dwi_512

Name	Class	Family	Strand
(TTCA)n	Simple_repeat	Simple_repeat	+
(TATATG)n	Simple_repeat	Simple_repeat	+

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## TCTCTAGCAATTCACTTCCATGTTGGCATCCATTCATGCATTTATTGATTCATTCATTCTTTTTTACTCACGCAACCAATTTCAATACCAATTACCATAAACACATCTGTACATTCAAATATATGTATACATATATGTATATGTATGTGTATGTGTATGTTATTATAATTATCGTTTTCCTTACTCTTCTCACTCTTACAGGCGCCGGTGAATCTGGCAAATCAACTATAGTCAAACAGATGAAGATTATA ************************************************.......................................(((((..((((((((((...(((((.((.(((((((((....))))))))).)).))))).))))))...))))..)))))...............................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M020 head
..............................................................................................................................................................................................................GGTGAATCTGGCAAATCAAC.........................	20	0	1	1.00	1	1

AGAGATCGTTAAGTGAAGGTACAACCGTAGGTAAGTACGTAAATAACTAAGTAAGTAAGAAAAAATGAGTGCGTTGGTTAAAGTTATGGTTAATGGTATTTGTGTAGACATGTAAGTTTATATACATATGTATATACATATACATACACATACACATACAATAATATTAATAGCAAAAGGAATGAGAAGAGTGAGAATGTCCGCGGCCACTTAGACCGTTTAGTTGATATCAGTTTGTCTACTTCTAATAT ************************************************.......................................(((((..((((((((((...(((((.((.(((((((((....))))))))).)).))))).))))))...))))..)))))...............................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M045 female body
..................................................................................................................................................................................GGAATGAGAAGTGTGAGAAAT....................................................	21	3	10	0.10	1	1
.........................................................................................................................................................................................................CGCCGCGACCTAGACCGTTT..............................	20	3	12	0.08	1	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004511:2375222-2375472 +	dwi_512	TCTCTAGCAATTCACTTCC----ATGTTGG-------------------------------------------------------------------CATCCATTCATGCATTTATTGA----------------TTC----ATTCA--TTCTTTTTTAC-------------------------TCACGCAACCAATTT-------------------------CAATACCAATT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCATA--------------------------------------------------------------------------------AACACATCTGT------ACATTCAAATATATGT------AT--ACATATATGT--A-------------TATGTATGTGTATGTGTATGT--------------------------------------------------------------------------------------T-ATTATA-ATTAT---CGTTTT--------------------C------------------CTT-ACTC-TTCTCACTCTTACAGGCGCCGGTGAATCTGGCAAATCAACTATAGTCAAACAGATGAAGATT----------------ATA
droVir3	scaffold_13049:7328939-7329160 -	dvi_18801	TCCAGTC--ATTCATTC------A----------------------------TTC---------------------------------------------------------------ATTCATTGG----CG----CTTTT--------------TA------------------C------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCATGACACAGACCATTCCCGATTACAAATTC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAT--------TGTTTGCTGTTTGAC----------------------------------------------AGGGGTCACGCCTACTAGAGCCAACATCCGTCCATGCACATTTGCA----CA---A------TTGT-AA-T--TGTTGT-------------------------TTTGTTTTTGGTTCATT-------------------TGCAGGCGCCGGCGAATCCGGCAAATCGACCATAGTCAAACAGATGAAGATC----------------ATC
droMoj3	scaffold_6540:24421360-24421549 -		TCACTAACTAAACATTT------CT---------------------TGTTGT---CG----------------------------------------CATGCCTTAACCCATTTTCTAA----------------CCA----CATT-G-CTTTGC------TC-------------------AATTTGTCTTACAAATTC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CATGACTTTGACTTCCATA--------------------------------------------------------------------------------TATATATATATATATATATATATATATATATAT------------ATATATAT--A-------------TATATATGTATATCTA---------------------------------------------------------------------------------------TATGTATTTAT--------------------------ATATT--------------------------------------------------------------------------TGATTTT----------TTTT----------------TCT
droGri2	scaffold_15110:5213467-5213668 +		ACTCACACACTCC-CAC------G----------------------------CAT-------------------------------------------------------------------------------------AC--------------CA------------------ATACTA-----------------------------------------------------------ACCC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACACACA--CACAT----ATACATATACATATATAT------AT--ATATACATGT--A-------------TATATATGTACATATACGAGCTGCTAAGTGACTCTTGGCTT-----------------------------------------------------------------------------T--TGTTAT-------------------------TCTGGCTCTGCCTGCCT-------------------TTGAAGCGGTGGCAGCAACGGCAGA-----------AAAACTGAAGTATATTGTTAACAGGATATATAATA
dp5	Unknown_singleton_2681:1316-1497 -		CTAGTAATTTTTCTTTC------ACGTTTGC------------------------------------------------------------------CTTCTTTTTATAT---TATTA--------------------------TCCTATTTTTT--------TCTATTCTTTCCAATTTAA-----------------------------------------------------------TTTCTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAGTCCTAT------------------------------------------------------------------------------------------------------------ATACAT------AT--ACATATACAT--T-------------TATACCTAGATATAA----------------------------------------------------------------------------------------------------AT-T--TG----------TTATTATTTCCTCTTTC-------------------TTTT--TTT-AA-------------------------------------------------------TTAC----------------TTT
droPer2	scaffold_720:1559-1740 -		CTAGTAATTTTTCTTTC------ACGTTTGC------------------------------------------------------------------CTTCTTTTTATAT---TATTA--------------------------TCCTATTTTTT--------TCTATTCTTTCCAATTTAA-----------------------------------------------------------TTTCTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAGTCCTAT------------------------------------------------------------------------------------------------------------ATACAT------AT--ACATATACAT--T-------------TATAACTAGATATAA----------------------------------------------------------------------------------------------------AT-T--TG----------TTATTATTTCCTCTTTC-------------------TTTA--TCT-AA-------------------------------------------------------TTAC----------------TTT
droAna3	scaffold_13417:3024822-3025038 +		CATCTAGCAGTTACCAT------ATCTTTGG-----------AATA------CA-------------------------------------------CATCCACCATTGAAATCTCC------------------------------G-ATTTTC------CA-------------------CATTTATTTTTGAG-------------CTTCTGTGATTTTCGCCAATAAAAATAAAGAT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------C--------------------------------------------------------------------------------AAAACATATTG------ATATTCA-ATATTTCA------AT--ATAAA---------------------TAAGA--------TTAATTGTTCTTGAGT---------ATATTTCTAC------------------------------------------------------------------A-GAGAT---TTATTT--------------------A------------------CCA-AACC-GTTTCAAACAGCCAGATCCCTATGA-------------------------------------------------------A
droBip1	scf7180000394896:26014-26202 -		ATCTATTTA-TTTGTTT------A----------------------------TTT---------------------------------------------------------------ATTTATTCATCTATTAATTT----ATATA-------------------------------------------------------------------------------------------------------TTTTGGTTATTGTTATATATGGTATAC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATATTTATTTAT----------------------------------------------------------------------------------GTATATATTTGT------GT----------AT--T-------------GATA---------------------------------------------------------------------------------------------------TATTTATTTAA-AT-TTT---GGTATT--------------------CCTTAGTGTTCAGCTTTTA---------------TTCATTCATTTGTGTAT-----AAATATATTAACCAAAGTAAGGCAGA---------------------------
droKik1	scf7180000302577:35516-35685 +		TTTCTTTGTTTCCTTTT------ACTTTTGC------------------------------------------------------------------A-------------------------------------------------------------------------------------------------------------------------------CAAAATAAATTTAAAT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A--------------------------------------------------------------------------------AAAATATTTTA------ACATT------------------------------------------------------------TTAAATACCCTTAAAT---------TCCGTTTTATATTAATAACCCT------------------------------------------------------------------------------------------T------------------TCC-CATT-TCTTCATTCTTTTAGGTGCCGGCGAATCTGGCAAATCCACGATAGTAAAACAGATGAAAATC----------------ATC
droFic1	scf7180000454066:1349714-1349854 -		CCATACACTTATGTA-T--CTCC-----------------------ATGCAT---CACTAACT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT--------------GTTCTGTATCTGTATCTGTATCTCTA---ACTGT--------------------------AACTGTATCTTTTTCC-------------------T----------------CCTCTAGGTGCCGGTGAATCGGGCAAGAGCACAATAGTCAAACAGATGAAAATC----------------ATT
droEle1	scf7180000486688:25926-26161 +		TCCCTTCTAAATACACA------ATTTTTAA---------------------------------------------------------------------------------------------------------------------ATTGTAT--------TC------------------------------------------------------------------------------------------------------GTTGAAGT-AGTAACAGGTAGAAGAAATATACATTAAATTAAGGCGTAATAAGAACAAAAACACTTTTAAACTAAATTTTGATAATTT--------------------------------------------------------------------------ACACTTCTAACCATATGT----------------------------------------------------------------------ATACATA--T----ATATATATATATATATATATATATATATAT--------ATATATA-------------TATA--TATACATATAT--------------------------------------------------------------------------------------------------AT-A-----------TAGATATTATATATATATTT-------------------TT------------------------------------------------------------TATTAATTT----------------TTT
droRho1	scf7180000758994:50346-50547 -		TCTCTGCGAATTAATTT------AATAAAGTATCATCATTCAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACT----------------------------------------------------------------------------ACAAACAGTTGTTCAATTCAACTACTTTCTTATTATTTACTTTAATTCATTGTTTAATTGTTTCTCAAATACATATTA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATA--------TATGTATTATATATCTTA--------TG--------------------------------------TATTTCGGTTTAAAATCTATGTACAA----------------------------C-ATTTAA-TTAAC---CGCTT-------------------TC-------------------TAAA--CCT-TT-------------------------------------------------------TTTA----------------TTC
droBia1	scf7180000301350:26565-26793 -		TCTATTTTTTTTTGTTT--TTTC-----------------------TTTTTT---TT-----------------------------------------------------------------------------------------------------------------------------G----------------------------------------------ATTCAGAAATATATATATATATTTTGTATATTTTTTCATTGGCAATACGTAATA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATTTAAGAAAATTAAAGTGAATATCAAATAAATATTTTAATCTAACCTTATGTACGAGTACTGT--------TTGTTT------CTTTT------------------------------------------------------------TTTATTACTTAAAATT---------ACTATT-------------------------------------------------------------------------TTAT---CTTTTT--------------------C------------------TCT-TACA-CTTTTAACCTTATAGGACCCAGTATA----------------------------------------------------TTT
droTak1	scf7180000415714:1197-1362 +		TCATTAATTATAGTT-T--TCCC-----------------------TGATGT---TGGAAGCTTTTTTTCAAAGCCTTCTATATTGTTGGTTTT----------------------------------------------------------------------------------------------------AAATTTCAAATCGAACTTCTATATTTAATGCGAATGTTCAGAAAGCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAT------------------------------------------------------------------------------------------------------------ATGTAC------AT-----TGTA------CATATATTAGATATATGA--------TGGGATGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTTAAACT----------------TAT
droEug1	scf7180000409752:1112080-1112288 +		TAAATTGGAACTCAA-G------A----------------------------CCTGAGAATCCATCTAACAAATACCTAAATAATGTAATTTATTGGCTTGGGTTGATGC---TAAGA--------------------------TATTAATACCC--------TTTACTCTTTGGG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAAGAGGTGTTGATGTATTTATTCAAA----AAGATATAGCAG---AT----------------------------AGAATAAATAAA----------------------------------------------------------------------------------------AGATAT------AT--ATGTATATGT--A-------------TATGT--------TAG---------------------------------------------------------------------------------------------ATTAGG-GTTAA---GGTTTT--------------------C-------------------------------------------------------------------------------------CATA----------------TTC
dm3	chr3R:10724186-10724334 +		TTATTTCCA-TTAAAGC------ATA----------------------------T---------------------------------------------------------------TCGAAAATTTGCTTTAATTC----ATATA--TTTATATTTGCTTT-------------------A----------------------------------------------AT------------TC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATATATA--T----ATATATATATATATATATATAT------AT--ATATATATAT--A-------------TATGTATATATATATATA--------------------------------------------------------------------------------------------------T-A-----------TAATTAT---------------------------------------------------------------------------------CAAAGTTA----------TAGT----------------TTT
droSim2	2r:2538051-2538211 -		TTTTCAAGAAATCAAAT------AGAAAAAG--------------------------------------------------------------------------------------------------CTTTTTATT----ATT--------TT--------TTTAATTTTTCCATAATTT-----------------------------------------------------------TTATTTTTGTGTTAGGCACC-------------------------------------------------------------------------------------------------------------------------GCCCCATT-----------------------------------------AGTACTAA------------------------------------------------------------------------------------------------------------ATATAT------AT--TCTTATAAGT--A-------------TACACTTGTA------T----------------------------------------------------------------------------------AGCTTGTTC-TCCAGA-ACCAT---TGTTT------------------------------------------------------------------------------------------------------TTGAAAATC----------------TTC
droSec2	scaffold_4:1780803-1780956 -		CATCCGTTCGTTTACAC------ACATTGAT-------------------------------------------------------------------------------------------------TTAGT-------------------------------------------------A---------------------------------------------------------------------ATTCGTAAT-------------------------------------------------------------------------------------------------------------------------GATCTTTA-----------------------------------------TGTACTATA--------------------------------------------------------------------------------TATATATTTAT------ATATATATATATATAT------ATATATATATATAT--A-------------TATATGTGTGTATATATATTCTGTTATGT---------TCTTTTTTAT------------------------------------------------------------------T-GTG-------------------------------------ATT----------------------------------TCGCT-----------------------------------------T----------------ACA
droYak3	v2_chr2L_random_028:755797-755971 +		TAGAAAAACACCAAC--------GTG--------------CAATTA------TAC---------------------------------------------------------------ATACACCTA----CG----TGTAC--------------CA------------------A------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTATTACACAAACAAAAAATCAATATACATTA-ATTTTT----TGTGCCAATAATATGTGTATACCAT--------------------------------------------------------------------------------------------------------------------GGGTAA------AT--ATATGTATAT--A-------------TATACTTGAA------T----------------------------------------------------------------------------------GATGCACTTGTTTGG-GA-A--TGTTAT-------------------------TTTGT-------------------------------------------------------------------------------TATT----------------GTT
droEre2	scaffold_4770:6046914-6047100 -		CATACATACATACATAC------ATACATAC------------------------------------------------------------------ATACATACA-------------------------TA----CATACATACATACATACA--------TACATACATACATACATAC-----------------------------------------------------------A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TA--------------------------------------------------------------------------------CATA--------------------CATACATAC------ACATACATACACAC--A-------------TACATACATACACACATA--------------------------------------------------------------TATACATACATACATT-------------CCTAAC-GTG---------------AAAAATATATTTGATC-------------------T--------TAGTGATTCTTAGGTGCGCTGGT----------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

TCTCTAGCAATTCACTTCC----ATGTTGG-------------------------------------------------------------------CATCCATTCATGCATTTATTGA----------------TTC----ATTCA--TTCTTTTTTAC-------------------------TCACGCAACCAATTT-------------------------CAATACCAATT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCATA--------------------------------------------------------------------------------AACACATCTGT------ACATTCAAATATATGT------AT--ACATATATGT--A-------------TATGTATGTGTATGTGTATGT--------------------------------------------------------------------------------------T-ATTATA-ATTAT---CGTTTT--------------------C------------------CTT-ACTC-TTCTCACTCTTACAGGCGCCGGTGAATCTGGCAAATCAACTATAGTCAAACAGATGAAGATT----------------ATA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGAATCTGGCAAATCAAC.........................................	20	1	1.00	1	1	0	0	0	0

droVir3

TCCAGTC--ATTCATTC------A----------------------------TTC---------------------------------------------------------------ATTCATTGG----CG----CTTTT--------------TA------------------C------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCATGACACAGACCATTCCCGATTACAAATTC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAT--------TGTTTGCTGTTTGAC----------------------------------------------AGGGGTCACGCCTACTAGAGCCAACATCCGTCCATGCACATTTGCA----CA---A------TTGT-AA-T--TGTTGT-------------------------TTTGTTTTTGGTTCATT-------------------TGCAGGCGCCGGCGAATCCGGCAAATCGACCATAGTCAAACAGATGAAGATC----------------ATC	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
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGTCAAACAGATGAAGATC----------------ATC	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCGAATCCGGCAAATCGAC.........................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................T--TGTTGT-------------------------TTTGTTTTTGGT...............................................................................................	19	5	0.20	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	1

droMoj3

TCACTAACTAAACATTT------CT---------------------TGTTGT---CG----------------------------------------CATGCCTTAACCCATTTTCTAA----------------CCA----CATT-G-CTTTGC------TC-------------------AATTTGTCTTACAAATTC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CATGACTTTGACTTCCATA--------------------------------------------------------------------------------TATATATATATATATATATATATATATATATAT------------ATATATAT--A-------------TATATATGTATATCTA---------------------------------------------------------------------------------------TATGTATTTAT--------------------------ATATT--------------------------------------------------------------------------TGATTTT----------TTTT----------------TCT	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

ACTCACACACTCC-CAC------G----------------------------CAT-------------------------------------------------------------------------------------AC--------------CA------------------ATACTA-----------------------------------------------------------ACCC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACACACA--CACAT----ATACATATACATATATAT------AT--ATATACATGT--A-------------TATATATGTACATATACGAGCTGCTAAGTGACTCTTGGCTT-----------------------------------------------------------------------------T--TGTTAT-------------------------TCTGGCTCTGCCTGCCT-------------------TTGAAGCGGTGGCAGCAACGGCAGA-----------AAAACTGAAGTATATTGTTAACAGGATATATAATA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

dp5

CTAGTAATTTTTCTTTC------ACGTTTGC------------------------------------------------------------------CTTCTTTTTATAT---TATTA--------------------------TCCTATTTTTT--------TCTATTCTTTCCAATTTAA-----------------------------------------------------------TTTCTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAGTCCTAT------------------------------------------------------------------------------------------------------------ATACAT------AT--ACATATACAT--T-------------TATACCTAGATATAA----------------------------------------------------------------------------------------------------AT-T--TG----------TTATTATTTCCTCTTTC-------------------TTTT--TTT-AA-------------------------------------------------------TTAC----------------TTT	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
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAG...............................................................................................................................................................................................................................................................................................................................................................................................................................	25	3	1.00	3	0	3	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAA................................................................................................................................................................................................................................................................................................................................................................................................................................	24	3	1.00	3	0	3	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................AT---ATTCTCTACACCTAAGTCCTAT------------------------------------------------------------------------------------------------------------A............................................................................................................................................................................................................................................................................................................	25	3	0.67	2	0	0	0	0	0	0	0	0	2	0
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAGTT.............................................................................................................................................................................................................................................................................................................................................................................................................................	27	3	0.67	2	0	2	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCT..................................................................................................................................................................................................................................................................................................................................................................................................................................	22	3	0.67	2	0	1	1	0	0	0	0	0	0	0
..............TTC------ACGTTTGC------------------------------------------------------------------CTTCTTTTTATAT---TAT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	6	0.50	3	0	0	0	0	0	0	0	3	0	0
.............TTTC------ACGTTTGC------------------------------------------------------------------CTTCTTTTTAT....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	6	0.50	3	0	3	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAGA..............................................................................................................................................................................................................................................................................................................................................................................................................................	26	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAGT..............................................................................................................................................................................................................................................................................................................................................................................................................................	26	3	0.33	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................TT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAG...............................................................................................................................................................................................................................................................................................................................................................................................................................	26	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................TCTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACC...................................................................................................................................................................................................................................................................................................................................................................................................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................T---ATTCTCTACACCTAAGTCCTAT------------------------------------------------------------------------------------------------------------.............................................................................................................................................................................................................................................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAGTC.............................................................................................................................................................................................................................................................................................................................................................................................................................	27	3	0.33	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................TACGCCAT---ATTCTCTACACCTAAG...............................................................................................................................................................................................................................................................................................................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................TACGCCAT---ATTCTCTACACCTAAGTCC............................................................................................................................................................................................................................................................................................................................................................................................................................	27	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................TACACCTAAGTCCTAT------------------------------------------------------------------------------------------------------------ATACAT------AT--ACATA........................................................................................................................................................................................................................................................................................	29	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTA.................................................................................................................................................................................................................................................................................................................................................................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................CTCTACACCTAAGTCCTT..........................................................................................................................................................................................................................................................................................................................................................................................................................	18	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................TATTTTTT--------TCTATTCTTTCCAATT.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	5	0.20	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................TAA-----------------------------------------------------------TTTCTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTC.........................................................................................................................................................................................................................................................................................................................................................................................................................................	24	5	0.20	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................TCCTAT------------------------------------------------------------------------------------------------------------ATACAT------AT--ACATATACAT--T-------------TA.................................................................................................................................................................................................................................................................	27	5	0.20	1	0	0	0	0	0	0	0	1	0	0
...................................................................................................................................................................................TAA-----------------------------------------------------------TTTCTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTA.......................................................................................................................................................................................................................................................................................................................................................................................................................................	26	5	0.20	1	0	1	0	0	0	0	0	0	0	0
.TAGTAATTTTTCTTTC------ACGTTTG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	6	0.17	1	0	0	0	0	0	0	0	1	0	0
.............TTTC------ACGTTTGC------------------------------------------------------------------CTTCTTTT.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	6	0.17	1	0	1	0	0	0	0	0	0	0	0
.............TTTC------ACGTTTGC------------------------------------------------------------------CTTCTTTTTATAT---...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	6	0.17	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................TTTTTT--------TCTATTCTTTCCAAT..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	6	0.17	1	0	0	0	0	0	0	0	1	0	0
..............TTC------ACGTTTGC------------------------------------------------------------------CTTCTTTTTATA...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	6	0.17	1	0	0	0	0	0	0	0	1	0	0
.......................................................................................................................................................................TTCTTTCCAATTTAA-----------------------------------------------------------TTTCTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	7	0.14	1	0	1	0	0	0	0	0	0	0	0

droPer2

CTAGTAATTTTTCTTTC------ACGTTTGC------------------------------------------------------------------CTTCTTTTTATAT---TATTA--------------------------TCCTATTTTTT--------TCTATTCTTTCCAATTTAA-----------------------------------------------------------TTTCTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAGTCCTAT------------------------------------------------------------------------------------------------------------ATACAT------AT--ACATATACAT--T-------------TATAACTAGATATAA----------------------------------------------------------------------------------------------------AT-T--TG----------TTATTATTTCCTCTTTC-------------------TTTA--TCT-AA-------------------------------------------------------TTAC----------------TTT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.......................................................................................................................................................................................................................................................T--------------------------------------------------------------------------------------------------------------------------------------------------------------TACGCCAT---ATTCTCTACACCTAAG...............................................................................................................................................................................................................................................................................................................................................................................................................................	25	12	0.08	1	0	1	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................AT---ATTCTCTACACCTAAGTCCTAT------------------------------------------------------------------------------------------------------------A............................................................................................................................................................................................................................................................................................................	25	12	0.08	1	0	1	0	0	0	0

droAna3

CATCTAGCAGTTACCAT------ATCTTTGG-----------AATA------CA-------------------------------------------CATCCACCATTGAAATCTCC------------------------------G-ATTTTC------CA-------------------CATTTATTTTTGAG-------------CTTCTGTGATTTTCGCCAATAAAAATAAAGAT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------C--------------------------------------------------------------------------------AAAACATATTG------ATATTCA-ATATTTCA------AT--ATAAA---------------------TAAGA--------TTAATTGTTCTTGAGT---------ATATTTCTAC------------------------------------------------------------------A-GAGAT---TTATTT--------------------A------------------CCA-AACC-GTTTCAAACAGCCAGATCCCTATGA-------------------------------------------------------A	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.ATCTAGCAGTTACCAT------ATCTT....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.55	11	11	0	0	0	0	0
CATCTAGCAGTTACCAT------ATCTTTGG-----------A.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0
....TAGCAGTTACCAT------ATCTTTGG-----------......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1

droBip1

ATCTATTTA-TTTGTTT------A----------------------------TTT---------------------------------------------------------------ATTTATTCATCTATTAATTT----ATATA-------------------------------------------------------------------------------------------------------TTTTGGTTATTGTTATATATGGTATAC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATATTTATTTAT----------------------------------------------------------------------------------GTATATATTTGT------GT----------AT--T-------------GATA---------------------------------------------------------------------------------------------------TATTTATTTAA-AT-TTT---GGTATT--------------------CCTTAGTGTTCAGCTTTTA---------------TTCATTCATTTGTGTAT-----AAATATATTAACCAAAGTAAGGCAGA---------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TTTCTTTGTTTCCTTTT------ACTTTTGC------------------------------------------------------------------A-------------------------------------------------------------------------------------------------------------------------------CAAAATAAATTTAAAT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A--------------------------------------------------------------------------------AAAATATTTTA------ACATT------------------------------------------------------------TTAAATACCCTTAAAT---------TCCGTTTTATATTAATAACCCT------------------------------------------------------------------------------------------T------------------TCC-CATT-TCTTCATTCTTTTAGGTGCCGGCGAATCTGGCAAATCCACGATAGTAAAACAGATGAAAATC----------------ATC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CCATACACTTATGTA-T--CTCC-----------------------ATGCAT---CACTAACT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT--------------GTTCTGTATCTGTATCTGTATCTCTA---ACTGT--------------------------AACTGTATCTTTTTCC-------------------T----------------CCTCTAGGTGCCGGTGAATCGGGCAAGAGCACAATAGTCAAACAGATGAAAATC----------------ATT	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TCCCTTCTAAATACACA------ATTTTTAA---------------------------------------------------------------------------------------------------------------------ATTGTAT--------TC------------------------------------------------------------------------------------------------------GTTGAAGT-AGTAACAGGTAGAAGAAATATACATTAAATTAAGGCGTAATAAGAACAAAAACACTTTTAAACTAAATTTTGATAATTT--------------------------------------------------------------------------ACACTTCTAACCATATGT----------------------------------------------------------------------ATACATA--T----ATATATATATATATATATATATATATATAT--------ATATATA-------------TATA--TATACATATAT--------------------------------------------------------------------------------------------------AT-A-----------TAGATATTATATATATATTT-------------------TT------------------------------------------------------------TATTAATTT----------------TTT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TCTCTGCGAATTAATTT------AATAAAGTATCATCATTCAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACT----------------------------------------------------------------------------ACAAACAGTTGTTCAATTCAACTACTTTCTTATTATTTACTTTAATTCATTGTTTAATTGTTTCTCAAATACATATTA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATA--------TATGTATTATATATCTTA--------TG--------------------------------------TATTTCGGTTTAAAATCTATGTACAA----------------------------C-ATTTAA-TTAAC---CGCTT-------------------TC-------------------TAAA--CCT-TT-------------------------------------------------------TTTA----------------TTC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TCTATTTTTTTTTGTTT--TTTC-----------------------TTTTTT---TT-----------------------------------------------------------------------------------------------------------------------------G----------------------------------------------ATTCAGAAATATATATATATATTTTGTATATTTTTTCATTGGCAATACGTAATA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------TATTTAAGAAAATTAAAGTGAATATCAAATAAATATTTTAATCTAACCTTATGTACGAGTACTGT--------TTGTTT------CTTTT------------------------------------------------------------TTTATTACTTAAAATT---------ACTATT-------------------------------------------------------------------------TTAT---CTTTTT--------------------C------------------TCT-TACA-CTTTTAACCTTATAGGACCCAGTATA----------------------------------------------------TTT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TCATTAATTATAGTT-T--TCCC-----------------------TGATGT---TGGAAGCTTTTTTTCAAAGCCTTCTATATTGTTGGTTTT----------------------------------------------------------------------------------------------------AAATTTCAAATCGAACTTCTATATTTAATGCGAATGTTCAGAAAGCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAT------------------------------------------------------------------------------------------------------------ATGTAC------AT-----TGTA------CATATATTAGATATATGA--------TGGGATGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTTAAACT----------------TAT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TAAATTGGAACTCAA-G------A----------------------------CCTGAGAATCCATCTAACAAATACCTAAATAATGTAATTTATTGGCTTGGGTTGATGC---TAAGA--------------------------TATTAATACCC--------TTTACTCTTTGGG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAAGAGGTGTTGATGTATTTATTCAAA----AAGATATAGCAG---AT----------------------------AGAATAAATAAA----------------------------------------------------------------------------------------AGATAT------AT--ATGTATATGT--A-------------TATGT--------TAG---------------------------------------------------------------------------------------------ATTAGG-GTTAA---GGTTTT--------------------C-------------------------------------------------------------------------------------CATA----------------TTC	Size	Hit Count	Total Norm	Total
No Reads

dm3

TTATTTCCA-TTAAAGC------ATA----------------------------T---------------------------------------------------------------TCGAAAATTTGCTTTAATTC----ATATA--TTTATATTTGCTTT-------------------A----------------------------------------------AT------------TC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATATATA--T----ATATATATATATATATATATAT------AT--ATATATATAT--A-------------TATGTATATATATATATA--------------------------------------------------------------------------------------------------T-A-----------TAATTAT---------------------------------------------------------------------------------CAAAGTTA----------TAGT----------------TTT	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATATATATATATATATATATAT------AT--.............................................................................................................................................................................................................................................................................................	24	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................T------------TC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATATATA--T----ATATATATATATATA..............................................................................................................................................................................................................................................................................................................	26	17	0.06	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATATATATATAT------AT--ATAT.........................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATATAT--A-------------TATGTATATATAT......................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATATATATA--------------------------------------------------------------------------------------------------T-A-----------TAATTAT---------------------------------------------------------------------------------.........................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATATATATATA--------------------------------------------------------------------------------------------------T-A-----------TAATT............................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATATATATATATA--------------------------------------------------------------------------------------------------T-A-----------TAAT.............................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATA--T----ATATATATATATATATAT...........................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................T--ATATATATAT--A-------------TATGTATAT..........................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

TTTTCAAGAAATCAAAT------AGAAAAAG--------------------------------------------------------------------------------------------------CTTTTTATT----ATT--------TT--------TTTAATTTTTCCATAATTT-----------------------------------------------------------TTATTTTTGTGTTAGGCACC-------------------------------------------------------------------------------------------------------------------------GCCCCATT-----------------------------------------AGTACTAA------------------------------------------------------------------------------------------------------------ATATAT------AT--TCTTATAAGT--A-------------TACACTTGTA------T----------------------------------------------------------------------------------AGCTTGTTC-TCCAGA-ACCAT---TGTTT------------------------------------------------------------------------------------------------------TTGAAAATC----------------TTC

Size

Hit Count

Total Norm

Total

M023
Head

M024
Male-body

M025
Embryo

M053
Female-body

O001
Testis

O002
Head

SRR553485
Ovary

SRR553486
Ovary

SRR553487
Ovary

SRR553488
Ovary

SRR618934
Ovary

V044
Embryo

SRR902008
Ovary

SRR902009
Testis

SRR1275487
Male larvae

SRR1275485
Male prepupae

SRR1275483
Male prepupae

No Reads

droSec2

CATCCGTTCGTTTACAC------ACATTGAT-------------------------------------------------------------------------------------------------TTAGT-------------------------------------------------A---------------------------------------------------------------------ATTCGTAAT-------------------------------------------------------------------------------------------------------------------------GATCTTTA-----------------------------------------TGTACTATA--------------------------------------------------------------------------------TATATATTTAT------ATATATATATATATAT------ATATATATATATAT--A-------------TATATGTGTGTATATATATTCTGTTATGT---------TCTTTTTTAT------------------------------------------------------------------T-GTG-------------------------------------ATT----------------------------------TCGCT-----------------------------------------T----------------ACA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droYak3

TAGAAAAACACCAAC--------GTG--------------CAATTA------TAC---------------------------------------------------------------ATACACCTA----CG----TGTAC--------------CA------------------A------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTATTACACAAACAAAAAATCAATATACATTA-ATTTTT----TGTGCCAATAATATGTGTATACCAT--------------------------------------------------------------------------------------------------------------------GGGTAA------AT--ATATGTATAT--A-------------TATACTTGAA------T----------------------------------------------------------------------------------GATGCACTTGTTTGG-GA-A--TGTTAT-------------------------TTTGT-------------------------------------------------------------------------------TATT----------------GTT

Size

Hit Count

Total Norm

Total

M026
Head

M043
Female-body

M056
Embryo

V046
Embryo

V052
Head

V058
Head

V120
Male-body

SRR1275488
Male larvae

SRR1275486
Male prepupae

SRR1275484
Male prepupae

GSM1528802
follicle cells

No Reads

droEre2

CATACATACATACATAC------ATACATAC------------------------------------------------------------------ATACATACA-------------------------TA----CATACATACATACATACA--------TACATACATACATACATAC-----------------------------------------------------------A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TA--------------------------------------------------------------------------------CATA--------------------CATACATAC------ACATACATACACAC--A-------------TACATACATACACACATA--------------------------------------------------------------TATACATACATACATT-------------CCTAAC-GTG---------------AAAAATATATTTGATC-------------------T--------TAGTGATTCTTAGGTGCGCTGGT----------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TACATACACACATA--------------------------------------------------------------TATACATACATACA.....................................................................................................................................................................	28	1	1.00	1	1	0	0	0	0	0	0

dwi_512

scf2_1100000004511:2375272-2375422 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads