dwi_3104

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## AATACTTTGGATATTATTAAAAAAAAAATTTTTCCCCTCCATTAGTAGTAAATATTTTTTTGAAATTTTCACTTGTTCTTTGAACTTTAAAATAAAGCTAAGAATCCTTTGAACACATAACCTCAGCAATTGGTGCTATTTTTAAGTTCGCAGCTATATACAGCAACTACAATAAAAAAACTAATAACTTTTGTCTTACAGTGCTGCTTATGATACGGTAACTGAACAAAACGTTGCAATTAAAAAACTAT ************************************************....((((((((..................(((((((.((((((..(((((.......((((..........))))...)))))..)))))).)))))))..(((......)))........)))))))).....................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M020 head	V119 head	V117 male body	M045 female body
......................................................................................................................................................................................................................ACGGTAACTGAACAAAACGTTGC..............	23	0	1	1.00	1	1	0	0	0
..............................................................................................................................................................................................................CTTATGATACGGTAACTGAA.........................	20	0	1	1.00	1	0	1	0	0
....................................................................................................................................................................................................................ATACGGTAACTGAACAAAACGT.................	22	0	1	1.00	1	1	0	0	0
...........................ATATTTCACCTCCATTAGT.............................................................................................................................................................................................................	19	2	2	0.50	1	0	0	1	0
........................................................................................................TCCTTTGAACACATAACCTCAGCAA..........................................................................................................................	25	0	20	0.05	1	0	0	0	1
...................................................................................................AGGAATCCTTTGAACACATA....................................................................................................................................	20	1	20	0.05	1	0	0	0	1

TTATGAAACCTATAATAATTTTTTTTTTAAAAAGGGGAGGTAATCATCATTTATAAAAAAACTTTAAAAGTGAACAAGAAACTTGAAATTTTATTTCGATTCTTAGGAAACTTGTGTATTGGAGTCGTTAACCACGATAAAAATTCAAGCGTCGATATATGTCGTTGATGTTATTTTTTTGATTATTGAAAACAGAATGTCACGACGAATACTATGCCATTGACTTGTTTTGCAACGTTAATTTTTTGATA ************************************************....((((((((..................(((((((.((((((..(((((.......((((..........))))...)))))..)))))).)))))))..(((......)))........)))))))).....................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M045 female body	V118 embryo	V119 head	M020 head
............................................................................................................AACTTGTGTGTTGGAGTCGTT..........................................................................................................................	21	1	20	0.10	2	0	0	2	0
..............................................................................................TTAGATTCTTAGGAAACTTGTTAAT....................................................................................................................................	25	3	15	0.07	1	0	1	0	0
...........................TAAAAAGGCGAGGTAATG..............................................................................................................................................................................................................	18	2	19	0.05	1	1	0	0	0
......................................................................................................TTAGGAAACTTGTGTATT...................................................................................................................................	18	0	20	0.05	1	1	0	0	0
......................................................................................................TTAGGAAACTTGTGTATTGGAGT..............................................................................................................................	23	0	20	0.05	1	0	0	1	0
....................................................................................................TCTTAGGAAACTTGTGTATTG..................................................................................................................................	21	0	20	0.05	1	0	1	0	0
...........................................................................................................AAACTTGTGTATTGGAGTCGTT..........................................................................................................................	22	0	20	0.05	1	0	1	0	0
........................................................................................................AGGAAACTTGTGTATTGGA................................................................................................................................	19	0	20	0.05	1	1	0	0	0
...................................................................................................................................CCACGATAAAAATTCAAGCG....................................................................................................	20	0	20	0.05	1	1	0	0	0
.........................................................................................................GGAAACTTGTGTATTGGAGTCGT...........................................................................................................................	23	0	20	0.05	1	1	0	0	0
......................................................................................................TTAGGAAACTTGTGTATTGGAGTCG............................................................................................................................	25	0	20	0.05	1	0	0	0	1
....................................................................................................CCTTAGGAAACTTGTGTATTGG.................................................................................................................................	22	1	20	0.05	1	1	0	0	0
...................................................................................................TTCTTAGGAAACTTGTGTATT...................................................................................................................................	21	0	20	0.05	1	0	0	0	1

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004936:624845-625095 -	dwi_3104	AATACTTTGGATATTATTAAAAAAAAAAT--T--T----------------TTCCCCTCCATTAGTAGTAAATA--------------------------------------TTTTT------------TTGAAATTTTCACTT----GTTCTTTGAAC----------------------------TTTAAA---A--------------------------------TAAAGCTAAG-AATCCTTTGAACACATAACCTCAGCAATTGGTGCTATTTTTAAGTTCGCAGCTATATACAGCAA----CTACAATAAAAAAACT-AATAACTTT--------------------------------------TGTCT--TACAGTGCTGCTTATGATACGGTAACTGAACAAAACGTTGCAATT-----AAAAAACTAT
droVir3	scaffold_12963:14285132-14285266 -		CCCCGGCAGTAG------------CTGC----------------GTCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACTATATTTAAATTAAATAGCCTCTGCCTCAAGAGAATACCGG-TTCATAAATA------TTTTCGT--TACAGTGCTGCATATGACACGATTACCGAGCAAAACGTCGCTATA-----AAAAAGCTAT
droMoj3	scaffold_6500:22650747-22650935 -		AATATTTTTGGGAT---------------AATTCT-------------------------------------------------------------TGCTTGTTGCGATTATTAATT-------------------------------GTTTTCTG-CT----------------------------TATATACAAGAAAAAATTAGATCAATACAT-----TGATAAATGCACCTAGG-AGAACTTCTTAAACTTTGCGTTTGCAAGTGGTGCTATTTTATTTTTCGCAGCTGTAA--------------------------------------------------------------------------------------------------ATACAGTTATAGAAATGCAAATAAAAATT----------ATAGT
droGri2	scaffold_15126:1690276-1690349 +		AAATTGGT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTT----------------------------------------------------------------------------------------------------------------TGTTTGT--TATAGTGCTGCCTATGATACGATAACCGAGCAACATGTCGCTATT-----AAAAAGCTAT
dp5	2:14509426-14509447 -		AA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTTGCAATC-----AAGAAACTAC
droPer2	scaffold_1:1318786-1318854 -		AAATTAATA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTTT--TCTAGTGCTGCTTACGACACTGTCACTGAGCAAAACGTGGCCATC-----AAGAAGTTAT
droAna3	scaffold_13337:22202592-22202857 -		AAAATATTAAAAC----------AAGAAT--------------------------------------------TTGAGTAACTATAACTCTTTTTTTGTTTAGTAAGAAT--------------------ATCATTCTA----CATAAAAAAAT-TTTATTTGAAT---AAATTGGTAACATTATTA------------------------------CTATTTTTT--------TTAAAGCCCAA------TCGAAGTGTGATGT-AGTGGTGCTATTTTTTTTTTCGCAACTGTAAGTATGGCA--AAATGAATGTAAAATGT-TATGACTCA------------------------------------AATGTAGTCCAATACTCTGTTTATGATT--TTAATTGAACATTAATTTAAAAAA-----AATAAATAAT
droBip1	scf7180000396535:1036250-1036310 -		TTAT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT--TTTAGCGCCGCTTACGATACTGTTACCGAGCAGAATGTGGCAATT-----AAAAAACTAT
droKik1	scf7180000302472:3089073-3089142 +		ATTATTAAACAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAT--TTTAGCGCCGCCTACGATACTGTTACCGAGCAAAATGTGGCCATT-----AAAAAGTTAT
droFic1	scf7180000453838:477348-477409 -		AATAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT--TTTAGCGCTGCCTACGATACTATTACTGAGCAAAATGTGGCGATT-----AAGAAACTAT
droEle1	scf7180000491186:3325020-3325168 -		AAGTTTAAAGTTT----------ATTAATTCTTCTAACAGATAAGTAAATT-----------------------------------------------------------------------------------------------------TT-TAAG----------------------------CTCAAA---ATAAATGAGTAGCT-----------------------------------------------------------------------------------------------------------------------AATT---------------------TATACAAACATTTCTAAATATTT--TATAGCGCTGCTTACGATACTATCACCGAGCAAAATGTGGCGATT-----AAAAAACTGT
droRho1	scf7180000761431:5309-5521 -		AATATGTAGGTG------------GGATT--------------------------------------------AATAAAAACGGAAACTTTGTTTTAGACTAGAGCAA-T--------------------ACTAAACCT----TAGAAAAAAAT-TA-TTTTGAAAAA-AAAACAACAACAGCA-------------------------AACTGACT-----TTTT--------TTTGC-AATGA------AAGCAGCACGATGA-AGTGGTGCTATTATTATTTTCGCAACTGTATATAAGGAG------------------------------------------------------------------------------------------------CCATAAAAAGCCACGTACATCTCATAACCAATAACTTT
droBia1	scf7180000301468:376600-376720 -		TTTTTAATTTCA------------CCTATT-----------------------------------------------------------------------------------------------------------TT----TTTATAATATT-TA-TTTTATAATAT---------------------------------------TT--------------------------AAC-----------------------------------------------------------------------------------------AA--------------------------------CATTTTTTAATATTT--TACAGCGCTGCTTACGATACTATCACCGAGCAAAATGTGGCGATT-----AAAAAACTAT
droTak1	scf7180000415706:28851-28942 +		CTGTTATTAGAAA----------AACAATATTTCTATTATGTAGAAATATT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATAATTTTAATGGCAATTTTTTTTAGTTTTAGAA--------------------------------------------AAGTTCAGTCT----------------------------------------------------------------------TTTTT
droEug1	scf7180000409554:4673941-4674060 +		TGTTATTATTAA------------TCTCAT-----------------------------------------------------------------------------------------------------------AA----CTAAGAATAAA-AA-TATTTTTGTAC---------------------------------------CT--------------------------AAC-CAAAT-------------------------------------------------------------------------------------------------------------------------TCTAAATATTT--TATAGCGCTGCTTATGATACTATCACCGAGCAAAATGTGGCGATT-----AAAAAACTAT
dm3	chr2L:10248865-10248947 -		AAAAAAAAAAATA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACA----------------------------------------------------------------------------------------------------------------------------AATT------------------------------------TAATGCAT--TTCAGCGCCGCTTACGATACTATCACCCAGCAAAATGTGGCGATT-----AAGAAACTAT
droSim2	x:20126600-20126780 -		GAACCGTTACATTGAGAGACTAAAA----ATTTCT-------------------------------------------------------------TGCTTAAAGAGACAACATATGGTACTTATTATT--------------CA--TGAAATC-GGAC----------------------------TTTAAA---AAAAAAAAAAATTCAATACCT-----TTTT--------TTAGG-AAATC------AACTTTCAACCTGC-AGTAGTGCTATTATTTTAACCGCAGCTGTATGTATATAA--------------------------------------------------------------------------------------------------------------------ATA-----AA---TAAAC
droSec2	scaffold_6706:67-295 -		GAACCGTTACATTGAGAGAGTCAAA----ATTTCT-------------------------------------------------------------TGCATAGAGAGACAATATATGGTACTTATTATT--------------CA--TGCAATC-AGAC----------------------------TTTAAA---AAAAATAAACATCCAATACCT-----TTTT--------TTAGG-AAATC------AACTTTCCACCTGC-AGTAGTGCTATTATTTTAACCGCAGCTGTATATTACTACATTG--------------------------------------------ATATTGAATTT----------------------TTCATTGGGGCACAGTAGCTGACCAAATAATAGCACAC-----GAAAA-----
droYak3	2R:1721790-1721962 -		AAAAATTAAGGTATAAACAATTCAA----ATTTTT----------------TTTTTCATTTTTGGATGGAAAAA--------------------------------------ATAAA------------TAGCATTATG----CG--AAAAATC-AGTATTTGGTT---CAATCGGTACC-TCAACC------------------------------TTAATTTAT--------TTGAT-CAATA------ACAAAAAAAGGTAT-GGTGGTGCTATTATTTTTTTCGCAACTGTATATA-------------------------------------------------------------------------------------------------------------------------------------------
droEre2	scaffold_4512:1175156-1175306 -		GAACCGTTACATTGAGAGAGTACAA----ATTTCT-------------------------------------------------------------TGCTCAGAGAGACAACATAAGGTACTTATTTTTTTTATTTTTTCT-------ATTTT----------------------------------------------------------------CTATTTTTT--------TTAGG-AAATA------AACTTTCCACCTGC-AATCGTGCTATTTTTTTAGCCGCAGCTGTACATATCA----------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

AATACTTTGGATATTATTAAAAAAAAAAT--T--T----------------TTCCCCTCCATTAGTAGTAAATA--------------------------------------TTTTT------------TTGAAATTTTCACTT----GTTCTTTGAAC----------------------------TTTAAA---A--------------------------------TAAAGCTAAG-AATCCTTTGAACACATAACCTCAGCAATTGGTGCTATTTTTAAGTTCGCAGCTATATACAGCAA----CTACAATAAAAAAACT-AATAACTTT--------------------------------------TGTCT--TACAGTGCTGCTTATGATACGGTAACTGAACAAAACGTTGCAATT-----AAAAAACTAT	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.............................................................................................................................................................................................................................................................................................................................................................................................................ACGGTAACTGAACAAAACGTTGC...................	23	1	1.00	1	1	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................CTTATGATACGGTAACTGAA..............................	20	1	1.00	1	0	0	0	0	1
...........................................................................................................................................................................................................................................................................................................................................................................................................ATACGGTAACTGAACAAAACGT......................	22	1	1.00	1	1	0	0	0	0
..................................................................................................................................................................................................................................................TCCTTTGAACACATAACCTCAGCAA............................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0

droVir3

CCCCGGCAGTAG------------CTGC----------------GTCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACTATATTTAAATTAAATAGCCTCTGCCTCAAGAGAATACCGG-TTCATAAATA------TTTTCGT--TACAGTGCTGCATATGACACGATTACCGAGCAAAACGTCGCTATA-----AAAAAGCTAT	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
......................................................................................................................................................................................................................................................................................................................................................................................................ATATGACACGATTACCGAGC.............................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
.....................................................................................................................................................................................................................................................................................................................................................................................................CATATGACACGATTACCGAGCA............................	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	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
..........................................................................................................................................................................................................................................................................................................................................................................TA------TTTTCGT--TACAGTGCTGCATAT.............................................	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	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
..................................................................................................................................................................................................................................................................................................................................................................................................................TACCGAGCAAAACGTCGCT..................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................GATTACCGAGCAAAACGTCGCT..................	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	1	0
................................................................................................................................................................................................................................................................................................................................................................................................................ATTACCGAGCAAAACGTCGCT..................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................G-TTCATAAATA------TTTTCGT--TACAG.......................................................	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	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
...........................................................................................................................................................................................................................................................................................................................................................TACCGG-TTCATAAATA------TTTTCGT--TACA........................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................................................................................................................................................................................................................TACCGG-TTCATAAATA------TTTTC................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................................................................................................................TGACACGATTACCGAGCAAAA.........................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.......................................................................................................................................................................................................................................................................................................................................................................AAATA------TTTTCGT--TACAGTGCTGC.................................................	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	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
.......................................................................................................................................................................................................................................................................................................................................................................................................TATGACACGATTACCGAGCAAAACGTCG....................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................TCGT--TACAGTGCTGCATATGACACGAT.....................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................................CATATGACACGATTACCGAGCAA...........................	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	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
............................................................................................................................................................................................................................................................................................................................................................................................................CACGATTACCGAGCAAAACGTCGCT..................	25	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................TAAATA------TTTTCGT--TACAGTGCTGCATA..............................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
....................................................................................................................................................................................................................................................................................................................................................................................TTCGT--TACAGTGCTGCATATGACACGAT.....................................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................................................................................................................................................................................................................TA------TTTTCGT--TACAGTGCTGCATATGA...........................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

AATATTTTTGGGAT---------------AATTCT-------------------------------------------------------------TGCTTGTTGCGATTATTAATT-------------------------------GTTTTCTG-CT----------------------------TATATACAAGAAAAAATTAGATCAATACAT-----TGATAAATGCACCTAGG-AGAACTTCTTAAACTTTGCGTTTGCAAGTGGTGCTATTTTATTTTTCGCAGCTGTAA--------------------------------------------------------------------------------------------------ATACAGTTATAGAAATGCAAATAAAAATT----------ATAGT	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.................................................................................................................................................................................................................................TAAATGCACCTAGG-AGAACTT................................................................................................................................................................................................	21	18	0.22	4	2	0	0	0	0	2
....TTTTTGGGAT---------------AATTCT-------------------------------------------------------------TGCTTGTTG..............................................................................................................................................................................................................................................................................................................................................	25	17	0.06	1	1	0	0	0	0	0
................................................................................................................................................................................................................................................................TGCGTTTGCAAGTGGTGC.....................................................................................................................................................................	18	18	0.06	1	1	0	0	0	0	0
......................................................................................................................................................................................................................................................TCTTAAACTTTGCGTTTGCAA............................................................................................................................................................................	21	18	0.06	1	1	0	0	0	0	0
.................................................................................................................................................................................................................................................GAACTTCTTAAACTTTGCGTT.................................................................................................................................................................................	21	18	0.06	1	1	0	0	0	0	0
....................................................................................................................................................................................................................................ATGCACCTAGG-AGAACTTCTT.............................................................................................................................................................................................	21	18	0.06	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................AAATGCACCTAGG-AGAACTTC...............................................................................................................................................................................................	21	18	0.06	1	0	0	0	0	0	1
........................................................................................................................................................................................................................T-----TGATAAATGCACCTAGG-AGA....................................................................................................................................................................................................	21	18	0.06	1	1	0	0	0	0	0
......................................................................................................................................................................................................................................................TCTTAAACTTTGCGTTTGCAAG...........................................................................................................................................................................	22	18	0.06	1	1	0	0	0	0	0
...............................TTCT-------------------------------------------------------------TGCTTGTTGCGATTATT......................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0

droGri2

AAATTGGT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTT----------------------------------------------------------------------------------------------------------------TGTTTGT--TATAGTGCTGCCTATGATACGATAACCGAGCAACATGTCGCTATT-----AAAAAGCTAT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
......................................................................................................................................................................................................................................................................................................................................................................................................................GAGCAACATGTCGCTATT-----AAA.......	21	1	1.00	1	1	0

dp5

AA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTTGCAATC-----AAGAAACTAC

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

No Reads

droPer2

AAATTAATA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTTT--TCTAGTGCTGCTTACGACACTGTCACTGAGCAAAACGTGGCCATC-----AAGAAGTTAT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...........................................................................................................................................................................................................................................................................................................................................................................................................ACACTGTCACTGAGCAAAACGT......................	22	1	1.00	1	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................GCTTACGACACTGTCACTGAGCA............................	23	1	1.00	1	0	0	1	0	0	0

droAna3

AAAATATTAAAAC----------AAGAAT--------------------------------------------TTGAGTAACTATAACTCTTTTTTTGTTTAGTAAGAAT--------------------ATCATTCTA----CATAAAAAAAT-TTTATTTGAAT---AAATTGGTAACATTATTA------------------------------CTATTTTTT--------TTAAAGCCCAA------TCGAAGTGTGATGT-AGTGGTGCTATTTTTTTTTTCGCAACTGTAAGTATGGCA--AAATGAATGTAAAATGT-TATGACTCA------------------------------------AATGTAGTCCAATACTCTGTTTATGATT--TTAATTGAACATTAATTTAAAAAA-----AATAAATAAT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
...........................................................................................................................................................................................................................................................TCGAAGTGTGATGT-AGTGGTGCTA...................................................................................................................................................................	24	16	0.44	7	2	0	1	0	2	2
..................................................................................................................................................................................................................................................CAA------TCGAAGTGTGATGT-AGTGGTGC.....................................................................................................................................................................	25	15	0.40	6	3	2	1	0	0	0
.............................................................................................................................................................................................................................................................GAAGTGTGATGT-AGTGGTGCT....................................................................................................................................................................	21	16	0.25	4	2	0	0	0	0	2
...........................................................................................................................................................................................................................................................TCGAAGTGTGATGT-AGTGGTGCTATT.................................................................................................................................................................	26	16	0.19	3	1	2	0	0	0	0
...........................................................................................................................................................................................................................................TAAAGCCCAA------TCGAAGTGTGATGT-AG...........................................................................................................................................................................	26	15	0.13	2	1	0	0	0	1	0
.................................................................................................................................................................................................................................T--------TTAAAGCCCAA------TCGAAGTGT...................................................................................................................................................................................	21	15	0.13	2	0	0	0	0	2	0
............................................................................................................................................................................................................................................AAAGCCCAA------TCGAAGTGTGAT................................................................................................................................................................................	21	15	0.13	2	1	0	0	0	1	0
..................................................................................................................................................................................................................................................CAA------TCGAAGTGTGATGT-AGTGGT.......................................................................................................................................................................	23	15	0.13	2	0	1	0	0	1	0
...........................................................................................................................................................................................................................................TAAAGCCCAA------TCGAAGTGTGA.................................................................................................................................................................................	21	15	0.13	2	0	0	0	1	1	0
...................................................................................................................................................................................................................................................AA------TCGAAGTGTGATGT-AGTGG........................................................................................................................................................................	21	16	0.13	2	1	0	0	0	1	0
.............................................................................GTAACTATAACTCTTTTTTTGC....................................................................................................................................................................................................................................................................................................................................................	22	12	0.08	1	0	1	0	0	0	0
.............................................................................GTAACTATAACTCTTTTTTTGT....................................................................................................................................................................................................................................................................................................................................................	22	12	0.08	1	0	1	0	0	0	0
........................AGAAT--------------------------------------------TTGAGTAACTATAACT..............................................................................................................................................................................................................................................................................................................................................................	21	13	0.08	1	0	0	0	0	0	1
.......TAAAAC----------AAGAAT--------------------------------------------TTGAGTAACTATAACT..............................................................................................................................................................................................................................................................................................................................................................	28	13	0.08	1	0	1	0	0	0	0
.......TAAAAC----------AAGAAT--------------------------------------------TTGAGTAACTATAAC...............................................................................................................................................................................................................................................................................................................................................................	27	13	0.08	1	1	0	0	0	0	0
...............................................................................................................................................................TTTGAAT---AAATTGGTAACATTATTA------------------------------C.............................................................................................................................................................................................................................	26	14	0.07	1	1	0	0	0	0	0
.................................................................................................................................................................................AACATTATTA------------------------------CTATTTTTT--------TTAAAGCCC....................................................................................................................................................................................................	28	14	0.07	1	0	1	0	0	0	0
...........................................................................................TTTTTTGTTTAGTAAGAAT--------------------ATCATTC..............................................................................................................................................................................................................................................................................................................	26	14	0.07	1	0	1	0	0	0	0
...............................................................................................TTGTTTAGTAAGAAT--------------------ATCATTCTA----CA......................................................................................................................................................................................................................................................................................................	26	14	0.07	1	1	0	0	0	0	0
..............................................................................................TTTGTTTAGTAAGAAT--------------------ATCATTCTA----CA......................................................................................................................................................................................................................................................................................................	27	14	0.07	1	1	0	0	0	0	0
...........................................................................................................................................................................................................................................TAAAGCCCAA------TCGAAGTGTGATGT-.............................................................................................................................................................................	24	15	0.07	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................TAAAGCCCAA------TCGAAGTGTGATGT-A............................................................................................................................................................................	25	15	0.07	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................T--------TTAAAGCCCAA------TCGAAGTGTGATG...............................................................................................................................................................................	25	15	0.07	1	0	0	0	1	0	0
..........................................................................................................................................................................................................................................TTAAAGCCCAA------TCGAAGTGTGA.................................................................................................................................................................................	22	15	0.07	1	0	0	0	0	1	0
...............................................................................................................................................................................................................................................GCCCAA------TCGAAGTGTGATGT-AGTGG........................................................................................................................................................................	25	15	0.07	1	0	0	0	0	1	0
..................................................................................................................................................................................................................................................................GTGATGT-AGTGGTGCTATTTTTTTTTTC........................................................................................................................................................	28	15	0.07	1	0	0	0	0	1	0
...............................................................................................................................................................................................................................TTT--------TTAAAGCCCAA------TCGAAGTGTGATG...............................................................................................................................................................................	27	15	0.07	1	0	1	0	0	0	0
..........................................................................................................................................................................................................................................TTAAAGCCCAA------TCGAAGTGTGATGT-.............................................................................................................................................................................	25	15	0.07	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................TTAAAGCCCAA------TCGAAGTGTG..................................................................................................................................................................................	21	15	0.07	1	0	0	0	0	0	1
..............................................................................................................................................................................................................................................AGCCCAA------TCGAAGTGTGATGT-AGTGG........................................................................................................................................................................	26	15	0.07	1	1	0	0	0	0	0
.............................................................................................................................................................................................................................TTTTT--------TTAAAGCCCAA------TCGAAGTGTGAT................................................................................................................................................................................	28	15	0.07	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................T--------TTAAAGCCCAA------TCGAAGTGTGATGT-.............................................................................................................................................................................	26	15	0.07	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................T--------TTAAAGCCCAA------TCGAAGTGTGATGT-AG...........................................................................................................................................................................	28	15	0.07	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................................TAAAGCCCAA------TCGAAGTGTGATGT-AGT..........................................................................................................................................................................	27	15	0.07	1	1	0	0	0	0	0
...............................................................................................................................................................................................................................................GCCCAA------TCGAAGTGTGATGT-AG...........................................................................................................................................................................	22	15	0.07	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................TTAAAGCCCAA------TCGAAGTGTGATGT-A............................................................................................................................................................................	26	15	0.07	1	0	0	0	0	1	0
..................................................................................................................................................................................................................................................CAA------TCGAAGTGTGATGT-AGTGGTG......................................................................................................................................................................	24	15	0.07	1	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................GAAGTGTGATGT-AGTGGTGCTA...................................................................................................................................................................	22	16	0.06	1	0	0	0	0	0	1
....................................................................................................................................................................................................................................................A------TCGAAGTGTGATGT-AGTGGT.......................................................................................................................................................................	21	16	0.06	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................TCGAAGTGTGATGT-AGTGG........................................................................................................................................................................	19	16	0.06	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................TCGAAGTGTGATGT-AGTGGTG......................................................................................................................................................................	21	16	0.06	1	1	0	0	0	0	0
...................................................................................................................................................................................................................................................AA------TCGAAGTGTGATGT-AGT..........................................................................................................................................................................	19	16	0.06	1	1	0	0	0	0	0
...................................................................................................................................................................................................................................................AA------TCGAAGTGTGATGT-AGTGGT.......................................................................................................................................................................	22	16	0.06	1	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................TGATGT-AGTGGTGCTATTTTTTTT...........................................................................................................................................................	24	16	0.06	1	0	0	1	0	0	0
...........................................................................................................................................................................................................................................................TCGAAGTGTGATGT-AGTGGTGCT....................................................................................................................................................................	23	16	0.06	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................TCGAAGTGTGATGT-AGTGGTGCTATTTT...............................................................................................................................................................	28	16	0.06	1	0	1	0	0	0	0
..............................................................................................................................................................................................................................................................AAGTGTGATGT-AGTGGTGCTA...................................................................................................................................................................	21	16	0.06	1	0	0	0	1	0	0
...............................................................................................................................................................................................................................................................AGTGTGATGT-AGTGGTGCTAT..................................................................................................................................................................	21	16	0.06	1	1	0	0	0	0	0
....................................................................................................................................................................................................................................................A------TCGAAGTGTGATGT-AGTGGTG......................................................................................................................................................................	22	16	0.06	1	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................AAGTGTGATGT-AGTGGTTT.....................................................................................................................................................................	19	19	0.05	1	0	0	0	0	1	0

droBip1

TTAT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT--TTTAGCGCCGCTTACGATACTGTTACCGAGCAGAATGTGGCAATT-----AAAAAACTAT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

ATTATTAAACAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAT--TTTAGCGCCGCCTACGATACTGTTACCGAGCAAAATGTGGCCATT-----AAAAAGTTAT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AATAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT--TTTAGCGCTGCCTACGATACTATTACTGAGCAAAATGTGGCGATT-----AAGAAACTAT	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AAGTTTAAAGTTT----------ATTAATTCTTCTAACAGATAAGTAAATT-----------------------------------------------------------------------------------------------------TT-TAAG----------------------------CTCAAA---ATAAATGAGTAGCT-----------------------------------------------------------------------------------------------------------------------AATT---------------------TATACAAACATTTCTAAATATTT--TATAGCGCTGCTTACGATACTATCACCGAGCAAAATGTGGCGATT-----AAAAAACTGT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AATATGTAGGTG------------GGATT--------------------------------------------AATAAAAACGGAAACTTTGTTTTAGACTAGAGCAA-T--------------------ACTAAACCT----TAGAAAAAAAT-TA-TTTTGAAAAA-AAAACAACAACAGCA-------------------------AACTGACT-----TTTT--------TTTGC-AATGA------AAGCAGCACGATGA-AGTGGTGCTATTATTATTTTCGCAACTGTATATAAGGAG------------------------------------------------------------------------------------------------CCATAAAAAGCCACGTACATCTCATAACCAATAACTTT	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TTTTTAATTTCA------------CCTATT-----------------------------------------------------------------------------------------------------------TT----TTTATAATATT-TA-TTTTATAATAT---------------------------------------TT--------------------------AAC-----------------------------------------------------------------------------------------AA--------------------------------CATTTTTTAATATTT--TACAGCGCTGCTTACGATACTATCACCGAGCAAAATGTGGCGATT-----AAAAAACTAT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CTGTTATTAGAAA----------AACAATATTTCTATTATGTAGAAATATT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATAATTTTAATGGCAATTTTTTTTAGTTTTAGAA--------------------------------------------AAGTTCAGTCT----------------------------------------------------------------------TTTTT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TGTTATTATTAA------------TCTCAT-----------------------------------------------------------------------------------------------------------AA----CTAAGAATAAA-AA-TATTTTTGTAC---------------------------------------CT--------------------------AAC-CAAAT-------------------------------------------------------------------------------------------------------------------------TCTAAATATTT--TATAGCGCTGCTTATGATACTATCACCGAGCAAAATGTGGCGATT-----AAAAAACTAT	Size	Hit Count	Total Norm	Total
No Reads

dm3

AAAAAAAAAAATA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACA----------------------------------------------------------------------------------------------------------------------------AATT------------------------------------TAATGCAT--TTCAGCGCCGCTTACGATACTATCACCCAGCAAAATGTGGCGATT-----AAGAAACTAT	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................CCAGCAAAATGTGGCGATT-----AAGAAA....	25	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.AAAAAAAAAATA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACA----------------------------------------------------------------------------------------------------------------------------AATT------------------------------------......................................................................	19	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	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
..........................................................................................................................................................................................................................................................................................................................................................................................................GATACTATCACCCAGCAAAA.........................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................................................................................................................................................................................................TATCACCCAGCAAAATGTGGCGATT-----..........	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	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
.......................................................................................................................................................................................................................................................................................................................................................................................................TACGATACTATCACCCAGCAAAATGT......................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................................................................................................................................................................................................................................................TACTATCACCCAGCAAAATGTGGCGAT................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................................................................................................................................................................................................TATCACCCAGCAAAATGTGGC...................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................................................................................................AGCGCCGCTTACGATACTATCACCC................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0

droSim2

GAACCGTTACATTGAGAGACTAAAA----ATTTCT-------------------------------------------------------------TGCTTAAAGAGACAACATATGGTACTTATTATT--------------CA--TGAAATC-GGAC----------------------------TTTAAA---AAAAAAAAAAATTCAATACCT-----TTTT--------TTAGG-AAATC------AACTTTCAACCTGC-AGTAGTGCTATTATTTTAACCGCAGCTGTATGTATATAA--------------------------------------------------------------------------------------------------------------------ATA-----AA---TAAAC	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
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-GGA.........................................................................................................................................................................................................................................................................................	27	1	38.00	38	0	0	0	0	0	0	30	4	4	0	0	0	0	0	0	0	0
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-GGAC----------------------------............................................................................................................................................................................................................................................................	28	1	34.00	34	0	0	0	1	0	0	26	3	3	0	0	0	1	0	0	0	0
.............................................................................................................................................................................................................................................................................AGTGCTATTATTTTAACCGCAGCT..................................................................................................................................................	24	20	4.10	82	0	0	0	0	82	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-GG..........................................................................................................................................................................................................................................................................................	26	1	3.00	3	0	0	0	0	0	0	1	0	0	0	0	0	1	1	0	0	0
..................................................................................................................................................................................................................................................................................TATTATTTTAACCGCAGCTGTATGTA...........................................................................................................................................	26	7	2.86	20	0	0	0	0	0	0	2	10	3	5	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................TTATTTTAACCGCAGCTGTATGTATA.........................................................................................................................................	26	2	1.50	3	0	0	0	0	0	0	2	1	0	0	0	0	0	0	0	0	0
...................................................................................................................TGGTACTTATTATT--------------CA--TGAAATC-GGAC----------------------------............................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-GGT.........................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-GGAT----------------------------............................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-GGAA----------------------------............................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-............................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................TATTTTAACCGCAGCTGTATGTATA.........................................................................................................................................	25	2	1.00	2	0	0	0	0	0	0	1	1	0	0	0	0	0	0	0	0	0
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-GGAC----------------------------T...........................................................................................................................................................................................................................................................	29	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................TATTTTAACCGCAGCTGTATGTATATAA--------------------------------------------------------------------------------------------------------------------A.................	29	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
..................................................................................................................ATGGTACTTATTATT--------------CA--TGAAATC-G...........................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................TTAGG-AAATC------AACTTTCAACCTGC-.............................................................................................................................................................................	24	6	0.67	4	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................GCTATTATTTTAACCGCAGCTGTATG.............................................................................................................................................	26	9	0.56	5	0	0	0	0	0	0	3	0	1	0	0	0	1	0	0	0	0
................................................................................................................................................................................................................................................................................GCTATTATTTTAACCGCAGCTGTATGT............................................................................................................................................	27	8	0.50	4	0	0	0	0	0	0	1	0	0	0	0	0	3	0	0	0	0
.....................................................................................................................................................................................................................................................................................TATTTTAACCGCAGCTGTATGTATATA.......................................................................................................................................	27	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................T-----TTTT--------TTAGG-AAATC------AACTTTCAACC.................................................................................................................................................................................	26	7	0.43	3	0	0	0	0	0	0	0	1	1	1	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................TATTTTAACCGCAGCTGTATGTA...........................................................................................................................................	23	7	0.43	3	0	0	0	0	0	0	0	0	1	2	0	0	0	0	0	0	0
........................................................................................................................................................................................................................T-----TTTT--------TTAGG-AAATC------AACTTTCAACCTGC-.............................................................................................................................................................................	29	6	0.33	2	0	0	0	0	0	0	1	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................GCTATTATTTTAACCGCAGCTGTATGTA...........................................................................................................................................	28	6	0.33	2	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................TT--------TTAGG-AAATC------AACTTTCAACCTGC-.............................................................................................................................................................................	26	6	0.33	2	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................TTT--------TTAGG-AAATC------AACTTTCAACC.................................................................................................................................................................................	24	7	0.29	2	0	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0
..ACCGTTACATTGAGAGACTAAAA----ATT.......................................................................................................................................................................................................................................................................................................................................................................................................................	26	9	0.22	2	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................TATTATTTTAACCGCAGCTGTATGTAT..........................................................................................................................................	27	5	0.20	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................TTAGG-AAATC------AACTTTCAACCTGC-AGT..........................................................................................................................................................................	27	6	0.17	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................C------AACTTTCAACCTGC-AGTAGT.......................................................................................................................................................................	21	6	0.17	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
....CGTTACATTGAGAGACTAAAA----ATT.......................................................................................................................................................................................................................................................................................................................................................................................................................	24	9	0.11	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................GCTATTATTTTAACCGCAGCTGTATGA............................................................................................................................................	27	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
...CCGTTACATTGAGAGACTAAAA----ATT.......................................................................................................................................................................................................................................................................................................................................................................................................................	25	9	0.11	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
.......TACATTGAGAGACTAAAA----ATT.......................................................................................................................................................................................................................................................................................................................................................................................................................	21	11	0.09	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.....GTTACATTGAGAGACTAAA...............................................................................................................................................................................................................................................................................................................................................................................................................................	19	14	0.07	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.....GTTACATTGAGAGAC...................................................................................................................................................................................................................................................................................................................................................................................................................................	15	15	0.07	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................AGTGCTATTATTTTAACCGCAG....................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................................................CCT-----TTTT--------TTAGG-AAATC------............................................................................................................................................................................................	17	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................AGTGCTATTATTTTAACCGCAGCTGA................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................TTT--------TTAGG-AAATC------AACTTTC.....................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.AACCGTTACATTGAGAGA....................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................TTT--------TTAGG-AAATC------AACTT.......................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................GCTATTATTTTAACCGCAGCTGTAT..............................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................AGTGCTATTATTTTAACCGCAGCTGTA...............................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

GAACCGTTACATTGAGAGAGTCAAA----ATTTCT-------------------------------------------------------------TGCATAGAGAGACAATATATGGTACTTATTATT--------------CA--TGCAATC-AGAC----------------------------TTTAAA---AAAAATAAACATCCAATACCT-----TTTT--------TTAGG-AAATC------AACTTTCCACCTGC-AGTAGTGCTATTATTTTAACCGCAGCTGTATATTACTACATTG--------------------------------------------ATATTGAATTT----------------------TTCATTGGGGCACAGTAGCTGACCAAATAATAGCACAC-----GAAAA-----	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
.......TACATTGAGAGAGTCAAA----ATTTCT-------------------------------------------------------------TGC....................................................................................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	0	1	0

droYak3

AAAAATTAAGGTATAAACAATTCAA----ATTTTT----------------TTTTTCATTTTTGGATGGAAAAA--------------------------------------ATAAA------------TAGCATTATG----CG--AAAAATC-AGTATTTGGTT---CAATCGGTACC-TCAACC------------------------------TTAATTTAT--------TTGAT-CAATA------ACAAAAAAAGGTAT-GGTGGTGCTATTATTTTTTTCGCAACTGTATATA-------------------------------------------------------------------------------------------------------------------------------------------	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
................................................................................................................................................................................................................................AT--------TTGAT-CAATA------ACAAAAAAAGGTA...............................................................................................................................................................................	25	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.............TAAACAATTCAA----ATTTTT----------------TTTTTCATTT..........................................................................................................................................................................................................................................................................................................................................................................................	28	18	0.06	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................TGAT-CAATA------ACAAAAAAAGGTAT-GG...........................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...AATTAAGGTATAAACAATTCAA----ATTTTT----------------....................................................................................................................................................................................................................................................................................................................................................................................................	28	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................AT--------TTGAT-CAATA------ACAAAAAAAGG.................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................AAAAAAGGTAT-GGTGGTGCTAT..................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

droEre2

GAACCGTTACATTGAGAGAGTACAA----ATTTCT-------------------------------------------------------------TGCTCAGAGAGACAACATAAGGTACTTATTTTTTTTATTTTTTCT-------ATTTT----------------------------------------------------------------CTATTTTTT--------TTAGG-AAATA------AACTTTCCACCTGC-AATCGTGCTATTTTTTTAGCCGCAGCTGTACATATCA----------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

dwi_3104

scf2_1100000004936:624895-625045 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-14.3	-14.1	-13.9