dmo_1085

AAGCTTAAGTAAATCGACTGTACTTAAAAGCAATAATGGGCCAAATCAGGGTAAGTACAATTACATAATCGTGCCTTTGTTAATATGTATTTACGAATGTATATGTGAAGCATATAAAATGCAATTTTAATTTATGTGCACACACATGCTCACATAAATATGTATTCCTTTATGTGCCTATATATTAAGCTACCTGTTATCCTTTGACAAGCTGGCAACGCTGATATATATAAAGCGTGGGAATATTTATA ******************************************************************************.((((((((((((.....((((.((((..(((((((((.((......)).))))))))).)))).)))).....))))))))))))...********************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M060 embryo	M046 female body	V041 embryo	V110 male body	V049 head
....................................................................................................................................TATGTGCACACACATGCTCACA.................................................................................................	22	0	1	4.00	4	4	0	0	0	0
...............................................................................................AATGTATATGTGAAGCATAT........................................................................................................................................	20	0	1	3.00	3	0	0	0	2	1
..............................................................................................GAATGTATATGTGAAGCATATA.......................................................................................................................................	22	0	1	2.00	2	2	0	0	0	0
........GTAAATCGACTGTACTTAAAAGCA...........................................................................................................................................................................................................................	24	0	1	1.00	1	0	1	0	0	0
...............................................................................................AATGTATATGTGAAGCATATA.......................................................................................................................................	21	0	1	1.00	1	0	0	1	0	0
.........................................CAAATCAGGGTAAGTACAATTGTG..........................................................................................................................................................................................	24	3	1	1.00	1	0	1	0	0	0
....................................................................................................................................TATGTGCACACACATGCTCACAT................................................................................................	23	0	1	1.00	1	1	0	0	0	0
....................................................................................................................AAATGCAATTTTAATTTAT....................................................................................................................	19	0	1	1.00	1	0	1	0	0	0
...............................................................................................AATGTATATGTGAAGCATATAA......................................................................................................................................	22	0	1	1.00	1	0	0	1	0	0
...............................................................................................AATGTATATGTGAAGCATATAAA.....................................................................................................................................	23	0	1	1.00	1	0	0	1	0	0
...............................................................................................AGTGTATATGTGAAGCATATA.......................................................................................................................................	21	1	1	1.00	1	1	0	0	0	0

TTCGAATTCATTTAGCTGACATGAATTTTCGTTATTACCCGGTTTAGTCCCATTCATGTTAATGTATTAGCACGGAAACAATTATACATAAATGCTTACATATACACTTCGTATATTTTACGTTAAAATTAAATACACGTGTGTGTACGAGTGTATTTATACATAAGGAAATACACGGATATATAATTCGATGGACAATAGGAAACTGTTCGACCGTTGCGACTATATATATTTCGCACCCTTATAAATAT ********************************************************************************.((((((((((((.....((((.((((..(((((((((.((......)).))))))))).)))).)))).....))))))))))))...******************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V110 male body
........................................................................................................................................................................................................................TTGCGACTAAATATATAT.................	18	2	20	0.10	2	2	0
...........................................................................................................................................................................................TAGTTGGACAATAGGAAGC.............................................	19	3	13	0.08	1	0	1

Species	Coordinate	ID	Type	Alignment
droMoj3	scaffold_6496:10771559-10771809 -	dmo_1085	candidate	AAGCTTAAG-TAAATCGACT-GTA-------------C-----------------------TTAAA-AG------C-AATAATGGGCCAAATCAGGGTAAGTACAATTACATA---ATCGTGCCTTTGTTAATATGTATTTACGA------------ATGTATATGTGAAGCATATAAAATGCA---------ATTTTAATTTAT---------------------------------------GTGCACACA--CATGC-----------------------------------------------TCACATAAATATGT-ATTCCTTT-----ATGTGCCT----ATAT--A--------T------------TAAGCTACCTGTTATCCTT------TGACAAGCTGGCAACGCTGATA-----TATAT---AAAGCGTGGGAATATTTA-----------------------------------------------------------------TA
droVir3	scaffold_12875:17234174-17234444 +	dvi_7435		AAGCTTAAG-TAAATCAA---------------GTGCA-----------------------TTTATAAG------G-AATAATGGGTCAAATCAAGGTAAATACCAAA-CACA---ATCA------------TACGTACATACAA------------ATCTAGCTATG---CACATATAATGTAACATTTTTAATGTTAATTTATCGAAACAGCATACTCATAACATATTACCATGTGAGTGTG-------TA--TGTGT-----------------------------------------------GTGTATATATATGC-ATAT-----ATGTAT----GT----ATAT--G--------T-------------AAGCTACCTGTTATCCTT------TGACAAGTTGGCAACTCTGCTA-----TAAGT---TAAGCGTGGGAAAATTTA-----------------------------------------------------------------TA
droGri2	scaffold_15245:16754059-16754264 +			ACACC--------------------------------------------------------AAATA-AG------G-AAAGATGGGCCAAGTTAAGGTAAATACAAAAACAA----------------------------------------------------------------ACAAAAGAACGCTGTT---------------------------------------------------------AATG--------------------------TAATGTTATTGTGAATGGACAAACGTGGTTACATATTAATGT-AATTATGA-----AGGTGTGT----ACAG--A--------TGTAGATAGGTCTTAAGCTACCTATTATCCTT------TGTCATGTTG----CTCTCA--------AAGCTTTTGGGCGTGAGGAAATTAT-----------------------------------------------------------------TT
droWil2	scf2_1100000004510:1872332-1872536 -			AACTTGAAC-TGCATTGC--------------------ACTTTCTCTTGCACACACTTAAA-------G------A-CAAAATGGGCCAAGTCAAGGTACGTACACA--CAG----------------------------------------------------------------------------------------------------------------------------------------A--CAAATACAC----------------ACT----------C---TTTTA------------------TATGT-ACAT-----ATGTATGTATGT----ATAG--C--------TAT---------------ATCCTGTTATCCTTTAAACGCGACAAGTTGGCAGAGCTAAGAAAAAG-CAGCAATAAAGCGTGGGAAAAAATCATACC----------ATA-----------------------------------------------CA
dp5	3:1933010-1933208 -			AACTT-AAGGCAGCCTGC-T-GAAAAAGAAGAAACGCC-----------------------ATAAAA-G------CAAAAAATGGGCCAAGTCAAGGTACGTAAAAG--AGAGAGCG---CTGCA----------------------------------------------------------------------------------------------------------------------------CACA--------------------------CAAACACACTCAAAATTCACA------------------TGCTTCAC-----A------------------------TGTATGCGT---------------ATCCTATTATCCTG------TGGCAAGTTGGCAGCCCCAA--------AAGGATAAAAGCGTGGGAAAACTTTGTAAA----------TTG-----------------------------------------------TA
droPer2	scaffold_2:2105945-2106148 -			AACTT-AAGGCAGCCTGC-T-GAAAAAGAAGAAACGCC-----------------------ATAAAA-G------CAAAAAATGGGCCAAGTCAAGGTACGTAAAAGAGAGAGAGCG---CTGCA----------------------------------------------------------------------------------------------------------------------------CACA--------------------------CAAACACACTCAAAATTCACA------------------TGCTTCAC-----A------------------------TGTATGCGT---------------ATCCTATTATCCTG------TGGCAAGTTGGCAGCCCCAA--------AAGGATAAAAGCGTGGGAAAACTTCAA----TTCAAG---ATG-----------------------------------------------AA
droEle1	scf7180000491107:355137-355377 +			ATCTGCAAGGCGGTTCGACCAGAAA------------------------------ATAAAA-------GAAACAGGAAAAAATGGGCCAAGCAAAGGTAAGCGAAAT--CGGGAGTG---CACCGC--------------C----GTGTGTGTGTCT---------------------------------------------------------------------------------------GCGCA--TACATA--------------------------------------------------------------------T-----A----T----GT----ACGT--G--------TGC---------------ATCCTTTTTTCCCTCGTCCTTGGCAAGTGGGCAACCCCGA--------ATGG---AAAGCGTGGGAAATCT-A-G----TTCA---TCATTAAAAAAAGGAAGTTAAAACATACTGCAAATCAGACAGATAATTTATATA
droTak1	scf7180000415805:390479-390656 +			ATCTGCAAGGCGGTTCGACCAGAAA------------------------------CCAAAC-------GAAACAGG-AAAAATGGGCCAAGCGAAGGTAAGCGGAAT--CGGGAGTG---CAGCA----------------------------------------------------------------------------------------------------------------------------AGAA-------------------------T-----------------------------------------ATAAAT-----ATG--------TATATACACAACCTTGTATCTG-----------------------TATCCTTCGTCCTTGGCAAGTGGGCAACCCCAA--------ATGG---GAAGCGTGGGAAAATCTA-G----T----------T-----------------------------------------------CA
droEug1	scf7180000408993:1638-1698 +			TTCTA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTTAT---------------------------------------ATGTA--TATATGTAT-----------------------------------------------ATATGTATATATGT-ATATATGT-----ATATATGT----ATAT--A--------T-------------------------------------------------------------------------------------------------------------------------------------------------------------
dm3	chrUextra:14986918-14987076 -			TATGT-ATATATGTATAT--------------------ATGTATATATGTATATAT------------G------TATATAT-GG------------------------------------------------------------------------ATATATGTATA-------------------------------------------------------------------------------------TATGTATATATGTATATATGTATATATGTA-------TATATGTACATATGTACATATGTACATATGT-ATATATGT-----ATATATGT----ACAT--A--------TGTATATATGTAT----CTATC--------------------------------------------------------------------------------------T-----------------------------------------------AT
droSim2	2r:21292634-21292839 -			ATCTGCAAGGCGGTTCGACCAGAAA------------------------------CTGAAA-------GACACGAG-AAAAATGGGCCAAGCAAAGGTAAGCTGAG---TAAGAGTG---CAGCAC--------------A----CTGTA-AAGCCC---------------------------------------------------------------------------------------ACGCA--CACATGCAC----------------ACT-----------------------------------------ATTAGC--T-TG----------T--------------GTATGCGC---------------ATCCC-TTATCCTTCGTCCTTGGCAAGTGGGCAGCACCAA--------ATGG---AAAGCGTGGAAAAGCCTGAG----TGCTTGGCCACC-----------------------------------------------AA
droYak3	2R:20793483-20793692 -			ATCTGCA-GGCGGTTCGACCAGAAA------------------------------CTGAAA-------GACACAG--GAAAATGGGCCAGGCAAAGGTAAGCTGAG---TGAGAGGG---CAGTAC--------------A----CTGGA-AAGCCC---------------------------------------------------------------------------------------ACGCA--CACATGCAC----------------ACC-----------------------------------------ATTCAC--T-TATGTAT----GT----ATATAAG--------CGC---------------ATCCC-TTATCCTTCGACCTTGGCAAGTGGGCAGCCCCGA--------ATGG---AAAGCGTGGAAAAGGCTAAGAAATTGC------TCC-----------------------------------------------TA
droEre2	scaffold_4770:14883576-14883681 -			TTTTATAATATATATATT-----------------------------------------------------------------------------------------------------A------------TATATATATATAT------------ATATGTATATA---TATATATA---------------------TATGT--------------------------------ATATATA-------TA--TATGT-----------------------------------------------ATATATATATATGT-ATGTATGT-----ATGTATGT----ATAT--A--------T-------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

AAGCTTAAG-TAAATCGACT-GTA-------------C-----------------------TTAAA-AG------C-AATAATGGGCCAAATCAGGGTAAGTACAATTACATA---ATCGTGCCTTTGTTAATATGTATTTACGA------------ATGTATATGTGAAGCATATAAAATGCA---------ATTTTAATTTAT---------------------------------------GTGCACACA--CATGC-----------------------------------------------TCACATAAATATGT-ATTCCTTT-----ATGTGCCT----ATAT--A--------T------------TAAGCTACCTGTTATCCTT------TGACAAGCTGGCAACGCTGATA-----TATAT---AAAGCGTGGGAATATTTA-----------------------------------------------------------------TA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..........................................................................................................................................................................................................TAT---------------------------------------GTGCACACA--CATGC-----------------------------------------------TCACA................................................................................................................................................................................................................	22	1	4.00	4	0	0	0	0	4	0
................................................................................................................................................A------------ATGTATATGTGAAGCATAT........................................................................................................................................................................................................................................................................................................................................................	20	1	3.00	3	0	0	1	0	0	2
...............................................................................................................................................GA------------ATGTATATGTGAAGCATATA.......................................................................................................................................................................................................................................................................................................................................................	22	1	2.00	2	0	0	0	0	2	0
........G-TAAATCGACT-GTA-------------C-----------------------TTAAA-AG------C-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
................................................................................................................................................A------------ATGTATATGTGAAGCATATA.......................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
.......................................................................................CAAATCAGGGTAAGTACAATTGTG.........................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
..........................................................................................................................................................................................................TAT---------------------------------------GTGCACACA--CATGC-----------------------------------------------TCACAT...............................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	1	0
.................................................................................................................................................................................AAATGCA---------ATTTTAATTTAT---------------------------------------....................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
................................................................................................................................................A------------ATGTATATGTGAAGCATATAA......................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0
................................................................................................................................................A------------ATGTATATGTGAAGCATATAAA.....................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0

droVir3

AAGCTTAAG-TAAATCAA---------------GTGCA-----------------------TTTATAAG------G-AATAATGGGTCAAATCAAGGTAAATACCAAA-CACA---ATCA------------TACGTACATACAA------------ATCTAGCTATG---CACATATAATGTAACATTTTTAATGTTAATTTATCGAAACAGCATACTCATAACATATTACCATGTGAGTGTG-------TA--TGTGT-----------------------------------------------GTGTATATATATGC-ATAT-----ATGTAT----GT----ATAT--G--------T-------------AAGCTACCTGTTATCCTT------TGACAAGTTGGCAACTCTGCTA-----TAAGT---TAAGCGTGGGAAAATTTA-----------------------------------------------------------------TA	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	SRR2096013 Ovary_Strain_9_oxidized	SRR2096014 Ovary_Strain_160_oxidized	SRR2096026 embryo_0-2h from 14 day old Strain 9 mothers	SRR2096038 embryo_0-2h from 14 day old Strain 9 mothers	SRR2096050 embryo_0-2h from 14 day old Strain 160 mothers	SRR2096055 Ovary_Min_43	SRR2096056 Ovary_Min_46	SRR2096057 Ovary_Min_50	SRR2096058 Ovary_Min_98	SRR2096059 Ovary_Min_164	SRR2096060 Ovary_Min_193	SRR2096061 embryo_0-2h from 14 day old Strain 160 mothers	SRR2096072 embryo_0-2h from 15to16 day old dysgenic mothers	SRR2096079 embryo_0-2h from 15to16 day old dysgenic mothers	SRR2096080 embryo_0-2h from 15to16 day old nondysgenic mothers	SRR2096081 embryo_0-2h from 15to16 day old nondysgenic mothers
........................................................................................................................................................................................................................................................................................................................................................................................AAGCTACCTGTTATCCTT------TGACAAG.................................................................................................................	25	1	2.00	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	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................ATAAG------G-AATAATGGGTCAAATCAA.........................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................GAAACAGCATACTCATAACATA....................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............ATCAA---------------GTGCA-----------------------TTTATAAG------G-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................TATAAG------G-AATAATGGGTCAA..............................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............CAA---------------GTGCA-----------------------TTTATAAG------G-AATAATGGGT.................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................TAAG------G-AATAATGGGTCAAATCAAGA.......................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................................................................................................................................................................................................................................................................................................TAAGT---TAAGCGTGGGAAAATT.....................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................ATTTTTAATGTTAATTTATCGAAACAGC..................................................................................................................................................................................................................................................................................................................	28	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................TTTATAAG------G-AATAATGGGTCAAATCA..........................................................................................................................................................................................................................................................................................................................................................................................................................................	26	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................ATTTATCGAAACAGCATA...............................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................................................ATAAG------G-AATAATGGGTCAAAT............................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	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
................................................................ATAAG------G-AATAATGGGTCA...............................................................................................................................................................................................................................................................................................................................................................................................................................................	18	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................TTATAAG------G-AATAATGGGT.................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	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
...................................GCA-----------------------TTTATAAG------G-AATAATG....................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................TATAAG------G-AATAATGGGTCAAATCAA.........................................................................................................................................................................................................................................................................................................................................................................................................................................	25	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................GAGTGTG-------TA--TGTGT-----------------------------------------------GTGT.................................................................................................................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droGri2

ACACC--------------------------------------------------------AAATA-AG------G-AAAGATGGGCCAAGTTAAGGTAAATACAAAAACAA----------------------------------------------------------------ACAAAAGAACGCTGTT---------------------------------------------------------AATG--------------------------TAATGTTATTGTGAATGGACAAACGTGGTTACATATTAATGT-AATTATGA-----AGGTGTGT----ACAG--A--------TGTAGATAGGTCTTAAGCTACCTATTATCCTT------TGTCATGTTG----CTCTCA--------AAGCTTTTGGGCGTGAGGAAATTAT-----------------------------------------------------------------TT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droWil2

AACTTGAAC-TGCATTGC--------------------ACTTTCTCTTGCACACACTTAAA-------G------A-CAAAATGGGCCAAGTCAAGGTACGTACACA--CAG----------------------------------------------------------------------------------------------------------------------------------------A--CAAATACAC----------------ACT----------C---TTTTA------------------TATGT-ACAT-----ATGTATGTATGT----ATAG--C--------TAT---------------ATCCTGTTATCCTTTAAACGCGACAAGTTGGCAGAGCTAAGAAAAAG-CAGCAATAAAGCGTGGGAAAAAATCATACC----------ATA-----------------------------------------------CA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
AACTTGAAC-TGCATTGC--------------------AC................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0
.............................................CTTGCACACACTTAAA-------G------A-CAAA.......................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	1	0
...........................................................AA-------G------A-CAAAATGGGCCAAGTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0
..............................................................................AAAATGGGCCAAGTCAAGGTA.....................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................GCGACAAGTTGGCAGAGCTAA....................................................................................................	21	1	1.00	1	0	0	0	1	0
.........................................................TAAA-------G------A-CAAAATGGGCCA...............................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	1
..........TGCATTGC--------------------ACTTTCTCTTG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0
............................................................................................................................................................................................................................................................................................................................................................................................................AACGCGACAAGTTGGCAGAG........................................................................................................	20	1	1.00	1	0	0	0	1	0
.............................................................................CAAAATGGGCCAAGTCAAGAA......................................................................................................................................................................................................................................................................................................................................................................................................................................	21	2	0.50	1	0	0	0	1	0

dp5

AACTT-AAGGCAGCCTGC-T-GAAAAAGAAGAAACGCC-----------------------ATAAAA-G------CAAAAAATGGGCCAAGTCAAGGTACGTAAAAG--AGAGAGCG---CTGCA----------------------------------------------------------------------------------------------------------------------------CACA--------------------------CAAACACACTCAAAATTCACA------------------TGCTTCAC-----A------------------------TGTATGCGT---------------ATCCTATTATCCTG------TGGCAAGTTGGCAGCCCCAA--------AAGGATAAAAGCGTGGGAAAACTTTGTAAA----------TTG-----------------------------------------------TA	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
................................................................................................................GAGCG---CTGCA----------------------------------------------------------------------------------------------------------------------------CACA--------------------------CAAACAC..........................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................AAATGGGCCAAGTCAAGGTA.....................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................CTG------TGGCAAGTTGGCAGCC........................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAAGCGTGGGAAAACTTTGTAA...............................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................................G------TGGCAAGTTGGCAGCCCCA.....................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................TTATCCTG------TGGCAAGTTGGCA...........................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................TATCCTG------TGGCAAGTTGGCAGC.........................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........CAGCCTGC-T-GAAAAAGAAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	1	0	0	0	0	0
.........................AAGAAGAAACGCC-----------------------ATAAAA-....................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
....................................................................G------CAAAAAATGGGCCAAGTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...TT-AAGGCAGCCTGC-T-GAAA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
AACTT-AAGGCAGCCTGC-T-G..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................GGTACGTAAAAG--AGAGAGCG---................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................CTATTATCCTG------TGGCAAGTT...............................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................TTGGCAGCCCCAA--------AAGGATAA....................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
............................................................................AAAAAATGGGCCAAGTCAAG........................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................A------------------------TGTATGCGT---------------ATCCTATTATC.................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................AAATGGGCCAAGTCAAGA.......................................................................................................................................................................................................................................................................................................................................................................................................................................	18	2	0.50	1	0	1	0	0	0	0	0	0	0	0

droPer2

AACTT-AAGGCAGCCTGC-T-GAAAAAGAAGAAACGCC-----------------------ATAAAA-G------CAAAAAATGGGCCAAGTCAAGGTACGTAAAAGAGAGAGAGCG---CTGCA----------------------------------------------------------------------------------------------------------------------------CACA--------------------------CAAACACACTCAAAATTCACA------------------TGCTTCAC-----A------------------------TGTATGCGT---------------ATCCTATTATCCTG------TGGCAAGTTGGCAGCCCCAA--------AAGGATAAAAGCGTGGGAAAACTTCAA----TTCAAG---ATG-----------------------------------------------AA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.............................................................ATAAAA-G------CAAAAAATGGGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	3.00	3	3	0	0	0	0	0
..................................CGCC-----------------------ATAAAA-G------CAAAAAATGGGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	2.00	2	2	0	0	0	0	0
...TT-AAGGCAGCCTGC-T-GAA................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0
.........................AAGAAGAAACGCC-----------------------ATAAAA-G------.............................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1
..............................................................TAAAA-G------CAAAAAATGGGC.................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0

droEle1

ATCTGCAAGGCGGTTCGACCAGAAA------------------------------ATAAAA-------GAAACAGGAAAAAATGGGCCAAGCAAAGGTAAGCGAAAT--CGGGAGTG---CACCGC--------------C----GTGTGTGTGTCT---------------------------------------------------------------------------------------GCGCA--TACATA--------------------------------------------------------------------T-----A----T----GT----ACGT--G--------TGC---------------ATCCTTTTTTCCCTCGTCCTTGGCAAGTGGGCAACCCCGA--------ATGG---AAAGCGTGGGAAATCT-A-G----TTCA---TCATTAAAAAAAGGAAGTTAAAACATACTGCAAATCAGACAGATAATTTATATA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ATCTGCAAGGCGGTTCGACCAGAAA------------------------------CCAAAC-------GAAACAGG-AAAAATGGGCCAAGCGAAGGTAAGCGGAAT--CGGGAGTG---CAGCA----------------------------------------------------------------------------------------------------------------------------AGAA-------------------------T-----------------------------------------ATAAAT-----ATG--------TATATACACAACCTTGTATCTG-----------------------TATCCTTCGTCCTTGGCAAGTGGGCAACCCCAA--------ATGG---GAAGCGTGGGAAAATCTA-G----T----------T-----------------------------------------------CA	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TTCTA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTTAT---------------------------------------ATGTA--TATATGTAT-----------------------------------------------ATATGTATATATGT-ATATATGT-----ATATATGT----ATAT--A--------T-------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

TATGT-ATATATGTATAT--------------------ATGTATATATGTATATAT------------G------TATATAT-GG------------------------------------------------------------------------ATATATGTATA-------------------------------------------------------------------------------------TATGTATATATGTATATATGTATATATGTA-------TATATGTACATATGTACATATGTACATATGT-ATATATGT-----ATATATGT----ACAT--A--------TGTATATATGTAT----CTATC--------------------------------------------------------------------------------------T-----------------------------------------------AT	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	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
......................................................AT------------G------TATATAT-GG------------------------------------------------------------------------ATATATGTA..................................................................................................................................................................................................................................................................................................................................................................	21	3	0.33	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................CATATGTACATATGTACATA..........................................................................................................................................................................................................	20	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................TA-------TATATGTACATATGTACATA..................................................................................................................................................................................................................	22	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	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
..................................................................................................................................................................................................................................................................................................................................................TATGT----ACAT--A--------TGTATATATGT...................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................T--------------------ATGTATATATGTATATAT------------G------.............................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
....................................................................................................................................................................................................................................................................................................................TATGTACATATGT-ATATATGT-----.........................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........TGTATAT--------------------ATGTATATATG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..TGT-ATATATGTATAT--------------------ATGTAT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	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	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

droSim2

ATCTGCAAGGCGGTTCGACCAGAAA------------------------------CTGAAA-------GACACGAG-AAAAATGGGCCAAGCAAAGGTAAGCTGAG---TAAGAGTG---CAGCAC--------------A----CTGTA-AAGCCC---------------------------------------------------------------------------------------ACGCA--CACATGCAC----------------ACT-----------------------------------------ATTAGC--T-TG----------T--------------GTATGCGC---------------ATCCC-TTATCCTTCGTCCTTGGCAAGTGGGCAGCACCAA--------ATGG---AAAGCGTGGAAAAGCCTGAG----TGCTTGGCCACC-----------------------------------------------AA	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
..................CCAGAAA------------------------------CTGAAA-------GACACGAG-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	3.00	3	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................GACCAGAAA------------------------------CTGAAA-------GAC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	3.00	3	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................GACACGAG-AAAAATGGGCCAAGC............................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0
..............TCGACCAGAAA------------------------------CTGAAA-------GACACGAG-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	2.00	2	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................GACCAGAAA------------------------------CTGAAA-------GACACGAG-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	2.00	2	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................GTAAGCTGAG---TAAGAGTG---CAGCA...........................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.............TTCGACCAGAAA------------------------------CTGAAA-------GACACGAG-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............TTCGACCAGAAA------------------------------CTGAAA-------GACA................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............CGACCAGAAA------------------------------CTGAAA-------GACACGAG-G..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........GGTTCGACCAGAAA------------------------------CTGAAA-------GACAC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...................CAGAAA------------------------------CTGAAA-------GACACGAG-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........GGTTCGACCAGAAA------------------------------CTGAAA-------GACACGAG-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	29	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................ACCAGAAA------------------------------CTGAAA-------GACACGAG-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................CGCA--CACATGCAC----------------ACT-----------------------------------------AT......................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................GAAA-------GACACGAG-AAAAATGGGCCAAGC............................................................................................................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................GACCAGAAA------------------------------CTGAAA-------GACACGAG-AAAAA......................................................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................TGAAA-------GACACGAG-AAAAATGGGCCA...............................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............CGACCAGAAA------------------------------CTGAAA-------GACAC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
......................AAA------------------------------CTGAAA-------GACACGAG-AAA........................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
....................AGAAA------------------------------CTGAAA-------GACACGA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............CGACCAGAAA------------------------------CTGAAA-------GAC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.......................................................CTGAAA-------GACACGAG-AAAAAT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............CGACCAGAAA------------------------------CTGAAA-------GACACGAG-A..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................GACCAGAAA------------------------------CTGAAA-------GACACG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droYak3

ATCTGCA-GGCGGTTCGACCAGAAA------------------------------CTGAAA-------GACACAG--GAAAATGGGCCAGGCAAAGGTAAGCTGAG---TGAGAGGG---CAGTAC--------------A----CTGGA-AAGCCC---------------------------------------------------------------------------------------ACGCA--CACATGCAC----------------ACC-----------------------------------------ATTCAC--T-TATGTAT----GT----ATATAAG--------CGC---------------ATCCC-TTATCCTTCGACCTTGGCAAGTGGGCAGCCCCGA--------ATGG---AAAGCGTGGAAAAGGCTAAGAAATTGC------TCC-----------------------------------------------TA	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
....................................................................GACACAG--GAAAATGGGCCAGGC............................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	2.00	2	0	0	0	1	0	0	1	0	0	0	0
......................AAA------------------------------CTGAAA-------GACACAG--GAAAATG....................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0
....................................................................GACACAG--GAAAATGGGCCAGGCAAA.........................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..CTGCA-GGCGGTTCGACCAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0
........................................................................CAG--GAAAATGGGCCAGGCAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
...............CGACCAGAAA------------------------------CTGAAA-------GACACAG--GA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
........GGCGGTTCGACCAGAAA------------------------------CT...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
...............CGACCAGAAA------------------------------CTGAAA-------GACACAG--GAAAAT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................	29	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
....................................................................GACACAG--GAAAATGGGCCAGGCAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................CAG--GAAAATGGGCCAGGCAAAGA.......................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
............................................................A-------GACACAG--GAAAATGGGCCAGGCAAA.........................................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
....................................................................................................................G---CAGTAC--------------A----CTGGA-AAGCCC---------------------------------------------------------------------------------------ACGC................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
ATCTGCA-GGCGGTTCGACC....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.........................................................GAAA-------GACACAG--GAAAATGGGCC................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0

droEre2

TTTTATAATATATATATT-----------------------------------------------------------------------------------------------------A------------TATATATATATAT------------ATATGTATATA---TATATATA---------------------TATGT--------------------------------ATATATA-------TA--TATGT-----------------------------------------------ATATATATATATGT-ATGTATGT-----ATGTATGT----ATAT--A--------T-------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.....................................................................................................................................................................................................................................................................................................................ATATATATATGT-ATGTATGT-----AT.......................................................................................................................................................................................	22	18	0.06	1	1	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................T-ATGTATGT-----ATGTATGT----ATAT--A--------..............................................................................................................................................................	22	20	0.05	1	1	0	0	0	0	0	0

dmo_1085

scaffold_6496:10771609-10771759 -

candidate

Canonical miRNA

intron

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-21.3	-20.9	-20.6