dps_62

AGATCGATCGACGATCTATGGAGGATCCCTGTTTCATACGATTGAAGTACTGATAGAGGAGCCTTCTCTATTGGTGTATTCGAAAACCATCAGCAAGCCACCTCTTTCAGTACTCCGATCAACCAGCATGGTATCCCAATATTCTGTGACGAACGCTGGAGG *********************************....(((((.((((((((.(((((...(((..((..((((..........))))..)).)))...))))).)))))))).)))))......**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M040 female body	SRR902011 testis	GSM444067 head	M059 embryo	V112 male body	GSM343916 embryo	M062 head
.........................................................................................TCAGCAAGCCACCTCTTTCAGT...................................................	22	0	1	51.00	51	10	5	11	7	8	8	2
.........................................................................................TCAGCAAGCCACCTCTTTCAG....................................................	21	0	1	22.00	22	12	6	2	1	1	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCAGC...................................................	22	1	1	5.00	5	0	0	0	1	0	1	3
.........................................................................................TCAGCAAGCCACCTCTTTCAGTT..................................................	23	1	1	4.00	4	1	2	0	0	1	0	0
..........................................................................................CAGCAAGCCACCTCTTTCAGT...................................................	21	0	1	3.00	3	1	1	1	0	0	0	0
...........................................................................................AGCAAGCCACCTCTTTCAGT...................................................	20	0	1	3.00	3	1	2	0	0	0	0	0
..................................................TGATAGAGGAGCCTTCTCTATTG.........................................................................................	23	0	2	1.50	3	1	0	0	1	1	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCA.....................................................	20	0	1	1.00	1	0	0	0	0	0	0	1
.........................................................................................TCAGCAAGCCAGCTCTTTCAGT...................................................	22	1	1	1.00	1	0	0	1	0	0	0	0
.........................................................................................TGAGCAAGCCACCTCTTTCAGTT..................................................	23	2	1	1.00	1	0	0	0	1	0	0	0
........................................................................................CTCAGCAAGCCACCTCTTTCAG....................................................	22	1	1	1.00	1	0	0	0	1	0	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCGGT...................................................	22	1	1	1.00	1	0	0	0	0	1	0	0
..........................................................................................CAGCAAGCCACCTCTTTCAG....................................................	20	0	1	1.00	1	1	0	0	0	0	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCAGTA..................................................	23	0	1	1.00	1	1	0	0	0	0	0	0
.........................................................................................TAAGCAAGCCACCTCTTTCAGT...................................................	22	1	1	1.00	1	0	0	0	0	0	1	0
........................................................................................CTCAGCAAGCCACCTCTTTCAGTT..................................................	24	2	1	1.00	1	0	0	0	0	0	0	1
.........................................................................................TCAGCAAGCCACCTCTTTCAGA...................................................	22	1	1	1.00	1	0	0	0	0	0	0	1
.........................................................................................TCAGCAAGCCACCTCTTTCAGTAA.................................................	24	1	1	1.00	1	0	1	0	0	0	0	0
.........................................................................................TTAGCAAGCCACCTCTTTCAGT...................................................	22	1	1	1.00	1	0	0	0	1	0	0	0
........................................................................................................................................CAATATACTGTGATGAACGCC.....	21	3	1	1.00	1	0	0	0	0	1	0	0
..................................................TGATAGAGGAGCCTTCTCTT............................................................................................	20	1	2	0.50	1	0	0	1	0	0	0	0
..................................................AGATAGAGGAGCCTTCTCTATTG.........................................................................................	23	1	2	0.50	1	0	0	0	0	0	0	1
..................................................TTAGAGAGGAGCCTTCTCTATTG.........................................................................................	23	2	2	0.50	1	0	0	0	1	0	0	0
..................................................TGATAGAGGAGCCTTCTCTAT...........................................................................................	21	0	2	0.50	1	0	0	0	0	1	0	0
..................................................TGATAGAGGAGCCTTCTCTA............................................................................................	20	0	2	0.50	1	0	0	0	0	1	0	0
..................................................TAATAGAGGAGCCTTCTCTATTG.........................................................................................	23	1	2	0.50	1	0	0	0	1	0	0	0
...............................TTTCAAACGATAGAAGCACTG..............................................................................................................	21	3	4	0.25	1	1	0	0	0	0	0	0
................................................................................................GCCATCTTTTTCAGTTCTCCG.............................................	21	3	5	0.20	1	0	0	0	0	0	1	0
...............................................................................................................................................CTGCGACGAACGTCGGAGG	19	3	18	0.06	1	0	0	0	0	0	1	0

AGATCGATCGACGATCTATGGAGGATCCCTGTTTCATACGATTGAAGTACTGATAGAGGAGCCTTCTCTATTGGTGTATTCGAAAACCATCAGCAAGCCACCTCTTTCAGTACTCCGATCAACCAGCATGGTATCCCAATATTCTGTGACGAACGCTGGAGG

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

Read size

# Mismatch

Hit Count

Total Norm

Total

M040

female body

SRR902011

testis

GSM444067

head

M059

embryo

V112

male body

GSM343916

embryo

M062

head

.........................................................................................TCAGCAAGCCACCTCTTTCAGT...................................................

51.00

.........................................................................................TCAGCAAGCCACCTCTTTCAG....................................................

22.00

.........................................................................................TCAGCAAGCCACCTCTTTCAGC...................................................

5.00

.........................................................................................TCAGCAAGCCACCTCTTTCAGTT..................................................

4.00

..........................................................................................CAGCAAGCCACCTCTTTCAGT...................................................

3.00

...........................................................................................AGCAAGCCACCTCTTTCAGT...................................................

3.00

..................................................TGATAGAGGAGCCTTCTCTATTG.........................................................................................

1.50

.........................................................................................TCAGCAAGCCACCTCTTTCA.....................................................

1.00

.........................................................................................TCAGCAAGCCAGCTCTTTCAGT...................................................

1.00

.........................................................................................TGAGCAAGCCACCTCTTTCAGTT..................................................

1.00

........................................................................................CTCAGCAAGCCACCTCTTTCAG....................................................

1.00

.........................................................................................TCAGCAAGCCACCTCTTTCGGT...................................................

1.00

..........................................................................................CAGCAAGCCACCTCTTTCAG....................................................

1.00

.........................................................................................TCAGCAAGCCACCTCTTTCAGTA..................................................

1.00

.........................................................................................TAAGCAAGCCACCTCTTTCAGT...................................................

1.00

........................................................................................CTCAGCAAGCCACCTCTTTCAGTT..................................................

1.00

.........................................................................................TCAGCAAGCCACCTCTTTCAGA...................................................

1.00

.........................................................................................TCAGCAAGCCACCTCTTTCAGTAA.................................................

1.00

.........................................................................................TTAGCAAGCCACCTCTTTCAGT...................................................

1.00

........................................................................................................................................CAATATACTGTGATGAACGCC.....

1.00

..................................................TGATAGAGGAGCCTTCTCTT............................................................................................

0.50

..................................................AGATAGAGGAGCCTTCTCTATTG.........................................................................................

0.50

..................................................TTAGAGAGGAGCCTTCTCTATTG.........................................................................................

0.50

..................................................TGATAGAGGAGCCTTCTCTAT...........................................................................................

0.50

..................................................TGATAGAGGAGCCTTCTCTA............................................................................................

0.50

..................................................TAATAGAGGAGCCTTCTCTATTG.........................................................................................

0.50

...............................TTTCAAACGATAGAAGCACTG..............................................................................................................

0.25

................................................................................................GCCATCTTTTTCAGTTCTCCG.............................................

0.20

...............................................................................................................................................CTGCGACGAACGTCGGAGG

0.06

TCTAGCTAGCTGCTAGATACCTCCTAGGGACAAAGTATGCTAACTTCATGACTATCTCCTCGGAAGAGATAACCACATAAGCTTTTGGTAGTCGTTCGGTGGAGAAAGTCATGAGGCTAGTTGGTCGTACCATAGGGTTATAAGACACTGCTTGCGACCTCC **********************************....(((((.((((((((.(((((...(((..((..((((..........))))..)).)))...))))).)))))))).)))))......*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	GSM444067 head	GSM343916 embryo	V112 male body	M040 female body
....................................................................................................GGGGATAGTCATGAGGCTGGT.........................................	21	3	4	1.25	5	4	1	0	0
....................................................................................................GGAGAAAGTCAAGAGGCTCGT.........................................	21	2	1	1.00	1	1	0	0	0
...................................................................................................CGGAAAAAGTCATGAGGCTGGT.........................................	22	3	1	1.00	1	0	1	0	0
...................................................................................................TGGAAAAAGTCATGAGGCCGGT.........................................	22	3	1	1.00	1	0	1	0	0
....................................................................................................GGTGATAGTCATGAGGCTCGT.........................................	21	3	3	0.67	2	2	0	0	0
...................................................................................................TGGAAAAAGTCAAGAGGCAAGT.........................................	22	3	2	0.50	1	1	0	0	0
.............................................................GGAAGAGATAACCACATAAGC................................................................................	21	0	2	0.50	1	0	0	1	0
....................................................................................................GGTGATAGTCATGAGGCTGGT.........................................	21	3	4	0.50	2	2	0	0	0
....................................................................................................GGAGATAGTCACGAGGCTAGT.........................................	21	2	2	0.50	1	1	0	0	0
....................................................................................................GTGGAAAGTCACGAGGCTAGT.........................................	21	3	2	0.50	1	1	0	0	0
.....................................................................................................GGGATAGTCATGAGGCTGGT.........................................	20	3	6	0.33	2	2	0	0	0
....................................................................................................GGAAAAAGTCAAGAGGCTAAT.........................................	21	3	5	0.20	1	1	0	0	0
.....................................................................................................GGGATAGTCATGAGGCTCGT.........................................	20	3	10	0.10	1	0	1	0	0
............................................................................................................................TGGTACCATAAGGATATAAG..................	20	3	11	0.09	1	0	1	0	0
............................................................................................................................TTGTACCATACGGTTATAAT..................	20	3	14	0.07	1	0	1	0	0
...........................................................................................................................GTCGTACAATAGGGATCT.....................	18	3	20	0.05	1	0	0	0	1

TCTAGCTAGCTGCTAGATACCTCCTAGGGACAAAGTATGCTAACTTCATGACTATCTCCTCGGAAGAGATAACCACATAAGCTTTTGGTAGTCGTTCGGTGGAGAAAGTCATGAGGCTAGTTGGTCGTACCATAGGGTTATAAGACACTGCTTGCGACCTCC

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

Read size

# Mismatch

Hit Count

Total Norm

Total

GSM444067

head

GSM343916

embryo

V112

male body

M040

female body

....................................................................................................GGGGATAGTCATGAGGCTGGT.........................................

1.25

....................................................................................................GGAGAAAGTCAAGAGGCTCGT.........................................

1.00

...................................................................................................CGGAAAAAGTCATGAGGCTGGT.........................................

1.00

...................................................................................................TGGAAAAAGTCATGAGGCCGGT.........................................

1.00

....................................................................................................GGTGATAGTCATGAGGCTCGT.........................................

0.67

...................................................................................................TGGAAAAAGTCAAGAGGCAAGT.........................................

0.50

.............................................................GGAAGAGATAACCACATAAGC................................................................................

0.50

....................................................................................................GGTGATAGTCATGAGGCTGGT.........................................

0.50

....................................................................................................GGAGATAGTCACGAGGCTAGT.........................................

0.50

....................................................................................................GTGGAAAGTCACGAGGCTAGT.........................................

0.50

.....................................................................................................GGGATAGTCATGAGGCTGGT.........................................

0.33

....................................................................................................GGAAAAAGTCAAGAGGCTAAT.........................................

0.20

.....................................................................................................GGGATAGTCATGAGGCTCGT.........................................

0.10

............................................................................................................................TGGTACCATAAGGATATAAG..................

0.09

............................................................................................................................TTGTACCATACGGTTATAAT..................

0.07

...........................................................................................................................GTCGTACAATAGGGATCT.....................

0.05

Species	Coordinate	ID	Type	Alignment
dp5	XL_group1e:8366108-8366269 -	dps_62	confident	AGATCGATCGACGATCTATGGAGGATCCCTGTTTCATACGATTGAAGTACTGATAGAGGAGCCTTCTCTATTGGTGTATTCGAAAACCATCAGCAAGCCACCTCTTTCAGTACTCCGATCAACCAGCATGGTATCCCAATATTCTGTGACGAACGCTGGAGG
droPer2	scaffold_13:198129-198290 +	dpe_138	confident	AGATCGACCGACGATCTATGGAGGATCCCTGTTTCATACGATTGAAGTACTGATAGAGGATGCTTCTCTATTGGTGTATTCGAAAACCAACAGCAAGCCACCTCTTTCAATACTCCGATCAACCAGTCTGGTATCCCAATATTCTGTGACGAACGCTGGAGG

Species

Coordinate

Type

Alignment

dp5

XL_group1e:8366108-8366269 -

dps_62

confident

AGATCGATCGACGATCTATGGAGGATCCCTGTTTCATACGATTGAAGTACTGATAGAGGAGCCTTCTCTATTGGTGTATTCGAAAACCATCAGCAAGCCACCTCTTTCAGTACTCCGATCAACCAGCATGGTATCCCAATATTCTGTGACGAACGCTGGAGG

droPer2

scaffold_13:198129-198290 +

dpe_138

confident

AGATCGACCGACGATCTATGGAGGATCCCTGTTTCATACGATTGAAGTACTGATAGAGGATGCTTCTCTATTGGTGTATTCGAAAACCAACAGCAAGCCACCTCTTTCAATACTCCGATCAACCAGTCTGGTATCCCAATATTCTGTGACGAACGCTGGAGG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

dp5

AGATCGATCGACGATCTATGGAGGATCCCTGTTTCATACGATTGAAGTACTGATAGAGGAGCCTTCTCTATTGGTGTATTCGAAAACCATCAGCAAGCCACCTCTTTCAGTACTCCGATCAACCAGCATGGTATCCCAATATTCTGTGACGAACGCTGGAGG	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
.........................................................................................TCAGCAAGCCACCTCTTTCAGT...................................................	22	1	51.00	51	0	10	7	2	8	11	8	0	5	0
.........................................................................................TCAGCAAGCCACCTCTTTCAG....................................................	21	1	22.00	22	0	12	1	0	0	2	1	0	6	0
.........................................................................................TCAGCAAGCCACCTCTTTCAGC...................................................	22	1	5.00	5	0	0	1	3	1	0	0	0	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCAGTT..................................................	23	1	4.00	4	0	1	0	0	0	0	1	0	2	0
..........................................................................................CAGCAAGCCACCTCTTTCAGT...................................................	21	1	3.00	3	0	1	0	0	0	1	0	0	1	0
...........................................................................................AGCAAGCCACCTCTTTCAGT...................................................	20	1	3.00	3	0	1	0	0	0	0	0	0	2	0
..................................................TGATAGAGGAGCCTTCTCTATTG.........................................................................................	23	2	1.50	3	0	1	1	0	0	0	1	0	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCA.....................................................	20	1	1.00	1	0	0	0	1	0	0	0	0	0	0
..........................................................................................CAGCAAGCCACCTCTTTCAG....................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCAGTA..................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCAGA...................................................	22	1	1.00	1	0	0	0	1	0	0	0	0	0	0
.........................................................................................TCAGCAAGCCACCTCTTTCAGTAA.................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	1	0
..................................................TGATAGAGGAGCCTTCTCTT............................................................................................	20	2	0.50	1	0	0	0	0	0	1	0	0	0	0
..................................................TGATAGAGGAGCCTTCTCTAT...........................................................................................	21	2	0.50	1	0	0	0	0	0	0	1	0	0	0
..................................................TGATAGAGGAGCCTTCTCTA............................................................................................	20	2	0.50	1	0	0	0	0	0	0	1	0	0	0

droPer2

AGATCGACCGACGATCTATGGAGGATCCCTGTTTCATACGATTGAAGTACTGATAGAGGATGCTTCTCTATTGGTGTATTCGAAAACCAACAGCAAGCCACCTCTTTCAATACTCCGATCAACCAGTCTGGTATCCCAATATTCTGTGACGAACGCTGGAGG	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.........................................................................................ACAGCAAGCCACCTCTTTCAAT...................................................	22	1	23.00	23	3	11	0	0	6	3
.........................................................................................ACAGCAAGCCACCTCTTTCA.....................................................	20	1	6.00	6	0	1	0	1	3	1
.........................................................................................ACAGCAAGCCACCTCTTTCAA....................................................	21	1	3.00	3	0	1	0	0	2	0
.........................................................................................ACAGCAAGCCACCTCTTTC......................................................	19	1	1.00	1	0	0	0	0	1	0
..................................................TGATAGAGGATGCTTCTCTATT..........................................................................................	22	1	1.00	1	0	1	0	0	0	0
..................................................TGATAGAGGATGCTTCTCTATTGGTGT.....................................................................................	27	1	1.00	1	0	0	0	0	0	1
..................................................TGATAGAGGATGCTTCTCTATTGA........................................................................................	24	1	1.00	1	0	0	0	0	0	1
..................................................TGATAGAGGATGCTTCTCTATTC.........................................................................................	23	1	1.00	1	0	0	0	0	1	0
..................................................TGATAGAGGATGCTTCTCCT............................................................................................	20	3	0.33	1	0	0	0	0	0	1

dps_62

XL_group1e:8366158-8366219 -

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

-29.5	-29.2	-29.2