dwi_1920

Name	Class	Family	Strand
(CAA)n	Simple_repeat	Simple_repeat	+

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- AGGAACGCCGTTGTCCATGTTAATATCGCATGGCGTTAAGATTAGCAATAGTAAGTAATACTACAAACAAACATATAACCAACAACAACAACAACAACACCAAAAAAGACAAACTGCAAGTCATCTTATTGAACTTTAAAAAGGCAACAACAAAAAGACTACAAATCTTCAATTACAATCAGATTTATAGTCAATTTTTTGTTGTTGTTTTTCAATAGATAATTCATAGTTTCATTTATATGAACGTGTCG ************************************************................................................................(((((((((......)).)))).......)))....(((((((((((.((((((............)))))).)))))...))))))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V119 head	M045 female body	V118 embryo
.......................................................................................................................................................................................TTTATAGTCAATTTTTTGTTGT..............................................	22	0	1	1.00	1	1	0	0
......................................................................................................................................................................CGTCAATTACAATCAGAAT..................................................................	19	2	7	0.14	1	0	1	0
...............................................................................................................................................................................................CAATTTTTTGTTGTTGTT..........................................	18	0	20	0.05	1	0	0	1

TCCTTGCGGCAACAGGTACAATTATAGCGTACCGCAATTCTAATCGTTATCATTCATTATGATGTTTGTTTGTATATTGGTTGTTGTTGTTGTTGTTGTGGTTTTTTCTGTTTGACGTTCAGTAGAATAACTTGAAATTTTTCCGTTGTTGTTTTTCTGATGTTTAGAAGTTAATGTTAGTCTAAATATCAGTTAAAAAACAACAACAAAAAGTTATCTATTAAGTATCAAAGTAAATATACTTGCACAGC ************************************************................................................................(((((((((......)).)))).......)))....(((((((((((.((((((............)))))).)))))...))))))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V117 male body	M020 head
...................................................................................................................................................GTTGTTTTTTTGATGGTTAGTAG.................................................................................	23	3	2	0.50	1	1	0
..............................................................................................................................................................................................................CAAGAAGTAGTCTATTAAGTA........................	21	3	16	0.06	1	0	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004729:1560579-1560829 +	dwi_1920	AGGA-ACGCCGTTGTCCATGTTAATATCGCATGGCGTTAAGATTAGCAATA-GTAAGTAATACTACAAACAAACATA------TAAC--CA---ACAA--------------------------------------------------------------------------CAACAACAACAA------------------------------CA------------CC---------------------------------------------------------------------------------------AAAAAA-----GACAAACTGCAAGTCATCTTAT----------------------------------------------------------------------------------TGAACTTTAAA-----------------------------AAGGCA------------------------------AC------AACAAAAAGACTACAAATCTTC--AATTA----------C------------------------------------------------------------AATCA---GATTTATAGTCAATTTTT--------------------------------T------------------------GTTG---T-------------TGTTT----------TTCAA----------------------TAGATAA-------------------------------------------------------------TTCATAGTTTCATTT-ATATGAACGTG-----TCG
droVir3	scaffold_12963:5489186-5489450 -		AGTA-ACGACGGAATCCGGATGAACCGCACAAAACACGAA---AAGCAAAAAGAAACCAA-AACACACGCACACATA------CACA--AT---ACAACGCACACACACATTGAAAACCAAAAGCGAGCGAATTGTGTGCGACTGCGACGCGTGTT------TTGA------------------------------------------------------------------------------------------------------AT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACAACA------------------------------GC------AACAAAAAAACAACAA---------------------------CA--A-CAACA-----GCAACAATAAATTCAATTATTTTAATCTGAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGCCATTTATAAAAGTGTGATAAAAAAATTAAATAAATTAATTC-AAATGAAA--T-----GCA
droMoj3	scaffold_6473:12413596-12413873 +		AGCA-GCTACAGCAACAACAACAACAATTGCTACAGCTATAAC----AATA-ACAATAAT-AA------TAATAATA------ACAA--CAACAACAACATT-----------------------------------------------------------------------------------------AATAGTAATAATAATAACAACAACAACAGCAGCA---GCACGCATCAACAACTGCAGCACAGCAGCATCATCAACAACAACAACA---ACAACAGCAGCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A---------CAACAACAATCTTGATGATGACATTTAT-----------------TATTTGTT--TTACAAAGATTTTTA---------------------------------------------------------------------------------------TGTAAG----------------TTGTTTGTTTTTTTTTAAATGT-GTCACAAAAATAAA-T------------------------AA-----------AT-------A----------------------------------------------------------------------------------------------------------------AAG
droGri2	scaffold_15252:11113101-11113314 +		AGTG-ATGTTGCTGC-AACATTGTTGCGTT------------GCAGCTTTG-ATGCTGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGACACCA---GCAACAGTTACAACAACAAC------------------AA-GGA-----TACTGCCAGCTAGTTCTTATATGTCACAATCGAAATTAAACTAATTAAATCAAAATATAACAATAAAATATATATAT----------------------------AAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATA--------------------------------T------------------------ATTA---G-------------TATAT----------ATAAA----------------------TATATGCTAGCAAA-------------------------------------------------------------TTGCATTTCAACTGCAATTG-----TTG
dp5	XL_group1e:11155162-11155375 +		AAACAGCGCCATCGT-CGTTCGAGCAGCACGCAGCAGCAA--AAAGCAAAA-AA---------------------------------------------ATA-----------------------------------------------------------------------------------------AATTAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAATAACTATATAACTATAAAACAAAAAAACAAAAAACACAACTAAACACTATCTAACAAAACTGTTGA------------------A--CGCGACCAAAGG-----------------------CTAAAAACGTATAT-----------------AGTTTTTT--GTGTG----------AAATCAATA-TAA--------------------------------------------------------------CTATTATTTTTT--------------------------------T------------------------ACTG---T------------GTGTTT----------T-------------------------------------------------------------------------------------------------------------------------TTTACGGA
droPer2	scaffold_28:994207-994389 +		AGTG-CA-ATTCCCACAATAACAAC-------------AGCAACAGCAACA-ACAATAAT-AATACAATAAGCAGCA------ACAA--CAACAACAACAAT-----------------------------------------------------------------------------------------AATAATAATAATAATAGCAGCAGCAACAGCATCA--------------------------------------------------------------------------ATAATAATAATAACAATA-----------------------------------------------------------------------------------------------------------------------------------------------------------ATAGCAACAACAACAACAACAATA------------TTCAT-----------------TACAACAA--TTACAATAA---------------------------------------------------------------------------------CTAT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T-----ATA
droAna3	scaffold_13266:4577797-4578002 -		AGCA-ACGCAGTGAAAGTGATAA---------------AGCAACAACAACA-ACAACAAC-AAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGA---GA---------------------------------------------------------------------------------------------------------------------------------------------------------AACAGAAACAACAACAGCAACAACAACA--ACTGCCCAAA------------------------------------------------------------------------------------------G---CAACCA-AAAACAACAATAACAATAACAACAAC------CATAA--TC-----TGCAAATACTGCAAAAGGGTTG------AAAT----------ATTTTCGATTT-TTTTTCAATAATTTCGAATTAATAGA-T----------------------ATTA-----------AC---A--AA----------------------------------------------------------------------------------------------------------------AAA
droBip1	scf7180000395545:26867-27078 +		GGGA-ACCCCGCTCTCCATGCTGATATCTAATGGAGTTAGGATAAGCAACC-GTAAGTAC-AGTTTACTTAATTATT------TGGA--AGAACACGCCAGTCATTTTACT---------------------------------------------------------------------------------------------------------TTAGTATTC------------------------------------------------------------------------AC------------------TA-GAAA----AGTACTCGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAT-GGAATTTTCCAAAATGTTTA------TATT----------TTTTTT------------------------------GAACTTTT-------------TCTT--------------------------------------------------------------------------------------TTAAAATATTATAA------TCTATTGTTTCTTTA-AAAGGAAA--T-----TAT
droKik1	scf7180000302441:1920599-1920881 +		GGGA-ACGCCGCTCTCCATGCTGATATCTCATGGAGTTAGGATTAGCAATA-GTAAGTAC-AGTCCACTTAATTATAAGTATAAAGCTAAAAACATGCCAGTCATTCGTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAATA-AAGTGAGGAAT---TAAACAAGACACGGAATTAAAAG-----------------------------------------------------------------------------------CCAGAG---CAGCCAGAAAACAATTAGTGGAACAATATTAGCATGAAGCAAAAAAGCGGTAAT-GGATTTATGGAAAATTTATGG--------------------------------------AAAATTATGAATTAATTGAAGAAAATCTAGTAATTATATATTTGTAA-----------GC---A--GA----------------------------------------------------------------------------------------------------------------ACG
droFic1	scf7180000454113:166383-166562 +		GGGA-ACGCCGCTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAA-ACCCTACTTAATTATA------CCCC--AAAATATGCCAGTCATCCGGT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAATATTTCTAATGAATCGAGAATAATAA--AGTG-ATAG-AG-----------------------------------------------------------------------------------CAAGA-TAGCA-----GCTACAATTAGTAGATTAATTTTAGCATGAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000491043:503167-503413 +		AAGC-GCGCCTCTGCCAACGA-----------------------------------GCCA-TTTCCGCCCAACAACA------ACAA--CAAAAACAACAGCTACAATAAG---------------------------------------------AACAACAATTATAAAAAAACAGCAAGAA------------------------------CA------------AC---------------------------------------------------------------------------------------TAAAAT-----GGCAAGCAAAAAACTATACCTT----------------------------------------------------------------------------------TAAAATA-AAA-----------------------------ATGG------------------------------CATAAAA-----------------CAAATGTTCCTTCCAAATGTTTTTACTAGCAA------------------------G---------------------------------------------------TA------AGATCATAAATTTGACA-ATGTTTGGTCATTTTTAAATAA-ATTAAATTAATAAA-T------------------------TA-----------AC---A--------------------------------------------------------------------------------------------------A-AA--------------ATG
droRho1	scf7180000776850:5851-6198 +		GGGA-ACACCACTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-AGCCCACTTAATTATA------CCAC--TAAATATGCCAGTCATCCGAGT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAATATTTTTAATGAATAAAGAATAATGA--GATATATAGAAG-----------------------------------------------------------------------------------CAAGAGCAGCA-----ACAACAATTAGTAGATCAGTTTCAGCATGAAGCAATACATCAATTG---GAGTTATGGAAAATTTCTGA--------------------------------------ATAACTAAAAAATTATATAAACAAATTAAGTATT----GATTTGTTATTATATTATTATCATAAAAACTATTCCCATTTCTTAAAGGCAGAAATGTAATATTTCAA--------------------------------------------CACAAATACTTTT-ATATTTACAAT-----TCA
droBia1	scf7180000302126:1449615-1449836 -		ATAA-ATAACAACAATAATAGC----------------------AGCAATA-GTTGTCAC-AA--CAGCTATCAATA--------------------------------------------------------------------------------------TAGTTACAACAATAATAATAATAACAACACTAATAACAACAACAGCAGCAGCAAC-----------------------------------------CAG---------------------CAGTT-----------ACAACAACAAA------------------------------------------------------------------------------------------------------------------------------------------------------------TACTGAATAA---------CAACAACAATCTCGAGGACGATGTTTAT-----------------TATTTATT--TTATAAAGATTTTTA---------------------------------------------------------------------------------------TGTAAG----------------TTTCTAGTTTT-----------------------------------------------------------------AC---A--------------------------------------------------------------------------------------------------A-AA---CAAATGTTTAGGAA
droTak1	scf7180000415192:82634-82781 -		ACTA-CCGCAGCA-----------------------------------ACA-ACAAACAC-CG------CAGCAACA------ACAA--CCACCGCAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAACAACCACCGCAGCAACAACAAC------------------CA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGCAGCTCC------------------------------------------------------------------------------------TGTAA-----------GT---A--GA----------ACCTTAAGCCAGCAAACTGATCTCTAAACTATAATATACAATCCCATTT-----------------------------------------------------ATA
droEug1	scf7180000409548:122385-122566 +		AATA-TTAATTATAGTTAATTAAA-----------TTT--AAAAAACAAAA-GCAAACAA-AACCCA--TAACAACA------ACAA--CAAGAACAGCAAACAACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACATCAAAAACAACAACAAC------------------AA-GAACAAATTATGTACGAAAG------------------------------------------------------GATATATATTT----------------------------AAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATA------TATG----------TATATG----------------G-ATAAAATTAATG-AAGAA----------------GCA---------------------ACAAC----------------------------------------------------------------------------------------------------------------ACC
dm3	chr3L:1902293-1902515 -		GGGA-ACGCCGCTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-AATACACTTAATTACA------TCGC--AAAATATGCCAGTCATCCGAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAATACAAATGATGGATGCATAAACAAGG--CGTATCTGAAAG--------------------------------------------------------------------------------------------CA-----AAAACAATTAATACATTAATTTTAGCATGGGGTAAATAATCCATAA---GAGTTACGGAAAATTTAT--------------------------------T------------------------TAAGAAA---TAGGA----------------------------------------------------------------------------------------------------------------------------------------------------AAA
droSim2	3l:1811654-1811891 -		GGGA-ACGCCGCTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-AACCCACTTAATTACA------CCGC--CAAATATGCCAGTCATCCGAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAATATAAATAATGGATGCATAAACAAGG--CGTATCTGAATG--------------------------------------------------------------------------------------------CA-----AAAACAATTAGTACATTAATTTCAGCACGGGGCACATCATCAATAA---GAGTTACGGAAAATTCTT--------------------------------T------------------------TTAGAAA---TAGTAAACACATATA---------------------AGAAC----------------------------------------------------------------------------------------------------------------TCT
droSec2	scaffold_2:1927940-1928177 -		GGGA-ACGCCGCTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-AACCCACTTAATTACA------CCGC--CAAATATGCCAGTCATCCGAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAATACAAATAATGGATGCATAAACAAGG--CGTATCTGAATG--------------------------------------------------------------------------------------------CA-----AAAACAATTAGTACATTAATTTCAGCATGGGGCACATCATCAATAA---GACTTACGGAAAATTCTT--------------------------------T------------------------TTAGAAA---TAGTAAACACATATA---------------------AGAAC----------------------------------------------------------------------------------------------------------------TCT
droYak3	v2_chr3h_random_002:332691-332917 +		AGCA-ATAGCAATAGCAATAGCAATAGCAATAGC-AATAGCAATAGCAATA-GCAATAGC-AATAGCAATAGCAATA------GCAA--TAGCAATAGCAAT--------------------------------------------------------------------------------------------------------AGCAATAGCAATAGCAATAGCAATA-GCAATAGCAA----------------------------------------------------------------------TAGCA-----------------------------------------------------------------------------------------------------------------------------------------------------------ATAGCAATAGCAATAGCAATAGCA------------ATAGCAATAGCAATAGCAATAGCAA-TTGC--AATTG----------CAATTAA------------------------T---------------------------------------------------TTAA-------TCTTTAATTTT---------------------------------------AT----------------------------------------------------------------------------------------------------CATTATTTATC--------------------------------------------------AAT
droEre2	scaffold_4784:1889800-1890006 -		GGGA-ACGCCGCTCTCCATGTTAATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-ACCCCACTTAATTACA------CAGC--AAAATATGCCAGTCATCCGAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAATTCAAAATAATGATGCATAAACAAGG--CGTATTTGAAAG--------------------------------------------------------------------------------------------CA-----AAAACAATTAGTACATTAATTTCAGCACGAGGCAACTCATTAATTA---TAATTGCGGAAAATTTAT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

AGGA-ACGCCGTTGTCCATGTTAATATCGCATGGCGTTAAGATTAGCAATA-GTAAGTAATACTACAAACAAACATA------TAAC--CA---ACAA--------------------------------------------------------------------------CAACAACAACAA------------------------------CA------------CC---------------------------------------------------------------------------------------AAAAAA-----GACAAACTGCAAGTCATCTTAT----------------------------------------------------------------------------------TGAACTTTAAA-----------------------------AAGGCA------------------------------AC------AACAAAAAGACTACAAATCTTC--AATTA----------C------------------------------------------------------------AATCA---GATTTATAGTCAATTTTT--------------------------------T------------------------GTTG---T-------------TGTTT----------TTCAA----------------------TAGATAA-------------------------------------------------------------TTCATAGTTTCATTT-ATATGAACGTG-----TCG	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTATAGTCAATTTTT--------------------------------T------------------------GTTG---T-------------.................................................................................................................................................	22	1	1.00	1	0	0	0	0	1
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAATTTTT--------------------------------T------------------------GTTG---T-------------TGTT.............................................................................................................................................	18	20	0.05	1	0	0	0	1	0

droVir3

AGTA-ACGACGGAATCCGGATGAACCGCACAAAACACGAA---AAGCAAAAAGAAACCAA-AACACACGCACACATA------CACA--AT---ACAACGCACACACACATTGAAAACCAAAAGCGAGCGAATTGTGTGCGACTGCGACGCGTGTT------TTGA------------------------------------------------------------------------------------------------------AT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACAACA------------------------------GC------AACAAAAAAACAACAA---------------------------CA--A-CAACA-----GCAACAATAAATTCAATTATTTTAATCTGAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGCCATTTATAAAAGTGTGATAAAAAAATTAAATAAATTAATTC-AAATGAAA--T-----GCA	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
...A-ACGACGGAATCCGGATGAACCG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	3.00	3	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	1	0	0	0	0	0	0	0	0	1	0
.........CGGAATCCGGATGAACCGCACAAAA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...A-ACGACGGAATCCGGATGAACCGC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	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
......CGACGGAATCCGGATGAACCGCACAAAACACGAA---AAGC..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	38	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......CGACGGAATCCGGATGAACCGCACAAAACACGAA---AAGCA.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	39	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTCAATTATTTTAATCTGAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGCC............................................................	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	1	0	0	0	0	0	0	0	0	0	0	0
......CGACGGAATCCGGATGAAC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	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
........ACGGAATCCGGATGAACCGCA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......CGACGGAATCCGGATGAACCGCA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..........GGAATCCGGATGAACCGC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	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
......CGACGGAATCCGGATGAACCGCACA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	1	0	0	0	0
......CGACGGAATCCGGATGAACCG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0
.........CGGAATCCGGATGAACCGCACAAAACA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	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
..TA-ACGACGGAATCCGGATGAACCGCA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	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
...A-ACGACGGAATCCGGATGAACCGCA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........ACGGAATCCGGATGAACCGCACA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................CGACGCGTGTT------TTGA------------------------------------------------------------------------------------------------------AT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A........................................................................................................................................................................................................................................................................................................................................................................................................	18	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	1	0	0	0	0	0	0	0	0	0	0	0	0
...A-ACGACGGAATCCGGAT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	17	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	1	0	0	0	0
.....ACGACGGAATCCGGATGAAC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....ACGACGGAATCCGGATGAACCG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	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
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAA---------------------------CA--A-CAACA-----GCAACAATA.........................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

AGCA-GCTACAGCAACAACAACAACAATTGCTACAGCTATAAC----AATA-ACAATAAT-AA------TAATAATA------ACAA--CAACAACAACATT-----------------------------------------------------------------------------------------AATAGTAATAATAATAACAACAACAACAGCAGCA---GCACGCATCAACAACTGCAGCACAGCAGCATCATCAACAACAACAACA---ACAACAGCAGCA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A---------CAACAACAATCTTGATGATGACATTTAT-----------------TATTTGTT--TTACAAAGATTTTTA---------------------------------------------------------------------------------------TGTAAG----------------TTGTTTGTTTTTTTTTAAATGT-GTCACAAAAATAAA-T------------------------AA-----------AT-------A----------------------------------------------------------------------------------------------------------------AAG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.........................................................................AATA------ACAA--CAACAACAACAT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................ATCAACAACAACAACA---ACA.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0
.....................................................................................................................................................................................................................................................................TCAACAACAACAACA---ACAACAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	1	0
..........................................................AT-AA------TAATAATA------ACAA--CAACAACA................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
..........................................................................ATA------ACAA--CAACAACAACAT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0
............................................................................................................................................................................................................ATAACAACAACAACAGCAGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0
.........CAGCAACAACAACAACAATT....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
...........................................................................................................................................................................................................AATAACAACAACAACAGCAGCA---.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	1

droGri2

AGTG-ATGTTGCTGC-AACATTGTTGCGTT------------GCAGCTTTG-ATGCTGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGACACCA---GCAACAGTTACAACAACAAC------------------AA-GGA-----TACTGCCAGCTAGTTCTTATATGTCACAATCGAAATTAAACTAATTAAATCAAAATATAACAATAAAATATATATAT----------------------------AAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATA--------------------------------T------------------------ATTA---G-------------TATAT----------ATAAA----------------------TATATGCTAGCAAA-------------------------------------------------------------TTGCATTTCAACTGCAATTG-----TTG	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
...G-ATGTTGCTGC-AACATTGTTGCGTT------------.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	1	0

dp5

AAACAGCGCCATCGT-CGTTCGAGCAGCACGCAGCAGCAA--AAAGCAAAA-AA---------------------------------------------ATA-----------------------------------------------------------------------------------------AATTAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAATAACTATATAACTATAAAACAAAAAAACAAAAAACACAACTAAACACTATCTAACAAAACTGTTGA------------------A--CGCGACCAAAGG-----------------------CTAAAAACGTATAT-----------------AGTTTTTT--GTGTG----------AAATCAATA-TAA--------------------------------------------------------------CTATTATTTTTT--------------------------------T------------------------ACTG---T------------GTGTTT----------T-------------------------------------------------------------------------------------------------------------------------TTTACGGA	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
..................TTCGAGCAGCACGCAGCAGCAA--AAAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.............GT-CGTTCGAGCAGCACGCAGCAGC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................A------------------A--CGCGACCAAAGG-----------------------CTAAAAAC......................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACCAAAGG-----------------------CTAAAAACGT....................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCAAAGG-----------------------CTAAAAACGTATAT-----------------A..............................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.....GCGCCATCGT-CGTTCGAGC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0

droPer2

AGTG-CA-ATTCCCACAATAACAAC-------------AGCAACAGCAACA-ACAATAAT-AATACAATAAGCAGCA------ACAA--CAACAACAACAAT-----------------------------------------------------------------------------------------AATAATAATAATAATAGCAGCAGCAACAGCATCA--------------------------------------------------------------------------ATAATAATAATAACAATA-----------------------------------------------------------------------------------------------------------------------------------------------------------ATAGCAACAACAACAACAACAATA------------TTCAT-----------------TACAACAA--TTACAATAA---------------------------------------------------------------------------------CTAT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T-----ATA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droAna3

AGCA-ACGCAGTGAAAGTGATAA---------------AGCAACAACAACA-ACAACAAC-AAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGA---GA---------------------------------------------------------------------------------------------------------------------------------------------------------AACAGAAACAACAACAGCAACAACAACA--ACTGCCCAAA------------------------------------------------------------------------------------------G---CAACCA-AAAACAACAATAACAATAACAACAAC------CATAA--TC-----TGCAAATACTGCAAAAGGGTTG------AAAT----------ATTTTCGATTT-TTTTTCAATAATTTCGAATTAATAGA-T----------------------ATTA-----------AC---A--AA----------------------------------------------------------------------------------------------------------------AAA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A--TC-----TGCAAATACTGCAAAAGGGT................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................AAACAACAACAGCAACAAC.......................................................................................................................................................................................................................................................................................................................................................................................................................	19	9	0.11	1	0	1	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACAATAACAATAACAACAAC------..................................................................................................................................................................................................................................................................	22	12	0.08	1	0	1	0	0	0	0
.....................AA---------------AGCAACAACAACA-ACAAC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	17	0.06	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................AACAACAGCAACAACAAC....................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0

droBip1

GGGA-ACCCCGCTCTCCATGCTGATATCTAATGGAGTTAGGATAAGCAACC-GTAAGTAC-AGTTTACTTAATTATT------TGGA--AGAACACGCCAGTCATTTTACT---------------------------------------------------------------------------------------------------------TTAGTATTC------------------------------------------------------------------------AC------------------TA-GAAA----AGTACTCGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAT-GGAATTTTCCAAAATGTTTA------TATT----------TTTTTT------------------------------GAACTTTT-------------TCTT--------------------------------------------------------------------------------------TTAAAATATTATAA------TCTATTGTTTCTTTA-AAAGGAAA--T-----TAT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

GGGA-ACGCCGCTCTCCATGCTGATATCTCATGGAGTTAGGATTAGCAATA-GTAAGTAC-AGTCCACTTAATTATAAGTATAAAGCTAAAAACATGCCAGTCATTCGTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAATA-AAGTGAGGAAT---TAAACAAGACACGGAATTAAAAG-----------------------------------------------------------------------------------CCAGAG---CAGCCAGAAAACAATTAGTGGAACAATATTAGCATGAAGCAAAAAAGCGGTAAT-GGATTTATGGAAAATTTATGG--------------------------------------AAAATTATGAATTAATTGAAGAAAATCTAGTAATTATATATTTGTAA-----------GC---A--GA----------------------------------------------------------------------------------------------------------------ACG	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GGGA-ACGCCGCTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAA-ACCCTACTTAATTATA------CCCC--AAAATATGCCAGTCATCCGGT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAATATTTCTAATGAATCGAGAATAATAA--AGTG-ATAG-AG-----------------------------------------------------------------------------------CAAGA-TAGCA-----GCTACAATTAGTAGATTAATTTTAGCATGAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AAGC-GCGCCTCTGCCAACGA-----------------------------------GCCA-TTTCCGCCCAACAACA------ACAA--CAAAAACAACAGCTACAATAAG---------------------------------------------AACAACAATTATAAAAAAACAGCAAGAA------------------------------CA------------AC---------------------------------------------------------------------------------------TAAAAT-----GGCAAGCAAAAAACTATACCTT----------------------------------------------------------------------------------TAAAATA-AAA-----------------------------ATGG------------------------------CATAAAA-----------------CAAATGTTCCTTCCAAATGTTTTTACTAGCAA------------------------G---------------------------------------------------TA------AGATCATAAATTTGACA-ATGTTTGGTCATTTTTAAATAA-ATTAAATTAATAAA-T------------------------TA-----------AC---A--------------------------------------------------------------------------------------------------A-AA--------------ATG	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GGGA-ACACCACTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-AGCCCACTTAATTATA------CCAC--TAAATATGCCAGTCATCCGAGT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAATATTTTTAATGAATAAAGAATAATGA--GATATATAGAAG-----------------------------------------------------------------------------------CAAGAGCAGCA-----ACAACAATTAGTAGATCAGTTTCAGCATGAAGCAATACATCAATTG---GAGTTATGGAAAATTTCTGA--------------------------------------ATAACTAAAAAATTATATAAACAAATTAAGTATT----GATTTGTTATTATATTATTATCATAAAAACTATTCCCATTTCTTAAAGGCAGAAATGTAATATTTCAA--------------------------------------------CACAAATACTTTT-ATATTTACAAT-----TCA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

ATAA-ATAACAACAATAATAGC----------------------AGCAATA-GTTGTCAC-AA--CAGCTATCAATA--------------------------------------------------------------------------------------TAGTTACAACAATAATAATAATAACAACACTAATAACAACAACAGCAGCAGCAAC-----------------------------------------CAG---------------------CAGTT-----------ACAACAACAAA------------------------------------------------------------------------------------------------------------------------------------------------------------TACTGAATAA---------CAACAACAATCTCGAGGACGATGTTTAT-----------------TATTTATT--TTATAAAGATTTTTA---------------------------------------------------------------------------------------TGTAAG----------------TTTCTAGTTTT-----------------------------------------------------------------AC---A--------------------------------------------------------------------------------------------------A-AA---CAAATGTTTAGGAA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ACTA-CCGCAGCA-----------------------------------ACA-ACAAACAC-CG------CAGCAACA------ACAA--CCACCGCAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAACAACCACCGCAGCAACAACAAC------------------CA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGCAGCTCC------------------------------------------------------------------------------------TGTAA-----------GT---A--GA----------ACCTTAAGCCAGCAAACTGATCTCTAAACTATAATATACAATCCCATTT-----------------------------------------------------ATA	Size	Hit Count	Total Norm	Total
No Reads

droEug1

AATA-TTAATTATAGTTAATTAAA-----------TTT--AAAAAACAAAA-GCAAACAA-AACCCA--TAACAACA------ACAA--CAAGAACAGCAAACAACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACATCAAAAACAACAACAAC------------------AA-GAACAAATTATGTACGAAAG------------------------------------------------------GATATATATTT----------------------------AAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATATA------TATG----------TATATG----------------G-ATAAAATTAATG-AAGAA----------------GCA---------------------ACAAC----------------------------------------------------------------------------------------------------------------ACC	Size	Hit Count	Total Norm	Total
No Reads

dm3

GGGA-ACGCCGCTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-AATACACTTAATTACA------TCGC--AAAATATGCCAGTCATCCGAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAATACAAATGATGGATGCATAAACAAGG--CGTATCTGAAAG--------------------------------------------------------------------------------------------CA-----AAAACAATTAATACATTAATTTTAGCATGGGGTAAATAATCCATAA---GAGTTACGGAAAATTTAT--------------------------------T------------------------TAAGAAA---TAGGA----------------------------------------------------------------------------------------------------------------------------------------------------AAA	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
................CATGCTGATATCAAATGGAGT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGATGGATGCATAAACAAGG--CGT..............................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................TAAGTAC-AATACACTTAATTA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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
.................................................................CACTTAATTACA------TCGC--AAAA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSim2

GGGA-ACGCCGCTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-AACCCACTTAATTACA------CCGC--CAAATATGCCAGTCATCCGAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAATATAAATAATGGATGCATAAACAAGG--CGTATCTGAATG--------------------------------------------------------------------------------------------CA-----AAAACAATTAGTACATTAATTTCAGCACGGGGCACATCATCAATAA---GAGTTACGGAAAATTCTT--------------------------------T------------------------TTAGAAA---TAGTAAACACATATA---------------------AGAAC----------------------------------------------------------------------------------------------------------------TCT

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

No Reads

droSec2

GGGA-ACGCCGCTCTCCATGCTGATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-AACCCACTTAATTACA------CCGC--CAAATATGCCAGTCATCCGAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAATACAAATAATGGATGCATAAACAAGG--CGTATCTGAATG--------------------------------------------------------------------------------------------CA-----AAAACAATTAGTACATTAATTTCAGCATGGGGCACATCATCAATAA---GACTTACGGAAAATTCTT--------------------------------T------------------------TTAGAAA---TAGTAAACACATATA---------------------AGAAC----------------------------------------------------------------------------------------------------------------TCT	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droYak3

AGCA-ATAGCAATAGCAATAGCAATAGCAATAGC-AATAGCAATAGCAATA-GCAATAGC-AATAGCAATAGCAATA------GCAA--TAGCAATAGCAAT--------------------------------------------------------------------------------------------------------AGCAATAGCAATAGCAATAGCAATA-GCAATAGCAA----------------------------------------------------------------------TAGCA-----------------------------------------------------------------------------------------------------------------------------------------------------------ATAGCAATAGCAATAGCAATAGCA------------ATAGCAATAGCAATAGCAATAGCAA-TTGC--AATTG----------CAATTAA------------------------T---------------------------------------------------TTAA-------TCTTTAATTTT---------------------------------------AT----------------------------------------------------------------------------------------------------CATTATTTATC--------------------------------------------------AAT

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

No Reads

droEre2

GGGA-ACGCCGCTCTCCATGTTAATATCAAATGGAGTTAGGATTAGCAATA-GTAAGTAC-ACCCCACTTAATTACA------CAGC--AAAATATGCCAGTCATCCGAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAATTCAAAATAATGATGCATAAACAAGG--CGTATTTGAAAG--------------------------------------------------------------------------------------------CA-----AAAACAATTAGTACATTAATTTCAGCACGAGGCAACTCATTAATTA---TAATTGCGGAAAATTTAT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	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_1920

scf2_1100000004729:1560629-1560779 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads