dsi_100

########################################################################################################################################################################################## ATCTGCTCTCGTTCCTGCTGCACCTGGACCAGCGCCTGCCCTTCCTGCCCCTGCTGCTGACCTCCGTGTACTCGGCGTTGGGAGTGCTCTACTTCTTTGGGGCCTACTATCTGTACGCTCTGGGCATCAGCTGGGGCAAGGTGGCCATTGCATCGTCCACATCCGTGGCCGCTGTTAAGAGAAAAC *********************************...........(((((((((.(((((..(((......))).))))).))))............)))))...............******************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M023 head	SRR553487 Ovary	M025 embryo	SRR553485 Ovary	SRR553486 Ovary	M024 male body	M053 Female-body	SRR618934 Ovary
..................................................CTGCTGCTGACCTCCGTGTACT..................................................................................................................	22	0	1	9.00	9	4	2	0	1	0	1	0	1
.................................................................................................................TACTCTCTGGGCATCAGCTGG....................................................	21	1	1	4.00	4	0	2	0	2	0	0	0	0
.................................................................................................................TACTCTCTGGGCATCAGCTGGG...................................................	22	1	1	4.00	4	0	1	0	3	0	0	0	0
..................................................CTGCTGCTGACCTCCGTGTA....................................................................................................................	20	0	1	3.00	3	0	3	0	0	0	0	0	0
.....................................................................................GCTCTACTTCTTTGGGGC...................................................................................	18	0	1	2.00	2	0	0	2	0	0	0	0	0
...................................................TGCTGCTGACCTCCGTGTACT..................................................................................................................	21	0	1	2.00	2	1	0	0	1	0	0	0	0
........................................................................................................TACTATCTGTACGCTCTGGGCATCAGC.......................................................	27	0	1	2.00	2	0	0	0	0	2	0	0	0
.................................................................................................................TACTCTCTGGGCATCAGCTGGA...................................................	22	2	1	1.00	1	0	0	0	1	0	0	0	0
..................................................CTGCTGCTGACCTCCGTGTACG..................................................................................................................	22	1	1	1.00	1	0	0	0	0	0	1	0	0
......................................................................................................CCTACTATCTGTACTCTCTGGGCATC..........................................................	26	1	1	1.00	1	0	0	0	1	0	0	0	0
.......................................................................................................CTACTATCTGTACGCTCTGGGCATCA.........................................................	26	0	1	1.00	1	0	0	1	0	0	0	0	0
........TCGTTCCTGCTGCACCTGGACCAGC.........................................................................................................................................................	25	0	1	1.00	1	0	0	0	0	0	0	1	0
.................................................................................................................TACGCTCTGGGCCTCAGCTGG....................................................	21	1	1	1.00	1	0	0	0	0	0	0	0	0
.................................................................................................................TACTCTCTGGGCATCAGCTG.....................................................	20	1	1	1.00	1	0	0	0	1	0	0	0	0
...............................................................................................................TGTACTCTCTGGGCATCAGCTGGGGCAAGA.............................................	30	2	1	1.00	1	0	1	0	0	0	0	0	0
.................................................................................................................TACGCTCTGGTCATCAGCTG.....................................................	20	1	1	1.00	1	1	0	0	0	0	0	0	0
..................................................CTGCTGCTGACCTCCGTGA.....................................................................................................................	19	1	1	1.00	1	1	0	0	0	0	0	0	0
..................................................CTGCTGCTGACCTCCGTGTACC..................................................................................................................	22	1	1	1.00	1	0	0	1	0	0	0	0	0
.............................................................................................................................................TGGCCATTGCATCGTCCACATCCGCGG..................	27	1	1	1.00	1	0	0	0	0	0	0	0	0
.................................................................................................................TACGCTCTGGGCATCAGCTGGGT..................................................	23	1	1	1.00	1	0	0	0	0	0	0	0	1
.................................................................................................................TACGCTCTGGGCATCAGCTGGG...................................................	22	0	1	1.00	1	1	0	0	0	0	0	0	0
.....................................................................................................................CCCTGGGCATCAGCTGG....................................................	17	1	2	0.50	1	0	0	0	0	0	0	0	1
..........................................TCCTGACCCTGCGGCTGTCCT...........................................................................................................................	21	3	5	0.20	1	1	0	0	0	0	0	0	0
.........................................................................................................................GGGCCTCACCTGGGGCA................................................	17	2	20	0.05	1	0	0	0	0	0	0	0	1
.........................................................................................................................................................CGTCCACATCCTTGG..................	15	1	20	0.05	1	0	1	0	0	0	0	0	0
....................................................................................GGTTCTACTTCTTTCGGGC...................................................................................	19	3	20	0.05	1	0	0	0	0	1	0	0	0
.........................................................................TGCGTTGTGAGTGCCCTA...............................................................................................	18	3	20	0.05	1	0	0	0	0	0	0	0	1

########################################################################################################################################################################################## GTTTTCTCTTAACAGCGGCCACGGATGTGGACGATGCAATGGCCACCTTGCCCCAGCTGATGCCCAGAGCGTACAGATAGTAGGCCCCAAAGAAGTAGAGCACTCCCAACGCCGAGTACACGGAGGTCAGCAGCAGGGGCAGGAAGGGCAGGCGCTGGTCCAGGTGCAGCAGGAACGAGAGCAGAT ******************************************************************...............(((((............((((.(((((.(((......)))..))))).)))))))))...........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
.............................................................................................................................................................GTCCAGGTGCAGAAGGAA...........	18	1	1	1.00	1
....................................................................................CCACAAAGAAGGAGGGCACTC.................................................................................	21	3	4	1.00	4
..................................................................................................................AGTATACGGAGGTCCGC.......................................................	17	2	1	1.00	1
.........................TGTAGACGATGCAACGGACA.............................................................................................................................................	20	3	6	0.17	1
.......................................................................TACAGATAGTAGGCT....................................................................................................	15	1	6	0.17	1
.................................................................................................................................GCAGCAGGCGCAGGAAG........................................	17	1	8	0.13	1
..........................................................................ATATAGTCGGCCCCTAAG..............................................................................................	18	3	20	0.10	2
..........................................................................................AGCGGTAGAGCACTCCC...............................................................................	17	2	11	0.09	1

Species	Coordinate	ID	Alignment
droSim3	X:5271576-5271761 +	dsi_100	ATCTGCTCTCGTTCCTGCTGCACCTGGACCAG-CGCCTGCCCTTCCTGCCCCTGCTGCTGACCTCCGTGTACTCGGCGTTGGGAGTGCTCTACTTCTTTGGGGCCTACTATCTGTACGCTCTGGGCATCAGCTGG------------GGCAAGGTGGCCAT------TGCATC-----GT------CCACATCCGT---GGCCGCTGT------------TAAGAGAAAAC
droSec2	scaffold_4:79281-79466 -		ATCTGCTCTCGTTCCTGCTGCACCTGGACCAG-CGCCTGCCCTTCCTGCCCCTGCTTCTGACCTCCGTGTACTCGGCGTTGGGAGTGCTCTACTTCTTTGGGGCCTACTATCTGTACGCTCTGGGCATCAGCTGG------------GGCAAGGTGGCCAT------TGCATC-----GT------CCACATCCGC---GGCCGCTGT------------TAAGAGAAAAC
dm3	chrX:6716647-6716832 +		ATCTGCTCTCTTTCCTGCTGCACCTGGACCAG-CGCCTGCCCTTCTTGCCCCTACTGCTGACCTCCGTGTACTCGGCGTTGGGAGTGCTCTACTTCTTTGGGGCCTACTATCTGTACGCTCTGGGCATTAGCTGG------------GGCAAGGTGCCCAT------CGCATC-----GT------CCACATCCGC---GGCCGCTGT------------TAAGAGAAAAC
droEre2	scaffold_4690:15644588-15644779 +		ACCTGCTCTCGTTCCTGTTGCACCTAGACAAG-CGTCTGCCCTTCCTGCCCCTGCTGTTGACCTCCGTGTACTCGGCGCTGGGAGTGCTCTATTTCTTTGGGGCCTACTATCTATACGCCCTGGGCATCAGCTGC------------GGCAAAGTGGCCAT------CGCATC-----GTCATCCTCGTCGTCATC---GTCCGCTGT------------TAAGAGAAAAC
droYak3	X:2684133-2684319 +		TTCCGTAC------AAGACGCTTCTATACCAGCCTTGTGCCCTTCTTGTCCCTGCTGCTGACCTCCGTGTACTCGGCGCTGGGAGTGCTCTACTTCTTTGGGGCCTACTATCTGTACGCTCTGGGGATCAGCTGT------------GGCAAAGTGGCCAT------CGCATC-----GTCATCCGCGTCGTCCTC---GTCCGCTGT------------TAAGAGAAAAC
droEug1	scf7180000409095:45219-45404 +		ATCTGCTTTCATTCCTGCTGCACTTGGACAAA-CGTTTTCCCTTCCTGCCTTTGCTGCTGACCTCTGTGTACTCGGCATTGGGAGTACTCTACTTCTTTGGGGCTTACTATCTGTACGCCCTCGGCTACAGCTGG------------GGAAAGGTGGCCAT------CGCATC-----CT------CATCTTCCAC---GTCCGCTGT------------TAAGAGAAAAC
droBia1	scf7180000301760:1883977-1884168 -		ATCTGCTCTCGTTCCTGCTGCACCTGGACAAG-CGCCTGCCCTTCCTGCCGCTGCTGCTGACCTCCGTGTACTCGGCGTTGGGAGTGCTCTACTTCTTTGGGGCCTACTACCTGTACGCCCTGGGCTTCAGCTGG------------GGCAAGGTGGCCTCACCCGGCGCCTC-----CT------CCTCTTCCGC---GTCCGCTGT------------TAAAAGAAAAC
droTak1	scf7180000415873:336533-336709 +		ATCTGCTGGCGTTCCTCCTCCACCTGGACAAG-CGTCTGCCCTTCCTGCCGCTCCTGCTGACCTCCGTTTATGCTGCTTTAGGAGTGCTCTACTTCTTTGGCGCCTACTATCTGTATGCCTTGGGTTTCACCTGG------------GGCAAGGCC---A---------C--------TT------CCTCCTCTTC---CTCCTCCGT------------TAAGAGAAAAC
droEle1	scf7180000491006:1277679-1277876 -		ACCTGCTCGCCTTCCTGCTGCACCTGGACCGG-CGTCTTCCGTTCCTGCCGCTCCTGCTGACCTCCGTGTACGCGGCACTGGGCGTGCTCTACTTCTTCGGGGCCTACTATCTGTACGCCCTGGGCTTCAGCTGG------------GGCAAGGTGGCCATGAGCAGCTCAAC-----CTTGGCCTCCTCTTCCGC---GTCGGCTGT------------AAAGCGAAAAC
droRho1	scf7180000763611:438066-438251 +		ACCTGCTCGCCTTCCTGCTGCACTTGGACAAG-CGTCTTCCCTTCCTGCCACTCCTGCTGACATCCGTGTACTCGGCGCTGGGAGTGCTCTACTTCTTTGGGGCCTTCTATCTGTACGCCCTGGGCTTTACCTGG------------GGCAAGGTGGCCTTGAGCGGCCCATC-----CT------------GCTC---CTCCGCTGT------------TAAAAGAAAAC
droFic1	scf7180000453927:1279471-1279668 -		ACTTGCTCTCATTCCTGCTGCACTTGGACAAG-CGTCTGCCCTTCCTGCCACTCCTGCTGACCTCTGTTTACTCGGCGCTCGGGGTGCTCTATTTCTTTGGGGCCTACTATTTGTACGCCTTGGGCTTTAGCTTT------------GGCAAGGTGGCCAT------CGTATC-----CT------CGTCATCCTCAACGTCGGCTGT---TAACATAAAGAAAGGAAAAC
droKik1	scf7180000302610:429795-429971 +		ATTTATTGTCCTTTGTTTTGGGTTTGGACAAG-CGTCTGCCCTTTCTGCCGCTCCTGTTAACCTCGGTGTATGCGGGTTTGGGTGTCTTGTACTTTTTTGGAGGCTATTACCTGTATGCCTTGGGCTTAAATGGG------------GGTAACAAGGCGGC------GG--------------------GAGGCAC---TGCCTCGGT------------GAAGAGAAAAC
droAna3	scaffold_13117:516612-516806 +		ACCTGCTGGCCCACTTGCTTGGCTGGCACAGG-CGCCTGCCATTTCTGCCCCTGCTGCTGACCTCCGTGTACTCGGCAATTGGGGTGATCTACTTCTTCGGGGGCTACTACCTGTACGCCCTAGGCATCGGTTCGCA----------CGCGAAATGGCAC-----------TC-----CT------CGTCGTCCGC---GGAGACGGTCGAGAAGACTCGAAAGAAAAAAC
droBip1	scf7180000396412:452076-452270 +		ACTTGCTGGCCCACTTGCTTGGCTGGCACCGG-CGCCTGCCTTTTCTGCCCCTGCTGCTGACTTCCGTGTACTCGGCAATTGGGGTGATCTACTTCTTCGGGGGCTATTACCTGTACGCCCTAGGCATCGGTTCGCA----------CGCAAAGTGGCAC-----------TC-----CT------CGACGTCCGC---GGAGACGGTCGAGAAAACTCGAAAGAAAAAAC
dp5	XL_group1a:6545758-6545949 +		ACATCATCAGCCGACTGCTGGGCCTCCACATC-CGACTGCCCTTCATGCCGCTGCTATTGACGTCCACATACTCGGCCCTCGGTGTGGTCTACTTTTTTGGGCGCTACTATCTTTATGCCATGGGCGTCAGCTGG------------CCAAAGGTGGCTGCTCCCAAGGCCAC-----AG------CCACATACTC---CTCGTCTGC------------CAAGCGAAAGC
droPer2	scaffold_25:767450-767641 -		ACATTATCAGCCGATTGCTGGGCCTCCACATC-CGACTGCCCTTCATGCCGCTGCTATTGACGTCCACATACTCGGCCCTCGGGGTGGTCTACTTTTTTGGGCGCTACTATCTTTATGCCATGGGCGTCAGCTGG------------CCAAAGGTGGCTGCTCCCAAGGCCAC-----AG------CCACATACTC---CTCGTCTGC------------CAAGCGAAAGC
droWil2	scf2_1100000004401:886621-886743 -		ATATTGTGAGTCGTATTTTGGGTCTGCATCTC-CGTCTGCCGTTTTTGCCACTTCTCTTGACCTCCGTCTATTCTGCTCTGGGTGTACTCTATTTCTATGTGCGCTATTATGTTTATGCCATGG-----------------------------------------------------------------------------------------------------------
droVir3	scaffold_12928:4019688-4019879 -		ATATTGTCAGTCGTTTGTTGGGCCTGCATTCG-CTATTCCCATTCATGCCGCTGCTGCTTACCTCTGTGTATTCTGGATTGGGCGTGCTCTATTTCTATGTACGCTACTATATCTACGCCATGGACTTGAAGTGGC---CGAGCTTTGGCAAGCGGCGCGT------TACTCA-----AA------TC---AAATC---CTCAGCGAC------------CAAAAGAAAAC
droMoj3	scaffold_6359:609607-609804 -		ATATAATCAGTCGGCTATTGGGTCTGCACTTG-TCGCTTCCGTTCATGCCGCTGCTGCTCACCTCCGTCTACTGTGCGCTGGGCGTGACCTATTTCTATGTGCGCTACTATCTCTACGCCATGGACTTCCAGTGGCCGCCGAGCTTTGGCAAGCG-----T------CGCCGCGTCACAC------AAATCAAGTC---CTCAGTCTC------------AAAGCGAAAAC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

ATCTGCTCTCGTTCCTGCTGCACCTGGACCAG-CGCCTGCCCTTCCTGCCCCTGCTGCTGACCTCCGTGTACTCGGCGTTGGGAGTGCTCTACTTCTTTGGGGCCTACTATCTGTACGCTCTGGGCATCAGCTGG------------GGCAAGGTGGCCAT------TGCATC-----GT------CCACATCCGT---GGCCGCTGT------------TAAGAGAAAAC	Size	Hit Count	Total Norm	Total	V044 Embryo	M023 Head	M024 Male-body	M025 Embryo	O001 Testis	O002 Head	M053 Female-body	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary
...................................................CTGCTGCTGACCTCCGTGTACT..............................................................................................................................................................	22	1	9.00	9	0	4	1	0	0	0	0	1	0	2	0	1
...................................................CTGCTGCTGACCTCCGTGTA................................................................................................................................................................	20	1	3.00	3	0	0	0	0	0	0	0	0	0	3	0	0
......................................................................................GCTCTACTTCTTTGGGGC...............................................................................................................................	18	1	2.00	2	0	0	0	2	0	0	0	0	0	0	0	0
....................................................TGCTGCTGACCTCCGTGTACT..............................................................................................................................................................	21	1	2.00	2	0	1	0	0	0	0	0	1	0	0	0	0
.........................................................................................................TACTATCTGTACGCTCTGGGCATCAGC...................................................................................................	27	1	2.00	2	0	0	0	0	0	0	0	0	2	0	0	0
........................................................................................................CTACTATCTGTACGCTCTGGGCATCA.....................................................................................................	26	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0
........TCGTTCCTGCTGCACCTGGACCAG-C.....................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
..................................................................................................................TACGCTCTGGGCATCAGCTGG------------G...................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0

droSec2

ATCTGCTCTCGTTCCTGCTGCACCTGGACCAG-CGCCTGCCCTTCCTGCCCCTGCTTCTGACCTCCGTGTACTCGGCGTTGGGAGTGCTCTACTTCTTTGGGGCCTACTATCTGTACGCTCTGGGCATCAGCTGG------------GGCAAGGTGGCCAT------TGCATC-----GT------CCACATCCGC---GGCCGCTGT------------TAAGAGAAAAC	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
...............................................................................................................................................................AT------TGCATC-----GT------CCACATCCGC---GGCC............................	24	1	1.00	1	0	1	0	0
..................................................................................................................TACGCTCTGGGCATCAGCTGG------------....................................................................................	21	1	1.00	1	1	0	0	0

droEre2

ACCTGCTCTCGTTCCTGTTGCACCTAGACAAG-CGTCTGCCCTTCCTGCCCCTGCTGTTGACCTCCGTGTACTCGGCGCTGGGAGTGCTCTATTTCTTTGGGGCCTACTATCTATACGCCCTGGGCATCAGCTGC------------GGCAAAGTGGCCAT------CGCATC-----GTCATCCTCGTCGTCATC---GTCCGCTGT------------TAAGAGAAAAC	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
.................................................................................................................................................................................................ATC---GTCCGCTGT------------TAAGAGA....	19	1	1.00	1	0	0	1	0	0	0
.................................................CCCTGCTGTTGACCTCCGT...................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0	0
.............................................................CCTCCGTGTACTCGGCGCTGG.....................................................................................................................................................	21	1	1.00	1	0	0	0	0	1	0
...............................................................................................................................TCAGCTGC------------GGCAAAGTGGCCAT------CGC.............................................................	25	1	1.00	1	0	0	0	0	1	0

droYak3

TTCCGTAC------AAGACGCTTCTATACCAGCCTTGTGCCCTTCTTGTCCCTGCTGCTGACCTCCGTGTACTCGGCGCTGGGAGTGCTCTACTTCTTTGGGGCCTACTATCTGTACGCTCTGGGGATCAGCTGT------------GGCAAAGTGGCCAT------CGCATC-----GTCATCCGCGTCGTCCTC---GTCCGCTGT------------TAAGAGAAAAC	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
...........................................................................................................CTATCTGTACGCTCTGGGGAT.......................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0
.......................................................TGCTGACCTCCGTGTACTCGGCGCT.......................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	1	0
...........................................................................................................CTATCTGTACGCTCTGGG..........................................................................................................	18	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................................CTATCTGTACGCTCTGGGGATCAGCT..................................................................................................	26	1	1.00	1	0	0	0	0	1	0	0
........................................................................................................CTACTATCTGTACGCTCTGGGGA........................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0

droEug1

ATCTGCTTTCATTCCTGCTGCACTTGGACAAA-CGTTTTCCCTTCCTGCCTTTGCTGCTGACCTCTGTGTACTCGGCATTGGGAGTACTCTACTTCTTTGGGGCTTACTATCTGTACGCCCTCGGCTACAGCTGG------------GGAAAGGTGGCCAT------CGCATC-----CT------CATCTTCCAC---GTCCGCTGT------------TAAGAGAAAAC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

ATCTGCTCTCGTTCCTGCTGCACCTGGACAAG-CGCCTGCCCTTCCTGCCGCTGCTGCTGACCTCCGTGTACTCGGCGTTGGGAGTGCTCTACTTCTTTGGGGCCTACTACCTGTACGCCCTGGGCTTCAGCTGG------------GGCAAGGTGGCCTCACCCGGCGCCTC-----CT------CCTCTTCCGC---GTCCGCTGT------------TAAAAGAAAAC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ATCTGCTGGCGTTCCTCCTCCACCTGGACAAG-CGTCTGCCCTTCCTGCCGCTCCTGCTGACCTCCGTTTATGCTGCTTTAGGAGTGCTCTACTTCTTTGGCGCCTACTATCTGTATGCCTTGGGTTTCACCTGG------------GGCAAGGCC---A---------C--------TT------CCTCCTCTTC---CTCCTCCGT------------TAAGAGAAAAC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

ACCTGCTCGCCTTCCTGCTGCACCTGGACCGG-CGTCTTCCGTTCCTGCCGCTCCTGCTGACCTCCGTGTACGCGGCACTGGGCGTGCTCTACTTCTTCGGGGCCTACTATCTGTACGCCCTGGGCTTCAGCTGG------------GGCAAGGTGGCCATGAGCAGCTCAAC-----CTTGGCCTCCTCTTCCGC---GTCGGCTGT------------AAAGCGAAAAC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

ACCTGCTCGCCTTCCTGCTGCACTTGGACAAG-CGTCTTCCCTTCCTGCCACTCCTGCTGACATCCGTGTACTCGGCGCTGGGAGTGCTCTACTTCTTTGGGGCCTTCTATCTGTACGCCCTGGGCTTTACCTGG------------GGCAAGGTGGCCTTGAGCGGCCCATC-----CT------------GCTC---CTCCGCTGT------------TAAAAGAAAAC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

ACTTGCTCTCATTCCTGCTGCACTTGGACAAG-CGTCTGCCCTTCCTGCCACTCCTGCTGACCTCTGTTTACTCGGCGCTCGGGGTGCTCTATTTCTTTGGGGCCTACTATTTGTACGCCTTGGGCTTTAGCTTT------------GGCAAGGTGGCCAT------CGTATC-----CT------CGTCATCCTCAACGTCGGCTGT---TAACATAAAGAAAGGAAAAC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

ATTTATTGTCCTTTGTTTTGGGTTTGGACAAG-CGTCTGCCCTTTCTGCCGCTCCTGTTAACCTCGGTGTATGCGGGTTTGGGTGTCTTGTACTTTTTTGGAGGCTATTACCTGTATGCCTTGGGCTTAAATGGG------------GGTAACAAGGCGGC------GG--------------------GAGGCAC---TGCCTCGGT------------GAAGAGAAAAC	Size	Hit Count	Total Norm	Total
No Reads

droAna3

ACCTGCTGGCCCACTTGCTTGGCTGGCACAGG-CGCCTGCCATTTCTGCCCCTGCTGCTGACCTCCGTGTACTCGGCAATTGGGGTGATCTACTTCTTCGGGGGCTACTACCTGTACGCCCTAGGCATCGGTTCGCA----------CGCGAAATGGCAC-----------TC-----CT------CGTCGTCCGC---GGAGACGGTCGAGAAGACTCGAAAGAAAAAAC	Size	Hit Count	Total Norm	Total	V105 Male-body	V106 Head	V055 Head	V039 Embryo	M044 Female-body	M058 Embryo
...........................................................................................................................................................GGCAC-----------TC-----CT------CGTCGTCCGC---G...............................	20	1	1.00	1	0	0	0	0	1	0
..............................................TGCCCCTGCTGCTGACCTCCGTGT.................................................................................................................................................................	24	1	1.00	1	0	0	0	0	1	0
...........................................TTCTGCCCCTGCTGCTGACCTCCGTG..................................................................................................................................................................	26	1	1.00	1	0	0	0	0	1	0
............................................................................................................................................................................................TCGTCCGC---GGAGACGGTCGAGAAGACTC............	28	1	1.00	1	0	0	0	0	1	0
......................................................................ACTCGGCAATTGGGGTGATCTACTTC.......................................................................................................................................	26	1	1.00	1	0	0	0	0	1	0
...............................................................................TTGGGGTGATCTACTTCTTCGGGGGC..............................................................................................................................	26	1	1.00	1	0	0	0	0	1	0
..............................................................................................................................ATCGGTTCGCA----------CGCGAAATGGCAC-----------T...........................................................	25	1	1.00	1	0	0	0	0	1	0
.....................................TGCCATTTCTGCCCCTGCTGCTGACC........................................................................................................................................................................	26	1	1.00	1	0	0	0	0	1	0
...........................................................................................................................GGCATCGGTTCGCA----------CGCGAAATGGCAC-----------............................................................	27	1	1.00	1	0	0	0	0	1	0
...............................................................................................................................TCGGTTCGCA----------CGCGAAATGGCAC-----------TC-----CT------C............................................	28	1	1.00	1	0	0	0	0	1	0
..CTGCTGGCCCACTTGCTTG..................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	1	0
......................................................................................................................................................GAAATGGCAC-----------TC-----CT------CGTCGTCCGC---G...............................	25	1	1.00	1	0	0	0	0	1	0
..................................................................................................................TACGCCCTAGGCATCGGTTCGCA----------CGCG................................................................................	27	1	1.00	1	0	0	0	0	1	0
.........................................................................................................................TAGGCATCGGTTCGCA----------CGCGAAATGGCAC-----------............................................................	29	1	1.00	1	0	0	0	0	1	0
.......................................................TGCTGACCTCCGTGTACTCGG...........................................................................................................................................................	21	1	1.00	1	0	0	0	0	1	0
..................................................................................................................................GTTCGCA----------CGCGAAATGGCAC-----------TC-----C....................................................	23	1	1.00	1	0	1	0	0	0	0

droBip1

ACTTGCTGGCCCACTTGCTTGGCTGGCACCGG-CGCCTGCCTTTTCTGCCCCTGCTGCTGACTTCCGTGTACTCGGCAATTGGGGTGATCTACTTCTTCGGGGGCTATTACCTGTACGCCCTAGGCATCGGTTCGCA----------CGCAAAGTGGCAC-----------TC-----CT------CGACGTCCGC---GGAGACGGTCGAGAAAACTCGAAAGAAAAAAC	Size	Hit Count	Total Norm	Total
No Reads

dp5

ACATCATCAGCCGACTGCTGGGCCTCCACATC-CGACTGCCCTTCATGCCGCTGCTATTGACGTCCACATACTCGGCCCTCGGTGTGGTCTACTTTTTTGGGCGCTACTATCTTTATGCCATGGGCGTCAGCTGG------------CCAAAGGTGGCTGCTCCCAAGGCCAC-----AG------CCACATACTC---CTCGTCTGC------------CAAGCGAAAGC	Size	Hit Count	Total Norm	Total	V112 Male-body	V043 Embryo	V051 Head	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head
............GACTGCTGGGCCTCCACATC-C.....................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	1	0	0
.........GCCGACTGCTGGGCCTCCAC..........................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0
..............................................................................................................................................................................................ATACTC---CTCGTCTGC------------CAAGCGAAAGC	26	1	1.00	1	0	0	0	0	1	0	0

droPer2

ACATTATCAGCCGATTGCTGGGCCTCCACATC-CGACTGCCCTTCATGCCGCTGCTATTGACGTCCACATACTCGGCCCTCGGGGTGGTCTACTTTTTTGGGCGCTACTATCTTTATGCCATGGGCGTCAGCTGG------------CCAAAGGTGGCTGCTCCCAAGGCCAC-----AG------CCACATACTC---CTCGTCTGC------------CAAGCGAAAGC	Size	Hit Count	Total Norm	Total	V111 Male-body	V042 Embryo	V050 Head	V057 Head	M021 Embryo	M042 Female-body
.........................................................................................CTACTTTTTTGGGCGCTACT..........................................................................................................................	20	1	1.00	1	0	1	0	0	0	0
....................................CTGCCCTTCATGCCGCTGCTATT............................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0

droWil2

ATATTGTGAGTCGTATTTTGGGTCTGCATCTC-CGTCTGCCGTTTTTGCCACTTCTCTTGACCTCCGTCTATTCTGCTCTGGGTGTACTCTATTTCTATGTGCGCTATTATGTTTATGCCATGG-----------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	V117 Male-body	V118 Embryo	V119 Head	M020 Head	M045 Female-body
..........................................................TGACCTCCGTCTATTCTGCTCTGGGTG..................................................................................................................................................	27	1	4.00	4	0	0	0	0	4
.............TATTTTGGGTCTGCATCTC-CGTCTGC...............................................................................................................................................................................................	26	1	2.00	2	0	0	0	0	2
.....GTGAGTCGTATTTTGGGTCTGCATCT........................................................................................................................................................................................................	26	1	2.00	2	0	0	0	2	0
.....................................................TCTCTTGACCTCCGTCTATTCTGCTC........................................................................................................................................................	26	1	2.00	2	0	0	0	0	2
.....................................................................TATTCTGCTCTGGGTGTACTCTAT..........................................................................................................................................	24	1	2.00	2	0	0	0	0	2
........................TGCATCTC-CGTCTGCCGTTTTTGCCAC...................................................................................................................................................................................	27	1	2.00	2	0	0	0	0	2
.....................................TGCCGTTTTTGCCACTTCTCTTGACC........................................................................................................................................................................	26	1	2.00	2	0	0	0	0	2
................TTTGGGTCTGCATCTC-CGTCTGCCGT............................................................................................................................................................................................	26	1	2.00	2	0	0	0	0	2
......TGAGTCGTATTTTGGGTCTGCATCTC-......................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	1
..................................................................GTCTATTCTGCTCTGGGT...................................................................................................................................................	18	1	1.00	1	0	1	0	0	0
......TGAGTCGTATTTTGGGTCTGCATCTC-CG....................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	1
..............................................TGCCACTTCTCTTGACCTCCGTCTAT...............................................................................................................................................................	26	1	1.00	1	0	0	0	0	1
....................................................................CTATTCTGCTCTGGGTGT.................................................................................................................................................	18	1	1.00	1	0	1	0	0	0
ATATTGTGAGTCGTATTTTGGGTCTGC............................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0
........................................................................TCTGCTCTGGGTGTACTCTATTTCTATG...................................................................................................................................	28	1	1.00	1	0	0	0	0	1
.....................................................TCTCTTGACCTCCGTCTATTCTGC..........................................................................................................................................................	24	1	1.00	1	0	0	0	0	1
..................................GTCTGCCGTTTTTGCCACTT.................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0
...............TTTTGGGTCTGCATCTC-CGTCTGCCGT............................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	1
.............................................................................................TTCTATGTGCGCTATTATGTTTATGCCA..............................................................................................................	28	1	1.00	1	0	0	0	0	1
..............................................TGCCACTTCTCTTGACCTCCGTCTATTC.............................................................................................................................................................	28	1	1.00	1	0	0	0	0	1
.......................................................................................CTCTATTTCTATGTGCGCTAT...........................................................................................................................	21	1	1.00	1	0	1	0	0	0
..............................................................CTCCGTCTATTCTGCTCTGGGT...................................................................................................................................................	22	1	1.00	1	0	1	0	0	0
.TATTGTGAGTCGTATTTTGGGTC...............................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0
..........................................................................TGCTCTGGGTGTACTCTATT.........................................................................................................................................	20	1	1.00	1	0	0	0	0	1
.............................................................................................TTCTATGTGCGCTATTAT........................................................................................................................	18	1	1.00	1	0	1	0	0	0
...........CGTATTTTGGGTCTGCATCTC-CGTCTG................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	1
........................................CGTTTTTGCCACTTCTCTTGACCTCCG....................................................................................................................................................................	27	1	1.00	1	0	0	0	0	1
.TATTGTGAGTCGTATTTTGGGTCTGC............................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	1
.TATTGTGAGTCGTATTTTGGGTCTG.............................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1
..........................................................TGACCTCCGTCTATTCTGCTCTGGG....................................................................................................................................................	25	1	1.00	1	0	0	0	0	1
ATATTGTGAGTCGTATTTTGGGT................................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0
.............................................TTGCCACTTCTCTTGACCTCCGTCTAT...............................................................................................................................................................	27	1	1.00	1	0	0	0	0	1
..................................................................................................TGTGCGCTATTATGTTTATGC................................................................................................................	21	1	1.00	1	0	1	0	0	0
.............................................TTGCCACTTCTCTTGACCTCCGTCTA................................................................................................................................................................	26	1	1.00	1	0	0	0	0	1
.....................................................................TATTCTGCTCTGGGTGTACTCTATT.........................................................................................................................................	25	1	1.00	1	0	0	0	0	1
..................TGGGTCTGCATCTC-CGTCTGCCGTT...........................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1
....................................................................................GTACTCTATTTCTATGTGCGCT.............................................................................................................................	22	1	1.00	1	1	0	0	0	0

droVir3

ATATTGTCAGTCGTTTGTTGGGCCTGCATTCG-CTATTCCCATTCATGCCGCTGCTGCTTACCTCTGTGTATTCTGGATTGGGCGTGCTCTATTTCTATGTACGCTACTATATCTACGCCATGGACTTGAAGTGGC---CGAGCTTTGGCAAGCGGCGCGT------TACTCA-----AA------TC---AAATC---CTCAGCGAC------------CAAAAGAAAAC	Size	Hit Count	Total Norm	Total	V116 Male-body	V053 Head	V047 Embryo	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
...........................................................TACCTCTGTGTATTCTGGATTGGGC...................................................................................................................................................	25	1	2.00	2	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	1	0	0	0	0	0	0	0	0
ATATTGTCAGTCGTTTGTTGGGCCTG.............................................................................................................................................................................................................	26	1	1.00	1	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
........................................................GCTTACCTCTGTGTATTCTGGA.........................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
....TGTCAGTCGTTTGTTGGG.................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0
................................................................CTGTGTATTCTGGATTGGGCGTGC...............................................................................................................................................	24	1	1.00	1	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
....................................................................GTATTCTGGATTGGGCGT.................................................................................................................................................	18	2	1.00	2	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	1	0	0	0
.................................................................TGTGTATTCTGGATTGGGCGTGC...............................................................................................................................................	23	1	1.00	1	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
.......................................................................................................................................................................TACTCA-----AA------TC---AAATC---CTCAGCGAC------------CAAA.......	28	1	1.00	1	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
................................................................................................................................................................T------TACTCA-----AA------TC---AAATC---CTCAGCGAC------------C..........	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................GGCGCGT------TACTCA-----AA------TC---AAATC---CTCAGC..........................	28	1	1.00	1	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
........AGTCGTTTGTTGGGCCTGC............................................................................................................................................................................................................	19	1	1.00	1	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
........................TGCATTCG-CTATTCCCATTCATGCCGCTG.................................................................................................................................................................................	29	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	1	0	0	0	0	0	0	0	0	0
......................................................................................GCTCTATTTCTATGTACGCTACTATATC.....................................................................................................................	28	1	1.00	1	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
....TGTCAGTCGTTTGTTGGGCCTG.............................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0
................................................................CTGTGTATTCTGGATTGGGCGT.................................................................................................................................................	22	1	1.00	1	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
.........................GCATTCG-CTATTCCCATTCATGCC.....................................................................................................................................................................................	24	1	1.00	1	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
...........................................................................................................................................................................................C---AAATC---CTCAGCGAC------------CAAA.......	19	1	1.00	1	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
.............................................................................................................................................................GCGT------TACTCA-----AA------TC---AAATC---CTCAGC..........................	25	1	1.00	1	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
....................................................................................................................................TGGC---CGAGCTTTGGCAAGCGG...........................................................................	21	2	0.50	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	1
..................................................................................................................TACGCCATGGACTTGAAGT..................................................................................................	19	2	0.50	1	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
ATATTGTCAGTCGTTTGTT....................................................................................................................................................................................................................	19	2	0.50	1	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
.......................................................................TTCTGGATTGGGCGTGCTCTA...........................................................................................................................................	21	2	0.50	1	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

droMoj3

ATATAATCAGTCGGCTATTGGGTCTGCACTTG-TCGCTTCCGTTCATGCCGCTGCTGCTCACCTCCGTCTACTGTGCGCTGGGCGTGACCTATTTCTATGTGCGCTACTATCTCTACGCCATGGACTTCCAGTGGCCGCCGAGCTTTGGCAAGCG-----T------CGCCGCGTCACAC------AAATCAAGTC---CTCAGTCTC------------AAAGCGAAAAC	Size	Hit Count	Total Norm	Total	V110 Male-body	V056 Head	V049 Head	V041 Embryo	M046 Female-body	M060 Embryo
.............................................................................................................ATCTCTACGCCATGGACTTCCAG...................................................................................................	23	1	1.00	1	0	0	0	0	1	0

dsi_100

X:5271626-5271711 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-19.3	-18.6	-18.6