dan_46

AATAAAAAGTTAAATTCAAAATATGAAGACAGTTATTAACATTTATTACTTTTGTTACCGCTTCACATTGGCTTGCTTTAAAAAACAGTCAGGTGAGGTCGTGACAAAGATAATTCTTGTTTTTTCAACTCTTTAAACCAATAATTTTAAAGGTTGCCCTC *********************************..((((...((((.(((((((((.(((((((.((((((.............))))))))))))).))))))))).))))...))))....**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V105 male body	V106 head	M044 female body	V055 head	V039 embryo
........................................................................................TCAGGTGAGGTCGTGACAAAGA...................................................	22	0	1	245.00	245	179	46	14	6	0
........................................................................................TCAGGTGAGGTCGTGACAAAG....................................................	21	0	1	185.00	185	132	34	11	7	1
........................................................................................TCAGGTGAGGTCGTGACAAA.....................................................	20	0	1	37.00	37	27	7	2	1	0
........................................................................................TCAGGTGAGGTCGTGACAAAGAA..................................................	23	1	1	15.00	15	11	1	1	2	0
........................................................................................TCAGGTGAGGTCGTGACAAAGAT..................................................	23	0	1	8.00	8	4	2	1	1	0
........................................................................................TCAGGTGAGGTCGTGACAAAGT...................................................	22	1	1	4.00	4	3	1	0	0	0
..................................................TTTGTTACCGCTTCACATTGGCT........................................................................................	23	0	1	4.00	4	1	0	3	0	0
........................................................................................TCAGGTGAGGTCGTGACAAAT....................................................	21	1	1	3.00	3	1	1	0	1	0
........................................................................................TCAGGTGAGGTCGTGACAAAGAAA.................................................	24	1	1	3.00	3	2	1	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAA......................................................	19	0	1	3.00	3	3	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAAATA...................................................	22	1	1	2.00	2	2	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAAAA....................................................	21	1	1	2.00	2	2	0	0	0	0
........................................................................................TCAGGTGAGGTCGTTACAAAG....................................................	21	1	1	2.00	2	2	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACA.......................................................	18	0	1	2.00	2	0	1	1	0	0
........................................................................................TCAGGTGAGGTGGTGACAAAGA...................................................	22	1	1	2.00	2	2	0	0	0	0
.........................................................................................CAGGTGAGGTCGTGACAAAG....................................................	20	0	1	2.00	2	0	0	2	0	0
.........................................................................................CAGGTGAGGTCGTGACAAAGA...................................................	21	0	1	2.00	2	1	0	1	0	0
........................................................................................TCAGGTGAGGTAGTGACAAAGA...................................................	22	1	1	2.00	2	2	0	0	0	0
........................................................................................TCAGGTGAGGTTGTGACAAAGA...................................................	22	1	1	2.00	2	2	0	0	0	0
........................................................................................TCAGGTGAGGTCTTGACA.......................................................	18	1	1	1.00	1	0	1	0	0	0
........................................................................................TCGGGTGAGGTCGTGACAAAG....................................................	21	1	1	1.00	1	0	1	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAAT.....................................................	20	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCTTGACAAAGA...................................................	22	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTAGTGACAAAC....................................................	21	2	1	1.00	1	0	0	0	1	0
........................................................................................TCAGGTCAGGTCGTGACAAAT....................................................	21	2	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAAAAA...................................................	22	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTTACAAAGA...................................................	22	1	1	1.00	1	1	0	0	0	0
............................................................................TTTAAAAAACAGTCAGGTGAGGTCG............................................................	25	0	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAAAAAT..................................................	23	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAAAGAAT.................................................	24	2	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTCAGGTCGTGACAAAGA...................................................	22	1	1	1.00	1	1	0	0	0	0
........................................................................................TCATGTGAGGTCGTTACAAAGA...................................................	22	2	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAACGA...................................................	22	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAAAC....................................................	21	1	1	1.00	1	0	1	0	0	0
........................................................................................TCAGGTGAGGTCGTGACGAAGAA..................................................	23	2	1	1.00	1	0	1	0	0	0
........................................................................................TCAGGTGAGCTCGTGACAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGGGGTCGTGACAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGGCGTGACAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGGGACAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGCCGTGACAAAGA...................................................	22	1	1	1.00	1	0	0	0	1	0
........................................................................................TCAGGTGAGGTCGTGACAAGGAAAA................................................	25	2	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGACGTCGAGACAAAGA...................................................	22	2	1	1.00	1	1	0	0	0	0
.........................................................................TGCTTTGAAAAGCAGTCTGGTG..................................................................	22	3	1	1.00	1	0	0	0	1	0
........................................................................................TCAGGTGAGGTAGTGACAAAGAAA.................................................	24	2	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGACGTGACAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
................................................................................................................................CTCTTTAAACCACTAAGTTTA............	21	2	1	1.00	1	0	0	0	0	1
........................................................................................TCAGGTGAGGTCGTGACTAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGATGTCGTGACAAAGA...................................................	22	1	1	1.00	1	0	1	0	0	0
........................................................................................TCAGGTGAGGTCCTGACAAAGA...................................................	22	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAAGTCGTGACAAAG....................................................	21	1	1	1.00	1	0	0	1	0	0
........................................................................................TCAGGTGAGGTCGAGACGAAGA...................................................	22	2	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGACGTCGTGACAAAGA...................................................	22	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGACAAAGAAC.................................................	24	2	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCATGACAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
................................................................................AAATACCGTCAGGTGAGGTGGT...........................................................	22	3	1	1.00	1	0	0	0	1	0
........................................................................................TCAGGTCAGGTCGTGACAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGCCAAAGA...................................................	22	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGTCGTGATAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
........................................................................................TCAGGTGAGGACGTGACAAAGA...................................................	22	1	1	1.00	1	1	0	0	0	0
........................................................................................TAAGGTGAGGTCGTGACAAAG....................................................	21	1	1	1.00	1	1	0	0	0	0
........................................................................................CCAGGTGAGGTCGTGACAAAG....................................................	21	1	1	1.00	1	0	0	0	1	0
..................................................................................AAACAGGCAGGTGAGGTGCTG..........................................................	21	3	2	0.50	1	0	0	1	0	0
........................................................................................TCAGGTGAGGTCGCGACA.......................................................	18	1	2	0.50	1	1	0	0	0	0
......................................................................................AGTCAGGGGAGGTAGTGACGA......................................................	21	3	2	0.50	1	0	0	0	1	0
.....AAAGATAAATGCAAAAGATGAAG.....................................................................................................................................	23	3	3	0.33	1	0	0	0	1	0
......................................................................................AGCCAGGTGAGGTAGTGACGA......................................................	21	3	5	0.20	1	0	0	0	1	0
...........................................................................................GGTGAAGTCGTGACAAGGT...................................................	19	3	11	0.18	2	2	0	0	0	0
..................................................................................AAACAGGCAGGTGAGGTGCT...........................................................	20	3	6	0.17	1	0	0	1	0	0
..........................................................................................AGGGGAGGTCGTGACGA......................................................	17	2	15	0.13	2	0	0	0	2	0
......................................................................................................GACAAAGATAAATCTTTTT........................................	19	2	13	0.08	1	0	0	1	0	0
................................................................................AAATACAGTCAGGTGAAG...............................................................	18	2	16	0.06	1	0	0	0	1	0
............................................................CTTCACATTGATTTGCTTTAT................................................................................	21	3	16	0.06	1	0	0	1	0	0
..........................................................................................AGGGGAGCTCGTGACAA......................................................	17	2	16	0.06	1	0	0	0	1	0
..................................................................................AAGCAGCAAGGTGAGGTCG............................................................	19	3	20	0.05	1	0	0	0	1	0

AATAAAAAGTTAAATTCAAAATATGAAGACAGTTATTAACATTTATTACTTTTGTTACCGCTTCACATTGGCTTGCTTTAAAAAACAGTCAGGTGAGGTCGTGACAAAGATAATTCTTGTTTTTTCAACTCTTTAAACCAATAATTTTAAAGGTTGCCCTC

***********************************..((((...((((.(((((((((.(((((((.((((((.............))))))))))))).))))))))).))))...))))....************************************

Read size

# Mismatch

Hit Count

Total Norm

Total

V105

male body

V106

head

M044

female body

V055

head

V039

embryo

........................................................................................TCAGGTGAGGTCGTGACAAAGA...................................................

245.00

245

179

........................................................................................TCAGGTGAGGTCGTGACAAAG....................................................

185.00

185

132

........................................................................................TCAGGTGAGGTCGTGACAAA.....................................................

37.00

........................................................................................TCAGGTGAGGTCGTGACAAAGAA..................................................

15.00

........................................................................................TCAGGTGAGGTCGTGACAAAGAT..................................................

8.00

........................................................................................TCAGGTGAGGTCGTGACAAAGT...................................................

4.00

..................................................TTTGTTACCGCTTCACATTGGCT........................................................................................

4.00

........................................................................................TCAGGTGAGGTCGTGACAAAT....................................................

3.00

........................................................................................TCAGGTGAGGTCGTGACAAAGAAA.................................................

3.00

........................................................................................TCAGGTGAGGTCGTGACAA......................................................

3.00

........................................................................................TCAGGTGAGGTCGTGACAAATA...................................................

2.00

........................................................................................TCAGGTGAGGTCGTGACAAAA....................................................

2.00

........................................................................................TCAGGTGAGGTCGTTACAAAG....................................................

2.00

........................................................................................TCAGGTGAGGTCGTGACA.......................................................

2.00

........................................................................................TCAGGTGAGGTGGTGACAAAGA...................................................

2.00

.........................................................................................CAGGTGAGGTCGTGACAAAG....................................................

2.00

.........................................................................................CAGGTGAGGTCGTGACAAAGA...................................................

2.00

........................................................................................TCAGGTGAGGTAGTGACAAAGA...................................................

2.00

........................................................................................TCAGGTGAGGTTGTGACAAAGA...................................................

2.00

........................................................................................TCAGGTGAGGTCTTGACA.......................................................

1.00

........................................................................................TCGGGTGAGGTCGTGACAAAG....................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACAAT.....................................................

1.00

........................................................................................TCAGGTGAGGTCTTGACAAAGA...................................................

1.00

........................................................................................TCAGGTGAGGTAGTGACAAAC....................................................

1.00

........................................................................................TCAGGTCAGGTCGTGACAAAT....................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACAAAAA...................................................

1.00

........................................................................................TCAGGTGAGGTCGTTACAAAGA...................................................

1.00

............................................................................TTTAAAAAACAGTCAGGTGAGGTCG............................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACAAAAAT..................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACAAAGAAT.................................................

1.00

........................................................................................TCAGGTCAGGTCGTGACAAAGA...................................................

1.00

........................................................................................TCATGTGAGGTCGTTACAAAGA...................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACAACGA...................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACAAAC....................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACGAAGAA..................................................

1.00

........................................................................................TCAGGTGAGCTCGTGACAAAG....................................................

1.00

........................................................................................TCAGGTGGGGTCGTGACAAAG....................................................

1.00

........................................................................................TCAGGTGAGGGCGTGACAAAG....................................................

1.00

........................................................................................TCAGGTGAGGTCGGGACAAAG....................................................

1.00

........................................................................................TCAGGTGAGGCCGTGACAAAGA...................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACAAGGAAAA................................................

1.00

........................................................................................TCAGGTGACGTCGAGACAAAGA...................................................

1.00

.........................................................................TGCTTTGAAAAGCAGTCTGGTG..................................................................

1.00

........................................................................................TCAGGTGAGGTAGTGACAAAGAAA.................................................

1.00

........................................................................................TCAGGTGAGGACGTGACAAAG....................................................

1.00

................................................................................................................................CTCTTTAAACCACTAAGTTTA............

1.00

........................................................................................TCAGGTGAGGTCGTGACTAAG....................................................

1.00

........................................................................................TCAGGTGATGTCGTGACAAAGA...................................................

1.00

........................................................................................TCAGGTGAGGTCCTGACAAAGA...................................................

1.00

........................................................................................TCAGGTGAAGTCGTGACAAAG....................................................

1.00

........................................................................................TCAGGTGAGGTCGAGACGAAGA...................................................

1.00

........................................................................................TCAGGTGACGTCGTGACAAAGA...................................................

1.00

........................................................................................TCAGGTGAGGTCGTGACAAAGAAC.................................................

1.00

........................................................................................TCAGGTGAGGTCATGACAAAG....................................................

1.00

................................................................................AAATACCGTCAGGTGAGGTGGT...........................................................

1.00

........................................................................................TCAGGTCAGGTCGTGACAAAG....................................................

1.00

........................................................................................TCAGGTGAGGTCGTGCCAAAGA...................................................

1.00

........................................................................................TCAGGTGAGGTCGTGATAAAG....................................................

1.00

........................................................................................TCAGGTGAGGACGTGACAAAGA...................................................

1.00

........................................................................................TAAGGTGAGGTCGTGACAAAG....................................................

1.00

........................................................................................CCAGGTGAGGTCGTGACAAAG....................................................

1.00

..................................................................................AAACAGGCAGGTGAGGTGCTG..........................................................

0.50

........................................................................................TCAGGTGAGGTCGCGACA.......................................................

0.50

......................................................................................AGTCAGGGGAGGTAGTGACGA......................................................

0.50

.....AAAGATAAATGCAAAAGATGAAG.....................................................................................................................................

0.33

......................................................................................AGCCAGGTGAGGTAGTGACGA......................................................

0.20

...........................................................................................GGTGAAGTCGTGACAAGGT...................................................

0.18

..................................................................................AAACAGGCAGGTGAGGTGCT...........................................................

0.17

..........................................................................................AGGGGAGGTCGTGACGA......................................................

0.13

......................................................................................................GACAAAGATAAATCTTTTT........................................

0.08

................................................................................AAATACAGTCAGGTGAAG...............................................................

0.06

............................................................CTTCACATTGATTTGCTTTAT................................................................................

0.06

..........................................................................................AGGGGAGCTCGTGACAA......................................................

0.06

..................................................................................AAGCAGCAAGGTGAGGTCG............................................................

0.05

TTATTTTTCAATTTAAGTTTTATACTTCTGTCAATAATTGTAAATAATGAAAACAATGGCGAAGTGTAACCGAACGAAATTTTTTGTCAGTCCACTCCAGCACTGTTTCTATTAAGAACAAAAAAGTTGAGAAATTTGGTTATTAAAATTTCCAACGGGAG **********************************..((((...((((.(((((((((.(((((((.((((((.............))))))))))))).))))))))).))))...))))....*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V105 male body	V055 head	V039 embryo
..................................................................................................................AGAACAAAAAAGATGAGGAA...........................	20	2	7	0.14	1	1	0	0
..........................................................................................................................ACAATTGAGAAATTTGGT.....................	18	2	15	0.13	2	2	0	0
..........................................................................................................................................GTGACTAAAACTTCCAACGGG..	21	3	8	0.13	1	0	1	0
..................................................................................................................AAAACAAAAAAGTGGAGAA............................	19	2	20	0.05	1	0	1	0
................................................................TGAAACCGAACGAGATTTAT.............................................................................	20	3	20	0.05	1	0	0	1

TTATTTTTCAATTTAAGTTTTATACTTCTGTCAATAATTGTAAATAATGAAAACAATGGCGAAGTGTAACCGAACGAAATTTTTTGTCAGTCCACTCCAGCACTGTTTCTATTAAGAACAAAAAAGTTGAGAAATTTGGTTATTAAAATTTCCAACGGGAG

************************************..((((...((((.(((((((((.(((((((.((((((.............))))))))))))).))))))))).))))...))))....***********************************

Read size

# Mismatch

Hit Count

Total Norm

Total

V105

male body

V055

head

V039

embryo

..................................................................................................................AGAACAAAAAAGATGAGGAA...........................

0.14

..........................................................................................................................ACAATTGAGAAATTTGGT.....................

0.13

..........................................................................................................................................GTGACTAAAACTTCCAACGGG..

0.13

..................................................................................................................AAAACAAAAAAGTGGAGAA............................

0.05

................................................................TGAAACCGAACGAGATTTAT.............................................................................

0.05

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Type	Alignment
droAna3	scaffold_13335:212635-212795 +	dan_46	confident	AATAAAAAGTTAAATTCAAAA-T----------------------------ATGAAGACAGTTATTAA--CATTTATTACTTTTGTTACCGCTTC--------------ACATTGGCTTGCTTTAAAAAACAGTCAGGTGAGGTCGTGACAAAGATAATTCTTGTTTTTTCAACTCTTTAAACCAATAATTTTAAAGG----------TTGCCCTC
droBip1	scf7180000395839:422358-422511 -			AACAAAAATTTTGAACCATAT-TTTTAAAAAT-----------------------------TTTCTAATGGACTTGTAATCCTTGCTAGATTTCC--------------ACATAAGGTCATCATAGTAGACAAT--------ATCTTGGCC---ATATTTTTTATCTTACTCAATATTTAG-------ACCTTAAAAGGTTTTGAAATATATCCTC
droKik1	scf7180000302610:1791641-1791705 +			AAAGAAAATTATT-------ACAATAAAAAATTATTAAAAAAATAAACCCCTCAAAAACAACCCACAA--AA----------------------------------------------------------------------------------------------------------------------------------------------TC
droEle1	scf7180000491011:2115643-2115679 +			TTTAAATATTAT--------ATATTAATATAT-----------------------------TTCCAA------------------------------------------------ATCC----------------------------------------------------------------------------------------------ATC
droRho1	scf7180000763611:399832-399870 +			TAAAGCGAGCTAAGTTTTAAA-C----------------------------ATAAAGACAGTTTTTA----------------------------------------------------------------------------------------------------------------------------------------------------A
droTak1	scf7180000415394:1165740-1165744 +			CCAC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------C
droEug1	scf7180000409076:258666-258707 -			TGGTTT---------------------------------------------------------------------ATTAACT-----------CTGCAGCCGAATATCAAAATGAAATT----------------------------------------------------------------------------------------------ATA
droSim2	x:3953143-3953163 -			TTAAGT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAACAACTTTAAAAG------------------
droSec2	scaffold_4:2466335-2466355 +			TTAAGT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAACAACTTTAAAAG------------------
droEre2	scaffold_4820:6149490-6149575 +			ATTAAAAAAA----------------------CACCTGGGATATACAAATTACCGATACAATTTGCAA--GATTTATTTCTCTTAGTGTCGCTTT--------------GCTGTTGTTTGGTTT--------------------------------------------------------------------------------------------
dp5	XL_group1a:3804489-3804492 +			CCCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_11:366359-366362 +			CCCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3	scaffold_6328:2692240-2692274 -			TAATTT-----------------------------------------------------------------------------------------------------------------------------------------------------------TCGATTTTTCAAAATCAAAAACCGTTA--------A------------------G

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

AATAAAAAGTTAAATTCAAAA-T----------------------------ATGAAGACAGTTATTAA--CATTTATTACTTTTGTTACCGCTTC--------------ACATTGGCTTGCTTTAAAAAACAGTCAGGTGAGGTCGTGACAAAGATAATTCTTGTTTTTTCAACTCTTTAAACCAATAATTTTAAAGG----------TTGCCCTC	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAGA.............................................................	22	1	245.00	245	14	0	0	6	179	46
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAG..............................................................	21	1	185.00	185	11	0	1	7	132	34
.....................................................................................................................................TCAGGTGAGGTCGTGACAAA...............................................................	20	1	37.00	37	2	0	0	1	27	7
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAGAA............................................................	23	1	15.00	15	1	0	0	2	11	1
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAGAT............................................................	23	1	8.00	8	1	0	0	1	4	2
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAGT.............................................................	22	1	4.00	4	0	0	0	0	3	1
.................................................................................TTTGTTACCGCTTC--------------ACATTGGCT..................................................................................................	23	1	4.00	4	3	0	0	0	1	0
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAT..............................................................	21	1	3.00	3	0	0	0	1	1	1
.....................................................................................................................................TCAGGTGAGGTCGTGACAA................................................................	19	1	3.00	3	0	0	0	0	3	0
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAA..............................................................	21	1	2.00	2	0	0	0	0	2	0
.....................................................................................................................................TCAGGTGAGGTCGTGACA.................................................................	18	1	2.00	2	1	0	0	0	0	1
......................................................................................................................................CAGGTGAGGTCGTGACAAAG..............................................................	20	1	2.00	2	2	0	0	0	0	0
......................................................................................................................................CAGGTGAGGTCGTGACAAAGA.............................................................	21	1	2.00	2	1	0	0	0	1	0
.....................................................................................................................................TCAGGTGAGGTCGTGACAAT...............................................................	20	1	1.00	1	0	0	0	0	1	0
.........................................................................................................................TTTAAAAAACAGTCAGGTGAGGTCG......................................................................	25	1	1.00	1	0	0	0	0	1	0
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAGAAT...........................................................	24	1	1.00	1	0	0	0	0	1	0
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAC..............................................................	21	1	1.00	1	0	0	0	0	0	1
.....................................................................................................................................TCAGGTGAGGTCGTGACAAAGAAC...........................................................	24	1	1.00	1	0	0	0	0	1	0

droBip1

AACAAAAATTTTGAACCATAT-TTTTAAAAAT-----------------------------TTTCTAATGGACTTGTAATCCTTGCTAGATTTCC--------------ACATAAGGTCATCATAGTAGACAAT--------ATCTTGGCC---ATATTTTTTATCTTACTCAATATTTAG-------ACCTTAAAAGGTTTTGAAATATATCCTC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AAAGAAAATTATT-------ACAATAAAAAATTATTAAAAAAATAAACCCCTCAAAAACAACCCACAA--AA----------------------------------------------------------------------------------------------------------------------------------------------TC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TTTAAATATTAT--------ATATTAATATAT-----------------------------TTCCAA------------------------------------------------ATCC----------------------------------------------------------------------------------------------ATC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TAAAGCGAGCTAAGTTTTAAA-C----------------------------ATAAAGACAGTTTTTA----------------------------------------------------------------------------------------------------------------------------------------------------A	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CCAC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------C	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TGGTTT---------------------------------------------------------------------ATTAACT-----------CTGCAGCCGAATATCAAAATGAAATT----------------------------------------------------------------------------------------------ATA	Size	Hit Count	Total Norm	Total
No Reads

droSim2

TTAAGT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAACAACTTTAAAAG------------------

Size

Hit Count

Total Norm

Total

M023

Head

M024

Male-body

M025

Embryo

M053

Female-body

O001

Testis

O002

Head

SRR553485

Ovary

SRR553486

Ovary

SRR553487

Ovary

SRR553488

Ovary

SRR618934

Ovary

V044

Embryo

SRR902008

Ovary

SRR902009

Testis

SRR1275487

Male larvae

SRR1275485

Male prepupae

SRR1275483

Male prepupae

No Reads

droSec2

TTAAGT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAACAACTTTAAAAG------------------	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droEre2

ATTAAAAAAA----------------------CACCTGGGATATACAAATTACCGATACAATTTGCAA--GATTTATTTCTCTTAGTGTCGCTTT--------------GCTGTTGTTTGGTTT--------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

dp5

CCCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Size

Hit Count

Total Norm

Total

M022

Male-body

M040

Female-body

M059

Embryo

M062

Head

V043

Embryo

V051

Head

V112

Male-body

SRR902010

Ovary

SRR902011

Testis

SRR902012

CNS imaginal disc

No Reads

droPer2

CCCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droMoj3

TAATTT-----------------------------------------------------------------------------------------------------------------------------------------------------------TCGATTTTTCAAAATCAAAAACCGTTA--------A------------------G	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

dan_46

scaffold_13335:212685-212745 +

confident

Testes-restricted

intergenic

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

-26.1	-25.8	-25.8