dwi_116

CTTTTGCTACTAAACAAGAGTATAGTGATACTGTTAAATATTTAGAAATGGCAATGAGAGAAAAAGGTGCTGTTCGTAGACGCCGTCATCACCATGGCTATCATAATCTTCATCATAGTCACTTATCAAGGAAACTTTTGGCTGAAGGT ************************************....(((..((((..((((........(((((((....))).)))).))))..))))..))).............**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V118 embryo	M045 female body	M020 head	V117 male body	V119 head
............................................................................TAGACGCCGTCATCACCATGGC...................................................	22	0	1	12.00	12	11	1	0	0	0
............................................................................TAGACGCCGTCATCACCATG.....................................................	20	0	1	8.00	8	6	2	0	0	0
............................................................................TAGACGCCGTCATCACCAC......................................................	19	1	1	6.00	6	3	2	0	1	0
............................................................................TAGACGCCGTCATCACCAT......................................................	19	0	1	4.00	4	4	0	0	0	0
.........................................................................................................ATCTTCATCATAGTCACTTA........................	20	0	1	3.00	3	0	3	0	0	0
.............................................................................AGACGCCGTCATCACCATGGC...................................................	21	0	1	3.00	3	0	3	0	0	0
............................................................................TAGACGCCGTCATCACCACC.....................................................	20	2	1	3.00	3	2	1	0	0	0
.............................................................................AGACGCCGTCATCACCAC......................................................	18	1	1	2.00	2	1	1	0	0	0
...........................................................................GTAGACGCCGTCATCACCAT......................................................	20	0	1	2.00	2	0	2	0	0	0
.............................................................................AGACGCCGTCATCACCATG.....................................................	19	0	1	2.00	2	2	0	0	0	0
.....................................................ATGAGAGAAAAAGGTGCTGTTC..........................................................................	22	0	1	2.00	2	1	1	0	0	0
..........................................................................CGTAGACGCCGTCATCACCACC.....................................................	22	2	1	1.00	1	0	0	1	0	0
.....................................................ATGAGAGAAAAAGGTGCT..............................................................................	18	0	1	1.00	1	1	0	0	0	0
............................................................................TAGACGCCGTCATCACCA.......................................................	18	0	1	1.00	1	1	0	0	0	0
............................................................................TAGACGCCGTCATCACAATGGC...................................................	22	1	1	1.00	1	1	0	0	0	0
............................................................................GCGACGCCGTCATCACCATG.....................................................	20	2	1	1.00	1	1	0	0	0	0
.........................................................GAGAAAAAGGTGCTGTTCGC........................................................................	20	1	1	1.00	1	0	1	0	0	0
...........................................................................GTAGCCGCCGTCACCACCAT......................................................	20	2	1	1.00	1	1	0	0	0	0
.......TACTAAACAAGAGTATAGTGA.........................................................................................................................	21	0	1	1.00	1	1	0	0	0	0
............................................................................TAGACGCCGTCATCACCATGGCC..................................................	23	1	1	1.00	1	1	0	0	0	0
.............................................AAATGGCAATGAGAGAAAA.....................................................................................	19	0	1	1.00	1	1	0	0	0	0
.............................................................................................................TCATCATAGTCACTTATCAA....................	20	0	1	1.00	1	1	0	0	0	0
....................................................AATGAGAGAAAAAGGTGCTGTTC..........................................................................	23	0	1	1.00	1	1	0	0	0	0
.......TACTAAACAAGAGTATAGTG..........................................................................................................................	20	0	1	1.00	1	0	1	0	0	0
........ACTAAACAAGAGTATAGT...........................................................................................................................	18	0	1	1.00	1	1	0	0	0	0
..................................................GCAATGAGAGAAAAAGGTGCTGTTC..........................................................................	25	0	1	1.00	1	1	0	0	0	0
.............................................................................AGACGCCGTCATCACCATTGC...................................................	21	1	1	1.00	1	1	0	0	0	0
.............................................................................AGACGCCGTCATCACCACC.....................................................	19	2	3	0.67	2	1	1	0	0	0
..........................................................................CGTAGACGCCGTCATCACCACCA....................................................	23	3	3	0.33	1	0	0	0	0	1

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

Read size

# Mismatch

Hit Count

Total Norm

Total

V118
embryo

M045
female body

M020
head

V117
male body

V119
head

............................................................................TAGACGCCGTCATCACCATGGC...................................................

12.00

............................................................................TAGACGCCGTCATCACCATG.....................................................

8.00

............................................................................TAGACGCCGTCATCACCAC......................................................

6.00

............................................................................TAGACGCCGTCATCACCAT......................................................

4.00

.........................................................................................................ATCTTCATCATAGTCACTTA........................

3.00

.............................................................................AGACGCCGTCATCACCATGGC...................................................

3.00

............................................................................TAGACGCCGTCATCACCACC.....................................................

3.00

.............................................................................AGACGCCGTCATCACCAC......................................................

2.00

...........................................................................GTAGACGCCGTCATCACCAT......................................................

2.00

.............................................................................AGACGCCGTCATCACCATG.....................................................

2.00

.....................................................ATGAGAGAAAAAGGTGCTGTTC..........................................................................

2.00

..........................................................................CGTAGACGCCGTCATCACCACC.....................................................

1.00

.....................................................ATGAGAGAAAAAGGTGCT..............................................................................

1.00

............................................................................TAGACGCCGTCATCACCA.......................................................

1.00

............................................................................TAGACGCCGTCATCACAATGGC...................................................

1.00

............................................................................GCGACGCCGTCATCACCATG.....................................................

1.00

.........................................................GAGAAAAAGGTGCTGTTCGC........................................................................

1.00

...........................................................................GTAGCCGCCGTCACCACCAT......................................................

1.00

.......TACTAAACAAGAGTATAGTGA.........................................................................................................................

1.00

............................................................................TAGACGCCGTCATCACCATGGCC..................................................

1.00

.............................................AAATGGCAATGAGAGAAAA.....................................................................................

1.00

.............................................................................................................TCATCATAGTCACTTATCAA....................

1.00

....................................................AATGAGAGAAAAAGGTGCTGTTC..........................................................................

1.00

.......TACTAAACAAGAGTATAGTG..........................................................................................................................

1.00

........ACTAAACAAGAGTATAGT...........................................................................................................................

1.00

..................................................GCAATGAGAGAAAAAGGTGCTGTTC..........................................................................

1.00

.............................................................................AGACGCCGTCATCACCATTGC...................................................

1.00

.............................................................................AGACGCCGTCATCACCACC.....................................................

0.67

..........................................................................CGTAGACGCCGTCATCACCACCA....................................................

0.33

GAAAACGATGATTTGTTCTCATATCACTATGACAATTTATAAATCTTTACCGTTACTCTCTTTTTCCACGACAAGCATCTGCGGCAGTAGTGGTACCGATAGTATTAGAAGTAGTATCAGTGAATAGTTCCTTTGAAAACCGACTTCCA **********************************....(((..((((..((((........(((((((....))).)))).))))..))))..))).............************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V118 embryo	V119 head	M045 female body	V117 male body
...........................................................................CATCTGCGGCAGTAGTGGTAC.....................................................	21	0	1	40.00	40	29	8	2	1
..........................................................................CCATCTGCGGCAGTAGTGGTAC.....................................................	22	1	1	12.00	12	11	0	1	0
...........................................................................CATCTGCGGCAGTAGTGG........................................................	18	0	1	5.00	5	4	0	1	0
.........................................................................AGCATCTGCGGCAGTAGTGG........................................................	20	0	1	2.00	2	2	0	0	0
........................................................................................................TTAGAAGTAGTATCAGTGAA.........................	20	0	1	2.00	2	2	0	0	0
............................................................................ATCTGCGGCAGTAGTGGTAC.....................................................	20	0	1	2.00	2	2	0	0	0
...........................................................................CATCTGCGGCCGTAGTGGTAC.....................................................	21	1	1	1.00	1	1	0	0	0
..........................................................................................TGGTACCGATAGTATTAGAAG......................................	21	0	1	1.00	1	1	0	0	0
.......................................................................................................ATTAGAAGTAGTATCAGTGAA.........................	21	0	1	1.00	1	0	0	0	1
....................................................................CGACAAGCATCTGCGGCAGTAGT..........................................................	23	0	1	1.00	1	1	0	0	0
.............................................................................................TACCGATAGTATTAGAAG......................................	18	0	1	1.00	1	1	0	0	0
.................................................................................CGGCAGTAGTGGTACCGAT.................................................	19	0	1	1.00	1	1	0	0	0
........................................................................AAGCATCTGCGGCAGTAG...........................................................	18	0	1	1.00	1	0	0	1	0
....................................................................CGACAAGCATCTGCGGCAGTAG...........................................................	22	0	1	1.00	1	1	0	0	0
.....................................................TACTCTCTTTTTCCACGACAA...........................................................................	21	0	1	1.00	1	0	0	1	0
......................................................................................................CATTAGAAGTAGTATCAGTGAA.........................	22	1	1	1.00	1	1	0	0	0
...........................................................................CATCTGCGGCAGTAGAGGTAC.....................................................	21	1	1	1.00	1	0	1	0	0
...........................................................................CATCTGTGGCAGTAGTGG........................................................	18	1	1	1.00	1	1	0	0	0
.................................................CCGTTACTCTCTTTTTCCACGACAA...........................................................................	25	0	1	1.00	1	1	0	0	0
.........................................................................................................TAGAAGTAGTATCAGTGAA.........................	19	0	1	1.00	1	1	0	0	0
......................................................ACTCTCTTTTTCCACGACAA...........................................................................	20	0	1	1.00	1	1	0	0	0
..................................................................................GGCAGTAGTGTTGACGATAGT..............................................	21	3	5	0.80	4	3	0	1	0
.........................................................................ACCTTCTGCGGCAATAGTGG........................................................	20	3	3	0.33	1	0	0	0	1
...........................................................................................................................GTTGTTCCTTTGGAAACCGAC.....	21	3	5	0.20	1	0	0	1	0

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

Read size

# Mismatch

Hit Count

Total Norm

Total

V118
embryo

V119
head

M045
female body

V117
male body

...........................................................................CATCTGCGGCAGTAGTGGTAC.....................................................

40.00

..........................................................................CCATCTGCGGCAGTAGTGGTAC.....................................................

12.00

...........................................................................CATCTGCGGCAGTAGTGG........................................................

5.00

.........................................................................AGCATCTGCGGCAGTAGTGG........................................................

2.00

........................................................................................................TTAGAAGTAGTATCAGTGAA.........................

2.00

............................................................................ATCTGCGGCAGTAGTGGTAC.....................................................

2.00

...........................................................................CATCTGCGGCCGTAGTGGTAC.....................................................

1.00

..........................................................................................TGGTACCGATAGTATTAGAAG......................................

1.00

.......................................................................................................ATTAGAAGTAGTATCAGTGAA.........................

1.00

....................................................................CGACAAGCATCTGCGGCAGTAGT..........................................................

1.00

.............................................................................................TACCGATAGTATTAGAAG......................................

1.00

.................................................................................CGGCAGTAGTGGTACCGAT.................................................

1.00

........................................................................AAGCATCTGCGGCAGTAG...........................................................

1.00

....................................................................CGACAAGCATCTGCGGCAGTAG...........................................................

1.00

.....................................................TACTCTCTTTTTCCACGACAA...........................................................................

1.00

......................................................................................................CATTAGAAGTAGTATCAGTGAA.........................

1.00

...........................................................................CATCTGCGGCAGTAGAGGTAC.....................................................

1.00

...........................................................................CATCTGTGGCAGTAGTGG........................................................

1.00

.................................................CCGTTACTCTCTTTTTCCACGACAA...........................................................................

1.00

.........................................................................................................TAGAAGTAGTATCAGTGAA.........................

1.00

......................................................ACTCTCTTTTTCCACGACAA...........................................................................

1.00

..................................................................................GGCAGTAGTGTTGACGATAGT..............................................

0.80

.........................................................................ACCTTCTGCGGCAATAGTGG........................................................

0.33

...........................................................................................................................GTTGTTCCTTTGGAAACCGAC.....

0.20

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004492:69-217 -	dwi_116	C-----------------TTTTGCTACTAAACAAGAGTATAGTGATACTG---------------------------------------TTAAATATTTAGAAATGGCAATGAGAGAAAAAGGTGCTGTTCGTAGACGCCGTCATCACCATGGCTATCATAATCTTCATCATAGTCACTTATCAAGGAAACT--TTTG--------GCTGAAGGT-------------------
droAna3	scaffold_12940:55452-55606 +		AGCAGGAGTAAAGCTTAACATCATTGATAAAAATAATAAAGATAATACACCTTTACACTATGCTGTTGAAAGGGATAAAAAAGAAATAGTTAGAAAATT-------------------------------------------------------------------------------ACTGCAAGAATGGAAGGCAGATGTTAACGCTAAAAACAATAAAGGTGATACACCTT
droRho1	scf7180000763547:9622-9767 +		TCGAGGTGC------CAATATTAATACTAAGAATGATGATGGATATACTTCTCTGCACTTTGCTGTACTGAAGAATTT--------------------------------------------------------------------------------CCGGTCTGGAATAGATTATCTTATCAAGGAAGGT--GCTAACATTGATGCTAAGGATAATATTGGTCGGGCCCCTC

Species

Coordinate

Alignment

droWil2

scf2_1100000004492:69-217 -

dwi_116

C-----------------TTTTGCTACTAAACAAGAGTATAGTGATACTG---------------------------------------TTAAATATTTAGAAATGGCAATGAGAGAAAAAGGTGCTGTTCGTAGACGCCGTCATCACCATGGCTATCATAATCTTCATCATAGTCACTTATCAAGGAAACT--TTTG--------GCTGAAGGT-------------------

droAna3

scaffold_12940:55452-55606 +

AGCAGGAGTAAAGCTTAACATCATTGATAAAAATAATAAAGATAATACACCTTTACACTATGCTGTTGAAAGGGATAAAAAAGAAATAGTTAGAAAATT-------------------------------------------------------------------------------ACTGCAAGAATGGAAGGCAGATGTTAACGCTAAAAACAATAAAGGTGATACACCTT

droRho1

scf7180000763547:9622-9767 +

TCGAGGTGC------CAATATTAATACTAAGAATGATGATGGATATACTTCTCTGCACTTTGCTGTACTGAAGAATTT--------------------------------------------------------------------------------CCGGTCTGGAATAGATTATCTTATCAAGGAAGGT--GCTAACATTGATGCTAAGGATAATATTGGTCGGGCCCCTC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

C-----------------TTTTGCTACTAAACAAGAGTATAGTGATACTG---------------------------------------TTAAATATTTAGAAATGGCAATGAGAGAAAAAGGTGCTGTTCGTAGACGCCGTCATCACCATGGCTATCATAATCTTCATCATAGTCACTTATCAAGGAAACT--TTTG--------GCTGAAGGT-------------------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
....................................................................................................................................TAGACGCCGTCATCACCATGGC................................................................................	22	1	12.00	12	0	1	0	11	0
....................................................................................................................................TAGACGCCGTCATCACCATG..................................................................................	20	1	8.00	8	0	2	0	6	0
....................................................................................................................................TAGACGCCGTCATCACCAC...................................................................................	19	1	6.00	6	0	2	1	3	0
....................................................................................................................................TAGACGCCGTCATCACCAT...................................................................................	19	1	4.00	4	0	0	0	4	0
.................................................................................................................................................................ATCTTCATCATAGTCACTTA.....................................................	20	1	3.00	3	0	3	0	0	0
.....................................................................................................................................AGACGCCGTCATCACCATGGC................................................................................	21	1	3.00	3	0	3	0	0	0
....................................................................................................................................TAGACGCCGTCATCACCACC..................................................................................	20	1	3.00	3	0	1	0	2	0
.....................................................................................................................................AGACGCCGTCATCACCAC...................................................................................	18	1	2.00	2	0	1	0	1	0
...................................................................................................................................GTAGACGCCGTCATCACCAT...................................................................................	20	1	2.00	2	0	2	0	0	0
.....................................................................................................................................AGACGCCGTCATCACCATG..................................................................................	19	1	2.00	2	0	0	0	2	0
.............................................................................................................ATGAGAGAAAAAGGTGCTGTTC.......................................................................................................	22	1	2.00	2	0	1	0	1	0
..................................................................................................................................CGTAGACGCCGTCATCACCACC..................................................................................	22	1	1.00	1	1	0	0	0	0
.............................................................................................................ATGAGAGAAAAAGGTGCT...........................................................................................................	18	1	1.00	1	0	0	0	1	0
....................................................................................................................................TAGACGCCGTCATCACCA....................................................................................	18	1	1.00	1	0	0	0	1	0
.................................................................................................................GAGAAAAAGGTGCTGTTCGC.....................................................................................................	20	1	1.00	1	0	1	0	0	0
........................TACTAAACAAGAGTATAGTGA.............................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0
....................................................................................................................................TAGACGCCGTCATCACCATGGCC...............................................................................	23	1	1.00	1	0	0	0	1	0
.....................................................................................................AAATGGCAATGAGAGAAAA..................................................................................................................	19	1	1.00	1	0	0	0	1	0
.....................................................................................................................................................................TCATCATAGTCACTTATCAA.................................................	20	1	1.00	1	0	0	0	1	0
............................................................................................................AATGAGAGAAAAAGGTGCTGTTC.......................................................................................................	23	1	1.00	1	0	0	0	1	0
........................TACTAAACAAGAGTATAGTG..............................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0
.........................ACTAAACAAGAGTATAGT...............................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
..........................................................................................................GCAATGAGAGAAAAAGGTGCTGTTC.......................................................................................................	25	1	1.00	1	0	0	0	1	0
.....................................................................................................................................AGACGCCGTCATCACCACC..................................................................................	19	3	0.67	2	0	1	0	1	0
..................................................................................................................................CGTAGACGCCGTCATCACCACCA.................................................................................	23	3	0.33	1	0	0	0	0	1

droAna3

AGCAGGAGTAAAGCTTAACATCATTGATAAAAATAATAAAGATAATACACCTTTACACTATGCTGTTGAAAGGGATAAAAAAGAAATAGTTAGAAAATT-------------------------------------------------------------------------------ACTGCAAGAATGGAAGGCAGATGTTAACGCTAAAAACAATAAAGGTGATACACCTT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
...........................................................................................................................................................................................ATGGAAGGCAGATGTTAACGC..........................	21	1	5.00	5	0	3	1	1	0	0
.............................................................................................................................................................................................GGAAGGCAGATGTTAACGC..........................	19	1	4.00	4	0	4	0	0	0	0
................................................................................................ATT-------------------------------------------------------------------------------ACTGCAAGAATGGAAGGC......................................	21	1	3.00	3	0	2	1	0	0	0
...........................................................................................................................................................................................ATGGAAGGCAGATGTTAACGCC.........................	22	1	2.00	2	0	1	0	0	1	0
..........................................................................................................................................................................................AATGGAAGGCAGATGTTAACGC..........................	22	1	2.00	2	1	0	1	0	0	0
...........................................................................................................................................................................................ATGGAAGGCAGATGTTAACGCT.........................	22	1	2.00	2	0	1	0	0	0	1
................................................................................................ATT-------------------------------------------------------------------------------ACTGCAAGAATGGAAGGCAGA...................................	24	1	1.00	1	0	1	0	0	0	0
................................................................................................ATT-------------------------------------------------------------------------------ACTGCAAGAATGGAAGG.......................................	20	1	1.00	1	1	0	0	0	0	0
........................................................................................................................................................................................AGAATGGAAGGCAGATGTTA..............................	20	1	1.00	1	0	0	0	0	1	0
............................................................................................................................................................................................TGGAAGGCAGATGTTAACGCT.........................	21	1	1.00	1	0	1	0	0	0	0
.........................................................................................................................................................................................GAATGGAAGGCAGATGTTAACGCT.........................	24	1	1.00	1	0	0	1	0	0	0

droRho1

TCGAGGTGC------CAATATTAATACTAAGAATGATGATGGATATACTTCTCTGCACTTTGCTGTACTGAAGAATTT--------------------------------------------------------------------------------CCGGTCTGGAATAGATTATCTTATCAAGGAAGGT--GCTAACATTGATGCTAAGGATAATATTGGTCGGGCCCCTC	Size	Hit Count	Total Norm	Total
No Reads

dwi_116

scf2_1100000004492:119-167 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-12.3	-12.3	-12.2