dvi_1825

Name	Class	Family	Strand
AT_rich	Low_complexity	Low_complexity	+

Name

Class

Family

Strand

AT_rich

Low_complexity

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## ATAAACTTTATTTAAGGGAGCGTAATTTGAGCAATATTTTAATGCCCGCTTTTAGTGCATAATTTTCTCAAAAATGCAATTTAATTTACAAAAAAAAAATGGATACTAATATAAAAAATATAAATAAATTTATTAGATATAACTTAAGCTGAAAGAACAGATAAGATTATCCTATTTCTATAGAGCTATATGGTATCGCAGACGAAGGGAGCCTGGCTCACAAGCTAGTCTGAACTTCGAGGCCAATTCCT ************************************************.....(((((.............))))).....................(((((((((.((((......................((((...((((..(((......))).))))..))))((((....))))...))))))))))).)).************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V047 embryo	SRR060660 Argentina_ovaries_total	V053 head
.........................................................................................................................................................................................CTATATGGTATCGCAGACGAAGG...........................................	23	0	1	1.00	1	1	0	0
.......................................................................................................................................................................................................AGACGGGGGAAGCCTGGCT.................................	19	3	8	0.13	1	0	1	0
.......................................................................................................................................................................................................AGACGGAGGGAGCTTGCCT.................................	19	3	15	0.07	1	0	0	1

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
ATAAACTTTATTTAAGGGAGCGTAATTTGAGCAATATTTTAATGCCCGCTTTTAGTGCATAATTTTCTCAAAAATGCAATTTAATTTACAAAAAAAAAATGGATACTAATATAAAAAATATAAATAAATTTATTAGATATAACTTAAGCTGAAAGAACAGATAAGATTATCCTATTTCTATAGAGCTATATGGTATCGCAGACGAAGGGAGCCTGGCTCACAAGCTAGTCTGAACTTCGAGGCCAATTCCT
**************************************************.....(((((.............))))).....................(((((((((.((((......................((((...((((..(((......))).))))..))))((((....))))...))))))))))).)).**************************************************

Read size

# Mismatch

Hit Count

Total Norm

Total

V047
embryo

SRR060660
Argentina_ovaries_total

V053
head

.........................................................................................................................................................................................CTATATGGTATCGCAGACGAAGG...........................................

1.00

.......................................................................................................................................................................................................AGACGGGGGAAGCCTGGCT.................................

0.13

.......................................................................................................................................................................................................AGACGGAGGGAGCTTGCCT.................................

0.07

TATTTGAAATAAATTCCCTCGCATTAAACTCGTTATAAAATTACGGGCGAAAATCACGTATTAAAAGAGTTTTTACGTTAAATTAAATGTTTTTTTTTTACCTATGATTATATTTTTTATATTTATTTAAATAATCTATATTGAATTCGACTTTCTTGTCTATTCTAATAGGATAAAGATATCTCGATATACCATAGCGTCTGCTTCCCTCGGACCGAGTGTTCGATCAGACTTGAAGCTCCGGTTAAGGA ************************************************.....(((((.............))))).....................(((((((((.((((......................((((...((((..(((......))).))))..))))((((....))))...))))))))))).)).************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V053 head	SRR060672 9x160_females_carcasses_total	SRR060666 160_males_carcasses_total	SRR1106730 embryo_16-30h	SRR1106721 embryo_10-12h	GSM1528803 follicle cells	SRR1106729 mixed whole adult body
............................................................................................................................................TTGAATTCGATTTGCTTGTCT..........................................................................................	21	2	3	0.33	1	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................CGAGTGTGTGATCAGACCTG................	20	3	4	0.25	1	1	0	0	0	0	0	0
.......................................................................................................................................................................................TCGATATATCATAGCGGCC.................................................	19	3	5	0.20	1	0	0	1	0	0	0	0
.......................................................................................................................................................................................................................CGAGTGTGAGATCAGACCTG................	20	3	5	0.20	1	1	0	0	0	0	0	0
.......................................................................................................................................................................................................................................CTTGAAGGTCCGGTTCGGGA	20	3	6	0.17	1	0	0	0	0	1	0	0
.............................................GGCGAATCTCACTTATTAAA..........................................................................................................................................................................................	20	3	14	0.14	2	0	0	0	1	0	0	1
........................................................................................................................................................................................................................GAGTGTGGGATCAGACCTG................	19	3	7	0.14	1	1	0	0	0	0	0	0
..............................................................................................................................................GAATTCGATTTGCTTGTCT..........................................................................................	19	2	9	0.11	1	0	1	0	0	0	0	0
.............................................GGCGAATCTCACCTATTAAA..........................................................................................................................................................................................	20	3	9	0.11	1	0	0	0	1	0	0	0
.............................................................................................................................................................................................................................TTCGGTCAGACTTGGTGCT...........	19	3	19	0.05	1	0	1	0	0	0	0	0
..........................................................................................................................................................CTGGTCTATTCTAAT..................................................................................	15	1	20	0.05	1	0	0	0	0	0	1	0
...........................................................................................................................................................TCGTCTATTCTAATA.................................................................................	15	1	20	0.05	1	0	0	0	0	0	1	0

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

Read size

# Mismatch

Hit Count

Total Norm

Total

V053
head

SRR060672
9x160_females_carcasses_total

SRR060666
160_males_carcasses_total

SRR1106730
embryo_16-30h

SRR1106721
embryo_10-12h

GSM1528803
follicle cells

SRR1106729
mixed whole adult body

............................................................................................................................................TTGAATTCGATTTGCTTGTCT..........................................................................................

0.33

.......................................................................................................................................................................................................................CGAGTGTGTGATCAGACCTG................

0.25

.......................................................................................................................................................................................TCGATATATCATAGCGGCC.................................................

0.20

.......................................................................................................................................................................................................................CGAGTGTGAGATCAGACCTG................

0.20

.......................................................................................................................................................................................................................................CTTGAAGGTCCGGTTCGGGA

0.17

.............................................GGCGAATCTCACTTATTAAA..........................................................................................................................................................................................

0.14

........................................................................................................................................................................................................................GAGTGTGGGATCAGACCTG................

0.14

..............................................................................................................................................GAATTCGATTTGCTTGTCT..........................................................................................

0.11

.............................................GGCGAATCTCACCTATTAAA..........................................................................................................................................................................................

0.11

.............................................................................................................................................................................................................................TTCGGTCAGACTTGGTGCT...........

0.05

..........................................................................................................................................................CTGGTCTATTCTAAT..................................................................................

0.05

...........................................................................................................................................................TCGTCTATTCTAATA.................................................................................

0.05

Species	Coordinate	ID	Alignment
droVir3	scaffold_12726:600392-600642 +	dvi_1825	ATAAACTTTATTTAAGGGAGCGTAATTTGAGCAATATTTTAATGCCCGCTTTTAGTGCATAATTTTCTCAAAAATGCAATTTAATTTACAAAAAAAAAATGGATACTAATATAAAAAATATAAATAAATTTATTAGATATAACTTAAGCTGAAAGAACAGATAAGATTATCCTATTTCTATAGAGCTATATGGTATCGCAGACGAAGGGAGCCTGGCTCACAAGCTAGTCTGAACTTCGAGGCCAATTCCT

Species

Coordinate

Alignment

droVir3

scaffold_12726:600392-600642 +

dvi_1825

ATAAACTTTATTTAAGGGAGCGTAATTTGAGCAATATTTTAATGCCCGCTTTTAGTGCATAATTTTCTCAAAAATGCAATTTAATTTACAAAAAAAAAATGGATACTAATATAAAAAATATAAATAAATTTATTAGATATAACTTAAGCTGAAAGAACAGATAAGATTATCCTATTTCTATAGAGCTATATGGTATCGCAGACGAAGGGAGCCTGGCTCACAAGCTAGTCTGAACTTCGAGGCCAATTCCT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

ATAAACTTTATTTAAGGGAGCGTAATTTGAGCAATATTTTAATGCCCGCTTTTAGTGCATAATTTTCTCAAAAATGCAATTTAATTTACAAAAAAAAAATGGATACTAATATAAAAAATATAAATAAATTTATTAGATATAACTTAAGCTGAAAGAACAGATAAGATTATCCTATTTCTATAGAGCTATATGGTATCGCAGACGAAGGGAGCCTGGCTCACAAGCTAGTCTGAACTTCGAGGCCAATTCCT	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
.........................................................................................................................................................................................CTATATGGTATCGCAGACGAAGG...........................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0

dvi_1825

scaffold_12726:600442-600592 +

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