dmo_639

Name	Class	Family	Strand
Homo6	DNA	hAT-Pegasus	-
(CA)n	Simple_repeat	Simple_repeat	+
Gypsy-22_DWil-I-int	LTR	Gypsy	-
Homo6	DNA	hAT-Pegasus	-

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## CCTTAAACTTAACTTGCGAAAAAAAAAAAAAAATACAAAACAAAATTTGCTCAATGAATGTGCGTGTGTGTGCGTGCGTGTGTGTGTATATGCCTATGTGTGTGCGTGTATGTGTGTGTGTGTGTGTGTCTGTGTATGTGTATGTGCCTCTGTCTATGTGTGTGTATTGGGTGGTTACCGTGTTTAACTAATACTATGAAGGTCGGCACTGGCACCCTACAGGAAACAATTGGTCTTGGTTTCCGGGAGGA *********************************************************..(((((((((((((((((((.((((....)))).))))))))))))))))))).........................***************************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V110 male body
..............................................................................................................................................................................................................................GAAATCACTGGTCTTGGTTT.........	20	3	1	1.00	1	1	0
........................................................................................................................................................................................................................................GTCTTGGGTTCTGGGGGGA	19	3	4	0.50	2	2	0
...................................................................................................................................................................................................ATGAAGGACGGGACTAGCAC....................................	20	3	2	0.50	1	0	1
..............................................................................................................................................................................................................................GAAATCACTGGTCTTGGT...........	18	3	20	0.05	1	1	0
...........................................................GTGCGTGTGTGTGCGTGCG.............................................................................................................................................................................	19	0	20	0.05	1	0	1
........................................................................................................................TGTGTGTGTCTGTGTATG.................................................................................................................	18	0	20	0.05	1	1	0
...............................................................................................................GTGTGTGTGTGTGTGTGTC.........................................................................................................................	19	0	20	0.05	1	0	1

GGAATTTGAATTGAACGCTTTTTTTTTTTTTTTATGTTTTGTTTTAAACGAGTTACTTACACGCACACACACGCACGCACACACACATATACGGATACACACACGCACATACACACACACACACACACAGACACATACACATACACGGAGACAGATACACACACATAACCCACCAATGGCACAAATTGATTATGATACTTCCAGCCGTGACCGTGGGATGTCCTTTGTTAACCAGAACCAAAGGCCCTCCT ***************************************************************************************************************..(((((((((((((((((((.((((....)))).))))))))))))))))))).........................*********************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M060 embryo	M046 female body
......................................................................................................................................................................ACCCCACCACTGGCACAAA..................................................................	19	2	1	1.00	1	1	0
...................................................................................CACGTATACGGATAGACACA....................................................................................................................................................	20	2	14	0.07	1	0	1

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6473:2539240-2539490 -	dmo_639	CC---------TTAAACTTA---------ACTT---------------------GCG--AAA---------A----------------------------------AAAAA------AAAAAA------------------------TACAAAACA-AAAT-TTGCT---------------------CAATGAATGTGCGT--------------GT--------GTG------TGCGTG--------------------------------------------------------------------------------CGTGTGTGTGT--A--TATGCCT-----------------------------ATGTGTG----TG--------------CGTGTATGTGT--------GTGTGT------------------GTGTGTGTCTGTGTA------T------GTGTATGT-GC-------C----TCTGTCTA---TGTG--TGTGTATT-GGGTGGTTACCGTG-----------------------TTT---A-------------------------------------ACTAATACTATGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACAATTGGTCTTGG-----TTTCCGGGAGGA
droVir3	scaffold_12928:7494406-7494564 +		CC---------ATAAACTTA---------ACTT---------------------GCA--AAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A--------TATGAAA----------------T----------------T--------------------------------------------GTGTATG-TGTGCGTGTGTGTGTGTG------------------TGTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TGCT-GGGTGGTAACTGTG-----------------------TTT---A-------------------------------------ACTAATGCTATGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACCATTGGCCTCGG-----TTTTCGGGAGGA
droGri2	scaffold_14853:9658121-9658307 -		CACCCCCCGCCTTAAACTTA---------ACTT---------------------GCT--AAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA---TGTCTATGGAA----------------T----------------TCTATGT--------------GT----------------------GTG-----TGTGTGTGTGTGTGTGTG----TG----------------TGT----------G----------T--G----------TGTGTGTGTG------------GTG------------G---------------------------------------TGTGTATT-GGGTGGTCAATGTG-----------------------TTT---A-------------------------------------ACTAATGCTATGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACCATTGGTCTCGG-----TTTTCGAGAGGA
droWil2	scf2_1100000004515:1179580-1179761 -		GC---------ATGACCCTC---------TGCT---------------------A---------------------------------------------------------------------------------------------------------TATCGCTCT-----------------------------------------------------------------------------------------------ACAAAA----------------T----------------TCTATAT--------------AT----------------------GTGTCTCTTGTGTGTGT--------G------------------TGTGTGT------------------------G--TGTGTGTGTACGTGTGTG------------CTT--AT----------------------------------------------------TGTT-GGTTGGTTACTTGG-----------------------TGT---C--------------------------------ACAAAACTAATACTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACAATTGGTCTGGG-----ATTTCGCGAAGA
dp5	XL_group1e:7605192-7605416 +		GC---------AACAATT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATAAAATATTATAAGACAGCCAA----------------TTGGTGTGTGTG--TGTGTGTGTGTGAGTGG--TT-----------------------------------TTGCATGTGTGCA------------------TATGAGT--------GTGTTT--------------------------------------GTTTGTGTGCGTT-----CGTACTACGTGTACGTGTGGT---TCTT-----------TT------------TTTTTTTTGAGAATATATACATATGT---A-------------------------------------TATATTTTTTTGTATTCTTT---CATTTGC------------ACACTACGAGCGCTCATGCTTT-TAGATCAAATTCTGAAAAAA
droPer2	scaffold_27:518833-518996 -		CC---------TTTTTGCG----------------------------------------GGC---------A----------------------------------GCAAA------AAAGAA------------------------ATCGTTTTA-CTAT-CAGTC---------------------CGTCGTCTATCTG--------------------------------------TC----------------------------------------------------------------------------TGTCTGTCTGCGTGT-----------------------------GTGT--------G------------------TGTGTGTGTGTGTATGTGC--------ATGAGT------------------G------------TTTGAGTGTTTAAGTGAGTG----------------------TGTG---CTTCTGTGTGTATT-TATTCGA-------------------------------------------------------------------------------------------------------------------------------------------GGA-----TTTATTTAATTA
droAna3	scaffold_12929:1805260-1805442 -		TT---------TTTTTGTGT---------TTCT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTG------CGTGTG------------------------CGT--------------------------------------------------------GCGTGTGC--G--T-----------------------------------GTGCGTG----------------CGT----------GTGCGTGTGTGTGTGT------------------GTGTG--------TGT------------GTGTGTGTCGTGTGCTGTGCA--TGTTCGTG---CTTG--------T-TTGTT--TTGT-------------TGTG----------TGC----TTTTGTGCTTTTCTTT-TTGCAGATGGAAA--------TTTAAAGCATAAAAGTAGGATGAGAAA---------------------------------------------------GGATGA
droBip1	scf7180000396543:263519-263686 -		TG---------TGTTTCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTG------CGTGTG----------------------------------------------------------------------------TGTGTGCGTGCGCGTGC--CT-----------------------------------GTGCGTGTCTGTG------------------CATGTGC--------GTGCGT-------------------------------------------------------------------------------------------GCT-TGCTTGTTTTTTTTCTTCTGC--TGTG----------TGCTTT-----GTGCTTTTCTTTATTGCAGATGGAAA--------TTTAAAGCATAAAAGTAGG---AAAAAGG------------ATG----AGGAAATA--------------------AAGCAGAA
droKik1	scf7180000302398:413922-414075 +		TT---------TTAGTTTTATATTCAATTTTT----------------------------------------------------------------------------------------------------------------------------------TTGTT---------------------TGTT-------T--CATTAATACTAAATCTGTGTGTGTGTGTGTGTGTGTGTG--------------------------------------------------------------TGT------------------GT-----------------------------------------------GTGTGTG----TG--------------TGTGTGTGTGT--------GTGTGT------------------GTGTGTGTGTGTGTG------T------GTGTGTGT-GT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTGTGTGTGTG-----TGTGTGTTGTGT
droFic1	scf7180000454077:2748251-2748418 +		GC---------GGAA--------------------------------------------------------ATAA-AAATA---------------------------AATTCGAAAAG----T--------------------TAATATTA-----------------------------------------AATGTGCTA----------------------CATTG------GAAAC--------------A--------T-----A----------------T------------------------TGTGTGTGGGTGTTCGTGTGT--A--T-----------------------------------ATGTGTGTGTGCG----------------------------------------------------------CGAG------TGTGGGTTTGTGTGTGTGTGTA------------------TGTGTGGG---CTTTCGA----ATC-TC------GT----TTCTTAT--TTTA----------TAT-------------------------------------------------------------------------------------------------TTT-----------------TTTGTTACC
droEle1	scf7180000491044:57674-57857 -		TT---------TTGGTTCTT---------TGTT---------------------GCG--G---------AAATAA-------TAGTTTA-------------AAAAAAAATGCGC------AAA--------------------TTTAGTTAAGGA-TA----------------------------------ACGGTGCT----------------------------------------------------------TGTGGGTGG--------------ATGTG----------------TGTG----------TGTGTGTGTGTGTGTGT--GT-----------------------------------GTGTGTGTGTGTG------------------TGTGTGT--------GTGTGTGTGTGTGTG------------------------------T------GTGTG-----------------------------------------T-GTGCC--TTG--------------TGGG----------TGGTTT-----GTAGCTGCTCTGCGT-----------------------------------------------------------------------------------------------------AA
droRho1	scf7180000779976:854718-854903 +		CC---------TCAACTTTT---------CGCT---------------------TCG--AGCA-------AAAAC-AGACG----------------------------------------AA------------------------CTTGAAGT-----------------------GAACTTTTTGTGCTGCCAATTTT------------------------CGCC--TGTGTGTGTG--------------------------------------------------------------------------------TGTGCGTGAGT--GTTT--GCCCATGT-------------------------ATTAGTGAGTGCCTGAGAGTGTG------------------------TGTG--TGAGTGTG----------TCTG------TGTATGCAT---------------------------------------TGCTGAT--------T-CTGCT--CTGT-------------TTTG----------TGT----CTGGG---------------------------------------------------------------------------------------------------------TAA-----TTAC
droBia1	scf7180000298389:1408356-1408573 -		AG---------TGAGTGCGA---GTTTGTGTGTGTTG--------------------------------------------------------------------------------------------------------------------------------TT-----------------------------------------------------------GTG------TCTCTGTGTGCGCGCTCGCCC----------------------------------------------------------------------------------------GCCT-------------------------CTCTCTGGGTGTGCGAGAGCGTATGT------------------------G--TGTGTGTG----------TGTG------TGTTTGTTTGTTTGGCTGTGTG------------------TGTGCCTG---TTAGCGT----GTG-TG------CC----TG-------TGTG----------TTGTGT-GTGG-----------------------------CAGACCAAAAAGAA-------------------CCCGACGAACCGAGCGACACTGTA-AAAATTCGATTTGT-----GTGTTGTGCACA
droTak1	scf7180000414745:23908-24117 +		CC---------CATCCTATC---------ACCTGGCC-----------TAATCC---CC---AATCCCCAACGAATAAACCAAATCGAA-------------AAACAAAAAACAA------AA------------------------AACCAAACA-AACTATCGCTCTGACAA-AACGAACTGCT---------------------------------------C----------------------------------------------------------GAC----------------TCGATGT-----------------------------------------------------------------------------------------------------------------------GTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----CTTTCGGGAGGA
droEug1	scf7180000409033:550772-551020 +		CC---------CCAAACCAC---CTTCTCACCTGTCCTGACCTCCGCCTAATCC---CC---A------AACGAATAAACCAAATCGAA-------------AAA--AAAATCA---AA----A--------------------CAAAACCAAACA-AACTATCGCTCTGACAA-AACGTACTGCC---------------------------------------C-------------------------------------GACTG--------------TCGACTCTCAACTCTCGACTCTCGATGT-----------------------------------------------------------------------------------------------------------------G--TGTGTGTG---------------------------------------------------------------------------------TATT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----CTTTCGGGAGGA
dm3	chrX:6215698-6215902 +		CC---------TGACCTAAC-------------------------------------CT---GATCCCCAACGAATAAACCAAATCGAA-------------A-----AAATCGA------AA------------------------AACCAAACAAAACTATCGCTCTGAC---------------------------------------------------------------------------------------TGCCGACTG--------------ACGAC----------------TCGATGT---------------------------------------------------GTGT--------G------------------CGTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----CTTTCGGGAGGA
droSim2	x:5843301-5843535 +	dsi_26287	CA---------CCACACCTC---------ACCTGACCTGACCTA-T-------C---CT---GATCCCCAACGAACAAACCAAATCAAAAAAAAAAATCGAAA-----AAATCGAA-AA----A--------------------CCAAACCAAACA-AACTATCGCTCTGAC---------------------------------------------------------------------------------------TGCCGACTG--------------ACGAC----------------TCGATGT---------------------------------------------------------------G------------------TGTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----ATTTCGGGAGGA
droSec2	scaffold_4:1676962-1677147 +		TG---------TGTGTGTGT---------GTGT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTGTGTG------------------------TGT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTGTGTGTGTGTGT------------------GTGTG--------TGT------------GTGTGTGT-GTGTG-TGTGT----GTGTGT-GTGTGTG--------T-GTGTG--CTAG-------------TGTG----------TGT----GGGGG----------------------CCATGGCAAACTGGAAACTTTGCAAAT------------------GAATGGCAAGGCATTGGAAATAATGAGCCGT---------------ATTT
droYak3	X:2210593-2210826 +		CC---------TCACCTCAC---CTCCTCACCTTACC---------------------T---GACC--C---------ACCAAATCGAA----AAAATCGA-AAAA--AAATCGAAAAA----A--------------------CCAAACCAAACA-AACTATCGCTCTGACAAAAACGAACTGCT---------------------------------------C--------------------------AACT---TGCCTTCTG--------------CCCAC----------------TCGATGT-------------------------------------------------------------------------------------GTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGA----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACCGGC------------ACCCTACAGGAAACGATTGGCGTTGG-----CTTTCGGGAGGA
droEre2	scaffold_4690:15182677-15182919 +		TA---------ACCGACCT-------------------------------------------GATCCCCAACGAA-AAACCAAATCGAA-------------AAACCAAAACCA--------AACCAAACCAAACCAAACCAAACCAAACCAAACA-AACTATCGTTCTGACAAAAACGAACTGCT---------------------------------------C--------------------------GACCGACTGCCATCTG--------------CCGAC----------------TCGATGT-----------------------------------------------------------------------------------GTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----CTTTCGGGAGGA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

CC---------TTAAACTTA---------ACTT---------------------GCG--AAA---------A----------------------------------AAAAA------AAAAAA------------------------TACAAAACA-AAAT-TTGCT---------------------CAATGAATGTGCGT--------------GT--------GTG------TGCGTG--------------------------------------------------------------------------------CGTGTGTGTGT--A--TATGCCT-----------------------------ATGTGTG----TG--------------CGTGTATGTGT--------GTGTGT------------------GTGTGTGTCTGTGTA------T------GTGTATGT-GC-------C----TCTGTCTA---TGTG--TGTGTATT-GGGTGGTTACCGTG-----------------------TTT---A-------------------------------------ACTAATACTATGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACAATTGGTCTTGG-----TTTCCGGGAGGA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
....................................................................................................................................................................................................GTGCGT--------------GT--------GTG------TGCGTG--------------------------------------------------------------------------------CG...........................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1
........................................................................................................................................................................................................................................................................................................................................................................................................................................T------------------GTGTGTGTCTGTGTA------T------G......................................................................................................................................................................................................................	18	20	0.05	1	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................GTGT--------GTGTGT------------------GTGTGTGTC..........................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1

droVir3

CC---------ATAAACTTA---------ACTT---------------------GCA--AAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A--------TATGAAA----------------T----------------T--------------------------------------------GTGTATG-TGTGCGTGTGTGTGTGTG------------------TGTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TGCT-GGGTGGTAACTGTG-----------------------TTT---A-------------------------------------ACTAATGCTATGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACCATTGGCCTCGG-----TTTTCGGGAGGA	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
...............................................................................................................................................................................................................................................................................................................................................................TATG-TGTGCGTGTGTGTGTGT.........................................................................................................................................................................................................................................................................................................................	21	20	0.25	5	0	0	0	0	0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................T--------------------------------------------GTGTATG-TGTGCGTGTGTGTG............................................................................................................................................................................................................................................................................................................................	22	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
.............................................................................................................................................................................................................................................................................................................................................................................GTGTGTGTG------------------TGTGTGT------------------------G--TGTG................................................................................................................................................................................................................................................................	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
......................................................................................................................................................................................................................................................................................................................................................................TGCGTGTGTGTGTGTG------------------TGTG..................................................................................................................................................................................................................................................................................................	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	1	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................GTATG-TGTGCGTGTGTGTG............................................................................................................................................................................................................................................................................................................................	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	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
..............................................................................................................................................................................................................................................................................................................................................................GTATG-TGTGCGTGTGTGT.............................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	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
...............................................................................................................................................................................................................................................................................................................T--------------------------------------------GTGTATG-TGTGCGTGTGTG..............................................................................................................................................................................................................................................................................................................................	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	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
...............................................................................................................................................................................................................................................................................................................................................................TATG-TGTGCGTGTGTGTGT...........................................................................................................................................................................................................................................................................................................................	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	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

droGri2

CACCCCCCGCCTTAAACTTA---------ACTT---------------------GCT--AAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA---TGTCTATGGAA----------------T----------------TCTATGT--------------GT----------------------GTG-----TGTGTGTGTGTGTGTGTG----TG----------------TGT----------G----------T--G----------TGTGTGTGTG------------GTG------------G---------------------------------------TGTGTATT-GGGTGGTCAATGTG-----------------------TTT---A-------------------------------------ACTAATGCTATGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACCATTGGTCTCGG-----TTTTCGAGAGGA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
....................................................................................................................................................................................................................................................................................................................................................................................TG----TG----------------TGT----------G----------T--G----------TGTGTGTGT...................................................................................................................................................................................................................................................	19	20	0.10	2	0	2

droWil2

GC---------ATGACCCTC---------TGCT---------------------A---------------------------------------------------------------------------------------------------------TATCGCTCT-----------------------------------------------------------------------------------------------ACAAAA----------------T----------------TCTATAT--------------AT----------------------GTGTCTCTTGTGTGTGT--------G------------------TGTGTGT------------------------G--TGTGTGTGTACGTGTGTG------------CTT--AT----------------------------------------------------TGTT-GGTTGGTTACTTGG-----------------------TGT---C--------------------------------ACAAAACTAATACTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACAATTGGTCTGGG-----ATTTCGCGAAGA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACTAATACTCTGAAGGTCGG---C.............................................................	22	1	1.00	1	0	0	0	0	1
..........................................................................................................................................................................................................................................................................................................................................................................................................TGTGT------------------------G--TGTGTGTGTACG........................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	1	0

dp5

GC---------AACAATT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATAAAATATTATAAGACAGCCAA----------------TTGGTGTGTGTG--TGTGTGTGTGTGAGTGG--TT-----------------------------------TTGCATGTGTGCA------------------TATGAGT--------GTGTTT--------------------------------------GTTTGTGTGCGTT-----CGTACTACGTGTACGTGTGGT---TCTT-----------TT------------TTTTTTTTGAGAATATATACATATGT---A-------------------------------------TATATTTTTTTGTATTCTTT---CATTTGC------------ACACTACGAGCGCTCATGCTTT-TAGATCAAATTCTGAAAAAA	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
.................................................................................................................................................................................................................................................................................................................................................................................................A------------------TATGAGT--------GTGTTT--------------------------------------GTTTGTGTGCG....................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTT---CATTTGC------------ACACTACGAGCGCT.............................	25	1	1.00	1	0	0	1	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................AGT--------GTGTTT--------------------------------------GTTTGTGTGC.....................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0

droPer2

CC---------TTTTTGCG----------------------------------------GGC---------A----------------------------------GCAAA------AAAGAA------------------------ATCGTTTTA-CTAT-CAGTC---------------------CGTCGTCTATCTG--------------------------------------TC----------------------------------------------------------------------------TGTCTGTCTGCGTGT-----------------------------GTGT--------G------------------TGTGTGTGTGTGTATGTGC--------ATGAGT------------------G------------TTTGAGTGTTTAAGTGAGTG----------------------TGTG---CTTCTGTGTGTATT-TATTCGA-------------------------------------------------------------------------------------------------------------------------------------------GGA-----TTTATTTAATTA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droAna3

TT---------TTTTTGTGT---------TTCT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTG------CGTGTG------------------------CGT--------------------------------------------------------GCGTGTGC--G--T-----------------------------------GTGCGTG----------------CGT----------GTGCGTGTGTGTGTGT------------------GTGTG--------TGT------------GTGTGTGTCGTGTGCTGTGCA--TGTTCGTG---CTTG--------T-TTGTT--TTGT-------------TGTG----------TGC----TTTTGTGCTTTTCTTT-TTGCAGATGGAAA--------TTTAAAGCATAAAAGTAGGATGAGAAA---------------------------------------------------GGATGA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
..........................................................................................................................................................................................................................................................................GT--------------------------------------------------------GCGTGTGC--G--T-----------------------------------GTGCGTG----------------CGT----------GTGC.................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCATAAAAGTAGGATGAG............................................................	19	1	1.00	1	0	0	0	0	1	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTT-TTGCAGATGGAAA--------TTTAAAGC............................................................................	25	1	1.00	1	0	0	1	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................G--------TGT------------GTGTGTGTCGTGTGCTGTGCA--T...............................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1
.................................................................................................................................................................................................................................................................................................................................................T-----------------------------------GTGCGTG----------------CGT----------GTGCGTGTG............................................................................................................................................................................................................................................................................	20	2	0.50	1	0	0	0	0	0	1
.............................................................................................................................................................................................................................................TGTG------------------------CGT--------------------------------------------------------GCGTGTGC--G--T-----------------------------------GTG......................................................................................................................................................................................................................................................................................................................	20	2	0.50	1	0	0	0	0	0	1
...........................................................................................................................................................................................................................................................................................................................................................................................G----------------CGT----------GTGCGTGTGTGTGTGT------------------GTGTG--------......................................................................................................................................................................................................................................	25	3	0.33	1	0	0	0	0	0	1
...........................................................................................................................................................................................................................................................................................................................................................................................G----------------CGT----------GTGCGTGTGTGTGTGT------------------G..................................................................................................................................................................................................................................................	21	3	0.33	1	0	0	0	0	1	0
............................................................................................................................................................................................................................................................................................................................................................................................................CGT----------GTGCGTGTGTGTGTGT------------------GTG................................................................................................................................................................................................................................................	22	4	0.25	1	0	0	0	0	0	1
...........................................................................................................................................................................................................................................................................................................................................................................................G----------------CGT----------GTGCGTGTGTGTGTG......................................................................................................................................................................................................................................................................	19	7	0.14	1	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................TGTGTGTGTGT------------------GTGTG--------TG....................................................................................................................................................................................................................................	18	20	0.10	2	2	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................GCGTGTGTGTGTGT------------------GTGTG--------TG....................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1

droBip1

TG---------TGTTTCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTG------CGTGTG----------------------------------------------------------------------------TGTGTGCGTGCGCGTGC--CT-----------------------------------GTGCGTGTCTGTG------------------CATGTGC--------GTGCGT-------------------------------------------------------------------------------------------GCT-TGCTTGTTTTTTTTCTTCTGC--TGTG----------TGCTTT-----GTGCTTTTCTTTATTGCAGATGGAAA--------TTTAAAGCATAAAAGTAGG---AAAAAGG------------ATG----AGGAAATA--------------------AAGCAGAA	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TT---------TTAGTTTTATATTCAATTTTT----------------------------------------------------------------------------------------------------------------------------------TTGTT---------------------TGTT-------T--CATTAATACTAAATCTGTGTGTGTGTGTGTGTGTGTGTG--------------------------------------------------------------TGT------------------GT-----------------------------------------------GTGTGTG----TG--------------TGTGTGTGTGT--------GTGTGT------------------GTGTGTGTGTGTGTG------T------GTGTGTGT-GT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTGTGTGTGTG-----TGTGTGTTGTGT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GC---------GGAA--------------------------------------------------------ATAA-AAATA---------------------------AATTCGAAAAG----T--------------------TAATATTA-----------------------------------------AATGTGCTA----------------------CATTG------GAAAC--------------A--------T-----A----------------T------------------------TGTGTGTGGGTGTTCGTGTGT--A--T-----------------------------------ATGTGTGTGTGCG----------------------------------------------------------CGAG------TGTGGGTTTGTGTGTGTGTGTA------------------TGTGTGGG---CTTTCGA----ATC-TC------GT----TTCTTAT--TTTA----------TAT-------------------------------------------------------------------------------------------------TTT-----------------TTTGTTACC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TT---------TTGGTTCTT---------TGTT---------------------GCG--G---------AAATAA-------TAGTTTA-------------AAAAAAAATGCGC------AAA--------------------TTTAGTTAAGGA-TA----------------------------------ACGGTGCT----------------------------------------------------------TGTGGGTGG--------------ATGTG----------------TGTG----------TGTGTGTGTGTGTGTGT--GT-----------------------------------GTGTGTGTGTGTG------------------TGTGTGT--------GTGTGTGTGTGTGTG------------------------------T------GTGTG-----------------------------------------T-GTGCC--TTG--------------TGGG----------TGGTTT-----GTAGCTGCTCTGCGT-----------------------------------------------------------------------------------------------------AA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CC---------TCAACTTTT---------CGCT---------------------TCG--AGCA-------AAAAC-AGACG----------------------------------------AA------------------------CTTGAAGT-----------------------GAACTTTTTGTGCTGCCAATTTT------------------------CGCC--TGTGTGTGTG--------------------------------------------------------------------------------TGTGCGTGAGT--GTTT--GCCCATGT-------------------------ATTAGTGAGTGCCTGAGAGTGTG------------------------TGTG--TGAGTGTG----------TCTG------TGTATGCAT---------------------------------------TGCTGAT--------T-CTGCT--CTGT-------------TTTG----------TGT----CTGGG---------------------------------------------------------------------------------------------------------TAA-----TTAC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AG---------TGAGTGCGA---GTTTGTGTGTGTTG--------------------------------------------------------------------------------------------------------------------------------TT-----------------------------------------------------------GTG------TCTCTGTGTGCGCGCTCGCCC----------------------------------------------------------------------------------------GCCT-------------------------CTCTCTGGGTGTGCGAGAGCGTATGT------------------------G--TGTGTGTG----------TGTG------TGTTTGTTTGTTTGGCTGTGTG------------------TGTGCCTG---TTAGCGT----GTG-TG------CC----TG-------TGTG----------TTGTGT-GTGG-----------------------------CAGACCAAAAAGAA-------------------CCCGACGAACCGAGCGACACTGTA-AAAATTCGATTTGT-----GTGTTGTGCACA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CC---------CATCCTATC---------ACCTGGCC-----------TAATCC---CC---AATCCCCAACGAATAAACCAAATCGAA-------------AAACAAAAAACAA------AA------------------------AACCAAACA-AACTATCGCTCTGACAA-AACGAACTGCT---------------------------------------C----------------------------------------------------------GAC----------------TCGATGT-----------------------------------------------------------------------------------------------------------------------GTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----CTTTCGGGAGGA	Size	Hit Count	Total Norm	Total
No Reads

droEug1

CC---------CCAAACCAC---CTTCTCACCTGTCCTGACCTCCGCCTAATCC---CC---A------AACGAATAAACCAAATCGAA-------------AAA--AAAATCA---AA----A--------------------CAAAACCAAACA-AACTATCGCTCTGACAA-AACGTACTGCC---------------------------------------C-------------------------------------GACTG--------------TCGACTCTCAACTCTCGACTCTCGATGT-----------------------------------------------------------------------------------------------------------------G--TGTGTGTG---------------------------------------------------------------------------------TATT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----CTTTCGGGAGGA	Size	Hit Count	Total Norm	Total
No Reads

dm3

CC---------TGACCTAAC-------------------------------------CT---GATCCCCAACGAATAAACCAAATCGAA-------------A-----AAATCGA------AA------------------------AACCAAACAAAACTATCGCTCTGAC---------------------------------------------------------------------------------------TGCCGACTG--------------ACGAC----------------TCGATGT---------------------------------------------------GTGT--------G------------------CGTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----CTTTCGGGAGGA	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGGCCTTGG-----CTTTCGGGAGGA	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---C.............................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.C---------TGACCTAAC-------------------------------------CT---GATCCCCAACG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTAATGCTCTGAAGGTCGG---CA............................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
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...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAATGCTCTGAAGGTCGG---CACTGGC------------...........................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
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............................................................................................................................................................................................................................................................................................................................................................................T--------G------------------CGTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------T..........................................................................................................................................................................	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	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
........................................................................................................................................................................................................................................................................................................................................................................................................CGTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TA.........................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................................................................................GTGT--------G------------------CGTGTGT------------------------G--TGTGT...............................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................................................................................................................................................................................TGT---------------------------------------------------GTGT--------G------------------CGTGTGT------------------------G--TGT.................................................................................................................................................................................................................................................................	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	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
....................................................................................................................................................................................................................................................................................................................GT---------------------------------------------------GTGT--------G------------------CGTGTGT------------------------G--TG..................................................................................................................................................................................................................................................................	17	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	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
.....................................................................................................................................................................................................................................................................................................................T---------------------------------------------------GTGT--------G------------------CGTGTGT------------------------G--TGTGTGT.............................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
....................................................................................................................................................................................................................................................................................................................GT---------------------------------------------------GTGT--------G------------------CGTGTGT------------------------G--TGTG................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

CA---------CCACACCTC---------ACCTGACCTGACCTA-T-------C---CT---GATCCCCAACGAACAAACCAAATCAAAAAAAAAAATCGAAA-----AAATCGAA-AA----A--------------------CCAAACCAAACA-AACTATCGCTCTGAC---------------------------------------------------------------------------------------TGCCGACTG--------------ACGAC----------------TCGATGT---------------------------------------------------------------G------------------TGTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----ATTTCGGGAGGA	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
..............................................................................................................................................................................................................................................................................................................................................................................................................T------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGG...............................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTG---A-------------------------------------ACTAATGCTCTGAAGGT....................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CAC...........................................................	26	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................CGACTG--------------ACGAC----------------TCGATGT---------------------------------------------------------------G------------------TG....................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................TGAC---------------------------------------------------------------------------------------TGCCGACTG--------------ACGAC----------------TCGATG.........................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................TGAC---------------------------------------------------------------------------------------TGCCGACTG--------------ACGAC----------------TCGA...........................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACT..........................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................TGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------.................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCT..........................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...................C---------ACCTGACCTGACCTA-T-------C---CT---G...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACCCTACAGGAAACGATTGGCCTTGG-----A...........	27	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................ACTG--------------ACGAC----------------TCGATGT---------------------------------------------------------------G------------------TGTG..................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
................................TGACCTGACCTA-T-------C---CT---GATCCCCAACGAA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	29	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................TCGATGT---------------------------------------------------------------G------------------TGTGTGT------------------------G--....................................................................................................................................................................................................................................................................	16	16	0.13	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
................................................................................CAAATCAAAAAAAAAA..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	16	18	0.06	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................................GTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-......................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0

droSec2

TG---------TGTGTGTGT---------GTGT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTGTGTG------------------------TGT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTGTGTGTGTGTGT------------------GTGTG--------TGT------------GTGTGTGT-GTGTG-TGTGT----GTGTGT-GTGTGTG--------T-GTGTG--CTAG-------------TGTG----------TGT----GGGGG----------------------CCATGGCAAACTGGAAACTTTGCAAAT------------------GAATGGCAAGGCATTGGAAATAATGAGCCGT---------------ATTT	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
.............................GTGT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTGTGTG------------------------TGT--------------------------------------------------------GTGTGTG...................................................................................................................................................................................................................................................................................................................................................................	23	20	0.20	4	0	0	0	4
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGTGTGT-GTGTG-TGTGT----GTGTGT-G.......................................................................................................................................................................................	25	20	0.15	3	0	1	0	2
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGTG-TGTGT----GTGTGT-GTGTGTG--------T-G......................................................................................................................................................................	25	20	0.15	3	0	1	0	2
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGTGT-GTGTG-TGTGT----GTGTGT-GTG.....................................................................................................................................................................................	25	20	0.15	3	0	1	0	2
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................GT------------GTGTGTGT-GTGTG-TGTGT----GTGTG..........................................................................................................................................................................................	25	20	0.15	3	0	1	0	2
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................G-TGTGT----GTGTGT-GTGTGTG--------T-GTGTG--................................................................................................................................................................	25	20	0.15	3	0	1	0	2
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGT-GTGTG-TGTGT----GTGTGT-GTGTG...................................................................................................................................................................................	25	20	0.15	3	0	1	0	2
...............................................................................................................................................................................................................................................TG------------------------TGT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------..................................................................................................................................................................................................................................................................................................	22	20	0.15	3	0	3	0	0
.............TGTGTGT---------GTGT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTGTGTG------------------------TGT--------------------------------------------------------GT........................................................................................................................................................................................................................................................................................................................................................................	25	20	0.15	3	0	3	0	0
.........................................................................................................................................................................................................................................................................TGT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------TG................................................................................................................................................................................................................................................................................................	22	20	0.15	3	0	3	0	0
.......................................................................................................................................................................................................................................................................................................................................TGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTGTG..............................................................................................................................................................................................................................................................................	24	20	0.15	3	0	0	0	3
.....................................................................................................................................................................................................................................................................................................................................TGTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTG................................................................................................................................................................................................................................................................................	24	20	0.15	3	0	0	0	3
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GT-GTGTG-TGTGT----GTGTGT-GTGTGTG--------.........................................................................................................................................................................	25	20	0.15	3	0	1	0	2
.............TGTGTGT---------GTGT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTGTGTG------------------------TGT--------------------------------------------------------GTG.......................................................................................................................................................................................................................................................................................................................................................................	26	20	0.15	3	0	0	0	3
.................................................................................................................................................................................................................................................................................................................................................T-----------------------------------GTGTGTG----------------TGT----------GTGTGTGTGTGTG........................................................................................................................................................................................................................................................................	24	20	0.15	3	0	0	0	3
.........................................................................................................................................................................................................................................................................................................................................TGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTGTGTG............................................................................................................................................................................................................................................................................	24	20	0.15	3	0	0	0	3
......................................................................................................................................................................................................................................................................................................................................................................................TGTGTG----------------TGT----------GTGTGTGTGTGTGTG......................................................................................................................................................................................................................................................................	24	20	0.15	3	0	0	0	3
...........................................................................................................................................................................................................................................................................................................................................T--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTGTGTGTG..........................................................................................................................................................................................................................................................................	24	20	0.15	3	0	0	0	3
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTG-TGTGT----GTGTGT-GTGTGTG--------T-GTG....................................................................................................................................................................	25	20	0.15	3	0	1	0	2
.............TGTGTGT---------GTGT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTGTGTG------------------------TGT--------------------------------------------------------G.........................................................................................................................................................................................................................................................................................................................................................................	24	20	0.15	3	0	3	0	0
..........................................................................................................................................................................................................................................................................GT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGT.................................................................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0
....................................................................................................................................................................................................................................................................................................................................GTGTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTGT...............................................................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................GTGTGTG----------------TGT----------GTGTGTGTGTGT.........................................................................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................G----------------TGT----------GTGTGTGTGTGTGTGT------------------GT.................................................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0
......................................................................................................................................................................................................................................................................................................................................GTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTGTGT.............................................................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................GTGT------------------GTGTG--------TGT------------GTGTGTGT-GTGTG-........................................................................................................................................................................................................	25	20	0.10	2	0	0	0	2
.............................................................................................................................................................................................................................................................................................................................................................................................................GT----------GTGTGTGTGTGTGTGT------------------GTGT...............................................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................TG--------TGT------------GTGTGTGT-GTGTG-T.......................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................GTG--------TGT------------GTGTGTGT-GTGTG-TGTGT----G..............................................................................................................................................................................................	25	20	0.10	2	0	0	0	2
........................................................................................................................................................................................................................................................................................................................................GTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GTGTGTGTGT...........................................................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGT------------------GTGTG--------TGT------------GTGTGT.................................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGT------------GTGTGTGT-GTGTG-TGT.....................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2
........................................................................................................................................................................................................................................................................................................................................................................................................................................T------------------GTGTG--------TGT------------GTGTGTGT-GT............................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2
............................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTG--------TGT------------GTGTGTGT-GTGT..........................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2
.......................................................................................................................................................................................................................................................................................................................................................................................GTGTG----------------TGT----------GTGTGTGTGTGTGT.......................................................................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGTGTGT------------------GTGTG--------TGT------------GT.....................................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................G--------TGT------------GTGTGTGT-GTGTG-TGTGT----GTG............................................................................................................................................................................................	25	20	0.10	2	0	0	0	2
......................................................................................................................................................................................................................................................................................................................................................................................................................................TGT------------------GTGTG--------TGT------------GTGTGTGT-..............................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2
...........................................................................................................................................................................................................................................................................................................................................................................................................................GTGTGTGTGTGTGT------------------GTGTG--------TGT------------.......................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................GTG----------------TGT----------GTGTGTGTGTGTGTGT------------------...................................................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGTGT------------------GTGTG--------TGT------------GTGT...................................................................................................................................................................................................................	19	20	0.10	2	0	0	0	2
.......................................................................................................................................................................................................................................................................................................................................................................................................................................GT------------------GTGTG--------TGT------------GTGTGTGT-GTGTG-TG......................................................................................................................................................................................................	25	20	0.10	2	0	0	0	2
.........................................................................................................................................................................................................................................................................................................................................................................................................................GTGTGTGTGTGTGTGT------------------GTGTG--------T.....................................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0
................................................................................................................................................................................................................................................G------------------------TGT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GT...................................................................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGTG--------TGT------------GTGTGTGT-GTGTG-TGTG....................................................................................................................................................................................................	25	20	0.10	2	0	0	0	2
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGT----GTGTGT-GTGTGTG--------T-GTGTG--CT..............................................................................................................................................................	26	13	0.08	1	0	1	0	0
.............................................................................................................................................................................................................................................TGTG------------------------TGT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------.....................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0
...............................................................................................................................................................................................................................................TG------------------------TGT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------TGT----------GT...................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0
...........................................................................................................................................................................................................................................TGTGTG------------------------TGT--------------------------------------------------------GTGTGTGT--G--T-----------------------------------GTGTGTG----------------T.................................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGT----GTGTGT-GTGTGTG--------T-GTGTG--CT..............................................................................................................................................................	24	20	0.05	1	1	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGT----GTGTGT-GTGTGTG--------T-GTGTG--C...............................................................................................................................................................	24	20	0.05	1	0	1	0	0

droYak3

CC---------TCACCTCAC---CTCCTCACCTTACC---------------------T---GACC--C---------ACCAAATCGAA----AAAATCGA-AAAA--AAATCGAAAAA----A--------------------CCAAACCAAACA-AACTATCGCTCTGACAAAAACGAACTGCT---------------------------------------C--------------------------AACT---TGCCTTCTG--------------CCCAC----------------TCGATGT-------------------------------------------------------------------------------------GTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGA----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACCGGC------------ACCCTACAGGAAACGATTGGCGTTGG-----CTTTCGGGAGGA	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
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCGG---CACCGGC------------ACCCTA.....................................	18	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0

droEre2

TA---------ACCGACCT-------------------------------------------GATCCCCAACGAA-AAACCAAATCGAA-------------AAACCAAAACCA--------AACCAAACCAAACCAAACCAAACCAAACCAAACA-AACTATCGTTCTGACAAAAACGAACTGCT---------------------------------------C--------------------------GACCGACTGCCATCTG--------------CCGAC----------------TCGATGT-----------------------------------------------------------------------------------GTGTGT------------------------G--TGTGTGTG---------------------------------------------------------------------------------TACT-GGCTGGTTTATGTGG----------------------TTG---A-------------------------------------ACTAATGCTCTGAAGGTCGG---CACTGGC------------ACCCTACAGGAAACGATTGGCCTTGG-----CTTTCGGGAGGA	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.......................................................................................................AACCAAAACCA--------AACCAAACCAAAC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	4	0.25	1	0	1	0	0	0	0	0

dmo_639

scaffold_6473:2539290-2539440 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-12.7	-12.5	-12.5