dmo_1510

CDS [Dmoj\GI12397-cds]; exon [dmoj_GLEANR_1241:8]; CDS [Dmoj\GI12397-cds]; exon [dmoj_GLEANR_1241:9]; intron [Dmoj\GI12397-in]

Name	Class	Family	Strand
TART_DV	LINE	Jockey	-

##################################################---------------------------------------------------------################################################## TCGATAGAGACAACTGAAATAATCACAACCAAAACGATAGAGACCAAACCGTTTATGGCTGTCAACAGCAACAGCAACAACAACAGCAATGCCAACAACGCGAACAGCAACTGCAGCAGCTGCAGCATCAATCAGCATACAACGGAGGAGGAGGAGA ************************************************.......(((((.....((....)).......)))))....................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V049 head	V110 male body	M060 embryo
.....................................................................................GCAATGCCAACAACGCGAACAG..................................................	22	0	1	1.00	1	1	0	0	0
..................ATAATCACAACCAAAACGATAGAGAC.................................................................................................................	26	0	1	1.00	1	0	0	1	0
..................................................................................................................AGCAGCTGCAGCATCAATCAGC.....................	22	0	1	1.00	1	1	0	0	0
.....................................................................................................GAACAGCAACTGCAGCAGCTGCAGCAT.............................	27	0	1	1.00	1	1	0	0	0
...................................GATAGAGACCAAACCGTTTATGGCT.................................................................................................	25	0	1	1.00	1	1	0	0	0
.....................................................................................................................................AGCATACAACGGAGGAGGAGGAG.	23	0	1	1.00	1	0	1	0	0
..................................................................................................CTCGAACAGCAACTGCAGCA.......................................	20	1	4	0.25	1	0	0	0	1

AGCTATCTCTGTTGACTTTATTAGTGTTGGTTTTGCTATCTCTGGTTTGGCAAATACCGACAGTTGTCGTTGTCGTTGTTGTTGTCGTTACGGTTGTTGCGCTTGTCGTTGACGTCGTCGACGTCGTAGTTAGTCGTATGTTGCCTCCTCCTCCTCT ************************************************.......(((((.....((....)).......)))))....................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V056 head
................................TTGCTATCTCTGGTTTGGCAA........................................................................................................	21	0	1	1.00	1	1	0
...........................TGGTTTTGCTATCTCTGGTTT.............................................................................................................	21	0	2	0.50	1	0	1
.........TTTTGACTTTATTAGTGTT.................................................................................................................................	19	1	3	0.33	1	0	1

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6500:10658644-10658800 -	dmo_1510	TCGATAGAGACAACTGAA---ATA---------ATC--------------ACAACCAAAACGAT---------------AGAGACCAAAC----------CGTTTA------T---GGC--------------TGT--CAACAGCAACAGCAACAACAACA---------GCAATGCC------AACA---ACGCGAACA------GCAAC--------------------T------------GCAGCAGCT-----------------GCAGCA------------------------TCAATCA-----GCATACAACGGAGGAGGA-----GGAGA
droVir3	scaffold_13049:22225205-22225344 +		-CAACGGCAACAACAACA---ATA---------ACA--------------ACAACAATAACAAC---------------AAGCAACTA----------------AATGT---GGCTG-CGG--GCAGCAA--------T-ACACCAACAACAGCAACAATA---------AC------------GCCA---GTGACAACA------GCAAC--------------------TGCAGCAGTA---G------CA-----------------GCAACAT---------------CAA--------------------------------CAACAAC----AG
droGri2	scaffold_15074:2718857-2719003 +		GCAACAGCAGCAGCAGCA---ACA---------GCA--------------GCAACAACAACAGC---------------AGCAGCAA-------------CAT---CTT---TCACAA---------------CAT--CAACTGCAACAGCAACATCAACA---------ACA------------ACA---ACA---G------------------CAGCAGCAGCA--CCA------------GCAACAGTT---GCAGCATCATC-----TT------------GTTG--------------------------------AGCAGGAG-----GAGGA
droWil2	scf2_1100000004234:1942-2087 +		-CAACAGCAACAGCAGCA---ACA---------ATG--------------GCAGCAACAACAAC---------------AGCAACAA-------------CAA---CTG---CAGCAGCAACAGCA--------------ACAGCAGCAACAATGGCAGCA---------AC------------AACA---ACAGCAACA------ACAACTGC-----------------AG---C------------AGCAACAACAAC---AGC-----AG------------CAAC--------------------------------AACAACAG-----CAACA
dp5	4_group1:1596539-1596678 -		ATCGCAACAGCAACAACA---ACA---------ACA--------------ACAGCAG---------------------------AACC----------------AGCCCCTCACCCA-----------------------ACAGCAACAGCAACAACAGCA---------GCA------------GCA---ACA---G------------------CAGCAGCAGCAAC--A------GCAACAGC------A--------------ACAGCAACAACAACAGAGCCAAC------------------------------AGCAGCAGCA-----GCAGA
droPer2	scaffold_0:10968031-10968185 +		GAGAGG--GAGAGCAACTCAAGCGGCTGACTAAATGTCAGA-----GAATTC---------------------------TGCA-CCTGTCCGA-------CTA---------T---TGCCA------------TGA--CAACAGCAACAAGAACAAGAACA---------ACA------------ACA---ACAACGCCA------GCA---------------GCA--CCA------------GCAGCAGCA-----------------GCAGCAG------------------------AAAGCAA------------AGGGAAAGAG-----GGAGA
droAna3	scaffold_13117:3453180-3453322 +		-CAGCAGCAACAGCAACA---GCA---------GCA--------------GC------AACAGCAATCGCAGCTAGTAGGGCAGCAG-CAGCAGCAGCAGCAACAACAA---C---AG-----------------------------------------TC---------AC------------AACA---ACAGCAGCA------ACAATCGC-----------------AG---C------------AGCAACAGCAACAGCAAC-----AA------------CAGCAGCA--------------------------------GCAG-----CAGCA
droBip1	scf7180000396730:1958987-1959123 +		A-GCCTGCTGCTACAACA---ATA---------ACA--------------AC------AACAAT---------------AGTGCCACC----------------AACAA---CATAT------------ACAGCGCCAAAGCAGCAGCAGCAACAACAACA---------ACA------------ACACCACCAACAT------------------CA------GCA--CCAGCAGCAGCA---G------CA-----------------GCAGCAG---------------CAA--------------------------------CTACAAC----AG
droKik1	scf7180000302619:421443-421586 -		TCAACAACAACTACAGCC---ATA---------ACA--------------ACAGCGACAATCAT---------------ATGAGCTCA----------------GGCAG---TTTTT-----------------------TCGGCGGCGGCGGCACCAGCAGCAGCAACAGCAATAGCAACAACACAA---ACA---G------------------C-----------------------------------AGCAGCAGCAGCAGC-----AA------------CAACGGTA--------------------------------ACAG-----CCACA
droFic1	scf7180000454050:472192-472338 -		CCAGTAGCAGCAACAACA---ACA---------TTA--------------GCAGCACCAACAAC---------------AATGGGGCC----------------AATGC---CGCCA-----------------------ACAGCAACAATAACAACAACA---------ACA------------ATA---ACT---A------------------TGGCCGCAGCAGC--A------GTC---GC---AGCA-----------------GCAG------------------CAG------CTCACAAAGCAGCC-----TGGACGAGGA-----GGAGG
droEle1	scf7180000490751:971219-971340 +		ACAACAACAGTAACAACA---ACA---------GCA--------------ACAACAACAGCAAC---------------AACA---------------------------------------------------------ACAGCAACAACAACAGCAACA---------ACA------------ACA---ACAACAACA------ACAACAACAGCA--------------------------GC------A---------ACA-----ACAACA------------GCAACAA--------------------------------CAAGAACAGGGCA
droRho1	scf7180000779902:229122-229269 -		TCAGCAGCAGCAGCAGAA---ACA---------ACA--------------GCAGCAAAAACAGA---CAAAACC-----AACAGCAA-------------CGT---CTG---CAACA-----------------------GCAGCAACAACAGCAG---CA---------GC------------AACA---TCAACAACAACGTATTCAACAG---C--------------A------------GC---AGCAACATCAAC-----------AA------------------CAA------------------CG-----TGTGCAGCAG-----CAGCA
droBia1	scf7180000299226:65427-65575 +		ACGACAGCGGCAGCTACAG--ATA---------CTT--------------GTAACTAAAGTGAC----A----------TGAGGCCTTAACAA-------CAATAACA-----CCAAG--------------------CAACAGCAACAGCAACAGCAACA---------GCA------------ACA---GCAACAGCA------ACAAC--------------------T------ACAACAGC------A--------------ACAGCAACAG------------CAACTA--------------------------------TGAGAACAAAGGA
droTak1	scf7180000415158:217869-218009 -		ACCACCACAATCACCATC---ATC---------ACA--------------GCAGCAGCAACAAT---------------AGCAA----------------CAACAGCAG---T---AG--------------------CAACAGCAACAGCAACAGCAACA---------GCA------------TCA---ACA---A------------------C-----------------------------------AACAGCAGCAGCAAC-----AG------------CAACAGCAGCAGCAACAA---------GT-----TGTACGAGAA-----CGAGT
droEug1	scf7180000409745:69-229 +		ACAGCGGCAACAGAAACA---GCA---------ACA---GCCAAACAACGGCAGCGACAACAGC---------------GGCAGCGTC----------------AACAG---CGGCAGCGACAACAGCGGCAGCGT--CAACAGCGGCAGCG---------------------------------ACG---ACAGCGACG------ACAGCGGC-----------------GG---C------------GACGACAGCGGCAGCGAC-----AG------------CAGCGGCAG--------------------------------CGA-----TAACA
dm3	chr3R:26705352-26705482 -		-CAACAACAACAACAACA---GCC---------AGA--------------AC---------AAT---------------GGCAAC----------------------A-----TGCA-----------------------GCAGCAACAGCAGCAGCAGCA---------GCA------------GCA---ACA---G------------------CAGCAGCAGCAGC--A------ACAACAGC------A--------------GCAGCAGCA------------------------TTATGCA-----GCAACCAT-CAAGGTGCC-----GCAGA
droSim2	3l:9459994-9460143 +		TCAACAGCAACAGCAGCA---GCA---------ACA--------------GCATCAGCAGCAGC---------------AGCAGCAGCAA----------CATCAACAG---C---AGCAA-----------------CATCAACAGCAGCAACACCAACA---------GCAGC---------AACA---GCAACAGAA------GCA---------------GCT--CCA------------GCAGCAGCA-----------------GCAGCAT------------------------CAATGG---------------AGCGGCAACAAC----GG
droSec2	scaffold_68:57008-57157 -		ACAGACACAGCAGAAACA---GTA---------CCA---GG-----AAAAGCAGAAGCTAATGT---------------TGCAGCAA-------------CAA---CAG---CAGCAGCAACAACA--------------------ACAGCAGCAACAACA---------AC------------AACA---GCAGCAGCA------ACAACAGC-----------------AG------------C---AGCAAGAACAGCAGCAGC-----AA------------AAAC--------------------------------AGCAGGAG-----CAGCA
droYak3	X:7838205-7838353 +	dya_1354	GCAGCAGCAGCAGCAGCA---ACA---------ACA--------------GCAGCAACAACAAC---------------AGCAGCCCC----------------AACAA---CAACA-----------------------GCAGCAGCAACAGCAGCAGCA------------------------GCA---ACAACAACAGCAGCAGCAACAA---C--------------A------------GC---AGCAGCAGCAACAACAAC-----AA------------CAGCAGCA--------------------------------GCAGCAACAGGTGC
droEre2	scaffold_4690:4615829-4615972 +		GCAGCAGCAGCAACAACA---ACA---------ACA--------------AC------AACAAC---------------AATGGGTCT----------------AACTC---CGTTA-----------------------ACAGCAACGCCAACAACAACAACAGCAACAACA------------ATA---GCAACAACT------ATGGCC--------------------------------AC------A--------------GCAGCAGCA------------------------GCTCGCAGAGCAGCA-----TGGACGAAGA-----GGAGG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

TCGATAGAGACAACTGAA---ATA---------ATC--------------ACAACCAAAACGAT---------------AGAGACCAAAC----------CGTTTA------T---GGC--------------TGT--CAACAGCAACAGCAACAACAACA---------GCAATGCC------AACA---ACGCGAACA------GCAAC--------------------T------------GCAGCAGCT-----------------GCAGCA------------------------TCAATCA-----GCATACAACGGAGGAGGA-----GGAGA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..........................................................................................................................................................................GCAATGCC------AACA---ACGCGAACA------G.....................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
.....................ATA---------ATC--------------ACAACCAAAACGAT---------------AGAGAC...............................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1
......................................................................................................................................................................................................................................................AGCAGCT-----------------GCAGCA------------------------TCAATCA-----GC..........................	22	1	1.00	1	1	0	0	0	0	0
...................................................................................................................................................................................................GAACA------GCAAC--------------------T------------GCAGCAGCT-----------------GCAGCA------------------------T.......................................	27	1	1.00	1	1	0	0	0	0	0
.............................................................GAT---------------AGAGACCAAAC----------CGTTTA------T---GGC--------------T..............................................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................A-----GCATACAACGGAGGAGGA-----GGAG.	23	1	1.00	1	0	0	1	0	0	0

droVir3

-CAACGGCAACAACAACA---ATA---------ACA--------------ACAACAATAACAAC---------------AAGCAACTA----------------AATGT---GGCTG-CGG--GCAGCAA--------T-ACACCAACAACAGCAACAATA---------AC------------GCCA---GTGACAACA------GCAAC--------------------TGCAGCAGTA---G------CA-----------------GCAACAT---------------CAA--------------------------------CAACAAC----AG	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
...........................................................................................................................................................ACAATA---------AC------------GCCA---GTGACAAC.............................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................CAGCAA--------T-ACACCAACAACAGCAACAATA---------AC------------GC..........................................................................................................................................................	32	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................GCCA---GTGACAACA------GCAAC--------------------TGCAGCAGT....................................................................................................	27	1	1.00	1	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
.......................................................................................A----------------AATGT---GGCTG-CGG--GCAGCA...................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.................................................................................................................................................................................................GACAACA------GCAAC--------------------TGCAGCAGT....................................................................................................	21	1	1.00	1	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
..........................................................................................................................................................AACAATA---------AC------------GCCA---GTGACAACA------GCAA..................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................CAACTA----------------AATGT---GGCTG-CGG--GCA......................................................................................................................................................................................................................	22	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
...................................................................................AACTA----------------AATGT---GGCTG-CGG--GCAGC....................................................................................................................................................................................................................	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
.............................................................................................................................................................AATA---------AC------------GCCA---GTGACAACA------GCAAC--------------------TGC..........................................................................................................	27	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
...................................................................................................................TG-CGG--GCAGCAA--------T-ACACCAA.................................................................................................................................................................................................	20	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................AACA------GCAAC--------------------TGCAGCAGTA---................................................................................................	19	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
..............................................................................................................................................ACCAACAACAGCAACAATA---------AC------------............................................................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......GCAACAACAACA---ATA---------ACA--------------ACA...............................................................................................................................................................................................................................................................................................	21	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

droGri2

GCAACAGCAGCAGCAGCA---ACA---------GCA--------------GCAACAACAACAGC---------------AGCAGCAA-------------CAT---CTT---TCACAA---------------CAT--CAACTGCAACAGCAACATCAACA---------ACA------------ACA---ACA---G------------------CAGCAGCAGCA--CCA------------GCAACAGTT---GCAGCATCATC-----TT------------GTTG--------------------------------AGCAGGAG-----GAGGA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
...ACAGCAGCAGCAGCA---ACA---------...................................................................................................................................................................................................................................................................................................................	18	20	0.35	7	7	0
..........CAGCAGCA---ACA---------GCA--------------GCAACA............................................................................................................................................................................................................................................................................................	20	20	0.10	2	2	0
.CAACAGCAGCAGCAGCA---ACA---------GCA--------------GCA...............................................................................................................................................................................................................................................................................................	26	20	0.05	1	1	0

droWil2

-CAACAGCAACAGCAGCA---ACA---------ATG--------------GCAGCAACAACAAC---------------AGCAACAA-------------CAA---CTG---CAGCAGCAACAGCA--------------ACAGCAGCAACAATGGCAGCA---------AC------------AACA---ACAGCAACA------ACAACTGC-----------------AG---C------------AGCAACAACAAC---AGC-----AG------------CAAC--------------------------------AACAACAG-----CAACA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.................A---ACA---------ATG--------------GCAGCAACAACAAC---------------AG...................................................................................................................................................................................................................................................................	23	20	0.70	14	0	14	0	0	0
....................................................................................................................................................AACAATGGCAGCA---------AC------------AACA---ACAG.................................................................................................................................................	23	20	0.70	14	0	14	0	0	0
.......................................................AACAACAAC---------------AGCAACAA-------------CAA---CTG---....................................................................................................................................................................................................................................	23	20	0.20	4	0	4	0	0	0
.......................................................................................................................................................................................................................................AG---C------------AGCAACAACAAC---AGC-----A...................................................................	19	20	0.20	4	0	0	0	4	0
................................................................................................................................................................A---------AC------------AACA---ACAGCAACA------ACAACTG...............................................................................................................................	23	20	0.20	4	0	4	0	0	0
...........................................................................................................................................................................................................................................................CAACAACAAC---AGC-----AG------------CAAC--------------------------------A.................	20	20	0.15	3	0	0	0	3	0
....................................................................................................................................................AACAATGGCAGCA---------AC------------AACA---ACAGC................................................................................................................................................	24	20	0.15	3	0	2	0	1	0
................................................................................................................................................................................................................................................................ACAAC---AGC-----AG------------CAAC--------------------------------AACA..............	18	20	0.15	3	0	0	0	3	0
.................A---ACA---------ATG--------------GCAGCAACAACAAC---------------AGC..................................................................................................................................................................................................................................................................	24	20	0.15	3	0	2	0	1	0
.......................................................................................................................AACAGCA--------------ACAGCAGCAACAATGG........................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0
.......................................................................................................................AACAGCA--------------ACAGCAGCAACAATGGC.......................................................................................................................................................................................	24	20	0.10	2	0	2	0	0	0
.............................................................................................................................................................AGCA---------AC------------AACA---ACAGCAACA------ACAACTG...............................................................................................................................	26	20	0.10	2	0	2	0	0	0
................CA---ACA---------ATG--------------GCAGCAACAACAAC---------------AG...................................................................................................................................................................................................................................................................	24	20	0.10	2	0	1	0	1	0
....................................................AGCAACAACAAC---------------AGCAACAA-------------CAA---CTG---....................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0	0
..AACAGCAACAGCAGCA---ACA---------ATG--------------G.................................................................................................................................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0
..AACAGCAACAGCAGCA---ACA---------ATG--------------GC................................................................................................................................................................................................................................................................................................	24	20	0.10	2	0	2	0	0	0
........................................................................................................................ACAGCA--------------ACAGCAGCAACA............................................................................................................................................................................................	18	20	0.10	2	0	0	0	2	0
...................................................................................................................................................................................................................TGC-----------------AG---C------------AGCAACAACAAC---AGC-----AG------------CAAC--------------------------------A.................	28	14	0.07	1	0	0	0	1	0
.......................................................................................................................................................................................................A------ACAACTGC-----------------AG---C------------AGCAACAACAAC---A...........................................................................	25	15	0.07	1	0	1	0	0	0
.....................ACA---------ATG--------------GCAGCAACAACAAC---------------AGCA.................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0
...........................................................................................................................................................................................A---ACAGCAACA------ACAACTGC-----------------AG---C------------AGCAAC.....................................................................................	27	20	0.05	1	0	1	0	0	0
...............................................................................................................................................................................................ACAGCAACA------ACAACTGC-----------------AG---C------------A..........................................................................................	21	20	0.05	1	0	1	0	0	0
..............................................................................................................................................AGCAGCAACAATGGCAGCA---------AC------------AACA---.....................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
...........AGCAGCA---ACA---------ATG--------------GCAGCAACAACA......................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................................AGCAACA------ACAACTGC-----------------AG---C------------AGCAACA....................................................................................	25	20	0.05	1	0	0	0	1	0
..........................................................AACAAC---------------AGCAACAA-------------CAA---CTG---CAG.................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
..........................................................................................................................................................................................CA---ACAGCAACA------ACAACTGC-----------------AG---........................................................................................................	21	20	0.05	1	0	1	0	0	0
.....AGCAACAGCAGCA---ACA---------ATG--------------G.................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0
...................................G--------------GCAGCAACAACAAC---------------AGCAAC...............................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
.......................A---------ATG--------------GCAGCAACAACAAC---------------AGCA.................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
..........................................................AACAAC---------------AGCAACAA-------------CAA---CTG---CAGCA...............................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
...............................................................................AGCAACAA-------------CAA---CTG---CAGCAGCAA...........................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
..................................TG--------------GCAGCAACAACAAC---------------AGCAACAA-------------CAA---..........................................................................................................................................................................................................................................	27	20	0.05	1	0	0	0	1	0
....................................................................................................................................................................................................AACA------ACAACTGC-----------------AG---C------------AGCAACA....................................................................................	22	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................TGGCAGCA---------AC------------AACA---ACAGCAACA------ACAA..................................................................................................................................	27	20	0.05	1	0	0	0	1	0
......................................................................................................................CAACAGCA--------------ACAGCAGCAACAATGGC.......................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
.............................................................AAC---------------AGCAACAA-------------CAA---CTG---CAGCAGC.............................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0
.......................A---------ATG--------------GCAGCAACAACAAC---------------AGCAACAA-------------C...............................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
...........................................................................................................................................................................................A---ACAGCAACA------ACAACTGC-----------------AG---C------------AGC........................................................................................	24	20	0.05	1	0	1	0	0	0
...................................G--------------GCAGCAACAACAAC---------------AGCAACAA-------------................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
..........................................................................................................................................................GGCAGCA---------AC------------AACA---ACAGCAACA------A.....................................................................................................................................	23	20	0.05	1	0	1	0	0	0
...............................................................................AGCAACAA-------------CAA---CTG---CAGCAGCAACA.........................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
.....................ACA---------ATG--------------GCAGCAACAACAAC---------------AG...................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................................................AGCAACAACAAC---AGC-----AG------------CAAC--------------------------------AA................	23	20	0.05	1	0	0	0	1	0
...................................................................................................................................................CAACAATGGCAGCA---------AC------------AACA---ACAG.................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
..................................................................................................................................................................................................................................................................AAC---AGC-----AG------------CAAC--------------------------------AACAACAG-----CA...	22	20	0.05	1	0	0	0	0	1
..............................................................AC---------------AGCAACAA-------------CAA---CTG---CAGCA...............................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
...................................................................................................................................................CAACAATGGCAGCA---------AC------------AACA---ACAGC................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
.............................................................AAC---------------AGCAACAA-------------CAA---CTG---CAGCAGCAAC..........................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................................AGCAACA------ACAACTGC-----------------AG---C------------AGCAA......................................................................................	23	20	0.05	1	0	1	0	0	0
....................................................................................................................................................AACAATGGCAGCA---------AC------------AACA---ACAGCA...............................................................................................................................................	25	20	0.05	1	0	0	0	1	0
.....................................................................................................................................................ACAATGGCAGCA---------AC------------AACA---ACAG.................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
............................................................CAAC---------------AGCAACAA-------------CAA---CTG---CAG.................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................AACAAC---AGC-----AG------------CAAC--------------------------------AACAAC............	21	20	0.05	1	0	0	0	1	0
........................................................................................................................................................................................AACA---ACAGCAACA------ACAACTGC-----------------AG---........................................................................................................	23	20	0.05	1	0	1	0	0	0
.CAACAGCAACAGCAGCA---ACA---------ATG--------------GC................................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
..........................................................................................................................................................GGCAGCA---------AC------------AACA---ACAGCAAC.............................................................................................................................................	21	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................AACA---ACAGCAACA------ACAACTGC-----------------AG---C------------A..........................................................................................	25	20	0.05	1	0	0	0	1	0
......................................................................................................................CAACAGCA--------------ACAGCAGCAAC.............................................................................................................................................................................................	19	20	0.05	1	0	0	0	1	0
...........................................................................................................................................................................................................................................................CAACAACAAC---AGC-----AG------------CAAC--------------------------------AACAACA...........	26	20	0.05	1	0	0	0	1	0
..........................................................................................................................AGCA--------------ACAGCAGCAACAATGG........................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0
.....................................................................................................................................................ACAATGGCAGCA---------AC------------AACA---ACAGCA...............................................................................................................................................	24	20	0.05	1	0	1	0	0	0
..............................................................................................................................................................................................................................................................CAACAAC---AGC-----AG------------CAAC--------------------------------AACAACA...........	23	20	0.05	1	0	0	0	0	1
.......................A---------ATG--------------GCAGCAACAACAAC---------------AGC..................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
.......................................................................................................................................................AATGGCAGCA---------AC------------AACA---ACAGCAACA------AC....................................................................................................................................	27	20	0.05	1	0	1	0	0	0
.......................................................................................................................................................AATGGCAGCA---------AC------------AACA---ACAGCA...............................................................................................................................................	22	20	0.05	1	0	1	0	0	0
............................................................................................................................................................................................................................................................AACAACAAC---AGC-----AG------------CAAC--------------------------------AACAACAG-----.....	26	20	0.05	1	0	0	0	1	0
..................................................................................AACAA-------------CAA---CTG---CAGCAGCAACA.........................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
.................A---ACA---------ATG--------------GCAGCAACAACAAC---------------AGCA.................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
................CA---ACA---------ATG--------------GCAGCAACAACAAC---------------AGC..................................................................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0

dp5

ATCGCAACAGCAACAACA---ACA---------ACA--------------ACAGCAG---------------------------AACC----------------AGCCCCTCACCCA-----------------------ACAGCAACAGCAACAACAGCA---------GCA------------GCA---ACA---G------------------CAGCAGCAGCAAC--A------GCAACAGC------A--------------ACAGCAACAACAACAGAGCCAAC------------------------------AGCAGCAGCA-----GCAGA	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---------GCA------------GCA---ACA---G------------------CAGCAGCAGC..................................................................................................................	23	20	0.10	2	0	2	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................ACA---G------------------CAGCAGCAGCAAC--A------GCA...................................................................................................	21	20	0.10	2	0	0	0	0	0	0	0	0	2	0
.....AACAGCAACAACA---ACA---------ACA--------------ACAGCA............................................................................................................................................................................................................................................................................................	25	14	0.07	1	0	0	1	0	0	0	0	0	0	0
......ACAGCAACAACA---ACA---------ACA--------------ACAGCA............................................................................................................................................................................................................................................................................................	24	15	0.07	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................CA------------GCA---ACA---G------------------CAGCAGCAGCAA................................................................................................................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
..............................................................................................................................................AGCAACAGCAACAACAGCA---------..........................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.........................................................................................................................................................CAACAGCA---------GCA------------GCA---ACA---G------------------CA..........................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
..............................................................................................................................................................................................................................CAGCAAC--A------GCAACAGC------A--------------ACAGCAAC.................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................AACAGC------A--------------ACAGCAACAACAAC...........................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................CAACAACAGCA---------GCA------------GCA---ACA---G------------------CAG.........................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................CAGCAACAACAGCA---------GCA------------GCA---ACA---...............................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0
.....................................................................................................................................................................................................G------------------CAGCAGCAGCAAC--A------GCAACAGC------........................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

GAGAGG--GAGAGCAACTCAAGCGGCTGACTAAATGTCAGA-----GAATTC---------------------------TGCA-CCTGTCCGA-------CTA---------T---TGCCA------------TGA--CAACAGCAACAAGAACAAGAACA---------ACA------------ACA---ACAACGCCA------GCA---------------GCA--CCA------------GCAGCAGCA-----------------GCAGCAG------------------------AAAGCAA------------AGGGAAAGAG-----GGAGA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
..................................................................................................................................................................................................................................A--CCA------------GCAGCAGCA-----------------GCAGC.................................................................	18	20	0.05	1	0	1	0	0	0	0

droAna3

-CAGCAGCAACAGCAACA---GCA---------GCA--------------GC------AACAGCAATCGCAGCTAGTAGGGCAGCAG-CAGCAGCAGCAGCAACAACAA---C---AG-----------------------------------------TC---------AC------------AACA---ACAGCAGCA------ACAATCGC-----------------AG---C------------AGCAACAGCAACAGCAAC-----AA------------CAGCAGCA--------------------------------GCAG-----CAGCA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.......................................................................GCTAGTAGGGCAGCAG-CAGCAGC.....................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	1	0
...........................................................................GTAGGGCAGCAG-CAGCAGCAGCAGC...............................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0
.............CAACA---GCA---------GCA--------------GC------AACAGCAAT.................................................................................................................................................................................................................................................................................	22	5	0.20	1	0	0	0	0	0	1
..........................................................................................................................................................................................................................................................................C-----AA------------CAGCAGCA--------------------------------GCAG-----CAGC.	19	20	0.15	3	0	3	0	0	0	0
........................................................................................................................................................................................................................................................................AAC-----AA------------CAGCAGCA--------------------------------GCAG-----C....	18	20	0.15	3	0	3	0	0	0	0
......................................................................................................................................................................................................................................................................GCAAC-----AA------------CAGCAGCA--------------------------------GCAG-----C....	20	20	0.15	3	0	2	1	0	0	0
..................................................................................AGCAG-CAGCAGCAGCAGCA..............................................................................................................................................................................................................................................	19	20	0.10	2	2	0	0	0	0	0
......................................................................................................................................................................................................................................................................GCAAC-----AA------------CAGCAGCA--------------------------------GCAG-----CAGC.	23	20	0.10	2	0	2	0	0	0	0
..................................................................................AGCAG-CAGCAGCAGCAGCAAC............................................................................................................................................................................................................................................	21	20	0.10	2	0	2	0	0	0	0
..............................................................................GGGCAGCAG-CAGCAGCAGCAGCA..............................................................................................................................................................................................................................................	23	11	0.09	1	1	0	0	0	0	0
......GCAACAGCAACA---GCA---------GCA--------------GC------AACAGC....................................................................................................................................................................................................................................................................................	26	14	0.07	1	0	1	0	0	0	0
..............................................................................GGGCAGCAG-CAGCAGCAGCAG................................................................................................................................................................................................................................................	21	15	0.07	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................................AACAGCAACAGCAAC-----AA------------CAGC..................................................	21	17	0.06	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................AGCAAC-----AA------------CAGCAGCA--------------------------------GCAG-----CAGCA	25	20	0.05	1	0	0	1	0	0	0
...................................................................................................................................................................................................................................................................ACAGCAAC-----AA------------CAGCAGCA--------------------------------GC............	20	20	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................AGCAAC-----AA------------CAGCAGCA--------------------------------GCAG-----CAGC.	24	20	0.05	1	0	0	1	0	0	0
...............................................................................................................................................................................................................................................................AGCAACAGCAAC-----AA------------CAGCAGCA--------------------------------GC............	24	20	0.05	1	0	1	0	0	0	0
...................................................................................................................................................................................................................................................................ACAGCAAC-----AA------------CAGCAGCA--------------------------------GCAG-----CA...	24	20	0.05	1	0	0	0	0	0	1
....................................................................................................................................................................................................................................................................CAGCAAC-----AA------------CAGCAGCA--------------------------------GCAG-----CAGCA	26	20	0.05	1	0	1	0	0	0	0
.....AGCAACAGCAACA---GCA---------GCA--------------GC------..........................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1
...GCAGCAACAGCAACA---GCA---------GCA--------------GC------AAC.......................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0
.....................................................................................AG-CAGCAGCAGCAGCAACAA..........................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1
...................................................................................GCAG-CAGCAGCAGCAGCAACA...........................................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................................AGCAAC-----AA------------CAGCAGCA--------------------------------GCA...........	19	20	0.05	1	0	1	0	0	0	0
.........................................................................................................................................................................................................................................................................AC-----AA------------CAGCAGCA--------------------------------GCAG-----CAG..	19	20	0.05	1	0	0	1	0	0	0
...........AGCAACA---GCA---------GCA--------------GC------AACAG.....................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.................................................................................CAGCAG-CAGCAGCAGCAGCAACA...........................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	1
..........................................................................................GCAGCAGCAGCAACAACAA---C---A...............................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0
.........ACAGCAACA---GCA---------GCA--------------GC------AAC.......................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................CAACAGCAACAGCAAC-----AA------------......................................................	18	20	0.05	1	0	0	1	0	0	0
........AACAGCAACA---GCA---------GCA--------------GC------AACAGC....................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
...........AGCAACA---GCA---------GCA--------------GC------AACAGC....................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0
................................................................................GCAGCAG-CAGCAGCAGCAGC...............................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................GCAACAGCAACAGCAAC-----AA------------CA....................................................	21	20	0.05	1	0	1	0	0	0	0
............................................................................................................................................................................................................................................C------------AGCAACAGCAACAGCAAC-----AA------------C.....................................................	22	20	0.05	1	0	1	0	0	0	0
............GCAACA---GCA---------GCA--------------GC------AACAGC....................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1
...GCAGCAACAGCAACA---GCA---------GCA--------------GC------A.........................................................................................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
.............CAACA---GCA---------GCA--------------GC------AACAGCA...................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	1	0	0	0
.........................................................................................AGCAGCAGCAGCAACAACAA---C---AG-----------------------------------------.....................................................................................................................................................................................	23	20	0.05	1	1	0	0	0	0	0

droBip1

A-GCCTGCTGCTACAACA---ATA---------ACA--------------AC------AACAAT---------------AGTGCCACC----------------AACAA---CATAT------------ACAGCGCCAAAGCAGCAGCAGCAACAACAACA---------ACA------------ACACCACCAACAT------------------CA------GCA--CCAGCAGCAGCA---G------CA-----------------GCAGCAG---------------CAA--------------------------------CTACAAC----AG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TCAACAACAACTACAGCC---ATA---------ACA--------------ACAGCGACAATCAT---------------ATGAGCTCA----------------GGCAG---TTTTT-----------------------TCGGCGGCGGCGGCACCAGCAGCAGCAACAGCAATAGCAACAACACAA---ACA---G------------------C-----------------------------------AGCAGCAGCAGCAGC-----AA------------CAACGGTA--------------------------------ACAG-----CCACA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CCAGTAGCAGCAACAACA---ACA---------TTA--------------GCAGCACCAACAAC---------------AATGGGGCC----------------AATGC---CGCCA-----------------------ACAGCAACAATAACAACAACA---------ACA------------ATA---ACT---A------------------TGGCCGCAGCAGC--A------GTC---GC---AGCA-----------------GCAG------------------CAG------CTCACAAAGCAGCC-----TGGACGAGGA-----GGAGG	Size	Hit Count	Total Norm	Total
No Reads

droEle1

ACAACAACAGTAACAACA---ACA---------GCA--------------ACAACAACAGCAAC---------------AACA---------------------------------------------------------ACAGCAACAACAACAGCAACA---------ACA------------ACA---ACAACAACA------ACAACAACAGCA--------------------------GC------A---------ACA-----ACAACA------------GCAACAA--------------------------------CAAGAACAGGGCA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TCAGCAGCAGCAGCAGAA---ACA---------ACA--------------GCAGCAAAAACAGA---CAAAACC-----AACAGCAA-------------CGT---CTG---CAACA-----------------------GCAGCAACAACAGCAG---CA---------GC------------AACA---TCAACAACAACGTATTCAACAG---C--------------A------------GC---AGCAACATCAAC-----------AA------------------CAA------------------CG-----TGTGCAGCAG-----CAGCA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

ACGACAGCGGCAGCTACAG--ATA---------CTT--------------GTAACTAAAGTGAC----A----------TGAGGCCTTAACAA-------CAATAACA-----CCAAG--------------------CAACAGCAACAGCAACAGCAACA---------GCA------------ACA---GCAACAGCA------ACAAC--------------------T------ACAACAGC------A--------------ACAGCAACAG------------CAACTA--------------------------------TGAGAACAAAGGA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ACCACCACAATCACCATC---ATC---------ACA--------------GCAGCAGCAACAAT---------------AGCAA----------------CAACAGCAG---T---AG--------------------CAACAGCAACAGCAACAGCAACA---------GCA------------TCA---ACA---A------------------C-----------------------------------AACAGCAGCAGCAAC-----AG------------CAACAGCAGCAGCAACAA---------GT-----TGTACGAGAA-----CGAGT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

ACAGCGGCAACAGAAACA---GCA---------ACA---GCCAAACAACGGCAGCGACAACAGC---------------GGCAGCGTC----------------AACAG---CGGCAGCGACAACAGCGGCAGCGT--CAACAGCGGCAGCG---------------------------------ACG---ACAGCGACG------ACAGCGGC-----------------GG---C------------GACGACAGCGGCAGCGAC-----AG------------CAGCGGCAG--------------------------------CGA-----TAACA	Size	Hit Count	Total Norm	Total
No Reads

dm3

-CAACAACAACAACAACA---GCC---------AGA--------------AC---------AAT---------------GGCAAC----------------------A-----TGCA-----------------------GCAGCAACAGCAGCAGCAGCA---------GCA------------GCA---ACA---G------------------CAGCAGCAGCAGC--A------ACAACAGC------A--------------GCAGCAGCA------------------------TTATGCA-----GCAACCAT-CAAGGTGCC-----GCAGA	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
................................................................................................................................................................................................................................................................................................................GCA-----GCAACCAT-CAAGGTGCC-----GCAG.	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................GCAAC----------------------A-----TGCA-----------------------GCAGCAACAGCAGCAGC.......................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................C---------AGA--------------AC---------AAT---------------GGCAAC----------------------A-----TGCA-----------------------........................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................GCAGCAGCA------------------------TTATGCA-----GCAACCAT-...................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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--A------ACAACAGC------A--------------GCAGCAG..................................................................	21	20	0.70	14	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	2	0	0	0	2	0	9	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....CAACAACAACAACA---GCC---------AG.................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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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............................................................................................................................................GCAGCAACAGCAGCAGCAGCA---------..........................................................................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................CAGCAGCAGCAGCA---------GCA------------GCA---AC...................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................AGCAGC--A------ACAACAGC------A--------------GCAGCAGC.................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................GCAGCA---------GCA------------GCA---ACA---G------------------CAGCAGCAG...................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................CA------------GCA---ACA---G------------------CAGCAGCAGC..................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................AGCAGCAGC--A------ACAACAGC------A--------------GCAGCA...................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................GCAGCAGC--A------ACAACAGC------A--------------GC.......................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................GCAGCAGCA---------GCA------------GCA---ACA---G------------------CAGCAGCAGCA.................................................................................................................	30	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSim2

TCAACAGCAACAGCAGCA---GCA---------ACA--------------GCATCAGCAGCAGC---------------AGCAGCAGCAA----------CATCAACAG---C---AGCAA-----------------CATCAACAGCAGCAACACCAACA---------GCAGC---------AACA---GCAACAGAA------GCA---------------GCT--CCA------------GCAGCAGCA-----------------GCAGCAT------------------------CAATGG---------------AGCGGCAACAAC----GG	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
.....................GCA---------ACA--------------GCATCAGCAGCAGC---------------A....................................................................................................................................................................................................................................................................	21	5	0.20	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................................................CT--CCA------------GCAGCAGCA-----------------GCAGC.................................................................	19	18	0.06	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
.......................................................AGCAGCAGC---------------AGCAGCAGC............................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.....AGCAACAGCAGCA---GCA---------ACA--------------..................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0

droSec2

ACAGACACAGCAGAAACA---GTA---------CCA---GG-----AAAAGCAGAAGCTAATGT---------------TGCAGCAA-------------CAA---CAG---CAGCAGCAACAACA--------------------ACAGCAGCAACAACA---------AC------------AACA---GCAGCAGCA------ACAACAGC-----------------AG------------C---AGCAAGAACAGCAGCAGC-----AA------------AAAC--------------------------------AGCAGGAG-----CAGCA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
................................................................................................................................................................................................................AACAGC-----------------AG------------C---AGCAAGAACAGCA..............................................................................	22	2	0.50	1	0	1	0	0
................................................................................................................................................................A---------AC------------AACA---GCAGCAGCA------ACA...................................................................................................................................	19	20	0.05	1	0	0	1	0
....................................................................................................CAA---CAG---CAGCAGCAACAACA--------------------A.................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0
...........................................................................................................................................................................C------------AACA---GCAGCAGCA------ACAAC.................................................................................................................................	19	20	0.05	1	0	0	1	0
.............................................................................................................................................................AACA---------AC------------AACA---GCAGCAGC.............................................................................................................................................	18	20	0.05	1	1	0	0	0

droYak3

GCAGCAGCAGCAGCAGCA---ACA---------ACA--------------GCAGCAACAACAAC---------------AGCAGCCCC----------------AACAA---CAACA-----------------------GCAGCAGCAACAGCAGCAGCA------------------------GCA---ACAACAACAGCAGCAGCAACAA---C--------------A------------GC---AGCAGCAGCAACAACAAC-----AA------------CAGCAGCA--------------------------------GCAGCAACAGGTGC	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
........................................................................................................................................................................................................................................................................AAC-----AA------------CAGCAGCA--------------------------------GCAGCAACAGGT..	25	3	0.33	1	0	0	0	1	0	0	0	0	0	0	0
..........................................................................................................................................................................................................AGCAGCAACAA---C--------------A------------GC---AGCAGCAGC..................................................................................	24	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................GCAGCAACAA---C--------------A------------GC---AGCAGC.....................................................................................	20	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................GCAGCAACAA---C--------------A------------GC---AGCAGCAGC..................................................................................	23	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................GCAACAACAAC-----AA------------CAGCAGCA--------------------------------GCAGC.........	26	9	0.11	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................GCA------------------------GCA---ACAACAACAGCAGCAGCA...................................................................................................................................	24	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.......................................................................................C----------------AACAA---CAACA-----------------------GCAGCAGCA...............................................................................................................................................................................................	20	20	0.10	2	0	0	0	0	0	0	2	0	0	0	0
.....................................................................................................................................................................................................................................................................AACAAC-----AA------------CAGCAGCA--------------------------------GCAGCAACAG....	26	11	0.09	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................AGCAGCA--------------------------------GCAGCAACAGGT..	19	11	0.09	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................GCAGCAACAACAAC-----AA------------CAGCAGCA--------------------------------GCA...........	27	12	0.08	1	0	1	0	0	0	0	0	0	0	0	0
...............GCA---ACA---------ACA--------------GCAGCAACAACAA.....................................................................................................................................................................................................................................................................................	22	14	0.07	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................AGCAACAACAAC-----AA------------CAGCAGC...............................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................C----------------AACAA---CAACA-----------------------GCAGCAG.................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1
..........................................................................................................CAA---CAACA-----------------------GCAGCAGCAAC.............................................................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
........................................................................................................AACAA---CAACA-----------------------GCAGCAGCA...............................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0	0	0	0	0
.................................................................................................................................................................................................................ACAA---C--------------A------------GC---AGCAGCAGCAAC...............................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................CAACA-----------------------GCAGCAGCAACAGCAGCAGCA------------------------...........................................................................................................................................................	26	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0
......GCAGCAGCAGCA---ACA---------ACA--------------GC................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................ACAA---C--------------A------------GC---AGCAGCAGCAACAAC............................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................AAC-----AA------------CAGCAGCA--------------------------------GCAGCA........	19	20	0.05	1	0	0	0	0	1	0	0	0	0	0	0
.CAGCAGCAGCAGCAGCA---ACA---------ACA--------------GCA...............................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................GCAGCAGCAACAGCAGCAGCA------------------------GCA---.....................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...................................A--------------GCAGCAACAACAAC---------------AGCAGC...............................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
...................................A--------------GCAGCAACAACAAC---------------AGC..................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................AACAAC-----AA------------CAGCAGCA--------------------------------GCAGCA........	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................AGCAGCA------------------------GCA---ACAACAACAGCA.........................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................CAGCAGCAACAGCAGCAGCA------------------------GCA---.....................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
..........................................................................................................................................................AGCAGCA------------------------GCA---ACAACAACAGCAGCAGC....................................................................................................................................	27	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................GCAGCA------------------------GCA---ACAACAACAGC..........................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................CAA---CAACA-----------------------GCAGCAGCAACA............................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
..........................................................................................................CAA---CAACA-----------------------GCAGCAGCAACAGCAG........................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................GCAACAA---C--------------A------------GC---AGCAGCAGC..................................................................................	20	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................CA---ACAACAACAGCAGCAGC....................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................CAACAAC-----AA------------CAGCAGCA--------------------------------GCA...........	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................A---ACAACAACAGCAGCAGCAACAA---C--------------A------------................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................A------------------------GCA---ACAACAACAGCAGCA......................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
.........................................................................................................................................................................................GCA---ACAACAACAGCAGCAGC....................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
........AGCAGCAGCA---ACA---------ACA--------------GCAGCAACA.........................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................GCA------------------------GCA---ACAACAACAGCAGCAGCAAC.................................................................................................................................	26	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0

droEre2

GCAGCAGCAGCAACAACA---ACA---------ACA--------------AC------AACAAC---------------AATGGGTCT----------------AACTC---CGTTA-----------------------ACAGCAACGCCAACAACAACAACAGCAACAACA------------ATA---GCAACAACT------ATGGCC--------------------------------AC------A--------------GCAGCAGCA------------------------GCTCGCAGAGCAGCA-----TGGACGAAGA-----GGAGG	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.....AGCAGCAACAACA---ACA---------ACA--------------AC------AACAAC---------------.....................................................................................................................................................................................................................................................................	27	8	0.13	1	0	0	0	0	0	1	0
.......CAGCAACAACA---ACA---------ACA--------------AC------AAC.......................................................................................................................................................................................................................................................................................	22	20	0.05	1	1	0	0	0	0	0	0
.....AGCAGCAACAACA---ACA---------ACA--------------AC------..........................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1	0

dmo_1510

scaffold_6500:10658694-10658750 -

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

-6.5	-6.5	-6.5