dya_723

exon [dyak_GLEANR_4373:2]; CDS [Dyak\GE20531-cds]; exon [dyak_GLEANR_4373:1]; CDS [Dyak\GE20531-cds]; intron [Dyak\GE20531-in]

Name	Class	Family	Strand
(CTG)n	Simple_repeat	Simple_repeat	+

##################################################------------------------------------------------------------------------------------------------------################################################## TCGACGCCGGCAGCAGTTCACCCGCTCAGCAGGAGCAACATGTGGCTGCGGTGCCAGAGCAGCAGCAGCAACTGCAGCAGCAGCAACAGCAGCAGCAACAGCAACTGCAGCAGCAGCAGCAACTGCAGCAGCAGCAACAGCAGCAGCAACAGCAGCCGCAACAGCAGCAACTGCAGCAGCAACAGCAGTCAATGCAAAAAGT ****************************************************....((....((.....((((.((.((((.....((.((.((..(((...)))..)).)).)).....)))).)).)))).....))....))....*************************************************	Read size	Hit Count	Total Norm	Total	V120 male body	M043 female body	V046 embryo
......................................................CAGAGCAGCAGCAGCAACTGCA..............................................................................................................................	22	1	1.00	1	1	0	0
..........................CAGCAGGAGCAACATGTGGCTGCGGTGCC...................................................................................................................................................	29	1	1.00	1	1	0	0
...................................................................................................................................................................GCAGCAACTGCAGCAGCAACAGC................	23	8	0.13	1	0	1	0
................................................................................................................................................AGCAACAGCAGCCGCAAC........................................	18	8	0.13	1	0	0	1
..................................................................................................................................GCAGCAACAGCAGCAGCAACAGCAGC..............................................	26	20	0.10	2	0	2	0
....................................................................................................................................AGCAACAGCAGCAGCAACA...................................................	19	20	0.05	1	0	1	0
............................................................................................................AGCAGCAGCAGCAACTGCAGCAGCA.....................................................................	25	20	0.05	1	0	1	0
...........................................................CAGCAGCAGCAACTGCAGCAGC.........................................................................................................................	22	20	0.05	1	0	1	0
.................................................................................AGCAACAGCAGCAGCAACA......................................................................................................	19	20	0.05	1	0	1	0
.........................................................AGCAGCAGCAGCAACTGCAGCAGCA........................................................................................................................	25	20	0.05	1	0	1	0
..............................................................................................................CAGCAGCAGCAACTGCAGCAGC......................................................................	22	20	0.05	1	0	1	0

AGCTGCGGCCGTCGTCAAGTGGGCGAGTCGTCCTCGTTGTACACCGACGCCACGGTCTCGTCGTCGTCGTTGACGTCGTCGTCGTTGTCGTCGTCGTTGTCGTTGACGTCGTCGTCGTCGTTGACGTCGTCGTCGTTGTCGTCGTCGTTGTCGTCGGCGTTGTCGTCGTTGACGTCGTCGTTGTCGTCAGTTACGTTTTTCA *************************************************....((....((.....((((.((.((((.....((.((.((..(((...)))..)).)).)).....)))).)).)))).....))....))....****************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M043 female body	GSM1528802 follicle cells	M056 embryo
......................................................................................................................................................TCGTCGGCGTTGTCGTCGTTG...............................	21	0	3	0.33	1	1	0	0
............................................................................................GTCGTTGTCGTTGACGTCGTCG........................................................................................	22	0	17	0.06	1	0	0	1
..............................................................................................................................TCGACGTCGTTGTCGTCGTCGTTGTCG.................................................	27	1	20	0.05	1	0	1	0
...........................................................................TCGACGTCGTTGTCGTCGTCGTTGTCG....................................................................................................	27	1	20	0.05	1	0	1	0

Species	Coordinate	ID	Alignment
droYak3	3L:6409442-6409643 -	dya_723	TCGAC------------------------------------------------GCCG----GCAGC----AGTT----------CACCCGC-TCAGCAG---GAGCAAC---AT--------------GTGG---CTGCGGTGCCA------G-AGCA--GCAGCAGCA------AC---T---GCAGCAGC---AGCAACAGCAGC---AGCAACAGCA---------ACTG---CAGCAGCAGCAGCAA------CTGCAGCAGCA---GCAACAGCAGCAGCAA---C------AGCAGCCGCAACAGCAGCAACTGCAGCAG-----CAACAGCAGTCAAT------G---CAAAA------AGT
droEre2	scaffold_4690:6163379-6163579 +		TCTGCG----ACCCATTGCCTTCAAGCCCATTCCGTTCGAGCCGGACTACCGCATCGCCTGCCAGCAGCA----------GCAGCAGCATCAGCAGCAA---CTGC---------------------AGTTG---CAGC-----------------------------------------------------------------------AACAACAGCA---------GCAG---CAGCAACAGCAGCAG------TTGCAGCTGCA---GCACCAACAGCAGCAA---C------AGCAGCAGCAACAGCAGCAGCAGCAGCAG-----CAACATCAGGCGCT------G---CA------------
droSec2	scaffold_0:71528-71725 -		C----TGC---------------------------------------------ACAC----GCA----------------GCACCAGCACAATCTGCAG---CAGCAAC---------------------ATCAGAGCCACTCACA---G------TT--GCAGCAACA------TA---A---CCAGCAGCAACATCAGCAGCAGC---AGCAACAACA---------GCAG---CAACAACAGCAGCAA------CAACAGCAGCA---GCAACAGCAGCAGCAA---C------AGCAGCAACAACAGCACCAACAGCAGCAG-----CAACAGTTGCAGCT------G---CAGCAA--------
droSim2	x:8497743-8497933 -		C----AGG---------------------------------------------CGAA----GGA----------------GGAGCAGCAGCAACAGCAG---CCAG---------------A------GTTG---CAGCAACATCAGCA---G-----CAGCA---ACA---------------GCAGCAAC---GACAGCAGCAGC---AGCAACATCA---------ACAG---CAACAGCATCAGCAA------CTGCAGCAGCA---GCAACAGCAGCAGCAA---C------AACAGCAACTGAAGCAACAACATCAGCCC--GACCAGCAG---CAACT------G---CAGAA------GAT
dm3	chrX:5646994-5647174 +		C----GCC---------------------------------------------GGCG----GCA-------T--------TCACCAGCAGCATCAGCAG---CAGCA---------------------ACAC---CAGCAGCACCA---G------CA--GCAGCAACA------CC---A---GCAGCAGC---A------GCACC---AGCAACACCAGCAGCA---ACAG---CAGCAGCAACACCAA------CATCAGCAGCA---GCAACAGCAACACCTT---C------AGCAGCAGCAACACCACCAGCTGCAGCAG-----------------CA------A---CAGCAG--------
droEug1	scf7180000409881:168676-168867 +		ACAAG------------------------------------------------TGCA----GCA----------------ACTGCATCAACCGCAACAG---CAGCAGAA------------------ACAA---GTGCAGCATCA--------------------ACC---------------ACAGCAAC---AACAGCAGCAGC---AGCAACAACA---------GCAG---CAGCAGCAACAACAAGTGCAGCAATTGCATCAGCAACAAGCGCAACAGCAG---C------AGCAGCAGCAACAAGTGCAACAGCAACAG-----CAACAGCAGC---A------G---CAACA------AGT
droBia1	scf7180000302428:5893157-5893352 +		TTGAAG----A------------------------------------------ACAC----GCA----------------GCAGCAGTCTCAGCAACAG---CAGCAAATTCAAATGATTCAGCAGCAAC------------AACAGCA---G-----CAGCA---GC------------A---GCAACAAC---AGCAGCAGCAGC---AGCAACAACA---------GCAG---CAGCAGCAGCAGCAA------CAACAGCA---------------GCAACAA---C------AGCAGCAGCAACAACAGCAGCAGCAGCAA-----CAACAGCTGCAACAACAACAA---CA----------GT
droTak1	scf7180000415287:239487-239687 +		TC----GCCGC------------------------------------------TGGC----TCA----------------GGTGCAACAGCAGCAGCAA---CAGCAAT---------------------AT---CAGCAGCAGTT--------------------ACAGCAGCAACAACT---GCAGCAGC---AACAATTGCAAC---AGCAACAGCT---------ACAG---CAGCAGCAACTGCAGCAGCAACAACTACAGCA---GCAACAACTACAGCAG---C------AACAATTACAGCAGCAGCAACTACAGCAG-----CAACAGTTGCAACA------G---CAACAA--------
droEle1	scf7180000491047:337918-338115 -		C----AGC---------------------------------------------AGCA----GCA----------------ATTGCAACCACTGCTGCAG---CAGCAGC---------------------AACAGCAGCAGCAAGA---G------CA--ACAGCAACA------AC---A---GCAGCAAGAGCAACAGCAACAAC---AGCAGCAACA---------GCAG---CAGCAGCAGCAACAA------CAGCAGCAACA---ACAACAGCAGACACAA---C------AGCAGCAACAACAACAGCAGCAGCAGCAA-----CAACAGCAGCAGCC------G---CAGCAA--------
droRho1	scf7180000760202:71830-72030 +		C----AAC---------------------------------------------AACA----GCA----------------GCAGCAACAACAACAGCAG---CAGCAAC---------------------AACAGCAGCAGCAACA---ACAGCA-----GCAGCAACA------AC---AACAGCAGCAGC---AACAACAGCAGC---AGCAACAACA---------ACAG---CAGCAGCAACAACAA------CAGCAGCAGCA---ACAACAGCAGCAGCAA---C------AACAGCAGCAACAGCAACAACAACAACAG-----CAGCAACAGCAACA------A---CAACAA--------
droFic1	scf7180000454050:640847-641042 -		CTTATA----AA-------------------------T-----GTACCAGGACAGCGGCT-GCA----------------GCAGCAGT---A------------GCAGT------CGACGCGGCAGCAGCAG----------TGCA------G-----CAGCA---G------------------CAGCAGC---AACAGCAGCAGCAGCAACATCTACA---------GCAG---CAGCTGCAACAGCAA------CAACAACA------GCAGCAGCAGCAACAA---C------AACAGCAGCAACAACAACAACAGCAGCAG--CAACAACAA---CT--A------GCAGCA----------GT
droKik1	scf7180000302220:11855-12039 +		TCGTC------------------------------------------------AGCA----GCA----------------GCAGCACCAGCAGAAGCAG---CACC---------------------AGCAG---CAGCAGCA-----------------------CC------------A---GCAGCAGCAGCACCAGCAGCAGC---AGCACCACCA---------GCAG---CAGCAGCAACAACAG------CAGCAGCAGCA---ACAGCAGCAGCAGCAC---C------AACAGCAGCAACAGCACCAGCTGCAGCATCACAACAACAA---CAACA------G---CAGCAG------TC
droAna3	scaffold_13248:2270626-2270804 -	dan_4064	C----GAC---------------------------------------------GGCA----GCA----------------GCAGCAGCCACAGCAGCAA---CAGC---------------------AGCAG---CAGC---A-----------------ACA---GCA---------------ACAGCAAC---AGCAACAGCAGC---AGCAACAGCA---------GCAG---CAACAGCAGCAGCAG------CCACAGCAGCA---GCAACAGCAGCAACGA---C------AGCAGCAGCAGCAACGTCAGCAGCAGCAG--CAACGACAA---CAACA------G---CAAGC------AGT
droBip1	scf7180000396641:582194-582387 +		T----TGC---------------------------------------------AACA----GCA-------GATTGCCCAGCACCAGC---T------------GCAAC---AA---ATACAGCAGCAACAA---------ATTCAGCA-----------GCA---GCA------AC---T---GCAACAAC------AGCAACAGC---AGCAGCTTCA---------ACAA---CAGCAGCAACAGCAA------CTTCAGCAGCA---GCAACAGCAGCTTCAG---C------AGCAGCAGCAACTTCAACAACAGCAGCAG--CAACTACAG---CAACA------G---CAGCA------ACT
dp5	3:11298464-11298652 +		C----AAC---------------------------------------------TGCA----GCA----------------GCAGCATCAGCAGCAGCAG---CAGC---------------A------ACTG---CAGCAGAAGCAGCA-----------ACAGCAACA------AC---A---GCAGCAGC---AACATAAACATC---AACAGCAACA---------ACAG---CAGCAGCAACATAAA------CATCAGCA------GCAACAGCAGCAGCAG---C------AACAACAGCAGCAGCAACAACAGCAGCAG-----CAACAACAGCAGCA------G---CAACAA--------
droPer2	scaffold_33:723627-723819 +		TCAAC------------------------------------------------AGCA----GCA----------------GCAACAGCAGCAACAGCAGCAGCAGCAGC---------------------AACAGCAGCAGCAGCA---A--------------CAGCA------GC---A---GCAGCAGC---AACAGAAGCAGC---AGCAGCAACA---------GCAG---CAACAGCAGCAGTAA------CAGCAGCAGCA---GCAACAGCAGCAGCAG---C------AACAGCAGCAGCAACAGCAACAGAAGCAG-----CAGCAGCAGCAGCA------A---CAGCAA--------
droWil2	scf2_1100000004913:128631-128831 -		C----AAC---------------------------------------------AATT----GCA----------------GCAACAACAGCAACAGCAG---CAAC---------------A------ATGG---CAGCAACAACAACA-----------GCAACAACA------AC---T---GCAGCAGC---AACAACAACAGC---AGCAACAACA---------ACAG---CAGCAGCAACAACAG------CATCAGCAACA---GCAACAGCAGCAACGAATGCAACAGCAACAGCAACAGCAGCAACAATTGCAGCAA-----CAACAGCAACAGCA------G---CAACAA--------
droVir3	scaffold_12928:2231152-2231356 -		TCAAC------------------------------------------------ATCC----GCA----------------GCAGCAGCATCACCAGCAGCAGCAGCAGC---------------------ATCACCAGCAGCAGCA---CCAGCA-----GCAG---------------------CAGCTGC---AGCTGCAGCAGC---ATCATCACCAGCAGCAACAGCAGCATCAGCACCTCCAGCAA------CAGCAGCAGCA---ACAGCAGCAGCAGCAG---C------AGCACCTCCAGCAGCAGCAGCAGCAACAG-----CAACAGCAACAGCA------G---CAACAG--------
droMoj3	scaffold_6473:11064711-11064906 -		C----AAC---------------------------------------------AACA----GCA----------------GCAGCAACAACAGCAGCAG---CAAC---------------A------GCAG---CAGCAGCAACAGCA-----------GCAGCAGCA------GC---A---GCAGCAGCAGCAGCAGCAGCAGC---AGCAGCAGCA---------GCAG---CAGCAGCAGCAGCAG------CAGCAGCAGCA---GCAGCAGCAGCAGCAG---C------AGCAGCAGCAACAGCAGCAGCAGCAACAG-----CAGCAGCAGCAACA---GCAG---CA----------GC
droGri2	scaffold_14828:10844-11028 -		C----AGC---------------------------------------------AGCA----GCA----------------GCAGCAGCAGCAGCAGCAG---CAGC------------------------AG---CAGCAGCAGCA--------------------GCA---------------GCAGCAGC---AGCAGCAGCAGC---AGCAGCAGCA---------GCAG---CAGCAGCAGCAGCAG------CAGCAGCAGCA---GCAGCAGCAGCAGCAG---C------AGCAGCAGCAGCAGCAGCAGCAGCAGCAG-----CAGCAGCAGCAGCA------G---CAGCAGTTAAAACA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droYak3

TCGAC------------------------------------------------GCCG----GCAGC----AGTT----------CACCCGC-TCAGCAG---GAGCAAC---AT--------------GTGG---CTGCGGTGCCA------G-AGCA--GCAGCAGCA------AC---T---GCAGCAGC---AGCAACAGCAGC---AGCAACAGCA---------ACTG---CAGCAGCAGCAGCAA------CTGCAGCAGCA---GCAACAGCAGCAGCAA---C------AGCAGCCGCAACAGCAGCAACTGCAGCAG-----CAACAGCAGTCAAT------G---CAAAA------AGT	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
................................................................................................................................................CA------G-AGCA--GCAGCAGCA------AC---T---GCA......................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.............................................................................................CAGCAG---GAGCAAC---AT--------------GTGG---CTGCGGTGCC................................................................................................................................................................................................................................	29	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................................................................GCAGCAACTGCAGCAG-----CAACAGC...............................	23	8	0.13	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................AGCAA---C------AGCAGCCGCAAC............................................................	18	8	0.13	1	0	0	0	1	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................GCA---GCAACAGCAGCAGCAA---C------AGCAGC..................................................................	26	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................A---GCAACAGCAGCAGCAA---C------A.......................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................AGCAGCAGCAGCAA------CTGCAGCAGCA---..................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................CA--GCAGCAGCA------AC---T---GCAGCAGC---..............................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................AGCAACAGCAGC---AGCAACA........................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................AGCA--GCAGCAGCA------AC---T---GCAGCAGC---A.............................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................CAGCAGCAGCAA------CTGCAGCAGC......................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

droEre2

TCTGCG----ACCCATTGCCTTCAAGCCCATTCCGTTCGAGCCGGACTACCGCATCGCCTGCCAGCAGCA----------GCAGCAGCATCAGCAGCAA---CTGC---------------------AGTTG---CAGC-----------------------------------------------------------------------AACAACAGCA---------GCAG---CAGCAACAGCAGCAG------TTGCAGCTGCA---GCACCAACAGCAGCAA---C------AGCAGCAGCAACAGCAGCAGCAGCAGCAG-----CAACATCAGGCGCT------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
................................................................GCAGCA----------GCAGCAGCATCAGCAGCA...............................................................................................................................................................................................................................................................................	24	20	0.55	11	8	0	0	0	2	1	0
..................................................................AGCA----------GCAGCAGCATCAGCA..................................................................................................................................................................................................................................................................................	19	20	0.45	9	0	0	0	0	2	7	0
.....................................................................A----------GCAGCAGCATCAGCAGCA...............................................................................................................................................................................................................................................................................	19	20	0.40	8	0	0	0	0	3	5	0
...........................................................................................................................................................................................................................A---------GCAG---CAGCAACAGCAGCAG------TT..............................................................................................................	22	4	0.25	1	0	0	0	0	1	0	0
.............................................................................................................................................................................................................................................AGCAACAGCAGCAG------TTGC............................................................................................................	18	5	0.20	1	0	0	0	0	0	1	0
...............................................................AGCAGCA----------GCAGCAGCATCAGCAGCA...............................................................................................................................................................................................................................................................................	25	20	0.15	3	1	0	0	0	0	2	0
...............................................................AGCAGCA----------GCAGCAGCATCAGCA..................................................................................................................................................................................................................................................................................	22	20	0.15	3	1	0	0	0	0	2	0
..................................................................................................................................................................................................................AACAACAGCA---------GCAG---CAGCAACA.............................................................................................................................	22	20	0.10	2	0	0	0	0	0	2	0
..................................................................AGCA----------GCAGCAGCATCAGC...................................................................................................................................................................................................................................................................................	18	20	0.10	2	0	0	0	0	0	2	0
................................................................GCAGCA----------GCAGCAGCATCAGCAGC................................................................................................................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0	0	0
................................................................GCAGCA----------GCAGCAGCATCAGCA..................................................................................................................................................................................................................................................................................	21	20	0.10	2	0	0	0	0	0	2	0
..................................................................AGCA----------GCAGCAGCATCAGCAGCA...............................................................................................................................................................................................................................................................................	22	20	0.10	2	1	0	0	0	0	1	0
...................................................................GCA----------GCAGCAGCATCAGCAGCA...............................................................................................................................................................................................................................................................................	21	20	0.10	2	0	0	0	0	2	0	0
...........................................................................................................................................................................................................................A---------GCAG---CAGCAACAGCAGCAG------T...............................................................................................................	21	12	0.08	1	0	0	0	0	1	0	0
.........................................................................................................................................GC-----------------------------------------------------------------------AACAACAGCA---------GCAG---CAGC.................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................CAA---C------AGCAGCAGCAACAGCAGCA.....................................................	23	20	0.05	1	0	0	0	0	0	1	0
.................................................................CAGCA----------GCAGCAGCATCAGCAG.................................................................................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................CAACAGCAGCAA---C------AGCAGCA.................................................................	20	20	0.05	1	0	0	0	1	0	0	0
.....................................................................................................................................................................................................................AACAGCA---------GCAG---CAGCAACAGCAGC........................................................................................................................	24	20	0.05	1	0	0	0	0	0	1	0
...................................................................................................................................G---CAGC-----------------------------------------------------------------------AACAACAGCA---------GCAG---CAGC.................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................GCAGCAA---C------AGCAGCAGCAACAGCAGCAGC...................................................	29	20	0.05	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................GCAGCAGCAGCAGCAG-----CAACA.................................	21	20	0.05	1	0	0	0	0	1	0	0
.....................................................................................................................................................................................................................................................................................................................AGCAGCAGCAGCAGCAG-----CAACA.................................	22	20	0.05	1	0	0	0	1	0	0	0
......................................................................................................................................................................................................................ACAGCA---------GCAG---CAGCAACAGC...........................................................................................................................	20	20	0.05	1	1	0	0	0	0	0	0
...................................................................................................................................................................................................................ACAACAGCA---------GCAG---CAGCAACAGC...........................................................................................................................	23	20	0.05	1	1	0	0	0	0	0	0
...............................................................AGCAGCA----------GCAGCAGCATCAGC...................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1	0
........................................................................................................................................AGC-----------------------------------------------------------------------AACAACAGCA---------GCAG---CAGCAAC..............................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................A---C------AGCAGCAGCAACAGCAGCAGCAGC................................................	26	20	0.05	1	1	0	0	0	0	0	0
........................................................................................................................................AGC-----------------------------------------------------------------------AACAACAGCA---------GCAG---CA...................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0	0
....................................................................CA----------GCAGCAGCATCAGCAGCA...............................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1	0
....................................................................................................................................................................................................................CAACAGCA---------GCAG---CAGCAAC..............................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0
................................................................................GCAGCAGCATCAGCAGCAA---...........................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0
..................................................................................................................................................................................................................................................................................................................AACAGCAGCAGCAGCAGCAG-----C.....................................	21	20	0.05	1	0	0	0	1	0	0	0
................................................................GCAGCA----------GCAGCAGCATCAGC...................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0
.....................................................................................................................................................................................................................AACAGCA---------GCAG---CAGCAACAGCAGCA.......................................................................................................................	25	20	0.05	1	0	0	0	1	0	0	0

droSec2

C----TGC---------------------------------------------ACAC----GCA----------------GCACCAGCACAATCTGCAG---CAGCAAC---------------------ATCAGAGCCACTCACA---G------TT--GCAGCAACA------TA---A---CCAGCAGCAACATCAGCAGCAGC---AGCAACAACA---------GCAG---CAACAACAGCAGCAA------CAACAGCAGCA---GCAACAGCAGCAGCAA---C------AGCAGCAACAACAGCACCAACAGCAGCAG-----CAACAGTTGCAGCT------G---CAGCAA--------	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
............................................................................................................C---------------------ATCAGAGCCACTCACA---G------TT--GCA..............................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0
...........................................................................................................................................................................................................................................................................................................................AACAGCAGCAG-----CAACAGTT..............................	19	7	0.14	1	0	0	1	0
........................................................................................................................................................................................................................AACA---------GCAG---CAACAACAGC...........................................................................................................................	18	20	0.10	2	0	0	2	0
................................................................................................................................................................................................................................................AACAGCAGCAA------CAACAGC.........................................................................................................	18	20	0.10	2	0	0	2	0
.......................................................................................................................................................................................................................................................................................................................CACCAACAGCAGCAG-----CAACA.................................	20	13	0.08	1	0	1	0	0
......................................................................................................................................................................................................................................................................................................................GCACCAACAGCAGCAG-----CA....................................	18	17	0.06	1	0	0	0	1
........................................................................................................................................................................................................................AACA---------GCAG---CAACAACAGCAGCAA------C...............................................................................................................	24	20	0.05	1	0	0	1	0
.......................................................................................................................................................................................................................CAACA---------GCAG---CAACAACAGCAG.........................................................................................................................	21	20	0.05	1	1	0	0	0
.....................................................................................................................................................................................................................................................CAGCAA------CAACAGCAGCA---GCA...............................................................................................	20	20	0.05	1	0	1	0	0
........................................................................................................................................................................................................................................................................................................................ACCAACAGCAGCAG-----CAACC.................................	19	20	0.05	1	0	0	1	0
...................................................................................................................................................................................................................................................................ACAGCAGCA---GCAACAGCA.........................................................................................	18	20	0.05	1	0	0	1	0
........................................................................................................................................................................................................................AACA---------GCAG---CAACAACAGCAGCAA------CA..............................................................................................................	25	20	0.05	1	0	0	1	0
......................................................................................................................................................................................................................................................................................CAGCAGCAA---C------AGCAGCAAC...............................................................	19	20	0.05	1	0	0	1	0
...............................................................................................................................................................................................................................................CAACAGCAGCAA------CAACAGCAG.......................................................................................................	21	20	0.05	1	1	0	0	0
.............................................................................................................................................................................................AGCAACATCAGCAGCAGC---...............................................................................................................................................................	18	20	0.05	1	0	0	1	0
.........................................................................................................................................................................................................AGCAGC---AGCAACAACA---------GCAG---CA...................................................................................................................................	22	20	0.05	1	0	0	1	0

droSim2

C----AGG---------------------------------------------CGAA----GGA----------------GGAGCAGCAGCAACAGCAG---CCAG---------------A------GTTG---CAGCAACATCAGCA---G-----CAGCA---ACA---------------GCAGCAAC---GACAGCAGCAGC---AGCAACATCA---------ACAG---CAACAGCATCAGCAA------CTGCAGCAGCA---GCAACAGCAGCAGCAA---C------AACAGCAACTGAAGCAACAACATCAGCCC--GACCAGCAG---CAACT------G---CAGAA------GAT	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
................................................................................GGAGCAGCAGCAACAGCAG---CC.........................................................................................................................................................................................................................................................................	21	2	1.00	2	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................AGCA---G-----CAGCA---ACA---------------GCAGCAAC---G.............................................................................................................................................................................	22	4	0.75	3	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................GCAACATCAGCA---G-----CAGCA---...........................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................GCA---GCAACAGCAGCAGCAA---C------........................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

dm3

C----GCC---------------------------------------------GGCG----GCA-------T--------TCACCAGCAGCATCAGCAG---CAGCA---------------------ACAC---CAGCAGCACCA---G------CA--GCAGCAACA------CC---A---GCAGCAGC---A------GCACC---AGCAACACCAGCAGCA---ACAG---CAGCAGCAACACCAA------CATCAGCAGCA---GCAACAGCAACACCTT---C------AGCAGCAGCAACACCACCAGCTGCAGCAG-----------------CA------A---CAGCAG--------	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
.............................................................................................................................................................................................................................................................................................TT---C------AGCAGCAGCAACACCAC.......................................................	20	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................AA------CATCAGCAGCA---GCAACAGCAA........................................................................................	23	3	1.33	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................CAGCAACACCACCAGCTGCAG..............................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
....................................................................................................................................................................................A---GCAGCAGC---A------GCACC---AGCAACACCA.....................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................CAACAGCAACACCTT---C------AGCAG...................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................CACCTT---C------AGCAGCAGCAACACCACCAGC...................................................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
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............................................................................................................................................................................................................................GCAGCA---ACAG---CAGCAGCAACA..........................................................................................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.............................................................................................................................................................................................................................CAGCA---ACAG---CAGCAGCAACA..........................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................................................................................................................................................................ATCAGCAGCA---GCAACAGCA.........................................................................................	19	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	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
.............................................................................................................................................................................................................................CAGCA---ACAG---CAGCAGCAA............................................................................................................................	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	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

droEug1

ACAAG------------------------------------------------TGCA----GCA----------------ACTGCATCAACCGCAACAG---CAGCAGAA------------------ACAA---GTGCAGCATCA--------------------ACC---------------ACAGCAAC---AACAGCAGCAGC---AGCAACAACA---------GCAG---CAGCAGCAACAACAAGTGCAGCAATTGCATCAGCAACAAGCGCAACAGCAG---C------AGCAGCAGCAACAAGTGCAACAGCAACAG-----CAACAGCAGC---A------G---CAACA------AGT	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TTGAAG----A------------------------------------------ACAC----GCA----------------GCAGCAGTCTCAGCAACAG---CAGCAAATTCAAATGATTCAGCAGCAAC------------AACAGCA---G-----CAGCA---GC------------A---GCAACAAC---AGCAGCAGCAGC---AGCAACAACA---------GCAG---CAGCAGCAGCAGCAA------CAACAGCA---------------GCAACAA---C------AGCAGCAGCAACAACAGCAGCAGCAGCAA-----CAACAGCTGCAACAACAACAA---CA----------GT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TC----GCCGC------------------------------------------TGGC----TCA----------------GGTGCAACAGCAGCAGCAA---CAGCAAT---------------------AT---CAGCAGCAGTT--------------------ACAGCAGCAACAACT---GCAGCAGC---AACAATTGCAAC---AGCAACAGCT---------ACAG---CAGCAGCAACTGCAGCAGCAACAACTACAGCA---GCAACAACTACAGCAG---C------AACAATTACAGCAGCAGCAACTACAGCAG-----CAACAGTTGCAACA------G---CAACAA--------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

C----AGC---------------------------------------------AGCA----GCA----------------ATTGCAACCACTGCTGCAG---CAGCAGC---------------------AACAGCAGCAGCAAGA---G------CA--ACAGCAACA------AC---A---GCAGCAAGAGCAACAGCAACAAC---AGCAGCAACA---------GCAG---CAGCAGCAGCAACAA------CAGCAGCAACA---ACAACAGCAGACACAA---C------AGCAGCAACAACAACAGCAGCAGCAGCAA-----CAACAGCAGCAGCC------G---CAGCAA--------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

C----AAC---------------------------------------------AACA----GCA----------------GCAGCAACAACAACAGCAG---CAGCAAC---------------------AACAGCAGCAGCAACA---ACAGCA-----GCAGCAACA------AC---AACAGCAGCAGC---AACAACAGCAGC---AGCAACAACA---------ACAG---CAGCAGCAACAACAA------CAGCAGCAGCA---ACAACAGCAGCAGCAA---C------AACAGCAGCAACAGCAACAACAACAACAG-----CAGCAACAGCAACA------A---CAACAA--------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CTTATA----AA-------------------------T-----GTACCAGGACAGCGGCT-GCA----------------GCAGCAGT---A------------GCAGT------CGACGCGGCAGCAGCAG----------TGCA------G-----CAGCA---G------------------CAGCAGC---AACAGCAGCAGCAGCAACATCTACA---------GCAG---CAGCTGCAACAGCAA------CAACAACA------GCAGCAGCAGCAACAA---C------AACAGCAGCAACAACAACAACAGCAGCAG--CAACAACAA---CT--A------GCAGCA----------GT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TCGTC------------------------------------------------AGCA----GCA----------------GCAGCACCAGCAGAAGCAG---CACC---------------------AGCAG---CAGCAGCA-----------------------CC------------A---GCAGCAGCAGCACCAGCAGCAGC---AGCACCACCA---------GCAG---CAGCAGCAACAACAG------CAGCAGCAGCA---ACAGCAGCAGCAGCAC---C------AACAGCAGCAACAGCACCAGCTGCAGCATCACAACAACAA---CAACA------G---CAGCAG------TC	Size	Hit Count	Total Norm	Total
No Reads

droAna3

C----GAC---------------------------------------------GGCA----GCA----------------GCAGCAGCCACAGCAGCAA---CAGC---------------------AGCAG---CAGC---A-----------------ACA---GCA---------------ACAGCAAC---AGCAACAGCAGC---AGCAACAGCA---------GCAG---CAACAGCAGCAGCAG------CCACAGCAGCA---GCAACAGCAGCAACGA---C------AGCAGCAGCAGCAACGTCAGCAGCAGCAG--CAACGACAA---CAACA------G---CAAGC------AGT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
..............................................................................................................................................................................................................................................ACAGCAGCAGCAG------CCACAGC.........................................................................................................	20	1	1.00	1	0	1	0	0	0	0
......................................................................................................................................................................................................................................CAG---CAACAGCAGCAGCAG------CCAC............................................................................................................	22	2	0.50	1	0	1	0	0	0	0
.............................................................................................................................................................................................................GC---AGCAACAGCA---------GCAG---CAACAGCAGCAGC........................................................................................................................	29	6	0.17	1	0	1	0	0	0	0
....................................................................................................................................................................................................................................................GCAGCAG------CCACAGCAGCA---GC................................................................................................	20	7	0.14	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................GCAG---CAACAGCAGCAGCAG------CC..............................................................................................................	21	16	0.13	2	0	1	1	0	0	0
.............................................................GCA----------------GCAGCAGCCACAGCAGC................................................................................................................................................................................................................................................................................	20	8	0.13	1	0	0	0	0	0	1
.................................................................................................................................................................................................................................................GCAGCAGCAG------CCACAGCAGC......................................................................................................	20	8	0.13	1	0	0	0	0	0	1
..............................................................................................AGCAA---CAGC---------------------AGCAG---CAGC---A-----------------ACA---GCA---------------.........................................................................................................................................................................................	25	20	0.10	2	0	1	1	0	0	0
..............................................................................................................................................................................................................C---AGCAACAGCA---------GCAG---CAACAGCAGCA..........................................................................................................................	26	13	0.08	1	0	1	0	0	0	0
...............................................................................................................................................................................................C---AGCAACAGCAGC---AGCAACAGCA---------GCA.........................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0
...........................................................................................................................................................................................GCAAC---AGCAACAGCAGC---AGCAACAGC......................................................................................................................................................	26	14	0.07	1	0	1	0	0	0	0
........................................................................................................................................................................A---------------ACAGCAAC---AGCAACAGCAGC---AGCAAC.........................................................................................................................................................	27	15	0.07	1	0	0	0	0	0	1
.....................................................................................................................................................................................................CAACAGCAGC---AGCAACAGCA---------GCAG---C....................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0
..........................................................................................................................................C---A-----------------ACA---GCA---------------ACAGCAAC---AGCAACAGCAGC---...............................................................................................................................................................	28	20	0.05	1	0	1	0	0	0	0
.......................................................................................................AGC---------------------AGCAG---CAGC---A-----------------ACA---GCA---------------ACAGC....................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	1
.............................................................................................................................................................................................................GC---AGCAACAGCA---------GCAG---CAACAGCAGA...........................................................................................................................	26	20	0.05	1	1	0	0	0	0	0
.........................................................................................................................................................................................CAGCAAC---AGCAACAGCAGC---A..............................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
............................................................................................................................................................................................CAAC---AGCAACAGCAGC---AGCA...........................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
.............................................................................................................................................................................................AAC---AGCAACAGCAGC---AGCAACAGC......................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
.......................................................................................................................................................................................................................................AG---CAACAGCAGCAGCAG------CC..............................................................................................................	19	20	0.05	1	0	0	0	0	0	1
..................................................................................................................................................................A---GCA---------------ACAGCAAC---AGCAACAGC.....................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
..................................................................................................................................................................................................................AGCAACAGCA---------GCAG---CAACA................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0
................................................................................................................................................................ACA---GCA---------------ACAGCAAC---AGCAAC........................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
....................................................................................................................................................................................................................CAACAGCA---------GCAG---CAACAGCAGCAGC........................................................................................................................	25	20	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................AACAGCA---------GCAG---CAACAGCA.............................................................................................................................	19	20	0.05	1	0	0	0	0	0	1
.............................................................................................................................................................................................................GC---AGCAACAGCA---------GCAG---CAACAGC..............................................................................................................................	23	20	0.05	1	0	1	0	0	0	0

droBip1

T----TGC---------------------------------------------AACA----GCA-------GATTGCCCAGCACCAGC---T------------GCAAC---AA---ATACAGCAGCAACAA---------ATTCAGCA-----------GCA---GCA------AC---T---GCAACAAC------AGCAACAGC---AGCAGCTTCA---------ACAA---CAGCAGCAACAGCAA------CTTCAGCAGCA---GCAACAGCAGCTTCAG---C------AGCAGCAGCAACTTCAACAACAGCAGCAG--CAACTACAG---CAACA------G---CAGCA------ACT	Size	Hit Count	Total Norm	Total
No Reads

dp5

C----AAC---------------------------------------------TGCA----GCA----------------GCAGCATCAGCAGCAGCAG---CAGC---------------A------ACTG---CAGCAGAAGCAGCA-----------ACAGCAACA------AC---A---GCAGCAGC---AACATAAACATC---AACAGCAACA---------ACAG---CAGCAGCAACATAAA------CATCAGCA------GCAACAGCAGCAGCAG---C------AACAACAGCAGCAGCAACAACAGCAGCAG-----CAACAACAGCAGCA------G---CAACAA--------	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
......................................................................................................................................................................................................................................................................GCA------GCAACAGCAGCAGCAG---C------........................................................................	20	20	0.50	10	0	10	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................ATC---AACAGCAACA---------ACAG---CAGCAG...............................................................................................................................	23	4	0.25	1	0	1	0	0	0	0	0	0	0	0
.................................................................................CAGCATCAGCAGCAGCAG---C..........................................................................................................................................................................................................................................................................	19	20	0.15	3	0	2	0	0	1	0	0	0	0	0
.................................................................................CAGCATCAGCAGCAGCAG---CAG........................................................................................................................................................................................................................................................................	21	20	0.15	3	0	0	0	0	1	0	0	2	0	0
.......................................................CA----GCA----------------GCAGCATCAGCAGCAG.................................................................................................................................................................................................................................................................................	21	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................AACAGCAGCAGCAG---C------AACAACAGCAGCA...........................................................	28	14	0.07	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................ATCAGCA------GCAACAGCAGCAGCAG---C------........................................................................	24	14	0.07	1	0	0	0	0	1	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................CAACAGCAGCAGCAACAACA..................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................AGCAGCAG---C------AACAACAGCA..............................................................	19	20	0.05	1	0	0	0	0	1	0	0	0	0	0
........................................................A----GCA----------------GCAGCATCAGCAGCAGCAG---CAG........................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................AGCAACA---------ACAG---CAGCAGCAA............................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................AGCAGCAGCAG---C------AACAACAGCAGCA...........................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................ACAGCAACA------AC---A---GCAGCAGC---A.............................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................CAGCAGCAGCAG---C------AACAACAGCAG.............................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................CAGCAGCAG-----CAACAACAGCAGC.........................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0
.......................................................CA----GCA----------------GCAGCATCAGCAGCA..................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................CAACAGCAGCAG-----CAACAACAG.............................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................AGCAGCAGCAG---C------AACAACAGCAG.............................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................GCAACAACAGCAGCAG-----CAACAA................................	22	20	0.05	1	0	0	0	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................CAGCA------GCAACAGCAGCAGCA...................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................CAGCAGCAG-----CAACAACAGCAGCA------..................	23	20	0.05	1	0	0	0	0	0	1	0	0	0	0
....................................................................................................................................................................................................................................................................CAGCA------GCAACAGCAGCAGCAG---C------A.......................................................................	23	20	0.05	1	0	0	0	1	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................AGCAACAACAGCAGCAG-----CAA...................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................CAGCAGCAG-----CAACAACAGCAGCA------G---..............	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................GCAGCA-----------ACAGCAACA------AC---A---GCAGCA...................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	1	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................CAACAGCAGCAGCAACAACAGC................................................	22	20	0.05	1	0	0	0	0	1	0	0	0	0	0
...............................................................A----------------GCAGCATCAGCAGCAGCAG---CAG........................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................CATCAGCA------GCAACAGCAGC.......................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................G-----CAACAACAGCAGCA------G---CAACAA--------	22	20	0.05	1	0	0	0	0	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................................CAGCAGCAGCAG---C------AACAACAGCAGCAGCA........................................................	29	20	0.05	1	0	0	0	1	0	0	0	0	0	0
.......................................................CA----GCA----------------GCAGCATCAGCAGCAGCAG---C..........................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...................................................................................GCATCAGCAGCAGCAG---CAGC---------------........................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................GCAGCAG---C------AACAACAGCAGCA...........................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................AG-----CAACAACAGCAGCA------G---CAA...........	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................CAACAGCAGCAG-----CAACAACA..............................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................CAGCAGCAGCAACAACAGCAGCAG-----......................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................AG---C------AACAACAGCAGCAGCAA.......................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................CAGCAGCAGCAACAACAGCAGC.............................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................CAACAGCAGCAGCAACAACAG.................................................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
................................................................................GCAGCATCAGCAGCAGCAG---C..........................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................CAGCAGCAGCAACAACAGCAGCA............................................	23	20	0.05	1	0	0	0	0	0	1	0	0	0	0
........................................................................................AGCAGCAGCAG---CAGC---------------A------ACTG---..........................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................CAGCATCAGCAGCAGCAG---CAGC---------------........................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................G---C------AACAACAGCAGCAGCAACAA....................................................	22	20	0.05	1	0	0	0	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................CAGCAGCAG---C------AACAACAGCAGC............................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................CA-----------ACAGCAACA------AC---A---GCAGCA...................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
..................................................................................................................................................GCA-----------ACAGCAACA------AC---A---GCAGCAGC---..............................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	1	0	0	0
.................................................................................................................................................AGCA-----------ACAGCAACA------AC---A---GCAGC....................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................CA----------------GCAGCATCAGCAGCAGCA...............................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1	0	0	0	0

droPer2

TCAAC------------------------------------------------AGCA----GCA----------------GCAACAGCAGCAACAGCAGCAGCAGCAGC---------------------AACAGCAGCAGCAGCA---A--------------CAGCA------GC---A---GCAGCAGC---AACAGAAGCAGC---AGCAGCAACA---------GCAG---CAACAGCAGCAGTAA------CAGCAGCAGCA---GCAACAGCAGCAGCAG---C------AACAGCAGCAGCAACAGCAACAGAAGCAG-----CAGCAGCAGCAGCA------A---CAGCAA--------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.....................................................................................................................................................................AGCA------GC---A---GCAGCAGC---AACAGAA.......................................................................................................................................................................	22	17	0.06	1	0	0	1	0	0	0
.................................................................................CAACAGCAGCAACAGCAGCAGC..........................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
...................................................................................................................................................................................................................GCAGCAACA---------GCAG---CAACAGCAGC...........................................................................................................................	23	20	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................A--------------CAGCA------GC---A---GCAGCAGC---AACAG.........................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
.........................................................................................................................................................................................................AGCAGC---AGCAGCAACA---------GCAG---CA...................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0
.............................................................................................................................................................................................................................................................................................AG---C------AACAGCAGCAGCAAC.........................................................	18	20	0.05	1	0	0	1	0	0	0
......................................................................................................................................................................................................................................................................GCAGCA---GCAACAGCAGCAGCAG---C------........................................................................	23	20	0.05	1	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................................CAGCAGCAG---C------AACAGCAGC...............................................................	19	20	0.05	1	0	0	1	0	0	0
............................................................................................ACAGCAGCAGCAGCAGC---------------------AACAG..........................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
..................................................................................................................................AACAGCAGCAGCAGCA---A--------------CA...........................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0
...................................................................................................................................ACAGCAGCAGCAGCA---A--------------CAGCA------GC---.............................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0
..........................................................................................................................................................................................................................................................A------CAGCAGCAGCA---GCAACAGCAGC.......................................................................................	23	20	0.05	1	0	1	0	0	0	0
..........................................................................................................................................................................................................................................................................CA---GCAACAGCAGCAGCAG---C------AACA....................................................................	23	20	0.05	1	0	1	0	0	0	0
.............................................................GCA----------------GCAACAGCAGCAACAGCAGC.............................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0
.......................................................................................................................................................................CA------GC---A---GCAGCAGC---AACAGA........................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0
........................................................................................................GCAGC---------------------AACAGCAGCAGCAGC................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
..................................................................................................................................................................................................................................................................................ACAGCAGCAGCAG---C------AACAGCAGC...............................................................	23	20	0.05	1	0	1	0	0	0	0
...AC------------------------------------------------AGCA----GCA----------------GCAACAGCAGCA.....................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
.CAAC------------------------------------------------AGCA----GCA----------------GCAACAGCAGCA.....................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0
.........................................................................................................................................................................................................................................................AA------CAGCAGCAGCA---GCAACAGCA.........................................................................................	22	20	0.05	1	0	0	1	0	0	0
.............................................................................................................................................................................................................GC---AGCAGCAACA---------GCAG---CA...................................................................................................................................	18	20	0.05	1	0	0	1	0	0	0
..........................................................................................................AGC---------------------AACAGCAGCAGCAGCA---A--------------.............................................................................................................................................................................................................	20	20	0.05	1	0	0	1	0	0	0
.................................................................................................................................................................................................................................................................................AACAGCAGCAGCAG---C------AACAGCA.................................................................	22	20	0.05	1	0	0	1	0	0	0
..................................................................................................................................AACAGCAGCAGCAGCA---A--------------CAGCA------..................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0
.....................................................................................................GCAGCAGC---------------------AACAGCAGCAGCAGC................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0
....................................................................................................................................................................................................................................................................CAGCAGCA---GCAACAGCAGC.......................................................................................	19	20	0.05	1	0	0	1	0	0	0
.......................................................................................................................................CAGCAGCAGCA---A--------------CAGCA------GC---.............................................................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0
...........................................................................................................................................................................................................................................................................A---GCAACAGCAGCAGCAG---C------AACAGCA.................................................................	25	20	0.05	1	0	0	1	0	0	0
..........................................................................................................AGC---------------------AACAGCAGCAGCAGCA---A--------------CAGCA------..................................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0

droWil2

C----AAC---------------------------------------------AATT----GCA----------------GCAACAACAGCAACAGCAG---CAAC---------------A------ATGG---CAGCAACAACAACA-----------GCAACAACA------AC---T---GCAGCAGC---AACAACAACAGC---AGCAACAACA---------ACAG---CAGCAGCAACAACAG------CATCAGCAACA---GCAACAGCAGCAACGAATGCAACAGCAACAGCAACAGCAGCAACAATTGCAGCAA-----CAACAGCAACAGCA------G---CAACAA--------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
..................................................................................AACAACAGCAACAGCAG---CAAC---------------A------ATGG---..........................................................................................................................................................................................................................................	26	20	0.35	7	0	7	0	0	0
...............................................................A----------------GCAACAACAGCAACAGCAG---CAA........................................................................................................................................................................................................................................................................	23	20	0.15	3	0	3	0	0	0
.................................................................................................................................................................................................................................................................................................................................AGCAA-----CAACAGCAACAGCA------G---CAA...........	23	20	0.15	3	0	3	0	0	0
.........................................................................................................................................................................................................................................................................................................AACAGCAACAGCAGCAACA.....................................................	19	20	0.15	3	0	0	0	3	0
.............................................................................................................................................................................................................GC---AGCAACAACA---------ACAG---CA...................................................................................................................................	18	20	0.15	3	0	0	0	3	0
.....AAC---------------------------------------------AATT----GCA----------------GCAACAACAG.......................................................................................................................................................................................................................................................................................	20	20	0.15	3	0	3	0	0	0
.....AAC---------------------------------------------AATT----GCA----------------GCAACAACAGCA.....................................................................................................................................................................................................................................................................................	22	20	0.15	3	0	1	0	2	0
........................................................................................................................................................................................................................................................................................................................AACAATTGCAGCAA-----CAACAG................................	20	20	0.15	3	0	3	0	0	0
.........................................................................................................................................................................................................................................................................................CAACGAATGCAACAGCAACAGCAAC...............................................................	25	8	0.13	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................TCAGCAACA---GCAACAGCAGCAACGAA.................................................................................	26	9	0.11	1	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................................................TGCAGCAA-----CAACAGCAACAGCA------G---..............	23	20	0.10	2	0	2	0	0	0
..............................................................................................................................................................................................GC---AACAACAACAGC---AGCAACA........................................................................................................................................................	21	20	0.10	2	0	0	0	2	0
.................................................................................................................................................................................................................................................................................................................................AGCAA-----CAACAGCAACAGCA------G---..............	20	20	0.10	2	0	2	0	0	0
...............................................................A----------------GCAACAACAGCAACAGCAG---...........................................................................................................................................................................................................................................................................	20	20	0.10	2	0	2	0	0	0
........................................................T----GCA----------------GCAACAACAGCAACAGCAG---...........................................................................................................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0
......................................................................................................................................................................................................................................CAG---CAGCAGCAACAACAG------CA..............................................................................................................	20	20	0.10	2	0	2	0	0	0
.........................................................................................................................................................................................................................ACA---------ACAG---CAGCAGCAACAAC........................................................................................................................	20	20	0.10	2	0	0	0	0	2
.....................................................................................AACAGCAACAGCAG---CAAC---------------A------ATGG---..........................................................................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0
.....................................................................................AACAGCAACAGCAG---CAAC---------------A------ATGG---C.........................................................................................................................................................................................................................................	24	20	0.10	2	0	2	0	0	0
......................................................................................................CAAC---------------A------ATGG---CAGCAACAACAACA-----------G................................................................................................................................................................................................................	24	20	0.10	2	0	1	0	1	0
.....................................................................................................................................................................................................................................................................AGCAACA---GCAACAGCAGCAACG...................................................................................	22	11	0.09	1	0	0	0	1	0
..................................................................................................................................................................................................................................................CAACAACAG------CATCAGCAACA---GCAACAG...........................................................................................	27	12	0.08	1	0	1	0	0	0
.....................................................................................................................................................................................................................................................CAACAG------CATCAGCAACA---GCAACAGCAG........................................................................................	27	12	0.08	1	0	0	0	1	0
..........................................................................................................................................................................................................................CA---------ACAG---CAGCAGCAACAACAG------CATCAG..........................................................................................................	27	12	0.08	1	0	0	0	1	0
..................................................................................................................................................................................................................................................CAACAACAG------CATCAGCAACA---GC................................................................................................	22	14	0.07	1	0	0	0	1	0
....................................................................................................................................................................................T---GCAGCAGC---AACAACAACAGC---AGCAACA........................................................................................................................................................	28	14	0.07	1	0	0	0	1	0
.....................................................................................................................................................................AACA------AC---T---GCAGCAGC---AACAACAACA....................................................................................................................................................................	25	15	0.07	1	0	1	0	0	0
......................................................................................................................................................................................................................................................................................................AGCAACAGCAACAGCAGCAACAATT..................................................	25	16	0.06	1	0	0	0	1	0
.....................................................................................................................................................................................................................................................CAACAG------CATCAGCAACA---GC................................................................................................	19	17	0.06	1	0	0	0	1	0
.........................................................................................................................................................................................................................................................AG------CATCAGCAACA---GCAACAGCAG........................................................................................	23	17	0.06	1	0	1	0	0	0
................................................................................................................................................................................................................................................................................................TGCAACAGCAACAGCAACAGCAGC.........................................................	24	17	0.06	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................ATCAGCAACA---GCAACAGCAGCAAC....................................................................................	24	19	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................AACAATTGCAGCAA-----CAACAGCA..............................	22	20	0.05	1	0	1	0	0	0
............................................................................................................................................................................................................AGC---AGCAACAACA---------ACAG---CAG..................................................................................................................................	20	20	0.05	1	0	0	0	1	0
..................................................................................AACAACAGCAACAGCAG---CAAC---------------A------ATGG---C.........................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
..........................................................................................................................................................................................................ACAGC---AGCAACAACA---------ACAG---CA...................................................................................................................................	21	20	0.05	1	0	0	0	0	1
.........................................................................................................................A------ATGG---CAGCAACAACAACA-----------GCA..............................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................AACAACA------AC---T---GCAGCAGC---AAC...........................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
.................................................................................................................................TGG---CAGCAACAACAACA-----------GCAACAACA------AC---.............................................................................................................................................................................................	28	20	0.05	1	0	1	0	0	0
........................................................T----GCA----------------GCAACAACAGCAACAGCAG---C..........................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0
........................................................T----GCA----------------GCAACAACAGCAACAGCA...............................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
........................................................................................................................................AGCAACAACAACA-----------GCAACAACA------AC---T---GCAG.....................................................................................................................................................................................	29	20	0.05	1	0	1	0	0	0
.......................................................TT----GCA----------------GCAACAACAGCAACAGCAG---...........................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................AACAATTGCAGCAA-----CAACAGCAAC............................	24	20	0.05	1	0	1	0	0	0
.............................................................................................................................................CAACAACA-----------GCAACAACA------AC---T---GCAGC....................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
.....AAC---------------------------------------------AATT----GCA----------------GCAACAACAGC......................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
.................................................................................................................................TGG---CAGCAACAACAACA-----------GCAACAA..........................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
..................................................................................................................................GG---CAGCAACAACAACA-----------GCAAC............................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
.....................................................AATT----GCA----------------GCAACAACAGCAACAGC................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0
.........................................................................................................................A------ATGG---CAGCAACAACAACA-----------GCAACA...........................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
.......................................................................................................................................................................................................................................................................................................................CAACAATTGCAGCAA-----CAACAGCAA.............................	24	20	0.05	1	0	0	0	1	0
........................................................................................................................................................................................................................AACA---------ACAG---CAGCAGCAACAA.........................................................................................................................	20	20	0.05	1	0	0	0	1	0
......................................................................................................CAAC---------------A------ATGG---CAGCAACAACAACA-----------GC...............................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
..............................................................................................................................................AACAACA-----------GCAACAACA------AC---T---GCAG.....................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
............................................................................................................................................................................................................................................................................................................AGCAACAGCAGCAACAATTG.................................................	20	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................AACAGCAACAGCAACAGCAGC.........................................................	21	20	0.05	1	0	0	0	0	1
..............................................................................................................................................................................................................................................................................................................................TGCAGCAA-----CAACAGCAACAGCA------G---C.............	24	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................AACAATTGCAGCAA-----CAACAGCAA.............................	23	20	0.05	1	0	1	0	0	0
.................................................................................................AG---CAAC---------------A------ATGG---CAGCAACAACAACA-----------.................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
.......................................................................................................AAC---------------A------ATGG---CAGCAACAACAACA-----------GC...............................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
.............................................................................................CAGCAG---CAAC---------------A------ATGG---CAGCAA....................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	1	0
...............................................................................................................................................................................................................................................................................................................................GCAGCAA-----CAACAGCAACAG..........................	19	20	0.05	1	0	1	0	0	0
...................................................................................ACAACAGCAACAGCAG---CAAC---------------A------ATGG---..........................................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
.......................................................................................................AAC---------------A------ATGG---CAGCAACAACAACA-----------GCA..............................................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
...........................................................................................................................................AACAACAACA-----------GCAACAACA------AC---T---GC.......................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0
.........................................................................................................................A------ATGG---CAGCAACAACAACA-----------GC...............................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
....................................................................................CAACAGCAACAGCAG---CAAC---------------A------ATGG---..........................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
..............................................................................................................................................AACAACA-----------GCAACAACA------AC---T---GCAGCA...................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
.............................................................GCA----------------GCAACAACAGCAACAG.................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0
.............................................................................................................................................................................................................................................................................................................................TTGCAGCAA-----CAACAGCAACAGCA------G---C.............	25	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................CAACAGC---AGCAACAACA---------ACAG---CAGC.................................................................................................................................	25	20	0.05	1	0	0	0	1	0
.................................................................................................................................TGG---CAGCAACAACAACA-----------GCAACAACA------A.................................................................................................................................................................................................	27	20	0.05	1	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................................................TGCAGCAA-----CAACAGCAACAGCA------..................	22	20	0.05	1	0	1	0	0	0
.............................................................................................................................................................................................................................................................................................................................TTGCAGCAA-----CAACAGCAACAGCA------G---..............	24	20	0.05	1	0	0	0	1	0
C----AAC---------------------------------------------AATT----GCA----------------GCAACAACAGCAA....................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
........................................................................................AGCAACAGCAG---CAAC---------------A------ATGG---CAG.......................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
.....................................................................................................................................................................................................................................................................AGCAACA---GCAACAGCAGCA......................................................................................	19	20	0.05	1	0	1	0	0	0
.........................................................................................................................A------ATGG---CAGCAACAACAACA-----------GCAACAAC.........................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
...........................................................................................................................................................................................................................................................................................................................AATTGCAGCAA-----CAACAGCAACAGC.........................	24	20	0.05	1	0	1	0	0	0
...........................................................................................................................................AACAACAACA-----------GCAACAACA------AC---T---GCAGC....................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................CAACAGCAACAGCAACAGCAG..........................................................	21	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................AACAATTGCAGCAA-----CAACAGC...............................	21	20	0.05	1	0	1	0	0	0
...........................................................................................................................................AACAACAACA-----------GCAACAACA------AC---T---.........................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
....................................................................................CAACAGCAACAGCAG---CAAC---------------A------ATGG---C.........................................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
.....AAC---------------------------------------------AATT----GCA----------------GCAACAACAGCAA....................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
.....AAC---------------------------------------------AATT----GCA----------------GCAACAACAGCAAC...................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0

droVir3

TCAAC------------------------------------------------ATCC----GCA----------------GCAGCAGCATCACCAGCAGCAGCAGCAGC---------------------ATCACCAGCAGCAGCA---CCAGCA-----GCAG---------------------CAGCTGC---AGCTGCAGCAGC---ATCATCACCAGCAGCAACAGCAGCATCAGCACCTCCAGCAA------CAGCAGCAGCA---ACAGCAGCAGCAGCAG---C------AGCACCTCCAGCAGCAGCAGCAGCAACAG-----CAACAGCAACAGCA------G---CAACAG--------	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
..................................................................................................................................................................................................................ATCATCACCAGCAGCAACAGCAG........................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................CATCAGCACCTCCAGCAA------CAGCAGCA........................................................................................................	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
.......................................................................................................................................................................................................................CACCAGCAGCAACAGCAGCATCAGC.................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................AGCAGC---ATCATCACCAGCAGCAACAGCA.........................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................CAG---C------AGCACCTCCAGCAGCAG.......................................................	21	2	0.50	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
...................................................................................................................................................................................................................................................TCCAGCAA------CAGCAGCAGCA---ACAGCA............................................................................................	25	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................AGCACCTCCAGCAGCAGCAGCA..................................................	22	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................G---C------AGCACCTCCAGCAGCAGCA.....................................................	21	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................AGCAGCAG---C------AGCACCTCCAGCAGCAGC......................................................	27	2	0.50	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
.................................................................................CAGCAGCATCACCAGCAGCAGCAGC.......................................................................................................................................................................................................................................................................	25	3	0.33	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................AGCAGCAGCAG---C------AGCACCTCCA..............................................................	22	3	0.33	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................GCAGC---ATCATCACCAGCAGCA...............................................................................................................................................	21	3	0.33	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................AGC---ATCATCACCAGCAGC................................................................................................................................................	18	4	0.25	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................AGCAGCAGCAG---C------AGCACCTCC...............................................................	21	4	0.25	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................GCAGCATCACCAGCAGCAGCAGCA......................................................................................................................................................................................................................................................................	24	5	0.20	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................CAGCAGCAGC---------------------ATCACCAGCAGCAGC................................................................................................................................................................................................................................	25	6	0.17	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................CA----------------GCAGCAGCATCACCAGCAGCAGC..........................................................................................................................................................................................................................................................................	25	6	0.17	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................CTCCAGCAGCAGCAGCAGCAA..............................................	21	6	0.17	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................CAGCATCACCAGCAGCAGCAGCA......................................................................................................................................................................................................................................................................	23	7	0.14	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................AGCATCACCAGCAGCAGCAGCA......................................................................................................................................................................................................................................................................	22	7	0.14	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................CAGCATCACCAGCAGCAGCAG........................................................................................................................................................................................................................................................................	21	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................AA------CAGCAGCAGCA---ACAGCA............................................................................................	19	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................AGCA---CCAGCA-----GCAG---------------------CAGCT...................................................................................................................................................................................	19	10	0.10	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................GCAGCA---ACAGCAGCAGCAGCAG---C------........................................................................	23	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................AGCAGCAGCAGCAGC---------------------ATCA...........................................................................................................................................................................................................................................	19	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................AGCAGCATCACCAGCAGCA............................................................................................................................................................................................................................................................................	19	11	0.09	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................AGCAGC---------------------ATCACCAGCAGCA..................................................................................................................................................................................................................................	19	11	0.09	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................AG---------------------CAGCTGC---AGCTGCAGCAGC---A..............................................................................................................................................................	22	13	0.08	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................ATCACCAGCAGCAACAGCA.........................................................................................................................................	19	14	0.07	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................TCCAGCAGCAGCAGCAGCAA..............................................	20	15	0.07	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................CAGCAGCAGCA---CCAGCA-----GCAG---------------------CA......................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................AGCAA------CAGCAGCAGCA---ACAGCAGCAGCA......................................................................................	28	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................AGCAGCAGCA---ACAGCAGCAGCA......................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................AGCAGCAACAG-----CAACAGCA..............................	19	20	0.05	1	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
.........................................................................................................CAGC---------------------ATCACCAGCAGCAG.................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................AGCAGCAGCAGC---------------------ATCACCAGCAA....................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................CAGCATCACCAGCAGCAG...........................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................AGCAGCA---ACAGCAGCAGCAGCA...................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................AGCAGCAGCA---ACAGCAGCA.........................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................GCAACAG-----CAACAGCAACAGCA------G---C.............	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................AA------CAGCAGCAGCA---ACAGCAGCAGC.......................................................................................	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
..........................................................................................................................................................................................................................................................................................................................CAGCAGCAACAG-----CAACAGCAAC............................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................................................................................................................................A---ACAGCAGCAGCAGCAG---C------AGC.....................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................CATCACCAGCAGCAGCAGCA......................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
.......................................................................................................................................................................................................................................................................CAGCA---ACAGCAGCAGCAGCAG---C------........................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................CTCCAGCAGCAGCAGCAGC................................................	19	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................GCAGCAGCAGCAGCAACAG-----CAACAGC...............................	26	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................AGCAGCAACAGCAGCATCAG..................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

C----AAC---------------------------------------------AACA----GCA----------------GCAGCAACAACAGCAGCAG---CAAC---------------A------GCAG---CAGCAGCAACAGCA-----------GCAGCAGCA------GC---A---GCAGCAGCAGCAGCAGCAGCAGC---AGCAGCAGCA---------GCAG---CAGCAGCAGCAGCAG------CAGCAGCAGCA---GCAGCAGCAGCAGCAG---C------AGCAGCAGCAACAGCAGCAGCAGCAACAG-----CAGCAGCAGCAACA---GCAG---CA----------GC	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
...........................................................................................................................................................................................................CAGC---AGCAGCAGCA---------GCAG---CA...................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1
..........................................................................................................................................................................................................................................................................................................GCAGCAGCAACAGCAGCA.....................................................	18	20	0.05	1	1	0	0	0	0	0
........................................................................................AACAGCAGCAG---CAAC---------------A------GCAG---CAGCAGC...................................................................................................................................................................................................................................	27	20	0.05	1	1	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................GCAACAGCAGCAGCAGCAACA............................................	21	20	0.05	1	1	0	0	0	0	0
.......................................................CA----GCA----------------GCAGCAACAACAGCAGCA...............................................................................................................................................................................................................................................................................	23	20	0.05	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................AGCAG---C------AGCAGCAGCAACAGCAGCA.....................................................	25	20	0.05	1	0	0	1	0	0	0
.................................................................................CAGCAACAACAGCAGCAG---CAAC---------------A------GCA..............................................................................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	1	0
........................................................................................................................................................................................................CAGCAGC---AGCAGCAGCA---------GCA.........................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1

droGri2

C----AGC---------------------------------------------AGCA----GCA----------------GCAGCAGCAGCAGCAGCAG---CAGC------------------------AG---CAGCAGCAGCA--------------------GCA---------------GCAGCAGC---AGCAGCAGCAGC---AGCAGCAGCA---------GCAG---CAGCAGCAGCAGCAG------CAGCAGCAGCA---GCAGCAGCAGCAGCAG---C------AGCAGCAGCAGCAGCAGCAGCAGCAGCAG-----CAGCAGCAGCAGCA------G---CAGCAGTTAAAACA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

dya_723

3L:6409492-6409593 -

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