGCT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACGAAAGC--------------------------------------------------------------------------------------------------------------------------------------GAC---A-ACAACAGC----------GC-.......................................................	23	1	1.00	1	1	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGTAACGGGCAG--CACTCTGGAC...	23	1	1.00	1	1	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAG-------------------------------------CAGCAACAGCAACG---A---..............................................................................................................................................................................................................................................................................	19	10	0.10	1	1	0

droVir3

CAACAA--CTTGAGCACCGA---T----AAGCAGGCATCTAA--AGA--------------------------CAG---C---------------------------------------------------------------------------AGCA------------------------A-------------AGATAATGCAAAC----GATAAATCAGCGACGGCTACAG----------------------------------------------------------------------------------CAGAGTCTGCAACAGCAACAACAAC----------------------------------------------------------------------------------------------------------ACC--------------------------------------------------------AACAGCAAAGAC------------------------------------------------------------------------------------------TTTC-AATGCAAATGAAAATGAAAAT------ACATC---------------------------AACAACAGCAACA-------GCAACAACA-------------------------------------GCAACAAATGC---------------------------------A------------------------AC------------------AGCCACAA----CA----------------------------------------------------A---CAACTACAGC------------------------------------AAC---A-ACAACAAC----------GC-CAA-----GCA-CACCTGCTAAAATCAATGTAACGGGCAG--CACTTTGGACGCG	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
........................................................................................................................................................................................................................................ACAG----------------------------------------------------------------------------------CAGAGTCTGCAACAGCAACAAC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................AACAAC----------------------------------------------------------------------------------------------------------ACC--------------------------------------------------------AACAGCAAAGAC------------------------------------------------------------------------------------------...................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................AGCGACGGCTACAG----------------------------------------------------------------------------------CAGAGTCT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	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	1	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACTACAGC------------------------------------AAC---A-ACAACAAC----------GC-CAA-----...............................................	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
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACA-------GCAACAACA-------------------------------------GCAACAAAT........................................................................................................................................................................................................................................................................................	21	8	0.13	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AA----CA----------------------------------------------------A---CAACTACAGC------------------------------------AAC---A-............................................................................	19	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAGCAACA-------GCAACAACA-------------------------------------GCAA.............................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAGCAACA-------GCAACAACA-------------------------------------GCAACA...........................................................................................................................................................................................................................................................................................	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

droMoj3

CAACAA--TTTGAGCGGCGA---T----AAGCAAGCATCTAA--AGA--------------------------CAGCAGC---------------------------------------------------------------------------AGCC------------------------A-------------AGATAATGCAGAC----GATAAATCAGCAACAGCTACAG----------------------------------------------------------------------------------CAGACTCTGCTACAGCAACACCAACA----------------GC---------------------------AA-----------------------------------------------------------------------------------------------------------------------CAGCTACGGCTACGGCTACAGCAACA---------------------------------GCA------------------------------GCAAC---TCCC-AATGCAAATGAAAATGAAAAT------AAAAC--------------------------------------------------------------------------------------------------AAC------------------------------------AA-------------------------------------------------------CAACAATAAC----------------------------------------------------------------------------------------------------G-ACATCAAC----------GC-CAA-----GCT-CACCTGCAAAAATCAATGTAACGGGCAG--CACTTTGGACGCG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACGGCTACGGCTACAGCAACA---------------------------------GCA------------------------------GCAA.......................................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	1	0	0	0	0	0
.....................................................................................................................................................................................................AGATAATGCAGAC----GATAAATC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	1	0
..................................................................................................................................................................................................................................ACAGCTACAG----------------------------------------------------------------------------------CAGACTCTGC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A------------------------------GCAAC---TCCC-AATGCAAATGAA..................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
............................................................................................................................................................................................................................TCAGCAACAGCTACAG----------------------------------------------------------------------------------CAGACT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................AA-----------------------------------------------------------------------------------------------------------------------CAGCTACGGCTACGGCTACA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	2	0.50	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................GCAACACCAACA----------------GC---------------------------AA-----------------------------------------------------------------------------------------------------------------------CAGC...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0

droWil2

CAACAA--ATACAACAACAA---C----AAA--------------TA-----------------------------------------------------------------------------------------CAACAA------------CAATAACAACAACA---GCAA------------C--------AA-----------CAACAACAACA---GCAACAACAACAACAA-----CAACAACAA---CAACAACAGC--------------------------------------AGCAG---------CAAA----------------------------------A---------ACAACAACAACAACAACAACAACAAG------A---------------------------------------ACAACAA---------------------------------------------------------CA-GC----------AACAACAA---------C---------------------------------AACA------------------------------GCAACAAC----------------------------------------------------------------A---ACAAC---------------------------------------------AACAA--------------------------------CAACAACAACAACAACAACAACAA------------------CAACAACA---------------ACAAC-----------------------------------------------------------------------------------AACAACAACAACAACAACAACAACAACAACA-------ACAACAACAACA-----C---CAACAG------------------CA----------A--CA----------C	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.............................................................................................................................................................................................................................................AA-----CAACAACAA---CAACAACAGC--------------------------------------AGCA.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	20	0.20	4	0	0	0	4	0
......................................................................................................................................................................................................................................................ACAACAA---CAACAACAGC--------------------------------------AGC..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.20	4	0	0	0	4	0
.......................................................................................................................................................................................................................................................CAACAA---CAACAACAGC--------------------------------------AGCAG---------.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.10	2	0	0	0	2	0
.................................................................................................................................................................................................................................................................................................................................................................................................CAACAAG------A---------------------------------------ACAACAA---------------------------------------------------------CA-GC----------AA..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	10	0.10	1	0	0	0	1	0
.......................................................................................................................................................................................................................................................CAACAA---CAACAACAGC--------------------------------------AGCA.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.10	2	0	0	2	0	0
...........................................................................................................................................CAA------------CAATAACAACAACA---GCAA------------C--------A................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	14	0.07	1	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAACAACA-----C---CAACAG------------------CA----------A--C............	21	17	0.06	1	0	0	0	1	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAACAACAACAACAA------------------CAA...........................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAA---------------------------------------------------------CA-GC----------AACAACAA---------C---------------------------------A............................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	1	0
.................................................................................................................................................................AACAACA---GCAA------------C--------AA-----------CAACAAC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAA---------------------------------------------------------CA-GC----------AACAACAA---------C---------------------------------AAC..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
................................................................................................................................................................................................................................................................CAACAACAGC--------------------------------------AGCAG---------CAA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	1	0
..........................................................................................................................................................................................................................................................................................................................................................................................ACAACAACAACAAG------A---------------------------------------ACAACAA---------------------------------------------------------CA-............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
...........................................................................................................................................................AATAACAACAACA---GCAA------------C--------.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0
....................................................................................................................................................................................................................CAACAACA---GCAACAACAAC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	1	0
......................................................................................................................................................................CA---GCAA------------C--------AA-----------CAACAACAACA---GCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0
....................................................................................................................................................................................................................................................CAACAACAA---CAACAACAGC--------------------------------------AGCAG---------CA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0
.....................................................................................................................................................................ACA---GCAA------------C--------AA-----------CAACAACAA...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0
...................................................................................................................................................................CAACA---GCAA------------C--------AA-----------CAACAACAACA---GC....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CA-GC----------AACAACAA---------C---------------------------------AACA------------------------------GC.........................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	1	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACAACA-----C---CAACAG------------------CA----------A--.............	18	20	0.05	1	0	0	0	1	0
..........................................................................................................................................................................................................................................................CAA---CAACAACAGC--------------------------------------AGCAG---------CA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0
.......................................................................................................................................................................................................................................................CAACAA---CAACAACAGC--------------------------------------AGCAG---------CAA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	1	0	0

dp5

CAGCAC--CTAAAACAACAA---C----A-----------------A---------CAT--------------------CA---------------AC------------------------------------------------------------AACAACAACA---AA-------------------------------TCAAAC----AATA----------------------------------------ACACCAAA---------------------------A--A---------CAACACAAACAG---------CAACACCAACAACACCA----ACAATATC------ACCAACA------------------ACTAAACCAACATCCACAACAATGCCAC---------------------AAACAGAAA---------------------------------------------------------TA-AC----------ACCAACAA---------C---------------------------------AACA------------------------------ATAATACC----------------------------------------------------------------A---ACAAC---------------------------------------------AATAACAGCA--CCAACAACA---ACA---------------------------C------------------CAACAACAACAACA---------------TCAACAAGAA-----------------------------------------------------CAC---CAACA------------------------------------AAAACAAT----AACA-----------------C---CAA---------------------CA----------A-------------CA	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
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACA---ACA---------------------------C------------------CAACAACAACAACA---------------.......................................................................................................................................................................................................	24	10	0.10	1	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAACA---ACA---------------------------C------------------CAACAACAA...........................................................................................................................................................................................................................	20	17	0.06	1	0	0	1	0	0	0	0	0	0	0
..............................................A---------CAT--------------------CA---------------AC------------------------------------------------------------AACAACAACA---..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

CAGCAA--CAGCAGCAGAAA---C----A-----------------G---------CAG--------------------CA---------------GC------------------------------------------------------------AGCAACAGCA---GCAA------CAAC-------------AGCAACAGCA---------------GCAACAGCAGCAACAG-----C------AA-----------------------------------------------------------------------------CAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGCAACAGCAACAGCAGCAGCAGCAACAACAGCAACAGCAACAACAGCAACAGCAGCAGCAGCAGCAAGTT-----TTTGCTGTCAGCAGCATT--------AA--AGT------AAAAAGTGAAAACACATTAGCAGC---------------------------AGTAACAGCAAC----AGTT-----------------GCAACACC---------A-----------ACAACAAC------------------------------------AACAACTAATGCAACACCAGCAGCAACGCCA---------------GCAGCAACAG-----------------------------------------------------CAG---CAGCA------------------------------------ACAGCAAC----AGTA-----------------G---CAG---------------------CA----------G-------------CA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAACAGCAACAGCAGCAGCAGCA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	15	0.07	1	0	0	1	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAGCAACAGCAGCAGCAGCA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	19	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACAGCAACAGCAGCAGCAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAACAGCAACAGCAGCAGC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAACAGCAGCAGCAGCAACA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0

droAna3

CGGCAA--CAGGAACTGCAA---C----GGC-------------------------------------------------------------------------------------------------------------------CACAGCAACAGCAACTACAACTGGAACAGCAACAGCAACAGCAACTGCAA-------------CAGC------------------------AA-----C------TACAACTGCAACAGCAACTA---CAAGTGCAACAGCAACTTCA--ACTCCAACAGC-------------------------------------------------------------A------------------ACAAC------A---------------------------------------ATTA------------------------------------------------------------CA-AC----------AGAA---------------------------------------------------ACTAGAACA---------------------GCAACAGC-------------------------------------------------------------------AACTTAAAT----TACA-----------------ACAGCAGC---------TA--------GAACAGCAAC---A---G---CAATTACAACAGCAG---------------------------CTAGAACAA-----------------------------------------------------------------------------------------CAACAACAGCTACAACAGCATCACCAAAT------------------AC----AACA-----------------T---GAG---------------------CA----------G-------------CA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
No Reads

droBip1

AAACTA--CAAGAACAACAA---A----A-----------------A---------CTA--------------------CA---------------AC------------------------------------------------------------AACAACAACAAAAACTACAACAACAACAAAATCTACAA-------------C---------------------AAC---AA-----C------AAAAACTACAACAACAACAA---CAAAAACTACAACAACAACAAAACTACAACAAC-------------------------------------------------------------A------------------ACAAA------A---------------------------------------ACTA------------------------------------------------------------CA-AC----------AA---------------------------------------------------CAACAAAAACTACA------------------ACAACAAC----------------------------------------------------------------AAAAACTACAAC-------------A-----------ACAAC------------AA--------AAACTACAAC------------------------------------AACAACAAAAACTACAACAACAACAAAAACT---------------ACAACAACAA-----------------------------------------------------CAA---AAACT------------------------------------ACAACAACAAG-AAAA------AC------A--A-------------------------------------CAA--CAACCAGAA--CT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CAGCAG--GTGAAGGAGGAA---C----A-----------------T---------CAG--------------------CA---------------GC------------------------------------------------------------AACAACATCA---GCAG------CAGCAAC--------AACATTCT-CCAGA----ATTAAGCCAACATCAACAGC-----------------AACAGCAACACCAGCAGCAA--------------------------------------------------------CATCAACAACAACATCA----------------AC---------------------------AA---CAACTTCA---------------------------------------ACAG---------------------------------------------------------CA-AC----------TTCAACAA---------C---------------------------------AGCA------------------------------GCAAATTC----------AACAACAGCAGAAAAA------TCAAC---------------------------AACAGCAGCAACA-------TCAACAAGA-------------------------------------GCAACTTCAAC---AACAG---------------------------------CAACTTCA---------AC------------------AACAGCAGCA--------------------------------------------------------ACATCAACA---------------------------------------GCACC---A-ACAACTTC---------A--A------------------------------------------------------C	Size	Hit Count	Total Norm	Total
No Reads

droFic1

ACACGA--CCGCAGCAACAA---T----AGTCCGCCCC------------------------------------------------------------------------------------------------------------CGCAGCAACAGCAACAGCAGCAACAACAGCAGCAGCAGCAGCAATCGCAG-------------CAGC------------------------CGACTGTCAATGGCAGCAGCACTGCCAGCAGCAACAACAACAACAACAGCAAC---------------------------------------------------------------------------------------------------AA------------------CTCCATGCTACCGCCCGCTGTTCAGCAGAACAACAA---------------------------------------------------------CA-AT----------GCCAACAA---------C---------------------------------AACA------------------------------ACGAAAGC----------------------------------------------------------------A---ACAAC---------------------------------------------ACCAG-----CAGCAGCAGCAACAACA---------------------------C---------GAACAGCAGCAACAACAGCGGCAGC------------AACAGCG-----------------------------------------------------------G---CAACAACA---------------------------------ACAACAAC-------AACAATGCC------A--ATGCGGG---------------------CA----------G-------------CA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

CAACAT--CGATA-TATTAACTAC----AAA--------------AACAACAACAACAATATAGCAATATGTACGGCAAT---------------------------------------------------------------------------GGCA------AC------------------AAC--------AACATA--ACAA------------------------------G-----C------AA---ATGCAACAAC---------------------------A--A---------TATCTGACATAC---------CAATAACAACAGCAGCA----GCAATATT------TGCAGCA------------------ACAAA------A---------------------------------------GCAA------------------------------------------------------------CA-TC----------GGGC-------------------------------------------------CCATAAGAGCA---------------------ACAACAG-------------------------------------C------------------------AACACTAGCAACA----------GC---A-----------AC---------------AGC--------AACAGCAAC------------------------------------------------GGCA---------AC------------------AGCAACAGCA--------------------------------------------------------ACATCAACG------------------------------------G-GGCAAC---A-ACAACAGC------AACCGG-CAA-----GCTGTACTTGAACAAGTC---GTACTTGGCATCGTATTTTG----GA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CAACAAATCACGGGCAGCGA---A----GCGTTGGCGCCATT--GT----------------------------T---------------------GCAGGAGTTAATAGGCCAAACTGTGCCAAATTGGCAGGCACAGCAG------------AAGCAACAACAGCA---GC------------AGC--------AA-----------CAAC---AG---CAACAGCAGCAACAACCA-----AAA--------------------------------------------------------------------------------CAGCAGCAACAACAGCA----------------G--------------------------------------------------------------------------------------------------------------------------------------------------CAACAACGGCAGCAACAGCAGCAACAACA---------------------------------GCA------------------------------GC-------------------------------------------------------------------AACAACAGCAGCA-----------------------------------------------------------------------------------------------------------------------ACAACAGCAGCAGCAACAGCAACAATACCAGCAGC-----------------------------------------------------------------A------------------------------------ACACCAAC----CAAA-----------------A---CAG---------------------CA----------G-------------CA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CAACAG--CAGCAATATTCACCTC--------------------------------------------------------------------------------------------------------------------------TAAGGCAGCAACAACAACAGCAGAAGCAGAAGGAGCAGCAGCAACCACAA-------------CAGC------------------------GG-----C------AACACCAGCAGCAGCAACAG---CAGAAACAACAGCAACATCA--GCCACAGCAGC------------------------------AGCAAT-------------A---------GCAACAAAAGCAACAAAAGCAACAAC------A---------------------------------------GCAGCAA---------------------------------------------------------C--------------AGCAGCA------AC----------------------------------------------------------------------------------------------------------------------------------------------A---ACAGC---------------------------------------------AGC--------AACAGCACC---A---G---CAACAACAGCAACTA---------------------------CACCAGCGAC-------------------------------------------------------AACAGCAACTACAC-------------CAG---C------------------AACAACAGCAACTACACCAGCAACAGCAACA-------TCAGTCACAGC---A--G---CAA--------------------------------------CATTGG--GCC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CAACAA--CTGAGCCAACAA---C----AAA--------------AA-----------------------------------------------------------------------------------------CAACAGAGCCCACAACAACAACAACAACAACGGAAACCAC----------------------------------------TA---CAACAACTACAACAACAG-----AACCAACTA---CTACAACAAC---------------------------A--A---------CAA---------CGGA----------------------------------A---------CCAACAACTACAACAACAACAACGGAACCAACTACT------------------------------------ACAA------------------------------------------------------------CA-AC----------CACTACA------------------------------------------------------------------------------ACAACAAC----------------------------------------------------------------GGAACCCACAAC-------T-----------------ACTACAACAACCACTACAACTACAGAA--CCCACCACT---ACAACAA---------------------------------CAACAGAA---------CC---A---------------ACTACTACTA-----------------------------------------------------CAA---CAACA------------------------------------GAACCAAC----TACTAC------------T--A---CAA---------------------CA-------------------------A	Size	Hit Count	Total Norm	Total
No Reads

droEug1

CAAACA--AACAAACAA--A---CAAACAAACAAACAAACAAACAAA--------------------------CAACAAC---------------------------------------------------------------------------AACA------AC------------------AAC-------------AACAACAAC----AAC-------------------------------------------AACAAC---------------------------A--A---------CAACAACAACAACAACAACAACAACAACAACAACAAC----------------------------------------------AA--------------------------------------------------------------------------------------------------------------------CAACAACAACAACAACAACAACAACAACAACA------------------------------ACA------------------------------ACAACAA-------------------------------------C---------------------------AACAACAACAACA-------ACAACAA-------------------------------------CAACAACAACAAC---------------------------------A------------------------AC------------------AACAACAA--------------------------------------------------------CAA---CAACA------------------------------------ACAACAAC---A-ACAACAAC----------AA-CAC-----ACA-CAC-----------------------------------ACACA	Size	Hit Count	Total Norm	Total
No Reads

dm3

CAACAA--TGG--ACTGCCG---T----G-----------------T---------CGA--------------------CG---------------AC------------------------------------------------------------GCCAGCAACAGGAGTGA----------------------------------T----GATG----------------------------------------ACGACGAC---------------------------G--A---------CGACACAATCAC---------AATCACAAGCAACATTAGCAC--------CACAACA---ACA------------------------GCAACT-----------------------------------------------------------------------------------------------------------------------ATCACTGCCACAACAAAA---------------------------------GCA------------------------------ACAAT---TT---AATACGAGAATAAACAGAAAA------ACAAC---------------------------AATTACAACAGCCACC----AC---AACA------GC-----------------A-----------CCAACAGC------------------------------------AACA------------------------------------------ACAGCA----ACAACAACAACA-------------------------------------------------------AC---------A--------------------------CGA---A-ACAGCAAC----------AT-CAA-----CTT-CAACAGCAACAATAACT----------A-------------TA	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
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACA-------------------------------------------------------AC---------A--------------------------CGA---A-ACAGC.......................................................................	18	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................AGGAGTGA----------------------------------T----GATG----------------------------------------ACGACGA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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..............................................................................................................................................................................A----------------------------------T----GATG----------------------------------------ACGACGAC---------------------------G--A---------CGA................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	19	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
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..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CA------------------------------------------ACAGCA----ACAACAACAACA-------------------------------------------------------A.........................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAGCA----ACAACAACAACA-------------------------------------------------------AC---------A--------------------------....................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CA------------------------------------------ACAGCA----ACAACAACAACA-------------------------------------------------------AC---------A--------------------------....................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAGCA----ACAACAACAACA-------------------------------------------------------..........................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................................................GATG----------------------------------------ACGACGAC---------------------------G--A---------CGAC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CA------------------------------------------ACAGCA----ACAACAACAACA-------------------------------------------------------..........................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

CAACAA--CACCAACCACAA---C----G-----------------A---------CAC--------------------CA---------------AC------------------------------------------------------------TACAACAACA---ACAA------CTAC-------------AACAACGCCAACTACAACGACA---CCAACTACAACAACAA-----TAACAACTA---CTACAACAAC------------------ACCAACTACA--------------------------------------ACAACACCAAC-------------C---------ACA------------------ACGACACCAACTACA------------------------------------ACTA------------------------------------------------------------CA-AC----------AACGCCA------------------------------------------------------------------------------ACTACAAC-------------------------------------------------------------------GACATCAAC----TACG-----------------ACAACACC---------AA--------CTACAACAACTAC---------------------------------AACTA---CAACAACACCAACAACAACAACT---------------ACAACA-----------------------------------------------------------A---CACCA------------------------------------ACACCAACTAC-AACA------ACGACAACT--A---CAA---------------------CA----------A-------------CG	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
.............................................................................................................................................................................................................CCAACTACAACGACA---CCAACTACAA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	2	0.50	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0

droSec2

CAACAA--TGTGAACAACAA---C----AAT--------------------------AA--------------------TGGTTCGCTTGTGGTCAGT---------------------------------------------------------GCGA------------------------A-------------AAACATGGCTAAT----AATAA----------------------------------A------AGTAAT---------------------------A--A---------GAATAACAG---CAAAT----------------------------------------------------------------------------------------------------------------GCAAAAACAACGAGGCCAGCAGCAGCAACAACAA--------------------------------------CAA--------------------------------------------------------------------------------------------------------------------------------------TGCGGCGACAGCGGCAGCTGCAGCAGCTACAACAACAACGAC-------------G-----------AC---------------AGC--------------------------------------------------------------------------AGAAGAACCG---------------GTAACA----ACAACAATAAC----------------------------------------------------A------------------------------------ACTACAAC----AACA-----------------G---CAG------CAGCAGCTGATGATGAGGATATATCCAG--CGATCTGAGCGAT	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAA--------------------------------------CAA--------------------------------------------------------------------------------------------------------------------------------------TGCGGCGACAGCGGCA.................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0
.........................................................AA--------------------TGGTTCGCTTGTGGTC......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	1	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................ACGAGGCCAGCAGCAGCAACA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGC--------------------------------------------------------------------------AGAAGAACCG---------------GTAACA----ACAACAATA....................................................................................................................................................................................	28	1	1.00	1	1	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAC-------------G-----------AC---------------AGC--------------------------------------------------------------------------AGAAGAACCG---------------GTAACA----A............................................................................................................................................................................................	26	1	1.00	1	0	1	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................C----------------------------------------------------A------------------------------------ACTACAAC----AACA-----------------G---CAG------CAG........................................	21	2	0.50	1	0	0	1	0

droYak3

CAGCAA--CAGCAACAGATA---T----TACCAGCTGGCT--------------------------TGGTAAACGGCAAC---------------------------------------------------------------------------GGCA------AC------------------GGC--------AACATGATGCAAGT----GGCAAATCTGCATCTGCAGCAG----------------------------------------------------------------------------------CAGC------------------AGCA----GCAACAAC------CGCAGCA------------------GCGAA---------------------------------------------------------A-------------------CAGTCAGCAGCACATATTTGTCTGCCCCACCAGCAACC----------AGCAACTTCTTC----------------------------------------------------------------------------------------------------------------------------------------------------------TGCAACA----GC---A------ACAAC-----------------ATC-----------AGCAGC------------------------------------AGCA------------------------------------------GCAGCA----ACAACAGCAACAAACCAAACAGCGCCAGGCGCAAATAAAGTTGCCAATAAAGTCAG---CGGCA------------------------------------ACAACGGG----AGTA-----------------A---CGG---------------------CA----------G-------------CA	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATAAAGTTGCCAATAAAGTCAG---C.................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................GCAGCA------------------GCGAA---------------------------------------------------------A-------------------CAGTCAGC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................G---CGGCA------------------------------------ACAACGGG----AGTA-----------------A---CG..................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCCAATAAAGTCAG---CGGC..............................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAAACCAAACAGCGCCAGGCGCAA...........................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................C---A------ACAAC-----------------ATC-----------AGCAGC------------------------------------AGC..................................................................................................................................................................................................................................................	19	16	0.25	4	0	1	1	1	0	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACA----GC---A------ACAAC-----------------ATC-----------AGCAGC------------------------------------.....................................................................................................................................................................................................................................................	21	5	0.20	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A----GC---A------ACAAC-----------------ATC-----------AGCAGC------------------------------------AGCA------------------------------------------GCA....................................................................................................................................................................................................	25	8	0.13	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................C---A------ACAAC-----------------ATC-----------AGCAGC------------------------------------AGCA------------------------------------------GC.....................................................................................................................................................................................................	22	11	0.09	1	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A------ACAAC-----------------ATC-----------AGCAGC------------------------------------AGCA------------------------------------------.......................................................................................................................................................................................................	19	18	0.06	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................C---A------ACAAC-----------------ATC-----------AGCAGC------------------------------------AG...................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	1	0	0	0	0	0

droEre2

CAACAG--ATATTACC--AG---C----TGG-------CT--------------------------TGGTAAACGGCAAT---------------------------------------------------------------------------GGCA------GC------------------GGC--------AACATGATGCAAGT----GGCAAATCTGCATCTGCAGCAG-----------------CAGCAGCAACAGCAGC------------------------------------------------------------------------------------------------------------------------GAA---------------------------------------------------------A-------------------CAGTCAGCAGCACATATTTGTCTGCCCCACCAGCAACC----------ATCAACTCCTTC----------------------------------------------------------------------------------------------------------------------------------------------------------TGCAACA----GC---AGCAGCAACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------GCAGCA----ACAACAGCAACAAACCAAACAGCGCCAGGCGCAAATAAAG------------------------------------------------------------TTGCCAAT----AAAG-----------------T---CAG---------------------CG----------G-------------CA	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
...........................................................................................................................................................................................................................................................................GC------------------------------------------------------------------------------------------------------------------------GAA---------------------------------------------------------A-------------------CAGTCAGCAGCACA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0	0
....................................................................................................................................................................................................................................................................AACAGCAGC------------------------------------------------------------------------------------------------------------------------GAA---------------------------------------------------------A-------------------CAGTCAGC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0
...................................................................GGTAAACGGCAAT---------------------------------------------------------------------------GGCA------GC------------------............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAACAAACCAAACAGCGC....................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------GCAGCA----AC...........................................................................................................................................................................................	24	4	0.50	2	0	1	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACA----GC---AGCAGCAACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------.......................................................................................................................................................................................................	28	2	0.50	1	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GC---AGCAGCAACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------GC.....................................................................................................................................................................................................	26	3	0.33	1	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GC---AGCAGCAACAAC-----------------ATC--------AGCA..............................................................................................................................................................................................................................................................................................	21	8	0.25	2	2	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAGCAACAAC-----------------ATC--------AGCA..............................................................................................................................................................................................................................................................................................	19	10	0.20	2	2	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------GCAGC..................................................................................................................................................................................................	22	6	0.17	1	0	0	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................C---AGCAGCAACAAC-----------------ATC--------AGCAG.............................................................................................................................................................................................................................................................................................	21	6	0.17	1	1	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------GC.....................................................................................................................................................................................................	20	7	0.14	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A----GC---AGCAGCAACAAC-----------------ATC--------AGC...............................................................................................................................................................................................................................................................................................	21	9	0.11	1	0	0	0	1	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAGCAACAAC-----------------ATC--------AGCAGC............................................................................................................................................................................................................................................................................................	19	10	0.10	1	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................C-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------GCAGCA----ACA..........................................................................................................................................................................................	20	20	0.10	2	1	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATC--------AGCAGCA------------------------------------------------------------------------------------GCAGCA----ACAAC........................................................................................................................................................................................	21	13	0.08	1	0	1	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAGCAACAAC-----------------ATC--------AGC...............................................................................................................................................................................................................................................................................................	18	13	0.08	1	0	0	0	0	0	1	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------.......................................................................................................................................................................................................	18	14	0.07	1	1	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------G......................................................................................................................................................................................................	18	16	0.06	1	0	0	0	0	0	1	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACA----GC---AGCAGCAACAAC-----------------A............................................................................................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAAC-----------------ATC--------AGCAGCA------------------------------------------------------------------------------------GCAG...................................................................................................................................................................................................	18	20	0.05	1	1	0	0	0	0	0	0
...................................................................................................................................................................................................................................CTGCAGCAG-----------------CAGCAGCAAC..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0
.....................................................................................................................................................................................................................................GCAGCAG-----------------CAGCAGCAACAGCAGC------------------------------------------------------------------------------------------------------------------------................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CA----GC---AGCAGCAACAAC-----------------ATC--------AGCC..............................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAGCA------------------------------------------------------------------------------------GCAGCA----ACAAC........................................................................................................................................................................................	18	20	0.05	1	1	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAGCA------------------------------------------------------------------------------------GCAGCA----ACAACA.......................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A----GC---AGCAGCAACAAC-----------------ATC--------..................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	1	0

dgr_109

scaffold_14830:110130-110321 -

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

-12.09	-11.99	-11.89