dsi_148

AACATGAAGATGAAGATGATGCATACAAAGATGGTAATGGTGTGGTTTGGGCTGTGGTGTGTGTGAGTGGTGCTTCTGATGTTAATAAGACTATTGCGTTTAACTATAGGCCTAAATTACACTTTACACAAATGTATATAGTAATTAACGTGTTTTAACTGTAC ****************************************((((((((((((((((...(((.((((((.(((...........))))))))))))....)))))).)))))))))).........**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR618934 Ovary	M024 male body	M023 head	M053 Female-body	SRR553485 Ovary	GSM343915 embryo	SRR553486 Ovary	SRR553488 Ovary
............................................................................................ATTGCGTTTAACTATAGGCCT...................................................	21	0	1	7.00	7	0	2	5	0	0	0	0	0
...........................................................................................TATTGCGTTTAACTATAGGCC....................................................	21	0	1	3.00	3	0	3	0	0	0	0	0	0
............................................GTTTGGGCTGTGGTGTGTGTG...................................................................................................	21	0	1	2.00	2	1	1	0	0	0	0	0	0
...ATGAAGATGAAGATGATGCAT............................................................................................................................................	21	0	1	2.00	2	1	0	0	1	0	0	0	0
.........................................................TGTGTGTGAGTGGTGCTTCTGATGTTAA...............................................................................	28	0	1	2.00	2	2	0	0	0	0	0	0	0
..................ATGCATACAAGGATGGTAATG.............................................................................................................................	21	1	1	1.00	1	0	0	1	0	0	0	0	0
..........................................TGGTTTGGGCTGTGGTGTGT......................................................................................................	20	0	1	1.00	1	1	0	0	0	0	0	0	0
...........................................................................................TATTGCGTTTAACTATAGGCCTAAAT...............................................	26	0	1	1.00	1	0	0	0	0	0	0	0	1
..........................................................................................CCGTTGCGTTTAACTATGGGCC....................................................	22	3	1	1.00	1	0	0	1	0	0	0	0	0
............................................................................................ATTGCGTTTAACTATAGGCCG...................................................	21	1	1	1.00	1	0	0	1	0	0	0	0	0
.............................................................................................TTGCGTTTGACTATAGGCCT...................................................	20	1	1	1.00	1	0	0	1	0	0	0	0	0
.................................GTAATGGTGTGGTTTTGGCTG..............................................................................................................	21	1	1	1.00	1	0	0	0	1	0	0	0	0
.............................................................................................TTGCGTTTAACTGTAGGCCT...................................................	20	1	1	1.00	1	0	0	1	0	0	0	0	0
........................................................................................................................................TATAGTAATTAACGTGTTTTAA......	22	0	1	1.00	1	0	0	0	0	1	0	0	0
.ACATGAAGATGAAGATGATG...............................................................................................................................................	20	0	1	1.00	1	0	0	0	1	0	0	0	0
.........................................................................TTCTGATGTTAATAGGACT........................................................................	19	1	1	1.00	1	0	1	0	0	0	0	0	0
.....GAAGATGAAGATGATGCAT............................................................................................................................................	19	0	1	1.00	1	0	0	0	0	0	1	0	0
......................................................................TGCTTCTGATGTTAATAAGA..........................................................................	20	0	1	1.00	1	0	0	0	0	1	0	0	0
............................................................................................ATTGCGTTTAACTATAGGCCC...................................................	21	1	1	1.00	1	0	1	0	0	0	0	0	0
..........................AAGGATGGTAGTGGTGTGGTTT....................................................................................................................	22	2	1	1.00	1	0	0	1	0	0	0	0	0
............................................................................................ATTGCGTTTGACTATAGGCCG...................................................	21	2	1	1.00	1	0	0	1	0	0	0	0	0
............................................................................................GTTGCGTTTAACTATAGGCCT...................................................	21	1	1	1.00	1	0	0	1	0	0	0	0	0
..........................................................................................CTATTGCGTTTGACTATAGGC.....................................................	21	1	1	1.00	1	0	0	1	0	0	0	0	0
........................................................................CTTCTGATGTTAATAGGACT........................................................................	20	1	1	1.00	1	0	0	1	0	0	0	0	0
............................................................................................ATTGCGTTTGACTATAGGCCT...................................................	21	1	1	1.00	1	0	0	1	0	0	0	0	0
...........................................................................................................................................AGTAATTAACGTGTTTTAACTGTAC	25	0	1	1.00	1	0	0	0	1	0	0	0	0
AACATGAAGATGAAGATGATG...............................................................................................................................................	21	0	1	1.00	1	1	0	0	0	0	0	0	0
..........................................................................TCTGATGTTAATAAGACTATTGCGTT................................................................	26	0	1	1.00	1	0	0	0	0	0	0	1	0
..........................AAAGATGGTAATGCTGTGA.......................................................................................................................	19	2	2	0.50	1	0	0	0	0	0	1	0	0
....................................................TGTGGTGTGTGTGAGT................................................................................................	16	0	4	0.25	1	1	0	0	0	0	0	0	0
.................................................................................................GTGCAACTAAAGGCCTAAAT...............................................	20	3	9	0.11	1	0	0	0	1	0	0	0	0
................................................................CAGTTGTGCTTCTGATG...................................................................................	17	2	19	0.05	1	0	0	0	0	0	0	0	0
................TGTTGCATACAAAGA.....................................................................................................................................	15	1	19	0.05	1	0	0	0	0	0	0	1	0

GTACAGTTAAAACACGTTAATTACTATATACATTTGTGTAAAGTGTAATTTAGGCCTATAGTTAAACGCAATAGTCTTATTAACATCAGAAGCACCACTCACACACACCACAGCCCAAACCACACCATTACCATCTTTGTATGCATCATCTTCATCTTCATGTT **********************************.........((((((((((.((((((....((((((((((((...........))).)))))).)))...))))))))))))))))****************************************	Read size	Hit Count	Total Norm	Total	SRR618934 Ovary	O002 Head	SRR553487 Ovary
...............................................ATTTAGGCCTATAGTTAAACG................................................................................................	21	1	1.00	1	1	0	0
..........................................................................................................................................GTATGCATCATCTTCATCTT......	20	1	1.00	1	0	0	1
................................................................................................................................TACCATCTTTGTATGCATCATC..............	22	1	1.00	1	0	1	0
...................................GTGTAAAGTGTAATT..................................................................................................................	15	3	0.33	1	1	0	0

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	2R:6947005-6947168 -	dsi_148	AACATGAAGATGAA--------------GATGATGCAT--ACAAAG--ATGGTAATGGTGT-------GGTTTGGGCTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGTTAATAA---------------G------ACTATTGCGTTTAACTATAGGCCTAAATTACACTTTACACA-AATGTATAT-----AGTAATTAACGTGTT-TTAACTGTAC
droSec2	scaffold_1:6011722-6011885 -		AACATGAAGATGAA--------------GAAGATGCAT--ACAAAG--ATGGTAATGGTGT-------GGTTTGGGCTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGTTAATAA---------------G------ACTATTGCGTTTAACTATAGGCCTAAATTACACTTTACACA-AATGTATAT-----AGTAATTAACGTGTT-TTAACTGTAC
dm3	chr2R:8465344-8465510 -		AACATGAAGATGAA--------------GATGATGCAT--ACAAAG--ATGGTAATGGTGTTGT----GGATTGGGGTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGTTAATAA---------------G------ACTATTGCGTTTAACTATAGGCCTAAATTACACCTCACACA-ATTGTATAT-----AGTAATTAACGTGTT-TTAACTGTAC
droEre2	scaffold_4845:17333938-17334100 +		GTGA---AGATGAA--------------GATGAAGCAA--GCAAAGATATGGTAATGGTGT-------GG-TTGGGGTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGATAATCA---------------A------ATTATTGCGTTTAACTATAGGCCTAAATTACACCTGACACA-AATGTATAT-----ATTAATTAACGTGTT-TTAACTGTAC
droYak3	2R:8478670-8478828 +		GA-----GGGCGTA--------------AATGAAGCAA--TCAAAG--ATGGTAATGGTGT-------GG-TTGGGGTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGATAATCA---------------A------ATTATTGCGTTTAAATATAGGCCTAAATTACACCTGACACA-AATGTATAT-----ATTAATTAACGTGTT-TTAACTGTAC
droEug1	scf7180000409672:4166402-4166563 +		ATAA---AGATAAATATATTTAAAATGG----------GTA------------AAAGGTGT-GT----GG-TTGGGGTGTGGCGTGTGTG--ATGAGTGGTGATGATAATGATGATGA---------------T------GCTGATGATCAGACCTGTAGGCCTAAATTACACTGTTCACA-AATGTATAT-----AATAATTATCGTGTT-TTAACTGTAC
droBia1	scf7180000302291:1577137-1577298 +		ATGATGATAAGGAT--------------CAAGATCAGG--ATCAGG--ATGGTAACGGTGT-------GG-CTGGGGTGTGGTGTGTGTG-----AGAGGTGCTGCTGATGACGATCA---------------G------ATTATCGTGC-TACCCGTAGGCCTAAATTACACCGTACACA-AATGTATAT-----ATAAATTTTCGTGTT-TTAACTGTAT
droTak1	scf7180000415762:696809-696987 +		AGGATAAAGATGAT--------------AAAGATCAGG--ATCAAG--ATGGTAAAGGTGT-GT----GGTTTGGGGTGTGGTGTGTGTG-----AGTGGTGCTGCTGATGATAATGA------TGGTGAT---CAGAAGATTATCGTGCTTACCCGTAGGCCTAAATTACACCGTACACAAAATGTATAT-----ATTAATTATCGTGTT-TTAACTGTAC
droEle1	scf7180000491201:277569-277735 -		ATTATGAAATT----------------------------------G--TTGGTAAATGTGT-GT----GA-TTGGGGTGTGGTGTGTGTGTGA-GAGTGGTGCTGATGATGATGATGATAATGATAATGGTCAG------ATTATTGTGCTTATCCGTCGGCCTAAATTACACCGTACACAAAATGTATAT-----ATTAATTATCGTGTT-TTAACTGTAC
droRho1	scf7180000776809:18653-18801 +		ATGG---TGATGAAAAA-----------GATG-----------AAG--TTCGTAAAGGTGT-------GG-TTGGGGTGTGGTGTGTGTG-----AGTGGTGCTG------ATGATCA---------------G------ATTATCGTGCTTACCCGTAGGCCTAAATTACACCGTACACA-AATGTATAT-----ATTAATTATCGTGTT-TTAACTGTAC
droFic1	scf7180000454066:831750-831898 +		AATC---AGATG--------------------------GTAAAAGG--------ATGGTGTTGTGGATGG-TTGGGGTGTGGTGTGTGTG-----AGTGGTGCTGACG------ATCT---------------G------ATAATCGTGATTACCCGTAGGCCTAAATTACACCGT-CAAA-AATGTATATACTATATTAATTGTCATGTT-TTAACTGTAC
droAna3	scaffold_13266:13064515-13064641 -		GGT----------------------------------------------T-GGATTGGATT-------GGATTGGATTTTGGTG-GTGTG-----TGAGATAATAGAGATGATAAA------------------TAGGGATATATTACGATCACACA-----------GACAACACACACA-AATGTAAAT-----AATAATTATGATGTTTTTAACTGTAA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

AACATGAAGATGAA--------------GATGATGCAT--ACAAAG--ATGGTAATGGTGT-------GGTTTGGGCTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGTTAATAA---------------G------ACTATTGCGTTTAACTATAGGCCTAAATTACACTTTACACA-AATGTATAT-----AGTAATTAACGTGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total	V044 Embryo	M023 Head	M024 Male-body	M025 Embryo	O001 Testis	O002 Head	M053 Female-body	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary
...............................................................................................................................................ATTGCGTTTAACTATAGGCCT..........................................................	21	1	7.00	7	0	5	2	0	0	0	0	0	0	0	0	0
..............................................................................................................................................TATTGCGTTTAACTATAGGCC...........................................................	21	1	3.00	3	0	0	3	0	0	0	0	0	0	0	0	0
.....................................................................GTTTGGGCTGTGGTGTGTGTG-----...............................................................................................................................	21	1	2.00	2	0	0	1	0	0	0	0	0	0	0	0	1
...ATGAAGATGAA--------------GATGATGCAT--......................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	1	0	0	0	0	1
..................................................................................TGTGTGTG-----AGTGGTGCTTCTGATGTTAA...........................................................................................................	28	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	2
............................................................T-------GGTTTGGGCTGTGGTGTGT.......................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1
..............................................................................................................................................TATTGCGTTTAACTATAGGCCTAAAT......................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0
............................................................................................................................................................................................TAT-----AGTAATTAACGTGTT-TTAA......	22	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0
.ACATGAAGATGAA--------------GATGATG...........................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
.....GAAGATGAA--------------GATGATGCAT--......................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................TGCTTCTGATGTTAATAA---------------G------A.................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0
....................................................................................................................................................................................................AGTAATTAACGTGTT-TTAACTGTAC	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
AACATGAAGATGAA--------------GATGATG...........................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1
........................................................................................................TCTGATGTTAATAA---------------G------ACTATTGCGTT.......................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0
.............................................................................TGTGGTGTGTGTG-----AGT............................................................................................................................	16	4	0.25	1	0	0	0	0	0	0	0	0	0	0	0	1

droSec2

AACATGAAGATGAA--------------GAAGATGCAT--ACAAAG--ATGGTAATGGTGT-------GGTTTGGGCTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGTTAATAA---------------G------ACTATTGCGTTTAACTATAGGCCTAAATTACACTTTACACA-AATGTATAT-----AGTAATTAACGTGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
...................................CAT--ACAAAG--ATGGTAATGGTGT-------..........................................................................................................................................................	22	1	1.00	1	1	0	0	0
............................................................................................................ATGTTAATAA---------------G------ACTATTGCGT........................................................................	21	1	1.00	1	1	0	0	0
.................................TGCAT--ACAAAG--ATGGTAATGGT...................................................................................................................................................................	22	1	1.00	1	0	1	0	0
................................................................................................................................................TTGCGTTTAACTATAGGCCTA.........................................................	21	1	1.00	1	1	0	0	0
.ACATGAAGATGAA--------------GAAGATGC..........................................................................................................................................................................................	21	1	1.00	1	0	1	0	0
.............................................G--ATGGTAATGGTGT-------GGTTTGG...................................................................................................................................................	21	1	1.00	1	0	0	0	1

droEre2

GTGA---AGATGAA--------------GATGAAGCAA--GCAAAGATATGGTAATGGTGT-------GG-TTGGGGTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGATAATCA---------------A------ATTATTGCGTTTAACTATAGGCCTAAATTACACCTGACACA-AATGTATAT-----ATTAATTAACGTGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
................................................................................................................................................ATTGCGTTTAACTATAGGCCT.........................................................	21	1	1.00	1	0	0	0	1	0	0
.......................................................................GTTGGGGTGTGGTGTGTGT-----GAGTG..........................................................................................................................	24	1	1.00	1	0	0	0	0	1	0
...........................................................................................................TGATGATAATC---------------A------AATTATTGCGTT......................................................................	24	1	1.00	1	0	0	0	0	1	0
...G---AAGATGA--------------AGATGAAGCA--AGC...................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
.......................................................ATGGTG-------TG-GTTGGGGTGTGG...........................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0
.........................................GCAAAGATATGGTAATGGTG-------T.........................................................................................................................................................	21	1	1.00	1	0	0	0	1	0	0
............................................................................GGTGTGGTGTGTGT-----GAGTG..........................................................................................................................	19	1	1.00	1	0	0	0	0	1	0

droYak3

GA-----GGGCGTA--------------AATGAAGCAA--TCAAAG--ATGGTAATGGTGT-------GG-TTGGGGTGTGGTGTGTGTG-----AGTGGTGCTTCTGATGATAATCA---------------A------ATTATTGCGTTTAAATATAGGCCTAAATTACACCTGACACA-AATGTATAT-----ATTAATTAACGTGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
.......................................................................................................................................................................................................TAATTAACGTGT-TTTAACTGTA	23	1	1.00	1	0	0	0	0	0	1	0

droEug1

ATAA---AGATAAATATATTTAAAATGG----------GTA------------AAAGGTGT-GT----GG-TTGGGGTGTGGCGTGTGTG--ATGAGTGGTGATGATAATGATGATGA---------------T------GCTGATGATCAGACCTGTAGGCCTAAATTACACTGTTCACA-AATGTATAT-----AATAATTATCGTGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

ATGATGATAAGGAT--------------CAAGATCAGG--ATCAGG--ATGGTAACGGTGT-------GG-CTGGGGTGTGGTGTGTGTG-----AGAGGTGCTGCTGATGACGATCA---------------G------ATTATCGTGC-TACCCGTAGGCCTAAATTACACCGTACACA-AATGTATAT-----ATAAATTTTCGTGTT-TTAACTGTAT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AGGATAAAGATGAT--------------AAAGATCAGG--ATCAAG--ATGGTAAAGGTGT-GT----GGTTTGGGGTGTGGTGTGTGTG-----AGTGGTGCTGCTGATGATAATGA------TGGTGAT---CAGAAGATTATCGTGCTTACCCGTAGGCCTAAATTACACCGTACACAAAATGTATAT-----ATTAATTATCGTGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

ATTATGAAATT----------------------------------G--TTGGTAAATGTGT-GT----GA-TTGGGGTGTGGTGTGTGTGTGA-GAGTGGTGCTGATGATGATGATGATAATGATAATGGTCAG------ATTATTGTGCTTATCCGTCGGCCTAAATTACACCGTACACAAAATGTATAT-----ATTAATTATCGTGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

ATGG---TGATGAAAAA-----------GATG-----------AAG--TTCGTAAAGGTGT-------GG-TTGGGGTGTGGTGTGTGTG-----AGTGGTGCTG------ATGATCA---------------G------ATTATCGTGCTTACCCGTAGGCCTAAATTACACCGTACACA-AATGTATAT-----ATTAATTATCGTGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AATC---AGATG--------------------------GTAAAAGG--------ATGGTGTTGTGGATGG-TTGGGGTGTGGTGTGTGTG-----AGTGGTGCTGACG------ATCT---------------G------ATAATCGTGATTACCCGTAGGCCTAAATTACACCGT-CAAA-AATGTATATACTATATTAATTGTCATGTT-TTAACTGTAC	Size	Hit Count	Total Norm	Total
No Reads

droAna3

GGT----------------------------------------------T-GGATTGGATT-------GGATTGGATTTTGGTG-GTGTG-----TGAGATAATAGAGATGATAAA------------------TAGGGATATATTACGATCACACA-----------GACAACACACACA-AATGTAAAT-----AATAATTATGATGTTTTTAACTGTAA	Size	Hit Count	Total Norm	Total	V105 Male-body	V106 Head	V055 Head	V039 Embryo	M044 Female-body	M058 Embryo
......................................................................................................ATAGAGATGATAAA------------------TAGGGAT.................................................................................	21	1	1.00	1	1	0	0	0	0	0

dsi_148

2R:6947055-6947118 -

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

-20.4	-20.1	-20.1