dwi_655

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ATCATCAGCAGCAGCAGCAGCAACAAGAGGAGGAGGAGCAATACGATGATGTAAGTACACATTTAAAGCCATAACAAGTTCGAGTTCGACTTTCGCGCACTTTCCTTTTCGCTTTGCTAATAATTACAATTGAGGCATGCAACAACCAGCAACAGCAACAGCAACAGCGGTGGGAGACCAAGATATTTGCAGAGTTCATTCACATTTATTCAACCTCAGTTTCAGTCTCAGTCTCAGTTTCAGTTTTCAGA ************************************************...............................((........(((..(((.((((((..(((((((((.............((..((.(((........)))...))..)))))).))))).))))))..........))).))).....))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M045 female body	V117 male body	V118 embryo	V119 head
.....................AACAAGCGGAGGAGGAGCT...................................................................................................................................................................................................................	19	2	4	0.25	1	1	0	0	0
...........................CGGAGGAGGGGCAATACAAT............................................................................................................................................................................................................	20	3	5	0.20	1	0	0	1	0
...................................................................................................................................................................ACAGGGGTTAGAGACCAAGA....................................................................	20	3	5	0.20	1	0	1	0	0
....................................AGCAGTACGGTGATGGAAG....................................................................................................................................................................................................	19	3	8	0.13	1	0	0	0	1
..........................................................................................................................................................................................................CACTTATTCAACCTGGGTTT.............................	20	3	9	0.11	1	1	0	0	0
........CAGCAGCAGCAGCAACAAG................................................................................................................................................................................................................................	19	0	20	0.05	1	1	0	0	0
..............................................................................................................................................................................AGACCAAGATATGTTCCG...........................................................	18	3	20	0.05	1	1	0	0	0

TAGTAGTCGTCGTCGTCGTCGTTGTTCTCCTCCTCCTCGTTATGCTACTACATTCATGTGTAAATTTCGGTATTGTTCAAGCTCAAGCTGAAAGCGCGTGAAAGGAAAAGCGAAACGATTATTAATGTTAACTCCGTACGTTGTTGGTCGTTGTCGTTGTCGTTGTCGCCACCCTCTGGTTCTATAAACGTCTCAAGTAAGTGTAAATAAGTTGGAGTCAAAGTCAGAGTCAGAGTCAAAGTCAAAAGTCT ************************************************...............................((........(((..(((.((((((..(((((((((.............((..((.(((........)))...))..)))))).))))).))))))..........))).))).....))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M045 female body	V118 embryo	V117 male body	V119 head
....................................................................................................................................................................................................................TGGAGTCACAGTCATAGTCAG..................	21	2	2	0.50	1	1	0	0	0
................................................................................................................................................................CGTTGTCGGCACCATCTG.........................................................................	18	2	2	0.50	1	1	0	0	0
.............................................................AAATTTCGGTAGTGTTCAC...........................................................................................................................................................................	19	2	3	0.33	1	1	0	0	0
....................................................................................................................................................................................................................TGGAGTCACAGTCATAGTCAGG.................	22	3	3	0.33	1	1	0	0	0
................................................................................................................................................................CGTTGTCGGCACCATCTGGG.......................................................................	20	3	4	0.25	1	1	0	0	0
....................................................................................................................................................................................................................TGGAGTCACAGTCATAGTCA...................	20	2	5	0.20	1	1	0	0	0
...................................................................................................................................................................................................................GTGGAGTCACAGTCATAGTCA...................	21	3	12	0.17	2	2	0	0	0
.....................................................................................................................................................................................................................GGAGTCACAGTCATAGTCAG..................	20	2	12	0.17	2	2	0	0	0
.........................TCTTGTCCGCCTCGTTATG...............................................................................................................................................................................................................	19	3	20	0.15	3	3	0	0	0
....................................................................................................................................................................................................................GGGAGTCAAAGCCAGAGTCAG..................	21	2	8	0.13	1	0	0	1	0
...............................................................................................................................................................CCGTTGTCGGCACCATCTG.........................................................................	19	3	11	0.09	1	1	0	0	0
........................................................................................................................................................................................TAAACGGCTCAAGGAAGT.................................................	18	2	14	0.07	1	0	1	0	0
........................................................................................................GAAAAGGGAAACGATTGTTTA..............................................................................................................................	21	3	18	0.06	1	0	1	0	0
.....................................................................................................................................................................................................................GGAGTCACAGTCATAGTCAGG.................	21	3	19	0.05	1	1	0	0	0
....................................................................................................................................................................GTAGCTACGCTCTGGTTCT....................................................................	19	3	20	0.05	1	0	0	0	1
...................................................................................................GAGAGGAAAAGCGAACCG......................................................................................................................................	18	2	20	0.05	1	1	0	0	0
............................................................................................AGGGAGTGAAAGGAAAAGC............................................................................................................................................	19	2	20	0.05	1	0	0	1	0
..................................................................................................................................................GTCGTTGTCGTTGTCGTTGT.....................................................................................	20	0	20	0.05	1	0	1	0	0

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004511:8263145-8263395 -	dwi_655	ATCATCAGCAGCAGCAGCAGCAACA---AGAGGAGGA------GGAGCAATACGATGATGTAAGTACACATTTAAAG--------------CCATAACA---------------------------------------------------------------------------------------------------------------------AGT------------TCGAGTTCGACTTTCGCGCACTTTCCTTTTCGCTTTGCTA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATAATTACAATTGAGGCA----------TGC--------------AACA-----------------------------------------------------------------------------------------------------------------------------------------------------------ACCA------------GCAACAGCAACAGCAACAG---CGGTGGGAGACCAAGATATTTG------CAGAGTTCATTCACATTTATTCAACC--------------------TC-----------------------------------------------------AGTTTCAGTCTCAGTCTCAGTTTCAGTTTTCAGA
droVir3	scaffold_13049:6286861-6287110 +	dvi_18628	ACCAGCAGCTGCAGCAGCAGCAGGC---CGAGGAGGA------GGAGCAATACGATGATGTAAGTT---------GG--------------CCATAACG---------------------------------------------------------------------------------------------------------------------TGT------------TCGAACTC----------------CACTTCAGGTTGACAGCAGC----------------------------------------------------------------------------------------------AGCAGCCGCCGCAGCGGCGC-------------------T------GCTTTCGCTTTCGCCAAACAATGCTGCCAGCGCATAATTACAATTGAAGCA----------TGC--------------AGCGG--------------------GGAGAG--------AT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT-G-CCCGTAGAGTTCATTAAC-------CAA-----------------------C-----AGCCA-------------CAATGC----------------------ACAGCTCCAGCTCTAGCCCCAGCTCTAG--------
droMoj3	scaffold_6496:11020190-11020370 -		AACAACAACAGCAGCAGCAGCAACA---ACAGCAGCA------GCATCAACAGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CAGC--AGCAGCCGCCTCATC-----CCAGCGACATTGTGACCATAACCACGGCAGGAGTGGGGAGCGCGGGCTCGATCGTCTCCGCTGCTGTGCAGCAGCAGCAGCAACAGCAACAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGCAG---CTGCTGAGCATCAA-----------------------------------------------------------------------------------------------------------------------------------------------------
droGri2	scaffold_15245:7787733-7787998 +		AGCAGCAACAGCAGCAGCAACACAAACTCGA------------ACAGCAGCGCA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGGAGAAGGAGCATGTGCTGAGCTTCAAGAAGCGGCGACTCTCCAAGCAGAAGTCCGTGGAACACATGGACTGCTGCACTCTATCTGCAGCAGCAGCAGCAGCAACAGCAACAACAGCAGCAGCAGCAGCAGCAACAACCA------------GCAACAAC------AG------CAGC--------------------------------------------------------------------------------AGCAACGCTTGCCAGCAGCAACCAGAACTTGCAACCATCTCCGTCAGCTTCAGTTTCCGTCTCTGCCTC----------
dp5	XR_group8:8963934-8964244 -		AGCAGCAGCAGCAGCAGCGGCAGCA---GCAGCAGCAGGAGGAGGAGGAGTACGATGACGTAAGTT---------TGGGGTCCAACAAATCCCATAACGAGTTCGAATCC---------------------------------------------------------------------------------------------------GAATTCGAGT------------TCGAGTTCGATGTTCGCGCACTTTCCTTTTCGCTTCAGTGCCGC----------------------------------------------------------------------------------------------A-------------------------------------------------------------------------A---CATAATTACAATTGAGGCA----------TGC--------------AACA--------------A-------------------------------------------------ACAGAG---------------------------------CGGGGCAGGGGCAGGGGCAGGGGCAGG------------------------------------------GGGGGG------CAG---------TAGGAGGCGGTGTTAGTCGTTGACTTGGGGTTCATTAAC-------CACACAGCTTCCAGTGGTCGCAGCATC-----AGCAG-------------CAG-----------------------------------------------CTGTGGTTTTTGGC
droPer2	scaffold_11:946546-946699 +		CCTACCAGCAGCAGCAGCAGCAGCA---GAAGCAGTA------GCAACAATGAA-----------------------------------------------TTGTAATAACAATACAC---------------------------------------------------------------------------------------------------AT------------GCAACTGCC-----------------------------------------------ACGGCCACTGCCAC--------------------------------------------------------------------TGCCACTGCA------ATA------------------------------------------------------------ACAATTGCAATTAAAATG----------CGT--------------G----------------------------------------------------------------------------------------------------------------------------------------------------TGCAAAAACAACAA------------GCAACAG------------CAGCAAC--------------------------------------------------------------------------------AA----------------T-------------------------------------------------------A----
droAna3	scaffold_13337:8001411-8001646 -		AGCTGCAGCAGCAACAGCAGGAGGA---GGA------------GGAGCAGTACGATGATGTAAGTT---------T-----TGAA----------------------------TACACTGTGTTTATAGTGTGAGTTTCAGATGGTAAC-TGCTTGAAGAAATAGTCTTGAAGAAAAAGTACATGTAGACTAGAGTTTCTCCAAGTGTAGATCTTGAGT------------TCGAACTC-GCTTTCGCGCACTTTCCTTTTCGCTTCACTGCAGC----------------------------------------------------------------------------------------------AGCAACTGCAACAGCAACAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATAC---CAATAG-------------------------------------------------------------------------------------------------------------------------------------------------------------
droBip1	scf7180000396541:162152-162384 -		AGCTGCAGCAGCAACAGCAGGAGGA---AGA------------GGAGCAGTACGATGATGTAAGTT---------T-----TTAA----------------------------TACACTTT-AAAATATTGGGGGTATCAGATTTA-TCAAGTTTGAAGAAATAGTCCTCAAGAAAAACTACAAATAGTGGGTAGTTTCGCTCAGTGCAGATCTTGAGT------------TCGAACTC-GCTTTCGCGCACTTTCCTTTTCGCTTCACTGCAAC----------------------------------------------------------------------------------------------TGCAACAGCAACAGCAATACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATAG---CAAT---------------------------------------------------------------------------------------------------------------------------------------------------------------
droKik1	scf7180000302474:343250-343350 -		CAAAACAAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTTTGACTTTCGCACACTTTCCTTTTCGCTTCACTGCAGCAA----------AAGT------------------------------------------------------------------------------AGCAGCAGCAGCAACAGTAACA------GTAGCAACAACTAC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG---CAGT------------------------------------------------------------------------------------------------------------------------------------------------------------------
droFic1	scf7180000453833:817324-817395 +		T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGGCTTTCGCGCACTTTCCTTTTCGCTTCACTGCAAC----------------------------------------------------------------------------------------------AGCAGCAGCAGCAACAACTGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAG---C------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000491268:47581-47652 -		T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCAGC----------------------------------------------------------------------------------------------AGCAGCAGCAACAGCAACTGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAG---C------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1	scf7180000779204:280918-281002 +		T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCAGC----------------------------------------------------------------------------------------------AGCAACTGCAGCAGCAACAGCA------------ACAGCTACAACAGCA-------------------------A---CA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBia1	scf7180000298389:212747-212915 -		AGCAGCAACAGCAGCAGCAGCAGCA---ACAGCAGCA------GCA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCA-------------------------G---CATGATAATGGACCAAC-GTCCCATCATTTGCATCAATCATCTATCAGCATCTCTAATCAGCAGA-------------------------------------------------ATAAAG---------------------------------CAACGCAACA------------------------------------------G-CAGCAACACCAAAAGCAACAA------CAG------CAACAGGCTGCCAACATGTCCG----------------------------------------------------------------------------------------------------------------------------------------C----
droTak1	scf7180000414445:72747-72852 -		AT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATTACAATTGAAGCA----------TGC--------------AATGGCATTGCGCGATGGTTTCGGGGGAGGGAGTGGGAACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGACTCGGGGTTCATTAAC-------CACAC--------------------TC-----GGCAA-------------CAGTGT----------------------GG--------------------------ATTT----
droEug1	scf7180000409524:27018-27223 -		GTGCACAGCTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAGTTGGCACTCGCATTCGAGTGGGACTTTCGCAGACTTTCCTTTTCGCTTGACTGCAGC----------------------------------------------------------------------------------------------AGCAACTCCAATAGCAACTGCA------------ACATCTACAACAGCA-------------------------A---CATAATTACAATTGAGGCA----------TGC--------------AATGGCATTG-GAGATGGA-TCGGGGGAGGG------AACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGACTTGGGGTTCATTAAC-------CACAC--------------------TC-----GGCAA-------------CAGTGTGT--------------------G------------------------------G----
dm3	chr3L:8634449-8634635 +		CACAT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCAAC----------------------------------------------------------------------------------------------AGCAACTGCAACATCAGTGAAA------------ACAACA------ACA-------------------------A---CATAATTACAATTGAAGCA----------TGC--------------AATGGCATTGGGGGATGGA-TCGGGGGAGGG-----CAACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGACTTGGGGTTCATTAAC-------CACGC--------------------TCAGTGTGGCAA-------------CAGTGT----------------------GG--------------------------ATTT----
droSim2	3l:8423824-8423919 +		T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCTGC----------------------------------------------------------------------------------------------AGCAGCAGCAACAACAGCAGCA------------GCAACTGCAACTGCA-------------------------A---CA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G------CAACTGCAG------------------------------------------------------------------------------------------------------------------------------------------------------------------A
droSec2	scaffold_0:912904-912987 +		T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCTGC----------------------------------------------------------------------------------------------AGCAGCAGCAGCAACAGCAGCA------------GCAACTGC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACTGCAG------------------------------------------------------------------------------------------------------------------------------------------------------------------A
droYak3	2L:4942966-4943110 +		AACATCAGCAGCAGCAACAGCAGCA---GCAACAGCA------GC---GGTCCAATG-------CATGCGTTTGAAA--------------TTA-------------------------------------------------------------------------------------------------------------------------------------------AAACTGAAGTTTTGCACGCTACATTGAAAGCAGCAA------------------ACGGAAAATGCAAC--------------------------------------------------------------------AGCAACAGCA------ACAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAG---CAACTAGAAGCCAA-----------------------------------------------------------------------------------------------------------------------------------------------------
droEre2	scaffold_4784:5410482-5410650 -		T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGTTGC----------------------------------------------------------------------------------------------AGAAAGAGCAACAGCAGCAGCAGCAGCCGCAGCAGCAACT------GCA-------------------------A---CATAATTACAATCGAAGCA----------TGC--------------AATGGCATAGCGGGATGGA-TCGGCGGAGGG-----CGACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGACT-GGGGTTCATTAAC-------CACA--------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

ATCATCAGCAGCAGCAGCAGCAACA---AGAGGAGGA------GGAGCAATACGATGATGTAAGTACACATTTAAAG--------------CCATAACA---------------------------------------------------------------------------------------------------------------------AGT------------TCGAGTTCGACTTTCGCGCACTTTCCTTTTCGCTTTGCTA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATAATTACAATTGAGGCA----------TGC--------------AACA-----------------------------------------------------------------------------------------------------------------------------------------------------------ACCA------------GCAACAGCAACAGCAACAG---CGGTGGGAGACCAAGATATTTG------CAGAGTTCATTCACATTTATTCAACC--------------------TC-----------------------------------------------------AGTTTCAGTCTCAGTCTCAGTTTCAGTTTTCAGA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
........CAGCAGCAGCAGCAACA---AG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0

droVir3

ACCAGCAGCTGCAGCAGCAGCAGGC---CGAGGAGGA------GGAGCAATACGATGATGTAAGTT---------GG--------------CCATAACG---------------------------------------------------------------------------------------------------------------------TGT------------TCGAACTC----------------CACTTCAGGTTGACAGCAGC----------------------------------------------------------------------------------------------AGCAGCCGCCGCAGCGGCGC-------------------T------GCTTTCGCTTTCGCCAAACAATGCTGCCAGCGCATAATTACAATTGAAGCA----------TGC--------------AGCGG--------------------GGAGAG--------AT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT-G-CCCGTAGAGTTCATTAAC-------CAA-----------------------C-----AGCCA-------------CAATGC----------------------ACAGCTCCAGCTCTAGCCCCAGCTCTAG--------	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
........................................................................................................................................................................................................................................CGAACTC----------------CACTTCAGGTTGAC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................AGCAGC----------------------------------------------------------------------------------------------AGCAGCCGCCGCAGC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droMoj3

AACAACAACAGCAGCAGCAGCAACA---ACAGCAGCA------GCATCAACAGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CAGC--AGCAGCCGCCTCATC-----CCAGCGACATTGTGACCATAACCACGGCAGGAGTGGGGAGCGCGGGCTCGATCGTCTCCGCTGCTGTGCAGCAGCAGCAGCAACAGCAACAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGCAG---CTGCTGAGCATCAA-----------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
...............................................................................................................................................................................................................................................................................................................................CACGGCAGGAGTGGGGAGCGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
.................CAGCAACA---ACAGCAGCA------GCATCAACAGC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0
.........................................................................................................................................................................................................................................................................................................................................................................TGTGCAGCAGCAGCAGCAAC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	3	0.33	1	0	0	0	0	1	0
......................ACA---ACAGCAGCA------GCATCAAC..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	4	0.25	1	1	0	0	0	0	0
............................ACAGCAGCA------GCATCAACAGC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	8	0.13	1	1	0	0	0	0	0
...................................................AGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CAGC--AGCAGCCGCCTCAC..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	8	0.13	1	0	0	0	0	1	0
...................................CA------GCATCAACAGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CAGC--AGC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	19	0.11	2	2	0	0	0	0	0
..................AGCAACA---ACAGCAGCA------GCATC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	13	0.08	1	0	0	0	1	0	0
..................................GCA------GCATCAACAGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CAGC--................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	18	0.06	1	1	0	0	0	0	0
..................................GCA------GCATCAACAGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	19	0.05	1	0	0	0	1	0	0
....................................A------GCATCAACAGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
...AACAACAGCAGCAGCAGCAACA---ACAGCA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	28	20	0.05	1	1	0	0	0	0	0
................................................AACAGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CAGC--AGCAGCCG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0
....................................A------GCATCAACAGCAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG--CAGC--AGCA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0
......AACAGCAGCAGCAGCAACA---ACAGCAGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	20	0.05	1	1	0	0	0	0	0

droGri2

AGCAGCAACAGCAGCAGCAACACAAACTCGA------------ACAGCAGCGCA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGGAGAAGGAGCATGTGCTGAGCTTCAAGAAGCGGCGACTCTCCAAGCAGAAGTCCGTGGAACACATGGACTGCTGCACTCTATCTGCAGCAGCAGCAGCAGCAACAGCAACAACAGCAGCAGCAGCAGCAGCAACAACCA------------GCAACAAC------AG------CAGC--------------------------------------------------------------------------------AGCAACGCTTGCCAGCAGCAACCAGAACTTGCAACCATCTCCGTCAGCTTCAGTTTCCGTCTCTGCCTC----------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTCCGTCAGCTTCAGTTTCCGTCTC................	26	2	0.50	1	1	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACCATCTCCGTCAGCTTCAGTTTCCG....................	27	2	0.50	1	1	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGCAGCAGCAGCAGCAACAACC......................................................................................................................................................................................................	24	16	0.06	1	1	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGCAGCAGCAACAGCAA...................................................................................................................................................................................................................................	19	20	0.05	1	1	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAGCAGCAGCAACAGCAACAACAG.............................................................................................................................................................................................................................	26	20	0.05	1	1	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAGCAGCAGCAGCAACAAC.......................................................................................................................................................................................................	21	20	0.05	1	1	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCA------------GCAACAAC------AG------CAGC--------------------------------------------------------------------------------AGCA...........................................................................	21	20	0.05	1	0	1
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAGCAGCAGCAACAGCAACAACAGCA...........................................................................................................................................................................................................................	28	20	0.05	1	1	0

dp5

AGCAGCAGCAGCAGCAGCGGCAGCA---GCAGCAGCAGGAGGAGGAGGAGTACGATGACGTAAGTT---------TGGGGTCCAACAAATCCCATAACGAGTTCGAATCC---------------------------------------------------------------------------------------------------GAATTCGAGT------------TCGAGTTCGATGTTCGCGCACTTTCCTTTTCGCTTCAGTGCCGC----------------------------------------------------------------------------------------------A-------------------------------------------------------------------------A---CATAATTACAATTGAGGCA----------TGC--------------AACA--------------A-------------------------------------------------ACAGAG---------------------------------CGGGGCAGGGGCAGGGGCAGGGGCAGG------------------------------------------GGGGGG------CAG---------TAGGAGGCGGTGTTAGTCGTTGACTTGGGGTTCATTAAC-------CACACAGCTTCCAGTGGTCGCAGCATC-----AGCAG-------------CAG-----------------------------------------------CTGTGGTTTTTGGC	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
......................GCA---GCAGCAGCAGGAGGAGG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0	0	0	0
........................A---GCAGCAGCAGGAGGAGGAGG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

CCTACCAGCAGCAGCAGCAGCAGCA---GAAGCAGTA------GCAACAATGAA-----------------------------------------------TTGTAATAACAATACAC---------------------------------------------------------------------------------------------------AT------------GCAACTGCC-----------------------------------------------ACGGCCACTGCCAC--------------------------------------------------------------------TGCCACTGCA------ATA------------------------------------------------------------ACAATTGCAATTAAAATG----------CGT--------------G----------------------------------------------------------------------------------------------------------------------------------------------------TGCAAAAACAACAA------------GCAACAG------------CAGCAAC--------------------------------------------------------------------------------AA----------------T-------------------------------------------------------A----	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
....CCAGCAGCAGCAGCAGCA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0
.......GCAGCAGCAGCAGCAGCA---GAAGC....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0

droAna3

AGCTGCAGCAGCAACAGCAGGAGGA---GGA------------GGAGCAGTACGATGATGTAAGTT---------T-----TGAA----------------------------TACACTGTGTTTATAGTGTGAGTTTCAGATGGTAAC-TGCTTGAAGAAATAGTCTTGAAGAAAAAGTACATGTAGACTAGAGTTTCTCCAAGTGTAGATCTTGAGT------------TCGAACTC-GCTTTCGCGCACTTTCCTTTTCGCTTCACTGCAGC----------------------------------------------------------------------------------------------AGCAACTGCAACAGCAACAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATAC---CAATAG-------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
........CAGCAACAGCAGGAGGA---GGA------------GGA.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	3	0.33	1	1	0	0	0	0	0
...............AGCAGGAGGA---GGA------------GGAGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	7	0.29	2	2	0	0	0	0	0
..............CAGCAGGAGGA---GGA------------GGAGCA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	4	0.25	1	1	0	0	0	0	0
.......GCAGCAACAGCAGGAGGA---.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	4	0.25	1	1	0	0	0	0	0
...............AGCAGGAGGA---GGA------------GGAGC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	9	0.11	1	0	0	0	0	0	1
....GCAGCAGCAACAGCAGGA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	9	0.11	1	0	1	0	0	0	0
................GCAGGAGGA---GGA------------GGAGCA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	9	0.11	1	1	0	0	0	0	0

droBip1

AGCTGCAGCAGCAACAGCAGGAGGA---AGA------------GGAGCAGTACGATGATGTAAGTT---------T-----TTAA----------------------------TACACTTT-AAAATATTGGGGGTATCAGATTTA-TCAAGTTTGAAGAAATAGTCCTCAAGAAAAACTACAAATAGTGGGTAGTTTCGCTCAGTGCAGATCTTGAGT------------TCGAACTC-GCTTTCGCGCACTTTCCTTTTCGCTTCACTGCAAC----------------------------------------------------------------------------------------------TGCAACAGCAACAGCAATACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATAG---CAAT---------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CAAAACAAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTTTGACTTTCGCACACTTTCCTTTTCGCTTCACTGCAGCAA----------AAGT------------------------------------------------------------------------------AGCAGCAGCAGCAACAGTAACA------GTAGCAACAACTAC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG---CAGT------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGGCTTTCGCGCACTTTCCTTTTCGCTTCACTGCAAC----------------------------------------------------------------------------------------------AGCAGCAGCAGCAACAACTGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAG---C------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCAGC----------------------------------------------------------------------------------------------AGCAGCAGCAACAGCAACTGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAG---C------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCAGC----------------------------------------------------------------------------------------------AGCAACTGCAGCAGCAACAGCA------------ACAGCTACAACAGCA-------------------------A---CA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AGCAGCAACAGCAGCAGCAGCAGCA---ACAGCAGCA------GCA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCA-------------------------G---CATGATAATGGACCAAC-GTCCCATCATTTGCATCAATCATCTATCAGCATCTCTAATCAGCAGA-------------------------------------------------ATAAAG---------------------------------CAACGCAACA------------------------------------------G-CAGCAACACCAAAAGCAACAA------CAG------CAACAGGCTGCCAACATGTCCG----------------------------------------------------------------------------------------------------------------------------------------C----	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATTACAATTGAAGCA----------TGC--------------AATGGCATTGCGCGATGGTTTCGGGGGAGGGAGTGGGAACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGACTCGGGGTTCATTAAC-------CACAC--------------------TC-----GGCAA-------------CAGTGT----------------------GG--------------------------ATTT----	Size	Hit Count	Total Norm	Total
No Reads

droEug1

GTGCACAGCTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAGTTGGCACTCGCATTCGAGTGGGACTTTCGCAGACTTTCCTTTTCGCTTGACTGCAGC----------------------------------------------------------------------------------------------AGCAACTCCAATAGCAACTGCA------------ACATCTACAACAGCA-------------------------A---CATAATTACAATTGAGGCA----------TGC--------------AATGGCATTG-GAGATGGA-TCGGGGGAGGG------AACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGACTTGGGGTTCATTAAC-------CACAC--------------------TC-----GGCAA-------------CAGTGTGT--------------------G------------------------------G----	Size	Hit Count	Total Norm	Total
No Reads

dm3

CACAT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCAAC----------------------------------------------------------------------------------------------AGCAACTGCAACATCAGTGAAA------------ACAACA------ACA-------------------------A---CATAATTACAATTGAAGCA----------TGC--------------AATGGCATTGGGGGATGGA-TCGGGGGAGGG-----CAACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGACTTGGGGTTCATTAAC-------CACGC--------------------TCAGTGTGGCAA-------------CAGTGT----------------------GG--------------------------ATTT----	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGC--------------------TCAGTGTGGCAA-------------CAGTGT----------------------GG--------------------------ATT.....	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGGATGGA-TCGGGGGAGGG-----CA..................................................................................................................................................................................................................................................................................................................................	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGGGGATGGA-TCGGGGGAGGG-----CA..................................................................................................................................................................................................................................................................................................................................	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	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
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGGA-TCGGGGGAGGG-----CT..................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................C--------------AATGGCATTGGGGGATT.......................................................................................................................................................................................................................................................................................................................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCTGC----------------------------------------------------------------------------------------------AGCAGCAGCAACAACAGCAGCA------------GCAACTGCAACTGCA-------------------------A---CA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G------CAACTGCAG------------------------------------------------------------------------------------------------------------------------------------------------------------------A	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
..........................................................................................................................................................................................................................................................................................................................................................................................AACAACAGCAGCA------------GCAACT............................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	6	0.17	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................CAACAGCAGCA------------GCAACTG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	19	0.11	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................GCAACAACAGCAGCA------------GC................................................................................................................................................................................................................................................................................................................................................................................................................................................................	17	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................AGCAGCAACAACAGCAGCA------------GCA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0

droSec2

T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGCTGC----------------------------------------------------------------------------------------------AGCAGCAGCAGCAACAGCAGCA------------GCAACTGC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACTGCAG------------------------------------------------------------------------------------------------------------------------------------------------------------------A	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droYak3

AACATCAGCAGCAGCAACAGCAGCA---GCAACAGCA------GC---GGTCCAATG-------CATGCGTTTGAAA--------------TTA-------------------------------------------------------------------------------------------------------------------------------------------AAACTGAAGTTTTGCACGCTACATTGAAAGCAGCAA------------------ACGGAAAATGCAAC--------------------------------------------------------------------AGCAACAGCA------ACAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAG---CAACTAGAAGCCAA-----------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M026 Head	M043 Female-body	M056 Embryo	V046 Embryo	V052 Head	V058 Head	V120 Male-body	SRR1275488 Male larvae	SRR1275486 Male prepupae	SRR1275484 Male prepupae	GSM1528802 follicle cells
..........................................................................................................................................................................................................................................................................................................AAC--------------------------------------------------------------------AGCAACAGCA------ACAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAC........................................................................................................................................................................	21	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0
.......GCAGCAGCAACAGCAGCA---GCAAC....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
AACATCAGCAGCAGCAAC...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
AACATCAGCAGCAGCAACA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................CAGCA------ACAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACAG---CAAC...............................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0	0	0	0	0	0
......AGCAGCAGCAACAGCAGCA---GCAACAGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0

droEre2

T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGAGTGGGACTTTCGCGCACTTTCCTTTTCGCTTCACTGTTGC----------------------------------------------------------------------------------------------AGAAAGAGCAACAGCAGCAGCAGCAGCCGCAGCAGCAACT------GCA-------------------------A---CATAATTACAATCGAAGCA----------TGC--------------AATGGCATAGCGGGATGGA-TCGGCGGAGGG-----CGACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGACT-GGGGTTCATTAAC-------CACA--------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.......................................................................................................................................................................................................................................................................................................................................................................................AGCAACAGCAGCAGCAGCAGCC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	15	0.07	1	0	1	0	0	0	0	0

dwi_655

scf2_1100000004511:8263195-8263345 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads