dwi_3261

Name	Class	Family	Strand
AT_rich	Low_complexity	Low_complexity	+

Name

Class

Family

Strand

AT_rich

Low_complexity

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GTTTGTGAGACATATGCCGGTCATGCCCCTAAAGATGTGTGCCGAGGGTGGTGGATTGCTGAGTTTTATGGTTTATGACGCAGCAAGTGATCTTTAAATAAAATTAAAAATTATGTACCCATGATGCAATTCTGTTTTAACTTAAGAGGGTGGGTTTTTGTCCATTTCATCCAGATTGGGATCCCCTATTGATTTGGATTTAAAAGTTAGCGGGATTTATAGCCTGAAAGTAGCTATTTCCGGGCAAAGTG **************************************************...((((((.(((.((.....)).))).)))))).........(((((.((((....((((((....))))))..)))).))))).....***********************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M045 female body	V117 male body	V118 embryo	V119 head
..TTGTGAGACATATGCCGGTCATGCCC...............................................................................................................................................................................................................................	26	0	1	1.00	1	0	0	1	0
...........................CCTAAAGATGTGTGCCGAGGGTGG........................................................................................................................................................................................................	24	0	5	0.60	3	3	0	0	0
...................................................................................................................TACCCATGATGCAATTCTGTTTTAACT.............................................................................................................	27	0	4	0.50	2	2	0	0	0
..................................................GTGGATTGCGGAGTTTTTT......................................................................................................................................................................................	19	2	6	0.50	3	2	1	0	0
...........................CCTAAAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................	27	0	5	0.40	2	0	2	0	0
.................................................................................................................................................................................................TTGGATTTAAAAGTTAGCGGGAT...................................	23	0	3	0.33	1	1	0	0	0
...................................................TGGATTGCTGAGTTTTATGTT...................................................................................................................................................................................	21	1	3	0.33	1	0	1	0	0
................................................TCGTGGATTGCTGAGTTTTATGGTT..................................................................................................................................................................................	25	1	3	0.33	1	0	1	0	0
.....................................................................................................................................................................................TCCCCTATTGATTTGGATTTAAAAGT............................................	26	0	3	0.33	1	1	0	0	0
....................................................GGATTGCTGAGTTTTATGGTTTATG..............................................................................................................................................................................	25	0	3	0.33	1	1	0	0	0
.......................................................TTGCTGAGTTTTATGGTTTATGACG...........................................................................................................................................................................	25	0	3	0.33	1	0	0	1	0
....................................................................................................................................TGTTTTAACTTAAGAGGGTGGGTT...............................................................................................	24	0	4	0.25	1	1	0	0	0
.....................................................................GGTTTATGACGCAGCAAA....................................................................................................................................................................	18	1	4	0.25	1	0	0	0	1
...................................TGTGTGCCGAGGGTGGTGGATTGC................................................................................................................................................................................................	24	0	4	0.25	1	0	0	0	1
....................................................................................................................................TGTTTTAACTTAAGAGGGTGGGT................................................................................................	23	0	4	0.25	1	0	1	0	0
........................................................................................................................................................................ATCCAGATTGGGATCCCC.................................................................	18	0	4	0.25	1	1	0	0	0
.......................................................................................................................................................GGGTTTTTGTCCATTTCATCCAGAT...........................................................................	25	0	4	0.25	1	1	0	0	0
..............TGCCGGTCATGCCCCTAAAGATGTGTGC.................................................................................................................................................................................................................	28	0	5	0.20	1	1	0	0	0
...............................AAGATGTGTGCCGAGGGTGGTG......................................................................................................................................................................................................	22	0	5	0.20	1	1	0	0	0
...............................AAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................	23	0	5	0.20	1	1	0	0	0
...........................CCTAAAGATGTGTGCCGAGGGTGGTG......................................................................................................................................................................................................	26	0	5	0.20	1	0	1	0	0
..................................................GTGGATTGCGGAGTTTTTTT.....................................................................................................................................................................................	20	3	20	0.20	4	3	1	0	0
...........................CCCAAAGATGTGTGCCGAGGGTGG........................................................................................................................................................................................................	24	1	5	0.20	1	0	0	1	0
...............GCCGGTCATGCCCCTAAAGATGT.....................................................................................................................................................................................................................	23	0	5	0.20	1	1	0	0	0
...........................CCTAAAGATGTGTGCCGAGG............................................................................................................................................................................................................	20	0	5	0.20	1	1	0	0	0
.......................TGCCCCTAAAGATGTGTGCCGAGGG...........................................................................................................................................................................................................	25	0	5	0.20	1	1	0	0	0
.............................................GGGTGGTGGATTGCTGAG............................................................................................................................................................................................	18	0	5	0.20	1	1	0	0	0
.............................TAAAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................	25	0	5	0.20	1	1	0	0	0
............................................................................................................................................CTTCGGATGGTGGGTTTTTGT..........................................................................................	21	3	9	0.11	1	0	1	0	0
GTTTGTGCGCCGTATGCCG........................................................................................................................................................................................................................................	19	3	13	0.08	1	1	0	0	0
................................................................................................................................................AGAGGGAGGGTTCTTGTGC........................................................................................	19	3	15	0.07	1	0	1	0	0
...................................................................................................................................................................ATTTCATCGTGATGGGGAT.....................................................................	19	3	20	0.05	1	0	1	0	0

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
GTTTGTGAGACATATGCCGGTCATGCCCCTAAAGATGTGTGCCGAGGGTGGTGGATTGCTGAGTTTTATGGTTTATGACGCAGCAAGTGATCTTTAAATAAAATTAAAAATTATGTACCCATGATGCAATTCTGTTTTAACTTAAGAGGGTGGGTTTTTGTCCATTTCATCCAGATTGGGATCCCCTATTGATTTGGATTTAAAAGTTAGCGGGATTTATAGCCTGAAAGTAGCTATTTCCGGGCAAAGTG
****************************************************...((((((.(((.((.....)).))).)))))).........(((((.((((....((((((....))))))..)))).))))).....*************************************************************************************************************

Read size

# Mismatch

Hit Count

Total Norm

Total

M045
female body

V117
male body

V118
embryo

V119
head

..TTGTGAGACATATGCCGGTCATGCCC...............................................................................................................................................................................................................................

1.00

...........................CCTAAAGATGTGTGCCGAGGGTGG........................................................................................................................................................................................................

0.60

...................................................................................................................TACCCATGATGCAATTCTGTTTTAACT.............................................................................................................

0.50

..................................................GTGGATTGCGGAGTTTTTT......................................................................................................................................................................................

0.50

...........................CCTAAAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................

0.40

.................................................................................................................................................................................................TTGGATTTAAAAGTTAGCGGGAT...................................

0.33

...................................................TGGATTGCTGAGTTTTATGTT...................................................................................................................................................................................

0.33

................................................TCGTGGATTGCTGAGTTTTATGGTT..................................................................................................................................................................................

0.33

.....................................................................................................................................................................................TCCCCTATTGATTTGGATTTAAAAGT............................................

0.33

....................................................GGATTGCTGAGTTTTATGGTTTATG..............................................................................................................................................................................

0.33

.......................................................TTGCTGAGTTTTATGGTTTATGACG...........................................................................................................................................................................

0.33

....................................................................................................................................TGTTTTAACTTAAGAGGGTGGGTT...............................................................................................

0.25

.....................................................................GGTTTATGACGCAGCAAA....................................................................................................................................................................

0.25

...................................TGTGTGCCGAGGGTGGTGGATTGC................................................................................................................................................................................................

0.25

....................................................................................................................................TGTTTTAACTTAAGAGGGTGGGT................................................................................................

0.25

........................................................................................................................................................................ATCCAGATTGGGATCCCC.................................................................

0.25

.......................................................................................................................................................GGGTTTTTGTCCATTTCATCCAGAT...........................................................................

0.25

..............TGCCGGTCATGCCCCTAAAGATGTGTGC.................................................................................................................................................................................................................

0.20

...............................AAGATGTGTGCCGAGGGTGGTG......................................................................................................................................................................................................

0.20

...............................AAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................

0.20

...........................CCTAAAGATGTGTGCCGAGGGTGGTG......................................................................................................................................................................................................

0.20

..................................................GTGGATTGCGGAGTTTTTTT.....................................................................................................................................................................................

0.20

...........................CCCAAAGATGTGTGCCGAGGGTGG........................................................................................................................................................................................................

0.20

...............GCCGGTCATGCCCCTAAAGATGT.....................................................................................................................................................................................................................

0.20

...........................CCTAAAGATGTGTGCCGAGG............................................................................................................................................................................................................

0.20

.......................TGCCCCTAAAGATGTGTGCCGAGGG...........................................................................................................................................................................................................

0.20

.............................................GGGTGGTGGATTGCTGAG............................................................................................................................................................................................

0.20

.............................TAAAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................

0.20

............................................................................................................................................CTTCGGATGGTGGGTTTTTGT..........................................................................................

0.11

GTTTGTGCGCCGTATGCCG........................................................................................................................................................................................................................................

0.08

................................................................................................................................................AGAGGGAGGGTTCTTGTGC........................................................................................

0.07

...................................................................................................................................................................ATTTCATCGTGATGGGGAT.....................................................................

0.05

CAAACACTCTGTATACGGCCAGTACGGGGATTTCTACACACGGCTCCCACCACCTAACGACTCAAAATACCAAATACTGCGTCGTTCACTAGAAATTTATTTTAATTTTTAATACATGGGTACTACGTTAAGACAAAATTGAATTCTCCCACCCAAAAACAGGTAAAGTAGGTCTAACCCTAGGGGATAACTAAACCTAAATTTTCAATCGCCCTAAATATCGGACTTTCATCGATAAAGGCCCGTTTCAC ***********************************************************************************************************...((((((.(((.((.....)).))).)))))).........(((((.((((....((((((....))))))..)))).))))).....**************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M045 female body	V118 embryo	V119 head	M020 head
.........TGTATACGGCCAGTACGGGGATTTCT........................................................................................................................................................................................................................	26	0	1	1.00	1	1	0	0	0
.......TCTGTATACGGCCAGTACGGGGATTTCT........................................................................................................................................................................................................................	28	0	1	1.00	1	0	1	0	0
.........................................GGCTCCCACCACCTAACGACTCAAAA........................................................................................................................................................................................	26	0	3	0.67	2	2	0	0	0
..............ACGGCCAGTACGGGGATTTCTACACAC..................................................................................................................................................................................................................	27	0	5	0.40	2	2	0	0	0
.....................................ACACGGCTCCCACCACCTAACGACTCA...........................................................................................................................................................................................	27	0	3	0.33	1	1	0	0	0
.........................................GGCTCCCACCACCTAACGACTCAAAAT.......................................................................................................................................................................................	27	0	3	0.33	1	1	0	0	0
........................................CGGCTCCCACCACCTAACGACTCAA..........................................................................................................................................................................................	25	0	3	0.33	1	1	0	0	0
.........................................................................................................................ACTACGTTAAGACAAAATTGAATTC.........................................................................................................	25	0	3	0.33	1	1	0	0	0
....................................................................ACCAAATACTGCGTCGTTCACTAGAAATT..........................................................................................................................................................	29	0	3	0.33	1	1	0	0	0
..................................................CACCTAACGACTCAAAATACCAAAT................................................................................................................................................................................	25	0	3	0.33	1	1	0	0	0
.......................................ACGGCTCCCACCACCTAACGACTCAA..........................................................................................................................................................................................	26	0	3	0.33	1	1	0	0	0
.....................................ACACGGCTCCCACCACCTAACGACTC............................................................................................................................................................................................	26	0	4	0.25	1	1	0	0	0
.....................................ACACGGCTCCCACCACCTAACGACT.............................................................................................................................................................................................	25	0	4	0.25	1	1	0	0	0
...................................ACACACGGCTCCCACCACCTAACGACT.............................................................................................................................................................................................	27	0	4	0.25	1	1	0	0	0
...........................GGATTTCTACACACGGCTCCCACCACCT....................................................................................................................................................................................................	28	0	4	0.25	1	1	0	0	0
...................................................................................................................................................CCCACCCAAAAACAGGTAAAGTAGGTCT............................................................................	28	0	4	0.25	1	1	0	0	0
...................................................................................................................ATGGGTACTACGTTAAGACAGAATT...............................................................................................................	25	1	4	0.25	1	0	1	0	0
...................................ACACACGGCTCACACCACCTAACCACT.............................................................................................................................................................................................	27	2	4	0.25	1	0	0	1	0
......................................CACGGCTCCCACCACCTAACGACT.............................................................................................................................................................................................	24	0	4	0.25	1	1	0	0	0
...............CGGCCCGTACGGGGTGTTC.........................................................................................................................................................................................................................	19	3	18	0.22	4	4	0	0	0
................GGCCAGTACGGGGATTTCTACACAC..................................................................................................................................................................................................................	25	0	5	0.20	1	1	0	0	0
..............ACGGCCAGTACGGGGATTTCTACAC....................................................................................................................................................................................................................	25	0	5	0.20	1	1	0	0	0
...............CGGCCAGTACGGGGATTTCT........................................................................................................................................................................................................................	20	0	5	0.20	1	1	0	0	0
................................................................AAAGTCCCAATACTGCGTC........................................................................................................................................................................	19	3	17	0.12	2	0	0	0	2
...................................................................................................................................................................................................................CCCTAAATGGCGGGCTTTC.....................	19	3	10	0.10	1	1	0	0	0

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

Read size

# Mismatch

Hit Count

Total Norm

Total

M045
female body

V118
embryo

V119
head

M020
head

.........TGTATACGGCCAGTACGGGGATTTCT........................................................................................................................................................................................................................

1.00

.......TCTGTATACGGCCAGTACGGGGATTTCT........................................................................................................................................................................................................................

1.00

.........................................GGCTCCCACCACCTAACGACTCAAAA........................................................................................................................................................................................

0.67

..............ACGGCCAGTACGGGGATTTCTACACAC..................................................................................................................................................................................................................

0.40

.....................................ACACGGCTCCCACCACCTAACGACTCA...........................................................................................................................................................................................

0.33

.........................................GGCTCCCACCACCTAACGACTCAAAAT.......................................................................................................................................................................................

0.33

........................................CGGCTCCCACCACCTAACGACTCAA..........................................................................................................................................................................................

0.33

.........................................................................................................................ACTACGTTAAGACAAAATTGAATTC.........................................................................................................

0.33

....................................................................ACCAAATACTGCGTCGTTCACTAGAAATT..........................................................................................................................................................

0.33

..................................................CACCTAACGACTCAAAATACCAAAT................................................................................................................................................................................

0.33

.......................................ACGGCTCCCACCACCTAACGACTCAA..........................................................................................................................................................................................

0.33

.....................................ACACGGCTCCCACCACCTAACGACTC............................................................................................................................................................................................

0.25

.....................................ACACGGCTCCCACCACCTAACGACT.............................................................................................................................................................................................

0.25

...................................ACACACGGCTCCCACCACCTAACGACT.............................................................................................................................................................................................

0.25

...........................GGATTTCTACACACGGCTCCCACCACCT....................................................................................................................................................................................................

0.25

...................................................................................................................................................CCCACCCAAAAACAGGTAAAGTAGGTCT............................................................................

0.25

...................................................................................................................ATGGGTACTACGTTAAGACAGAATT...............................................................................................................

0.25

...................................ACACACGGCTCACACCACCTAACCACT.............................................................................................................................................................................................

0.25

......................................CACGGCTCCCACCACCTAACGACT.............................................................................................................................................................................................

0.25

...............CGGCCCGTACGGGGTGTTC.........................................................................................................................................................................................................................

0.22

................GGCCAGTACGGGGATTTCTACACAC..................................................................................................................................................................................................................

0.20

..............ACGGCCAGTACGGGGATTTCTACAC....................................................................................................................................................................................................................

0.20

...............CGGCCAGTACGGGGATTTCT........................................................................................................................................................................................................................

0.20

................................................................AAAGTCCCAATACTGCGTC........................................................................................................................................................................

0.12

...................................................................................................................................................................................................................CCCTAAATGGCGGGCTTTC.....................

0.10

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004943:4281055-4281305 +	dwi_3261	GTTTGTGAGACATATGCCGGTCATGCCCCTAAAGATGTGTGCCGAGGGTGGTGGATTGCTGAGTTTTATGGTTTATGACGCAGCAAGTGATCTTTAAATAAAATTAAAAATTATGTACCCATGATGCAATTCTGTTTTAACTTAAGAGGGTGGGTTTTTGTCCATTTCATCCAGATTGGGATCCCCTATTGATTTGGATTTAAAAGTTAGCGGGATTTATAGCCTGAAAGTAGCTATTTCCGGGCAAAGTG

Species

Coordinate

Alignment

droWil2

scf2_1100000004943:4281055-4281305 +

dwi_3261

GTTTGTGAGACATATGCCGGTCATGCCCCTAAAGATGTGTGCCGAGGGTGGTGGATTGCTGAGTTTTATGGTTTATGACGCAGCAAGTGATCTTTAAATAAAATTAAAAATTATGTACCCATGATGCAATTCTGTTTTAACTTAAGAGGGTGGGTTTTTGTCCATTTCATCCAGATTGGGATCCCCTATTGATTTGGATTTAAAAGTTAGCGGGATTTATAGCCTGAAAGTAGCTATTTCCGGGCAAAGTG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

GTTTGTGAGACATATGCCGGTCATGCCCCTAAAGATGTGTGCCGAGGGTGGTGGATTGCTGAGTTTTATGGTTTATGACGCAGCAAGTGATCTTTAAATAAAATTAAAAATTATGTACCCATGATGCAATTCTGTTTTAACTTAAGAGGGTGGGTTTTTGTCCATTTCATCCAGATTGGGATCCCCTATTGATTTGGATTTAAAAGTTAGCGGGATTTATAGCCTGAAAGTAGCTATTTCCGGGCAAAGTG	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
..TTGTGAGACATATGCCGGTCATGCCC...............................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	1	0
...........................CCTAAAGATGTGTGCCGAGGGTGG........................................................................................................................................................................................................	24	5	0.60	3	0	3	0	0	0
...................................................................................................................TACCCATGATGCAATTCTGTTTTAACT.............................................................................................................	27	4	0.50	2	0	2	0	0	0
...........................CCTAAAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................	27	5	0.40	2	0	0	2	0	0
.................................................................................................................................................................................................TTGGATTTAAAAGTTAGCGGGAT...................................	23	3	0.33	1	0	1	0	0	0
.....................................................................................................................................................................................TCCCCTATTGATTTGGATTTAAAAGT............................................	26	3	0.33	1	0	1	0	0	0
....................................................GGATTGCTGAGTTTTATGGTTTATG..............................................................................................................................................................................	25	3	0.33	1	0	1	0	0	0
.......................................................TTGCTGAGTTTTATGGTTTATGACG...........................................................................................................................................................................	25	3	0.33	1	0	0	0	1	0
....................................................................................................................................TGTTTTAACTTAAGAGGGTGGGTT...............................................................................................	24	4	0.25	1	0	1	0	0	0
.....................................................................GGTTTATGACGCAGCAAA....................................................................................................................................................................	18	4	0.25	1	0	0	0	0	1
...................................TGTGTGCCGAGGGTGGTGGATTGC................................................................................................................................................................................................	24	4	0.25	1	0	0	0	0	1
....................................................................................................................................TGTTTTAACTTAAGAGGGTGGGT................................................................................................	23	4	0.25	1	0	0	1	0	0
........................................................................................................................................................................ATCCAGATTGGGATCCCC.................................................................	18	4	0.25	1	0	1	0	0	0
.......................................................................................................................................................GGGTTTTTGTCCATTTCATCCAGAT...........................................................................	25	4	0.25	1	0	1	0	0	0
..............TGCCGGTCATGCCCCTAAAGATGTGTGC.................................................................................................................................................................................................................	28	5	0.20	1	0	1	0	0	0
...............................AAGATGTGTGCCGAGGGTGGTG......................................................................................................................................................................................................	22	5	0.20	1	0	1	0	0	0
...............................AAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................	23	5	0.20	1	0	1	0	0	0
...........................CCTAAAGATGTGTGCCGAGGGTGGTG......................................................................................................................................................................................................	26	5	0.20	1	0	0	1	0	0
...............GCCGGTCATGCCCCTAAAGATGT.....................................................................................................................................................................................................................	23	5	0.20	1	0	1	0	0	0
...........................CCTAAAGATGTGTGCCGAGG............................................................................................................................................................................................................	20	5	0.20	1	0	1	0	0	0
.......................TGCCCCTAAAGATGTGTGCCGAGGG...........................................................................................................................................................................................................	25	5	0.20	1	0	1	0	0	0
.............................................GGGTGGTGGATTGCTGAG............................................................................................................................................................................................	18	5	0.20	1	0	1	0	0	0
.............................TAAAGATGTGTGCCGAGGGTGGTGG.....................................................................................................................................................................................................	25	5	0.20	1	0	1	0	0	0

dwi_3261

scf2_1100000004943:4281105-4281255 +

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

-13.5	-13.5	-13.3