dmo_1261

exon [dmoj_GLEANR_3253:2]; exon [dmoj_GLEANR_3253:3]; CDS [Dmoj\GI18326-cds]; CDS [Dmoj\GI18326-cds]; intron [Dmoj\GI18326-in]

Repeatable elements

Name	Class	Family	Strand
Gypsy4-I_Dmoj-int	LTR	Gypsy	-

Name

Class

Family

Strand

Gypsy4-I_Dmoj-int

LTR

Gypsy

Sense Strand Reads

##################################################--------------------------------------------------------################################################## GGAGGAAGATGAGGCCAAACTGCTGGCCGACATGGCCGACATTCTGGACGGTTAGGAGCCGAGCCTGTTCGAAATCCTCATGGGAGAGGGTCCCCTCTCGTTCGAGCCAGCACCGACAATCCCAGCTGGCTGGCGGGTCCGTCCACCAGGCGCTAC ************************************************.((..(((..((.(((.(((............))).))).))....))).....))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	M060 embryo	V110 male body	V041 embryo	V056 head
..............................................................GCCTGTTCGAAATCCTCATGGGAGA.....................................................................	25	0	1	11.00	11	7	1	1	2	0
..............................................................GCCTGTTCGAAATCCTCATGGG........................................................................	22	0	1	8.00	8	6	1	0	1	0
..............................................................GCCTGTTCGAAATCCTCATGGGA.......................................................................	23	0	1	6.00	6	3	2	0	1	0
..............................................................GCCTGTTCGAAATCCTCATGGGAG......................................................................	24	0	1	3.00	3	2	0	1	0	0
..............................................................GCCTGTTCGAAATCCTCATGGGAGAGG...................................................................	27	0	1	3.00	3	2	0	1	0	0
..............................................................GCCTGTTCGAAATCCTCATGGGAGAG....................................................................	26	0	1	2.00	2	1	1	0	0	0
...............................................................CCTGTTCGAAATCCTCATGGGAGA.....................................................................	24	0	1	2.00	2	2	0	0	0	0
...............................................................CCTGTTCGAAATCCTCATGGGA.......................................................................	22	0	1	2.00	2	2	0	0	0	0
..AGGAAGATGAGGCCAAACTGCTGG..................................................................................................................................	24	0	5	1.40	7	7	0	0	0	0
...............................................................CCTGTTCGAAATCCTCATGGGAGAGG...................................................................	26	0	1	1.00	1	1	0	0	0	0
...............................................................CCTGTTCGAAATCCTCATGGGAG......................................................................	23	0	1	1.00	1	1	0	0	0	0
.......................................................................................................................TCCCAGCTGGCTGGCGGGTCCG...............	22	0	1	1.00	1	1	0	0	0	0
..............................................................GCCTGTTCGAAATCCTCATGGGAGAGT...................................................................	27	1	1	1.00	1	0	0	1	0	0
.....................................................................................................TCGACCCAGCACCGACAAG....................................	19	2	1	1.00	1	0	0	0	0	1
.................................................................................................TCGTTCGAGCCAGCACCGACAATCCCAGC..............................	29	0	1	1.00	1	0	1	0	0	0
..AGGAAGATGAGGCCAAACTGCTG...................................................................................................................................	23	0	5	0.80	4	4	0	0	0	0
...............................................................CCTGTTCGAAATCCTCATGGG........................................................................	21	0	3	0.33	1	1	0	0	0	0
..AGGAAGATGAGGCCAAACTGCTGGCCGAC.............................................................................................................................	29	0	4	0.25	1	1	0	0	0	0
..AGTAAGATGAGGCCAAACTGCTGGCCGAC.............................................................................................................................	29	1	4	0.25	1	1	0	0	0	0
................................................................CTGTTCGAAATCCTCATGGG........................................................................	20	0	4	0.25	1	0	1	0	0	0
..AGGAAGATGAGGCCAAACT.......................................................................................................................................	19	0	5	0.20	1	1	0	0	0	0
..AGGAAGATGAGGCCAAACTGCTGC..................................................................................................................................	24	1	5	0.20	1	1	0	0	0	0
..AGGAAGATGAGGCCAAACTGC.....................................................................................................................................	21	0	5	0.20	1	1	0	0	0	0
...GGAAGATGAGGCCAAACTGCTGGC.................................................................................................................................	24	0	5	0.20	1	1	0	0	0	0
...GGAAGATGAGGCCAAACTGCTG...................................................................................................................................	22	0	5	0.20	1	1	0	0	0	0
..AGGAAGATGAGGCCAAACTGCTGA..................................................................................................................................	24	1	5	0.20	1	0	1	0	0	0
.................................................GGTTAGGAGTCGAGTCTCT........................................................................................	19	3	8	0.13	1	0	0	1	0	0
.............................................GGAAGGTGAGGAGCCGAGC............................................................................................	19	2	8	0.13	1	0	0	1	0	0
..AGGAAGATGAGGCCAGACTGCTGG..................................................................................................................................	24	1	10	0.10	1	1	0	0	0	0

##################################################--------------------------------------------------------##################################################
GGAGGAAGATGAGGCCAAACTGCTGGCCGACATGGCCGACATTCTGGACGGTTAGGAGCCGAGCCTGTTCGAAATCCTCATGGGAGAGGGTCCCCTCTCGTTCGAGCCAGCACCGACAATCCCAGCTGGCTGGCGGGTCCGTCCACCAGGCGCTAC
**************************************************.((..(((..((.(((.(((............))).))).))....))).....))**************************************************

Read size

# Mismatch

Hit Count

Total Norm

Total

M046
female body

M060
embryo

V110
male body

V041
embryo

V056
head

..............................................................GCCTGTTCGAAATCCTCATGGGAGA.....................................................................

11.00

..............................................................GCCTGTTCGAAATCCTCATGGG........................................................................

8.00

..............................................................GCCTGTTCGAAATCCTCATGGGA.......................................................................

6.00

..............................................................GCCTGTTCGAAATCCTCATGGGAG......................................................................

3.00

..............................................................GCCTGTTCGAAATCCTCATGGGAGAGG...................................................................

3.00

..............................................................GCCTGTTCGAAATCCTCATGGGAGAG....................................................................

2.00

...............................................................CCTGTTCGAAATCCTCATGGGAGA.....................................................................

2.00

...............................................................CCTGTTCGAAATCCTCATGGGA.......................................................................

2.00

..AGGAAGATGAGGCCAAACTGCTGG..................................................................................................................................

1.40

...............................................................CCTGTTCGAAATCCTCATGGGAGAGG...................................................................

1.00

...............................................................CCTGTTCGAAATCCTCATGGGAG......................................................................

1.00

.......................................................................................................................TCCCAGCTGGCTGGCGGGTCCG...............

1.00

..............................................................GCCTGTTCGAAATCCTCATGGGAGAGT...................................................................

1.00

.....................................................................................................TCGACCCAGCACCGACAAG....................................

1.00

.................................................................................................TCGTTCGAGCCAGCACCGACAATCCCAGC..............................

1.00

..AGGAAGATGAGGCCAAACTGCTG...................................................................................................................................

0.80

...............................................................CCTGTTCGAAATCCTCATGGG........................................................................

0.33

..AGGAAGATGAGGCCAAACTGCTGGCCGAC.............................................................................................................................

0.25

..AGTAAGATGAGGCCAAACTGCTGGCCGAC.............................................................................................................................

0.25

................................................................CTGTTCGAAATCCTCATGGG........................................................................

0.25

..AGGAAGATGAGGCCAAACT.......................................................................................................................................

0.20

..AGGAAGATGAGGCCAAACTGCTGC..................................................................................................................................

0.20

..AGGAAGATGAGGCCAAACTGC.....................................................................................................................................

0.20

...GGAAGATGAGGCCAAACTGCTGGC.................................................................................................................................

0.20

...GGAAGATGAGGCCAAACTGCTG...................................................................................................................................

0.20

..AGGAAGATGAGGCCAAACTGCTGA..................................................................................................................................

0.20

.................................................GGTTAGGAGTCGAGTCTCT........................................................................................

0.13

.............................................GGAAGGTGAGGAGCCGAGC............................................................................................

0.13

..AGGAAGATGAGGCCAGACTGCTGG..................................................................................................................................

0.10

Anti-sense strand reads

CCTCCTTCTACTCCGGTTTGACGACCGGCTGTACCGGCTGTAAGACCTGCCAATCCTCGGCTCGGACAAGCTTTAGGAGTACCCTCTCCCAGGGGAGAGCAAGCTCGGTCGTGGCTGTTAGGGTCGACCGACCGCCCAGGCAGGTGGTCCGCGATG ************************************************.((..(((..((.(((.(((............))).))).))....))).....))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M060 embryo	M046 female body	V041 embryo
..............................................CTGCCAATCCTCGGCTCGGACAAGCT....................................................................................	26	0	1	48.00	48	29	13	6
.............................................CCTGCCAATCCTCGGCTCGGACAAGCT....................................................................................	27	0	1	12.00	12	6	6	0
...............................................TGCCAATCCTCGGCTCGGACAAGCT....................................................................................	25	0	1	5.00	5	1	4	0
.................................................CCAATCCTCGGCTCGGACAAGCTTT..................................................................................	25	0	1	3.00	3	3	0	0
................................................GCCAATCCTCGGCTCGGACAAGCT....................................................................................	24	0	1	3.00	3	1	2	0
..............................................CTGCCAATCCTCGGCTCGGACAACCT....................................................................................	26	1	1	2.00	2	2	0	0
.............................................................................................GGAGAGCAAGCTCGGTCGTGGCTGTT.....................................	26	0	1	2.00	2	0	2	0
............................................ACCTGCCAATCCTCGGCTCGGACAAGCT....................................................................................	28	0	1	2.00	2	0	2	0
...........................................................................................GGGGAGAGCAAGCTCGGTCGTGGCT........................................	25	0	2	1.50	3	0	3	0
.............CGGTTTGACGACCGGCTGTACCGGCT.....................................................................................................................	26	0	1	1.00	1	0	1	0
..............................................CTGCCAATACTCGGCTCGGACAAGCT....................................................................................	26	1	1	1.00	1	0	0	1
...........TCCGGTTTGACGACCGGCTGTACCGGCT.....................................................................................................................	28	0	1	1.00	1	1	0	0
..............................................CGGCCAATCCTAGGCTCGGACAAGCT....................................................................................	26	2	1	1.00	1	1	0	0
..............................................CTGCCAATCCCCGGCTCGGACAAGCT....................................................................................	26	1	1	1.00	1	1	0	0
.............................................CCGGCCAATCCTCGGCTCGGACAAGCT....................................................................................	27	1	1	1.00	1	1	0	0
..............................................CCGCCAATCCTCGGCTCGGACGAGCT....................................................................................	26	2	1	1.00	1	0	0	1
.......................................................................................................................AGGGTCGACCGACCGCCCAGGCAGGT...........	26	0	1	1.00	1	0	1	0
................................................................................................................GGCTGTTAGGGTCGACCGACCGCC....................	24	0	1	1.00	1	0	1	0
..............................................CTGCAAATCCTCGGCTCGGACAAGCT....................................................................................	26	1	1	1.00	1	0	0	1
.............................................CCTGCCAATCCTCGGCTCGGACAACCT....................................................................................	27	1	1	1.00	1	1	0	0
..............................GTACCGGCTGTAAGACCTGCCAATCC....................................................................................................	26	0	1	1.00	1	0	1	0
..............................................CAGCCAATCCTCGGCTCGGACAAGCT....................................................................................	26	1	1	1.00	1	1	0	0
..............................................CTGCCAATCCTCGGCTCGGACAAGCTT...................................................................................	27	0	1	1.00	1	1	0	0
..............................................CTGCCAATCCTCGGCTCGGACAAGC.....................................................................................	25	0	1	1.00	1	0	1	0
..............................................CTGTCAATCCTCGGCTCGGACAAGCT....................................................................................	26	1	1	1.00	1	1	0	0
.............................................CCTGCCAATCCTCGGCCCGGACAAGCT....................................................................................	27	1	1	1.00	1	1	0	0
..............................................CTGCCAATCCTCGGCTCGGACAAGGT....................................................................................	26	1	1	1.00	1	1	0	0
.............................................CCTGCCAATCCTCGGCTCGGACAAGC.....................................................................................	26	0	1	1.00	1	0	1	0
....................................................................................TCTCCCAGGGGAGAGCAAGCTCGGT...............................................	25	0	2	0.50	1	0	1	0
....................................................................................CCTCCCAGGGGAGAGCAAGCTCGGT...............................................	25	1	2	0.50	1	1	0	0
......................................................................................TCCCAGGGGAGAGCAAGCTCGGTC..............................................	24	0	2	0.50	1	0	1	0
......................................................................................TCCCAGGGGAGAGCAAGCTCGGT...............................................	23	0	2	0.50	1	0	1	0
................................................................................ACCCTCTCCCAGGGGAGAGCAAGC....................................................	24	0	2	0.50	1	0	1	0
.........................................................................................CAGGGGGGAGCAAGCTCGGTCGTGGCT........................................	27	1	2	0.50	1	1	0	0
............................................................................................GGGAGAGCAAGCTCGGTCGTGGCT........................................	24	0	2	0.50	1	0	1	0
.............................................................................................GGAGAGCAAGCTCGGTCGT............................................	19	0	2	0.50	1	0	0	1
..............................................CTGCCAATCCTCGGCTCGGACATGGT....................................................................................	26	2	2	0.50	1	1	0	0
...........................................................................................GGGGAGAGCAAGCTCGGTCGT............................................	21	0	2	0.50	1	0	1	0
.............................................CCTGCCAACCCTCGGCTCGGACAAGCT....................................................................................	27	1	3	0.33	1	1	0	0
...............................................TGCCAACCCTCGGCTCGGACAAGCT....................................................................................	25	1	3	0.33	1	0	1	0
....................................................................................................................................CGCCCAGGTAGGTAGTCC......	18	2	4	0.25	1	0	1	0
......................GACCGGCTGTACCGGCTGTAAGACCT............................................................................................................	26	0	5	0.20	1	0	1	0
....................ACGACCGGCTGTACCGGCTGTAAGAC..............................................................................................................	26	0	5	0.20	1	0	1	0
..................TGACGACCGGCTGTACCGGCTGT...................................................................................................................	23	0	7	0.14	1	0	1	0
..........................................................................................AGGGGTGCGAAAGCTCGG................................................	18	3	20	0.05	1	0	1	0
................................................................................ACCACCACCCAGGGGAGA..........................................................	18	3	20	0.05	1	0	1	0

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

Read size

# Mismatch

Hit Count

Total Norm

Total

M060
embryo

M046
female body

V041
embryo

..............................................CTGCCAATCCTCGGCTCGGACAAGCT....................................................................................

48.00

.............................................CCTGCCAATCCTCGGCTCGGACAAGCT....................................................................................

12.00

...............................................TGCCAATCCTCGGCTCGGACAAGCT....................................................................................

5.00

.................................................CCAATCCTCGGCTCGGACAAGCTTT..................................................................................

3.00

................................................GCCAATCCTCGGCTCGGACAAGCT....................................................................................

3.00

..............................................CTGCCAATCCTCGGCTCGGACAACCT....................................................................................

2.00

.............................................................................................GGAGAGCAAGCTCGGTCGTGGCTGTT.....................................

2.00

............................................ACCTGCCAATCCTCGGCTCGGACAAGCT....................................................................................

2.00

...........................................................................................GGGGAGAGCAAGCTCGGTCGTGGCT........................................

1.50

.............CGGTTTGACGACCGGCTGTACCGGCT.....................................................................................................................

1.00

..............................................CTGCCAATACTCGGCTCGGACAAGCT....................................................................................

1.00

...........TCCGGTTTGACGACCGGCTGTACCGGCT.....................................................................................................................

1.00

..............................................CGGCCAATCCTAGGCTCGGACAAGCT....................................................................................

1.00

..............................................CTGCCAATCCCCGGCTCGGACAAGCT....................................................................................

1.00

.............................................CCGGCCAATCCTCGGCTCGGACAAGCT....................................................................................

1.00

..............................................CCGCCAATCCTCGGCTCGGACGAGCT....................................................................................

1.00

.......................................................................................................................AGGGTCGACCGACCGCCCAGGCAGGT...........

1.00

................................................................................................................GGCTGTTAGGGTCGACCGACCGCC....................

1.00

..............................................CTGCAAATCCTCGGCTCGGACAAGCT....................................................................................

1.00

.............................................CCTGCCAATCCTCGGCTCGGACAACCT....................................................................................

1.00

..............................GTACCGGCTGTAAGACCTGCCAATCC....................................................................................................

1.00

..............................................CAGCCAATCCTCGGCTCGGACAAGCT....................................................................................

1.00

..............................................CTGCCAATCCTCGGCTCGGACAAGCTT...................................................................................

1.00

..............................................CTGCCAATCCTCGGCTCGGACAAGC.....................................................................................

1.00

..............................................CTGTCAATCCTCGGCTCGGACAAGCT....................................................................................

1.00

.............................................CCTGCCAATCCTCGGCCCGGACAAGCT....................................................................................

1.00

..............................................CTGCCAATCCTCGGCTCGGACAAGGT....................................................................................

1.00

.............................................CCTGCCAATCCTCGGCTCGGACAAGC.....................................................................................

1.00

....................................................................................TCTCCCAGGGGAGAGCAAGCTCGGT...............................................

0.50

....................................................................................CCTCCCAGGGGAGAGCAAGCTCGGT...............................................

0.50

......................................................................................TCCCAGGGGAGAGCAAGCTCGGTC..............................................

0.50

......................................................................................TCCCAGGGGAGAGCAAGCTCGGT...............................................

0.50

................................................................................ACCCTCTCCCAGGGGAGAGCAAGC....................................................

0.50

.........................................................................................CAGGGGGGAGCAAGCTCGGTCGTGGCT........................................

0.50

............................................................................................GGGAGAGCAAGCTCGGTCGTGGCT........................................

0.50

.............................................................................................GGAGAGCAAGCTCGGTCGT............................................

0.50

..............................................CTGCCAATCCTCGGCTCGGACATGGT....................................................................................

0.50

...........................................................................................GGGGAGAGCAAGCTCGGTCGT............................................

0.50

.............................................CCTGCCAACCCTCGGCTCGGACAAGCT....................................................................................

0.33

...............................................TGCCAACCCTCGGCTCGGACAAGCT....................................................................................

0.33

....................................................................................................................................CGCCCAGGTAGGTAGTCC......

0.25

......................GACCGGCTGTACCGGCTGTAAGACCT............................................................................................................

0.20

....................ACGACCGGCTGTACCGGCTGTAAGAC..............................................................................................................

0.20

..................TGACGACCGGCTGTACCGGCTGT...................................................................................................................

0.14

..........................................................................................AGGGGTGCGAAAGCTCGG................................................

0.05

................................................................................ACCACCACCCAGGGGAGA..........................................................

0.05

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6496:26647260-26647415 -	dmo_1261	GGAGGAAGATGAGGC----CAAACT------------GCTGGCCGACATGGC--------CGACATTCTGG---ACGGTTAGGAGCCGAGCCTGTTCGAAATCCTCATGGGAGAGGGTCCCCTCTCGTTCGAGCCAGCACCGACAATCCCAGCTGGCTGGCGGGTCCGTCCACCAGGCGCTAC
droVir3	scaffold_13324:2207372-2207406 -		CTGGCCGG-TGTATC----CAT--------------------------------------------------------------CTTT---------------------------------------------------------------------------------ATTCCAGGCTACAA
droGri2	scaffold_14906:6189713-6189717 -		AAAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil2	scf2_1100000004936:354950-354956 -		GTACC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AC
dp5	2:17730901-17730910 +		AGGGGAAGAT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_14:1999370-1999404 -		CTAACCTACTG------------------------------GCCAACAGATC--------CGACATCCTG--------------------------------------------------------------------------------------------------------------GAC
droAna3	scaffold_13266:18440883-18440928 +		AGTGGAAGATGCCGCTCGCCGCCCCGAA---------GGCGG--------------------A-----TGG---ACGGATG----------------------------------------------------------------------------------------------------GG
droBip1	scf7180000396708:4531669-4531769 -		AGAAGCAGCTGAGTCCCGCCTCGGCAACAAAGGATCTGGAGGAGATCAAGAT--------CTATGTGGCGG---AGAGCCACAGCCGAAGCCTGTTGGAGGACCTTCTG-----------------------------------------------------------------------GGA
droKik1	scf7180000302472:1631253-1631299 +		GGAGGCGAATGTGGG----CATACA------------GACGGCCGTGATGGC--------CGATCTTCC----------------------------------------------------------------------------------------------------------------GG
droEle1	scf7180000490579:539809-539834 +		GGAGGAGCAGGTGAC----CAAGCT------------GCT---------------------------------------------------------------------------------------------------------------------------------------------GG
droRho1	scf7180000779846:1153-1295 -		AGATGCAACTGTTCGTAATCTGCCTGCT---------GGCGGCCACCACGGCCGCATTCACGATGTTCG-GCCCGCACATACGTATCGTGCCCGGCCAAAAGCCCAACGAGATAGTGCTCCACTTCCGCAATCCCTGTAACAACAAAACC------------------------------AGC
droBia1	scf7180000297517:7007-7012 +		CACT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AC
droTak1	scf7180000415560:84831-84872 +		GAGGATGAGGCCGAG----TA----------------AGAGGACGACATTGC--------TGACGTTTT-----------------------------------------------------------------------------------------------------------------G
droSim2	3l:23401665-23401690 +		GAAGACCGATGAGGA----CATCCA------------GCT---------------------------------------------------------------------------------------------------------------------------------------------GG
droEre2	scaffold_4845:20424149-20424159 -		GGAAGCAGCTG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

GGAGGAAGATGAGGC----CAAACT------------GCTGGCCGACATGGC--------CGACATTCTGG---ACGGTTAGGAGCCGAGCCTGTTCGAAATCCTCATGGGAGAGGGTCCCCTCTCGTTCGAGCCAGCACCGACAATCCCAGCTGGCTGGCGGGTCCGTCCACCAGGCGCTAC	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.........................................................................................GCCTGTTCGAAATCCTCATGGGAGA.....................................................................	25	1	11.00	11	7	2	0	0	1	1
.........................................................................................GCCTGTTCGAAATCCTCATGGG........................................................................	22	1	8.00	8	6	1	0	0	1	0
.........................................................................................GCCTGTTCGAAATCCTCATGGGA.......................................................................	23	1	6.00	6	3	1	0	0	2	0
.........................................................................................GCCTGTTCGAAATCCTCATGGGAG......................................................................	24	1	3.00	3	2	0	0	0	0	1
.........................................................................................GCCTGTTCGAAATCCTCATGGGAGAGG...................................................................	27	1	3.00	3	2	0	0	0	0	1
.........................................................................................GCCTGTTCGAAATCCTCATGGGAGAG....................................................................	26	1	2.00	2	1	0	0	0	1	0
..........................................................................................CCTGTTCGAAATCCTCATGGGAGA.....................................................................	24	1	2.00	2	2	0	0	0	0	0
..........................................................................................CCTGTTCGAAATCCTCATGGGA.......................................................................	22	1	2.00	2	2	0	0	0	0	0
..AGGAAGATGAGGC----CAAACT------------GCTGG.............................................................................................................................................	24	5	1.40	7	7	0	0	0	0	0
..........................................................................................CCTGTTCGAAATCCTCATGGGAGAGG...................................................................	26	1	1.00	1	1	0	0	0	0	0
..........................................................................................CCTGTTCGAAATCCTCATGGGAG......................................................................	23	1	1.00	1	1	0	0	0	0	0
..................................................................................................................................................TCCCAGCTGGCTGGCGGGTCCG...............	22	1	1.00	1	1	0	0	0	0	0
.........................................................................................GCCTGTTCGAAATCCTCATGGGAGAGT...................................................................	27	1	1.00	1	0	0	0	0	0	1
............................................................................................................................TCGTTCGAGCCAGCACCGACAATCCCAGC..............................	29	1	1.00	1	0	0	0	0	1	0
..AGGAAGATGAGGC----CAAACT------------GCTG..............................................................................................................................................	23	5	0.80	4	4	0	0	0	0	0
..........................................................................................CCTGTTCGAAATCCTCATGGG........................................................................	21	3	0.33	1	1	0	0	0	0	0
..AGGAAGATGAGGC----CAAACT------------GCTGGCCGAC........................................................................................................................................	29	4	0.25	1	1	0	0	0	0	0
...........................................................................................CTGTTCGAAATCCTCATGGG........................................................................	20	4	0.25	1	0	0	0	0	1	0
..AGGAAGATGAGGC----CAAACT------------..................................................................................................................................................	19	5	0.20	1	1	0	0	0	0	0
..AGGAAGATGAGGC----CAAACT------------GCTGC.............................................................................................................................................	24	5	0.20	1	1	0	0	0	0	0
..AGGAAGATGAGGC----CAAACT------------GC................................................................................................................................................	21	5	0.20	1	1	0	0	0	0	0
...GGAAGATGAGGC----CAAACT------------GCTGGC............................................................................................................................................	24	5	0.20	1	1	0	0	0	0	0
...GGAAGATGAGGC----CAAACT------------GCTG..............................................................................................................................................	22	5	0.20	1	1	0	0	0	0	0
..AGGAAGATGAGGC----CAAACT------------GCTGA.............................................................................................................................................	24	5	0.20	1	0	0	0	0	1	0

droVir3

CTGGCCGG-TGTATC----CAT--------------------------------------------------------------CTTT---------------------------------------------------------------------------------ATTCCAGGCTACAA

Size

Hit Count

Total Norm

Total

M027
Male-body

M028
Head

M047
Female-body

M061
Embryo

SRR060654
Ovary

SRR060655
Testis

SRR060656
Ovary

SRR060657
Testis

SRR060658
Ovary

SRR060659
Testis

SRR060660
Ovary

SRR060661
Embryo

SRR060662
Embryo

SRR060663
Embryo

SRR060664
Male-body

SRR060665
Female-body

SRR060666
Male-body

SRR060667
Female-body

SRR060668
Male-body

SRR060669
Female-body

SRR060670
Testis

SRR060671
Male-body

SRR060672
Female-body

SRR060673
Ovary

SRR060674
Ovary

SRR060675
Ovary

SRR060676
Ovary

SRR060677
Ovary

SRR060678
Testis

SRR060679
Testis

SRR060680
Testis

SRR060681
Testis

SRR060682
Embryo

SRR060683
Testis

SRR060684
Embryo

SRR060685
Embryo

SRR060686
Embryo

SRR060687
Embryo

SRR060688
Ovary

SRR060689
Testis

SRR1106712
embryo_0-2h

SRR1106713
embryo_0-2h

SRR1106714
embryo_2-4h

SRR1106715
embryo_4-6h

SRR1106716
embryo_4-6h

SRR1106717
embryo_6-8h

SRR1106718
embryo_6-8h

SRR1106719
embryo_8-10h

SRR1106720
embryo_8-10h

SRR1106721
embryo_10-12h

SRR1106722
embryo_10-12h

SRR1106723
embryo_12-14h

SRR1106724
embryo_12-14h

SRR1106725
embryo_14-16h

SRR1106726
embryo_14-16h

SRR1106727
larvae

SRR1106728
larvae

SRR1106729
mixed whole adult body

SRR1106730
embryo_16-30h

V047
Embryo

V053
Head

V116
Male-body

GSM1528803
follicle cells

No Reads

droGri2

AAAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droWil2

GTACC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AC	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
No Reads

dp5

AGGGGAAGAT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------

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

CTAACCTACTG------------------------------GCCAACAGATC--------CGACATCCTG--------------------------------------------------------------------------------------------------------------GAC	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droAna3

AGTGGAAGATGCCGCTCGCCGCCCCGAA---------GGCGG--------------------A-----TGG---ACGGATG----------------------------------------------------------------------------------------------------GG	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
No Reads

droBip1

AGAAGCAGCTGAGTCCCGCCTCGGCAACAAAGGATCTGGAGGAGATCAAGAT--------CTATGTGGCGG---AGAGCCACAGCCGAAGCCTGTTGGAGGACCTTCTG-----------------------------------------------------------------------GGA	Size	Hit Count	Total Norm	Total
No Reads

droKik1

GGAGGCGAATGTGGG----CATACA------------GACGGCCGTGATGGC--------CGATCTTCC----------------------------------------------------------------------------------------------------------------GG	Size	Hit Count	Total Norm	Total
No Reads

droEle1

GGAGGAGCAGGTGAC----CAAGCT------------GCT---------------------------------------------------------------------------------------------------------------------------------------------GG	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AGATGCAACTGTTCGTAATCTGCCTGCT---------GGCGGCCACCACGGCCGCATTCACGATGTTCG-GCCCGCACATACGTATCGTGCCCGGCCAAAAGCCCAACGAGATAGTGCTCCACTTCCGCAATCCCTGTAACAACAAAACC------------------------------AGC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CACT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GAGGATGAGGCCGAG----TA----------------AGAGGACGACATTGC--------TGACGTTTT-----------------------------------------------------------------------------------------------------------------G	Size	Hit Count	Total Norm	Total
No Reads

droSim2

GAAGACCGATGAGGA----CATCCA------------GCT---------------------------------------------------------------------------------------------------------------------------------------------GG	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
.......GATGAGGA----CATCCA------------GCT---------------------------------------------------------------------------------------------------------------------------------------------..	17	5	0.20	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........TGAGGA----CATCCA------------GCT---------------------------------------------------------------------------------------------------------------------------------------------..	15	5	0.20	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

droEre2

GGAAGCAGCTG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------	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

-15.4	-15.4	-14.9	-14.9

dmo_1261

scaffold_6496:26647310-26647365 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads