dsi_129

############################################################################################################################################################ GGGTAGCAGTCCGGATTCCATGCAAAAACATATGAGAAGCGTTTCCGAGTCGAGCAGCAGTGGTTTCTTTGATCTTGAGGAGAAAATCAAAGAGCTGCCAGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA *********************************.(((((..(((((((.(((..((..(((((((((((((.((......)).)))))))))..)))))).))).)))))))))))).**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O002 Head	M023 head	SRR618934 Ovary	O001 Testis	M024 male body	SRR553485 Ovary	SRR553486 Ovary	M025 embryo	M053 Female-body	SRR553487 Ovary	GSM343915 embryo	SRR553488 Ovary
..................................................CGAGCAGCAGTGGTTTCTTTGA....................................................................................	22	0	1	97.00	97	32	32	5	7	4	6	7	1	0	0	0	3
..................................................CGAGCAGCAGTGGTTTCTTTGAT...................................................................................	23	0	1	65.00	65	1	28	7	0	10	5	4	5	2	2	1	0
..................................................CGAGCAGCAGTGGTTTCTTTG.....................................................................................	21	0	1	19.00	19	12	2	3	0	1	0	0	0	1	0	0	0
..................................................CGAGCAGCAGTGGTTTCT........................................................................................	18	0	1	19.00	19	10	0	1	7	0	0	0	1	0	0	0	0
..................................................CGAGCAGCAGTGGTTTCTTTGATC..................................................................................	24	0	1	9.00	9	8	0	0	1	0	0	0	0	0	0	0	0
..................................................CGAGCAGCAGTGGTTTCTT.......................................................................................	19	0	1	7.00	7	4	1	0	2	0	0	0	0	0	0	0	0
..................................................CGAGCAGCAGTGGTTTCTTTGAA...................................................................................	23	1	1	7.00	7	0	1	1	0	0	2	2	0	0	0	0	1
..................................................CGAGCAGCAGTGGTTTCTTTGG....................................................................................	22	1	1	6.00	6	0	3	0	0	1	0	0	2	0	0	0	0
......................................................................................................................................GTGGCACCAACAAGAAGAAGAA	22	2	1	4.00	4	0	0	0	0	0	0	0	0	0	4	0	0
..................................................CGAGCAGCAGTGGTTTCTTTGATA..................................................................................	24	1	1	4.00	4	0	0	0	0	0	1	0	2	0	0	1	0
........................................................................................AAAGAGCTGCCAGCCCTCAGC...............................................	21	0	1	3.00	3	0	0	2	0	0	0	0	0	0	0	1	0
..................................................CGAGCAGCAGTGGTTTCTTTGAC...................................................................................	23	1	1	3.00	3	0	3	0	0	0	0	0	0	0	0	0	0
...................................................GAGCAGCAGTGGTTTCTTTGA....................................................................................	21	0	1	3.00	3	3	0	0	0	0	0	0	0	0	0	0	0
..................................................CGAGCAGCAGTGGTTTCTTT......................................................................................	20	0	1	2.00	2	1	0	0	0	0	0	0	0	0	0	1	0
......................................................................................TCAAAGAGCTGCCAGCCCT...................................................	19	0	1	2.00	2	0	0	0	0	0	0	0	2	0	0	0	0
...................................................GAGCAGCAGTGGTTTCTTTGAT...................................................................................	22	0	1	2.00	2	0	0	1	0	0	1	0	0	0	0	0	0
.............................................................................................................TTGGACGCTTACCTGCAGCGCAAACGT....................	27	0	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
..................................................CGAGCAGCAGGGGTTTCTTTGA....................................................................................	22	1	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
.......................................................................................CAAAGAGCTGCCAGCCCTCAA................................................	21	1	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0
..............................................................................................CTGCCAGCCCTCAGCTTGGAC.........................................	21	0	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0
..................................................CGAGCAGCAGTGGTTTCTTTGAAA..................................................................................	24	2	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0
........................................................................................AAAGAGCTGCCAGCCCTCAG................................................	20	0	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
..................................................CGAGTAGCAGTGGTTTCTTTGA....................................................................................	22	1	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0	0
..................................................CGAGCAGCAGTGGTTTCTTTGATAA.................................................................................	25	2	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
........................................................GCAGTGGTTTCTTTGAT...................................................................................	17	0	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
..................................................CGAGCAGCAGTGGTTTCTTTGATT..................................................................................	24	1	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
.....................................................GCAGCAGTGGTTTCTTTGA....................................................................................	19	0	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0
.......................................................................................CAAAGAGCTGCCAGCCCTCAG................................................	21	0	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0
.......................................................................................CAAAGAGCTGCCAGCCCTCAGC...............................................	22	0	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
..................................................CGAGCAGCAGTGGTTTCTTTTAA...................................................................................	23	2	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
.........................................TTTCCGAGTCGAGCAGCAGTG..............................................................................................	21	0	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0
...................................................................TTTGATCTTGAGGAGAAAA......................................................................	19	0	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
.........TCCGGATTCCATGCAAAA.................................................................................................................................	18	0	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0	0
..................................................CGAGCAGCAGCGGTTTCTTTG.....................................................................................	21	1	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0
.........................................................................................................CAGCTTGGACGCTTACCTGCAGCGC..........................	25	0	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0
.................................................TCGAGCAGCAGTGGTTTCTTTGA....................................................................................	23	0	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0
..................................................CGAGCAGCAGTGGCTTCTTTG.....................................................................................	21	1	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0
..................................................CGAGCAGCAGTGGTTTCTTTAAAA..................................................................................	24	3	2	0.50	1	0	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................GTGGCACCAACAAGAAGAAG..	20	2	2	0.50	1	0	0	0	0	0	1	0	0	0	0	0	0
..................................................CGAGCAGCAGTGGTTTCTTTA.....................................................................................	21	1	2	0.50	1	0	0	1	0	0	0	0	0	0	0	0	0
....................................................................TTGGTTTTGAGGAGAAAATCT...................................................................	21	3	3	0.33	1	0	0	1	0	0	0	0	0	0	0	0	0
.....................................ATCTTTTCCGAGTCGAGC.....................................................................................................	18	2	4	0.25	1	0	0	0	0	1	0	0	0	0	0	0	0
......................................................................................................................................GTGGCACCAACAAGAAGAA...	19	2	7	0.14	1	0	0	1	0	0	0	0	0	0	0	0	0
................................................................................AGAAACTCAACGAGCTTCCA........................................................	20	3	12	0.08	1	0	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................CAAAGAGCTGCAAGACC....................................................	17	2	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0

############################################################################################################################################################ TTCTTCTTCTTTTTGGTGCTACGTTTGCGCTGCAGGTAAGCGTCCAAGCTGAGGGCTGGCAGCTCTTTGATTTTCTCCTCAAGATCAAAGAAACCACTGCTGCTCGACTCGGAAACGCTTCTCATATGTTTTTGCATGGAATCCGGACTGCTACCC **********************************.((((((((((((.(((.((((((..(((((((((.((......)).)))))))))))))..))..))).)))))))..))))).*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O002 Head
...............................................................................................ACTGCTGCTAGACTC..............................................	15	1	6	3.50	21	0
.................GCTACGTTTGCGCTGCAG.........................................................................................................................	18	0	1	1.00	1	1
............................GCTGCAGGTATGCGT.................................................................................................................	15	1	8	0.13	1	0
..........................................TCCAAGCGCAGGGCTGG.................................................................................................	17	2	11	0.09	1	0
................................................................................................ATGCTGCTCGAGTCGGA...........................................	17	2	18	0.06	1	0
.......................TTTGCGCTGCAGGGA......................................................................................................................	15	1	20	0.05	1	0
.....................................................................................................................................GCAGCGAATCCGGACTGTT....	19	3	20	0.05	1	0

Species	Coordinate	ID	Alignment
droSim3	X:16378431-16378586 +	dsi_129	GGGTA------GCAGT------CCGGATTCCATGCAAAAACATATGAGAAGCGTTTCCGAGTCGAGCAGCAGTGGT------TTCTTTGATCTTGAGGAGAAAATCAAAGAGCTGCCAGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA
droSec2	scaffold_8:3550607-3550762 +		GGGTA------GCAGT------CCGGATTCCATGCAAAAACATATGAGAAGCGTTTCCGAGTCAAGCAGCAGTGGT------TTCTTCGATCTCGAGGAGAAAATCAAAGAGCTGCCAGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA
dm3	chrX:21242642-21242797 +		GGGTA------GCAGT------CCGGATTCCATGCAAAAACATATAAGAAGCGTTTCCGAGTCAAGCAGCAGTGGT------TTCTTTGATCTCGAGGAGAAAATCAAAGAGCTGCCAGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA
droEre2	scaffold_4690:17773227-17773382 +		GGGTA------CAAGT------CCGGATTCCATGCAAAAACATATGAGGAGCGTTTCCGAGTCAAGCAGCAGTGGT------TTCTTTGATCTCGAGGAGAAAATCAAAGAGCTGCCGGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA
droYak3	X:20421727-20421882 +		GGGTA------ACAGT------CCGGATTCCATGCAAAAAAATATGAGGAGCGTTTCAGAGTCAAGCAGCAGTGGT------TTCTTTGATCTCGAGGAGAAAATCAAAGAGCTGCCGGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA
droEug1	scf7180000408193:230876-231031 -		GGATA------GTTGT------CCGGACTCCATGCAAAAGCATATCAGGAGCGTTTCTGAGTCGAGTAGCAGTGGC------TTTTTCGATCTTGAGGAGAAGATCAAGGAGTTGCCGGCGCTCAGTTTGGATGCTTACCTGCAACGGAAGCGTAGCACCAAAAAGAAGAAGAA
droBia1	scf7180000302432:367585-367740 -		AAACA------GAAGT------TCGGATTCCAATCAGAAGCATCCGCGGAGCGTTTCCGAGTCTAGCAACAGTGGT------TTCTTCGATCTCGAGGAGAAGATCAAGGAGCTGCCGGCCCTCAGCTTGGATGCGTATCTGCAGCGCAAGCGAAGCACCAAAAAGAAGAAGAA
droTak1	scf7180000415769:188161-188316 -		GAACA------GAAGT------CCGGACTCCAGGCAGAAGCATCTGCGCAGCGTCTCCGAGTCCAGCAACGGTGGT------TTCTTCGATCTCGAGGAGAAGATCAAGGAGCTGCCGGCCCTCAGTTTGGATGCCTACTTGCAGCGCAAGCGTAGCACCAAAAAGAAGAAGAA
droEle1	scf7180000491087:1164332-1164487 -		TGGCA------GCAGC------CCCGATGCCATGCAAAAGCATGTGAGGACCGTTTCCGAGTCGAGCAGCAGTGGT------TTCTTTGATCTCGAGGAGAAGATCAAGGAGCTGCCGGCCCTCAGCTTGGATGCTTACCTGCAGCGTAAGCGTAGCACCAAAAAGAAGAAGAA
droRho1	scf7180000779980:46810-46965 -		CGACA------GCAGT------CCCGATTCCATGCAAAAGCATCTGAGGACCGTTTCCGAGTCCAGCAGCAGTGGT------TTTTTTGATCTTGAGGAGAAGATCAAGGAGCTGCCGGCCCTCAGTTTGGATGCTTACCTGCAGCGCAAGCGCAGCACCAAAAAGAAGAAGAA
droFic1	scf7180000453926:219953-220108 +		AGACA------GCAGT------CCGGATTCCATGCAAAAGCATCCGAGGAGCGCGTCTGAGTCCAGCAGCAGTGGC------TTCTTCGACCTAGAGGAGAAGATTAAGGAGCTGCCAGCCCTCAGCTTGGATGCTTACTTGCAGCGCAAGCGCAGCACAAAAAAGAAGAGGAA
droKik1	scf7180000302586:301328-301477 +		CAACGACGCATGCAGT------CCAG------------TGCATCTAAGAAGTGTGTCCGAGTCGAGCAGCAGTGGC------TTCTTTGATTTGGAGGAGAAGATTAAGGAACTGCCGGCGCTAAGTCTTGATGCCTACCTTCAGCGCAAGCGCAGCACCAAAAAGAAGAAGAA
droAna3	scaffold_13117:3142032-3142172 -		GCAGA------GCAGC------C---------------GACATCAGCGCAGCGTGTCCGAGTCGAGTAGCAGTGGC------TTCTTCAATCTGGAGGAAAGGATCAAGGAGCTGCCGGCTCTCAGTTTGGACGCATATTTGCAGCGCAAGCGCAGTACCAAAAAGAAGAAGAA
droBip1	scf7180000395515:12072-12212 -		GCAGA------GCAGC---------------------AGGCATCAGCGCAGTGTGTCCGAGTCGAGCAGCAGTGGC------TTCTTCAATCTGGAGGAGAGGATCAAGGAGCTGCCGGCTCTCAGTTTGGATGCATATTTGCAGCGCAAGCGCAGTACCAAAAAGAAGAAGAA
dp5	XL_group1a:1466253-1466418 -		GCCTG------GAGGTAGCCACCAGCACGTCTTGTAA--ACACCCAAGAAGCGTCTCCGAGTCGAGCAGCAGTGGCGGCGGTGGCTTCGACCTGGAGGAGAAGATCAAAGAACTGACTGCGCTCAGTCTGGACGCCTACTTGCAGCGCAAGCGCAGCACCAAGAAAAAGAAGAA
droPer2	scaffold_499:2867-3031 -		GCCTG------GAGGTAGCCACCAGCACGTCTTGCAA--ACACCCAAGAAGCGTCTCCGAGTCGAGCAGCAGTGGCGGCGGTGGCTTCGACCTGGAGGAGAAGATCAAAGAACTGACTGCGCTCAGTCTGGACGC-TACTTGCAGCGCAAGCGCAGCACCAAGAAAAAGAAGAA
droWil2	scf2_1100000004909:8774760-8774886 -		A--------------------------------------GCACTTGAGAAGTGTTTCGGAATCGAGTAACAGCGGT---------TTTGATCTAGAGGAAAAGATCAAAGAGCTGCCAGCTCTCAGTTTGGATATATATTTACAGCGCAAACGCAGCACCAAAAAGAAGAAGAA
droVir3	scaffold_13042:4332877-4332965 +		-------------------------------------------------------------------------------------TTCGATTTGGAGGAGAAGATCAGGGAGCTGCCGGCGCTCAGTTTGGATGCCTATTTGCAGCGCAAGCGCAGCACCAAAAAGAAGAAGAA
droMoj3	scaffold_6359:2100770-2100858 -		-------------------------------------------------------------------------------------TTTGATTTAGAGGAGAAGATCAAGGAGTTGCCAGCTCTTAGTCTGGATGCGTATTTGCAGCGCAAGAGAAGCACCAAAAAGAAGAAGAA
droGri2	scaffold_14853:7189275-7189386 +		CG--------------------------------------------------------------AGGCGCAGCAATTGCGATGAATTTGATTTGGAAGAGAAAATCAAGGAGCTGCCGGCGCTCAGCTTGGATGCATATTTGCAGCGCAAGCGCAGCACCAAAAAGAAGAAGAA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

GGGTA------GCAGT------CCGGATTCCATGCAAAAACATATGAGAAGCGTTTCCGAGTCGAGCAGCAGTGGT------TTCTTTGATCTTGAGGAGAAAATCAAAGAGCTGCCAGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA	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
..............................................................CGAGCAGCAGTGGT------TTCTTTGA....................................................................................	22	1	97.00	97	0	32	4	1	7	32	0	6	7	0	3	5
..............................................................CGAGCAGCAGTGGT------TTCTTTGAT...................................................................................	23	1	65.00	65	1	28	10	5	0	1	2	5	4	2	0	7
..............................................................CGAGCAGCAGTGGT------TTCTTTG.....................................................................................	21	1	19.00	19	0	2	1	0	0	12	1	0	0	0	0	3
..............................................................CGAGCAGCAGTGGT------TTCT........................................................................................	18	1	19.00	19	0	0	0	1	7	10	0	0	0	0	0	1
..............................................................CGAGCAGCAGTGGT------TTCTTTGATC..................................................................................	24	1	9.00	9	0	0	0	0	1	8	0	0	0	0	0	0
..............................................................CGAGCAGCAGTGGT------TTCTT.......................................................................................	19	1	7.00	7	0	1	0	0	2	4	0	0	0	0	0	0
..........................................................................................................AAAGAGCTGCCAGCCCTCAGC...............................................	21	1	3.00	3	1	0	0	0	0	0	0	0	0	0	0	2
...............................................................GAGCAGCAGTGGT------TTCTTTGA....................................................................................	21	1	3.00	3	0	0	0	0	0	3	0	0	0	0	0	0
..............................................................CGAGCAGCAGTGGT------TTCTTT......................................................................................	20	1	2.00	2	1	0	0	0	0	1	0	0	0	0	0	0
........................................................................................................TCAAAGAGCTGCCAGCCCT...................................................	19	1	2.00	2	0	0	0	2	0	0	0	0	0	0	0	0
...............................................................GAGCAGCAGTGGT------TTCTTTGAT...................................................................................	22	1	2.00	2	0	0	0	0	0	0	0	1	0	0	0	1
...............................................................................................................................TTGGACGCTTACCTGCAGCGCAAACGT....................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1
................................................................................................................CTGCCAGCCCTCAGCTTGGAC.........................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
..........................................................................................................AAAGAGCTGCCAGCCCTCAG................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1
....................................................................GCAGTGGT------TTCTTTGAT...................................................................................	17	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1
.................................................................GCAGCAGTGGT------TTCTTTGA....................................................................................	19	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
.........................................................................................................CAAAGAGCTGCCAGCCCTCAG................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
.........................................................................................................CAAAGAGCTGCCAGCCCTCAGC...............................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1
.....................................................TTTCCGAGTCGAGCAGCAGTG....................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0
.....................................................................................TTTGATCTTGAGGAGAAAA......................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
...............T------CCGGATTCCATGCAAAA.......................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................CAGCTTGGACGCTTACCTGCAGCGC..........................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
.............................................................TCGAGCAGCAGTGGT------TTCTTTGA....................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0

droSec2

GGGTA------GCAGT------CCGGATTCCATGCAAAAACATATGAGAAGCGTTTCCGAGTCAAGCAGCAGTGGT------TTCTTCGATCTCGAGGAGAAAATCAAAGAGCTGCCAGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
................................................................AGCAGCAGTGGT------TTCTTCG.....................................................................................	19	1	1.00	1	0	0	0	1
.............................................................................................................................GCTTGGACGCTTACCTGCAGCGCAAAC......................	27	1	1.00	1	0	1	0	0
..............................................................CAAGCAGCAGTGGT------TTCT........................................................................................	18	1	1.00	1	0	1	0	0
..............................................................................................................................CTTGGACGCTTACCTGCAGCGCA.........................	23	1	1.00	1	1	0	0	0
.......................................................................GTGGT------TTCTTCGATCTCGAGGAG..........................................................................	23	1	1.00	1	1	0	0	0
....................................................GTTTCCGAGTCAAGCAGCAGTGGT------TT..........................................................................................	26	1	1.00	1	1	0	0	0
......................................................................................TCGATCTCGAGGAGAAAATCAAAGAGC.............................................................	27	1	1.00	1	0	1	0	0
.......................................................................................................................................TTACCTGCAGCGCAAACGTA...................	20	1	1.00	1	0	1	0	0

droEre2

GGGTA------CAAGT------CCGGATTCCATGCAAAAACATATGAGGAGCGTTTCCGAGTCAAGCAGCAGTGGT------TTCTTTGATCTCGAGGAGAAAATCAAAGAGCTGCCGGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
................................................................AGCAGCAGTGGT------TTCTTT......................................................................................	18	1	1.00	1	0	0	0	1	0	0
................................TGCAAAAACATATGAGGAGCGTT.......................................................................................................................	23	1	1.00	1	0	0	0	0	1	0
...................................................................................................GAAAATCAAAGAGCTGCCGGCCCT...................................................	24	1	1.00	1	0	0	0	1	0	0
.......................................................................................................................................TTACCTGCAGCGCAAACGT....................	19	1	1.00	1	0	0	0	1	0	0
.................................................................GCAGCAGTGGT------TTCTTTGAT...................................................................................	20	1	1.00	1	0	0	1	0	0	0
..............................................................................................................................CTTGGACGCTTACCTGCAGCGC..........................	22	1	1.00	1	0	0	1	0	0	0
........................................................................................................................................TACCTGCAGCGCAAACGTAGCACCAAAA..........	28	1	1.00	1	0	0	0	0	1	0
........................................................................................................................................TACCTGCAGCGCAAACGTAGCACCAAAAA.........	29	1	1.00	1	0	0	1	0	0	0
............................................................................................................................AGCTTGGACGCTTACCTGCAGCGCA.........................	25	1	1.00	1	0	0	0	0	1	0

droYak3

GGGTA------ACAGT------CCGGATTCCATGCAAAAAAATATGAGGAGCGTTTCAGAGTCAAGCAGCAGTGGT------TTCTTTGATCTCGAGGAGAAAATCAAAGAGCTGCCGGCCCTCAGCTTGGACGCTTACCTGCAGCGCAAACGTAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
...............................................................................................................................................AGCGCAAACGTAGCACCAA............	19	1	1.00	1	0	0	0	0	0	1	0
.GGTA------ACAGT------CCGGATTCCATGCAA.........................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0
................................................GAGCGTTTCAGAGTCAAGC...........................................................................................................	19	1	1.00	1	0	0	0	0	0	1	0
.......................................AAATATGAGGAGCGTTTCA....................................................................................................................	19	1	1.00	1	0	0	1	0	0	0	0
..GTA------ACAGT------CCGGATTCCATGCAAA........................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	1
......................................................................................................................................CTTACCTGCAGCGCAAAC......................	18	1	1.00	1	0	0	0	0	0	1	0
....A------ACAGT------CCGGATTCCATGCA..........................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0
........................................................................................................................................TACCTGCAGCGCAAACGTA...................	19	1	1.00	1	0	0	0	1	0	0	0
...................................................................................................GAAAATCAAAGAGCTGCCGGC......................................................	21	1	1.00	1	0	0	1	0	0	0	0
.................................................................................................................TGCCGGCCCTCAGCTTGGACGCTTAC...................................	26	1	1.00	1	0	0	0	0	0	0	1

droEug1

GGATA------GTTGT------CCGGACTCCATGCAAAAGCATATCAGGAGCGTTTCTGAGTCGAGTAGCAGTGGC------TTTTTCGATCTTGAGGAGAAGATCAAGGAGTTGCCGGCGCTCAGTTTGGATGCTTACCTGCAACGGAAGCGTAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AAACA------GAAGT------TCGGATTCCAATCAGAAGCATCCGCGGAGCGTTTCCGAGTCTAGCAACAGTGGT------TTCTTCGATCTCGAGGAGAAGATCAAGGAGCTGCCGGCCCTCAGCTTGGATGCGTATCTGCAGCGCAAGCGAAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GAACA------GAAGT------CCGGACTCCAGGCAGAAGCATCTGCGCAGCGTCTCCGAGTCCAGCAACGGTGGT------TTCTTCGATCTCGAGGAGAAGATCAAGGAGCTGCCGGCCCTCAGTTTGGATGCCTACTTGCAGCGCAAGCGTAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TGGCA------GCAGC------CCCGATGCCATGCAAAAGCATGTGAGGACCGTTTCCGAGTCGAGCAGCAGTGGT------TTCTTTGATCTCGAGGAGAAGATCAAGGAGCTGCCGGCCCTCAGCTTGGATGCTTACCTGCAGCGTAAGCGTAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CGACA------GCAGT------CCCGATTCCATGCAAAAGCATCTGAGGACCGTTTCCGAGTCCAGCAGCAGTGGT------TTTTTTGATCTTGAGGAGAAGATCAAGGAGCTGCCGGCCCTCAGTTTGGATGCTTACCTGCAGCGCAAGCGCAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AGACA------GCAGT------CCGGATTCCATGCAAAAGCATCCGAGGAGCGCGTCTGAGTCCAGCAGCAGTGGC------TTCTTCGACCTAGAGGAGAAGATTAAGGAGCTGCCAGCCCTCAGCTTGGATGCTTACTTGCAGCGCAAGCGCAGCACAAAAAAGAAGAGGAA	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CAACGACGCATGCAGT------CCAG------------TGCATCTAAGAAGTGTGTCCGAGTCGAGCAGCAGTGGC------TTCTTTGATTTGGAGGAGAAGATTAAGGAACTGCCGGCGCTAAGTCTTGATGCCTACCTTCAGCGCAAGCGCAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total
No Reads

droAna3

GCAGA------GCAGC------C---------------GACATCAGCGCAGCGTGTCCGAGTCGAGTAGCAGTGGC------TTCTTCAATCTGGAGGAAAGGATCAAGGAGCTGCCGGCTCTCAGTTTGGACGCATATTTGCAGCGCAAGCGCAGTACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total	V105 Male-body	V106 Head	V055 Head	V039 Embryo	M044 Female-body	M058 Embryo
..........................................................GAGTCGAGTAGCAGTGGC------TTCTTCA.....................................................................................	25	1	2.00	2	0	2	0	0	0	0
.CAGA------GCAGC------C---------------GACATCAGCGCAGC..........................................................................................................................	24	1	1.00	1	0	0	0	0	1	0
.............................................................................................GGAGGAAAGGATCAAGGAGC.............................................................	20	1	1.00	1	0	0	0	0	0	1
..................................................................................................................GCCGGCTCTCAGTTTGGACGC.......................................	21	1	1.00	1	0	0	0	0	0	1
.......................................................TCCGAGTCGAGTAGCAGTGGC------TTC.........................................................................................	24	1	1.00	1	0	0	0	0	0	1
.................................................................................................................................................CGCAAGCGCAGTACCAAAAAGAAGAA...	26	1	1.00	1	0	0	0	0	1	0
......................................................GTCCGAGTCGAGTAGCAGTGGC------T...........................................................................................	23	1	1.00	1	1	0	0	0	0	0
...................................................................................................AAGGATCAAGGAGCTGCCGGCTCTC..................................................	25	1	1.00	1	0	0	0	0	0	1
................................................CAGCGTGTCCGAGTCGAGTAGC........................................................................................................	22	1	1.00	1	0	0	0	0	1	0
..........................................................................GC------TTCTTCAATCTGGAGGAAAG........................................................................	22	1	1.00	1	1	0	0	0	0	0
........................................................CCGAGTCGAGTAGCAGTGGC------TTCTTC......................................................................................	26	1	1.00	1	0	0	1	0	0	0
.......................................................................................CAATCTGGAGGAAAGGATCAAGGAGCT............................................................	27	1	1.00	1	1	0	0	0	0	0
........................................................................................................................................TATTTGCAGCGCAAGCGCAGTACC..............	24	1	1.00	1	0	0	1	0	0	0
....................................................GTGTCCGAGTCGAGTAGCAGTGGC------TTC.........................................................................................	27	1	1.00	1	1	0	0	0	0	0
...........................................................................................................AGGAGCTGCCGGCTCTCAGTTTG............................................	23	1	1.00	1	0	0	0	0	1	0

droBip1

GCAGA------GCAGC---------------------AGGCATCAGCGCAGTGTGTCCGAGTCGAGCAGCAGTGGC------TTCTTCAATCTGGAGGAGAGGATCAAGGAGCTGCCGGCTCTCAGTTTGGATGCATATTTGCAGCGCAAGCGCAGTACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total
No Reads

dp5

GCCTG------GAGGTAGCCACCAGCACGTCTTGTAA--ACACCCAAGAAGCGTCTCCGAGTCGAGCAGCAGTGGCGGCGGTGGCTTCGACCTGGAGGAGAAGATCAAAGAACTGACTGCGCTCAGTCTGGACGCCTACTTGCAGCGCAAGCGCAGCACCAAGAAAAAGAAGAA	Size	Hit Count	Total Norm	Total	V112 Male-body	V043 Embryo	V051 Head	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head
.......................................................TCCGAGTCGAGCAGCAGTGG...................................................................................................	20	1	2.00	2	0	0	0	0	2	0	0
................................................................................................GGAGAAGATCAAAGAACTGACTGC......................................................	24	1	1.00	1	0	0	0	0	1	0	0
............................................................GTCGAGCAGCAGTGGCGGC...............................................................................................	19	1	1.00	1	0	0	0	0	0	1	0
....................................................GTCTCCGAGTCGAGCAGCA.......................................................................................................	19	1	1.00	1	0	0	0	0	1	0	0
...............................................................................................AGGAGAAGATCAAAGAACTGACTGCGCT...................................................	28	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................................................CAGTCTGGACGCCTACTTGCAGC............................	23	1	1.00	1	0	0	0	0	0	1	0
................................................................................................................CTGACTGCGCTCAGTCTGGACGCC......................................	24	1	1.00	1	0	0	0	0	1	0	0
......................................................CTCCGAGTCGAGCAGCAGTGGCGGC...............................................................................................	25	1	1.00	1	0	1	0	0	0	0	0
.....................................................................................TTCGACCTGGAGGAGAAGATCAAAGA...............................................................	26	1	1.00	1	0	0	0	0	1	0	0
..................................................................CAGCAGTGGCGGCGGTGGCTTCG.....................................................................................	23	1	1.00	1	1	0	0	0	0	0	0
...................................................................................................................ACTGCGCTCAGTCTGGACGC.......................................	20	1	1.00	1	0	0	0	0	1	0	0
...............................................GAAGCGTCTCCGAGTCGAGCA..........................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0
..................................................................................................................GACTGCGCTCAGTCTGGAC.........................................	19	1	1.00	1	0	0	0	0	1	0	0
....................................................GTCTCCGAGTCGAGCAGCAGTGGCGGC...............................................................................................	27	1	1.00	1	0	0	0	0	1	0	0
..................................................................................GGCTTCGACCTGGAGGAGAAG.......................................................................	21	1	1.00	1	0	0	0	0	1	0	0

droPer2

GCCTG------GAGGTAGCCACCAGCACGTCTTGCAA--ACACCCAAGAAGCGTCTCCGAGTCGAGCAGCAGTGGCGGCGGTGGCTTCGACCTGGAGGAGAAGATCAAAGAACTGACTGCGCTCAGTCTGGACGC-TACTTGCAGCGCAAGCGCAGCACCAAGAAAAAGAAGAA	Size	Hit Count	Total Norm	Total	V111 Male-body	V042 Embryo	V050 Head	V057 Head	M021 Embryo	M042 Female-body
.................................................................................................GAGAAGATCAAAGAACTGAC.........................................................	20	1	2.00	2	0	0	0	0	2	0
.........................................................................................................CAAAGAACTGACTGCGCTCA.................................................	20	1	1.00	1	0	0	0	0	1	0
........................................................CCGAGTCGAGCAGCAGTGGCGGC...............................................................................................	23	1	1.00	1	0	1	0	0	0	0
.................................................AGCGTCTCCGAGTCGAGC...........................................................................................................	18	1	1.00	1	0	0	0	0	1	0
.................................................................................................GAGAAGATCAAAGAACTGA..........................................................	19	1	1.00	1	0	0	0	0	1	0
...................................................................................................GAAGATCAAAGAACTGACT........................................................	19	1	1.00	1	0	0	0	0	1	0
.......................................................................................................ATCAAAGAACTGACTGCGCT...................................................	20	1	1.00	1	0	0	0	0	1	0
...................................................................................................GAAGATCAAAGAACTGACTGCGCT...................................................	24	1	1.00	1	0	0	0	0	1	0

droWil2

A--------------------------------------GCACTTGAGAAGTGTTTCGGAATCGAGTAACAGCGGT---------TTTGATCTAGAGGAAAAGATCAAAGAGCTGCCAGCTCTCAGTTTGGATATATATTTACAGCGCAAACGCAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total	V117 Male-body	V118 Embryo	V119 Head	M020 Head	M045 Female-body
............................................................................................TAGAGGAAAAGATCAAAGAGC.............................................................	21	1	3.00	3	3	0	0	0	0
...............................................................GAGTAACAGCGGT---------TTTGATCT.................................................................................	21	1	2.00	2	0	0	0	2	0
.................................................................................................................TGCCAGCTCTCAGTTTGGA..........................................	19	1	1.00	1	0	0	0	0	1
.................................................................GTAACAGCGGT---------TTTGATCTAGAGGAAAA........................................................................	28	1	1.00	1	1	0	0	0	0
..........................................................................GT---------TTTGATCTAGAGGAAAA........................................................................	19	1	1.00	1	0	0	0	1	0
.........................................................................................ATCTAGAGGAAAAGATCAAAGAGC.............................................................	24	1	1.00	1	1	0	0	0	0
...................................................................AACAGCGGT---------TTTGATCTAGA..............................................................................	20	1	1.00	1	0	1	0	0	0
......................................................................................................................................................ACGCAGCACCAAAAAGAAGAAGA.	23	1	1.00	1	0	1	0	0	0
...........................................TTGAGAAGTGTTTCGGAATC...............................................................................................................	20	1	1.00	1	0	1	0	0	0
...........................................................................................CTAGAGGAAAAGATCAAAGAGCT............................................................	23	1	1.00	1	1	0	0	0	0
...................................................................AACAGCGGT---------TTTGATCTAGAG.............................................................................	21	1	1.00	1	0	0	1	0	0
............................................TGAGAAGTGTTTCGGAATCGAG............................................................................................................	22	1	1.00	1	0	0	0	0	1
........................................................................................................................TCTCAGTTTGGATATATATTTACAGCG...........................	27	1	1.00	1	0	0	0	0	1
........................................................CGGAATCGAGTAACAGCGGT---------T........................................................................................	21	1	1.00	1	1	0	0	0	0
.......................................................................................TGATCTAGAGGAAAAGATCAAAGAGC.............................................................	26	1	1.00	1	0	0	0	0	1

droVir3

-------------------------------------------------------------------------------------TTCGATTTGGAGGAGAAGATCAGGGAGCTGCCGGCGCTCAGTTTGGATGCCTATTTGCAGCGCAAGCGCAGCACCAAAAAGAAGAAGAA	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
..........................................................................................................AGGGAGCTGCCGGCGCTCAGT...............................................	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	1	0	0	0
.....................................................................................................AGATCAGGGAGCTGCCGGCG.....................................................	20	1	1.00	1	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
.............................................................................................................................GTTTGGATGCCTATTTGCAGC............................	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	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................CAGTTTGGATGCCTATTTGCAGCG...........................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
................................................................................................GGAGAAGATCAGGGAGCTGCCGGC......................................................	24	1	1.00	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
.............................................................................................................................GTTTGGATGCCTATTTGCAGCGCA.........................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................GGGAGCTGCCGGCGCTCAGTT..............................................	21	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
................................................................................................................CTGCCGGCGCTCAGTTTGGA..........................................	20	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
.......................................................................................CGATTTGGAGGAGAAGATCAGGGAG..............................................................	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
.........................................................................................................................CTCAGTTTGGATGCCTATTTGCAGC............................	25	1	1.00	1	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
...................................................................................................GAAGATCAGGGAGCTGCCGGC......................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

-------------------------------------------------------------------------------------TTTGATTTAGAGGAGAAGATCAAGGAGTTGCCAGCTCTTAGTCTGGATGCGTATTTGCAGCGCAAGAGAAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total	V110 Male-body	V056 Head	V049 Head	V041 Embryo	M046 Female-body	M060 Embryo
......................................................................................TTGATTTAGAGGAGAAGATC....................................................................	20	1	1.00	1	0	0	0	0	1	0
.......................................................................................................................................GTATTTGCAGCGCAAGAGAAGCAC...............	24	1	1.00	1	0	0	0	0	1	0

droGri2

CG--------------------------------------------------------------AGGCGCAGCAATTGCGATGAATTTGATTTGGAAGAGAAAATCAAGGAGCTGCCGGCGCTCAGCTTGGATGCATATTTGCAGCGCAAGCGCAGCACCAAAAAGAAGAAGAA	Size	Hit Count	Total Norm	Total	V109 Male-body	M041 Female-body
.............................................................................GCGATGAATTTGATTTGGAAGAGAAAAT.....................................................................	28	1	1.00	1	1	0

dsi_129

X:16378481-16378536 +

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

-31.4	-31.4	-31.4