dsi_36

ATAGCTAATGCTACCGCAGGCACTAAGAGAAGTAACGATGGAGGCGCTGGTGAACAAGTGTCGAGACTCAAGGGGCGTAAAATCGCACAATTGGGTCGGTCAACTTGCTCAGCTGGACCTTCAACTACTCATCCACCCACCACAATCTTTGCACTAAACACCTA *********************************...((((((..(((((((.(((((.....(((((((...(((......)))....))))))).....))))).))).)))).)))))).....**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M023 head	M024 male body	M025 embryo	M053 Female-body	O002 Head	GSM343915 embryo	SRR553485 Ovary
..........................................................................................TTGGGTCGGTCAACTTGCTCAGC...................................................	23	0	1	155.00	155	90	62	2	0	1	0	0
...........................................................................................TGGGTCGGTCAACTTGCTCAGC...................................................	22	0	1	35.00	35	25	10	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCTCAGT...................................................	23	1	1	23.00	23	8	15	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCTCA.....................................................	21	0	1	19.00	19	11	8	0	0	0	0	0
..................................................TGAACAAGTGTCGAGACTCAAG............................................................................................	22	0	1	12.00	12	5	7	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCT.......................................................	19	0	1	7.00	7	3	4	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCTCAGG...................................................	23	1	1	6.00	6	3	3	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCTCAGA...................................................	23	1	1	6.00	6	2	4	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCTCAGCT..................................................	24	0	1	5.00	5	4	1	0	0	0	0	0
..................................................TGAACAAGTGTCGAGACT................................................................................................	18	0	1	4.00	4	1	3	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCTC......................................................	20	0	1	4.00	4	1	2	0	1	0	0	0
........................................................................................................TTGCTCAGCTGGACCTTCAACT......................................	22	0	1	3.00	3	3	0	0	0	0	0	0
.........................................................................................ATTGGGTCGGTCAACTTGCTCAGC...................................................	24	0	1	3.00	3	0	2	1	0	0	0	0
.........................................................................................ATTGGGTCGGTCAACTTGCTCAGT...................................................	24	1	1	2.00	2	2	0	0	0	0	0	0
..................................................TGAACAAGTGTCGAGACTCAAGGG..........................................................................................	24	0	1	2.00	2	0	2	0	0	0	0	0
..................................................TGAACAAGTGTCGAGACTCAAGG...........................................................................................	23	0	1	2.00	2	0	2	0	0	0	0	0
...........................................................................................TGGGTCGGTCAACTTGCTCAGT...................................................	22	1	1	2.00	2	1	1	0	0	0	0	0
...............................GTAACGATGGCGGCGCTGT..................................................................................................................	19	2	2	1.50	3	0	0	1	0	0	0	0
..........CTACCGCAGGCACTAAGAGA......................................................................................................................................	20	0	1	1.00	1	0	0	0	0	0	1	0
......................................................................................ACAATTGGGTCGGTCAACT...........................................................	19	0	1	1.00	1	0	1	0	0	0	0	0
............................................................................GTAAAATCGCACAATTGGGTC...................................................................	21	0	1	1.00	1	0	1	0	0	0	0	0
.........................................................................................ATTGGGTCGGTCAACTTGCTCAG....................................................	23	0	1	1.00	1	1	0	0	0	0	0	0
....................................................................................GCACAATTGGGTCGGTCAACT...........................................................	21	0	1	1.00	1	0	1	0	0	0	0	0
........................................................AGTGTCGAGACTCAAGGGGCGT......................................................................................	22	0	1	1.00	1	0	0	0	0	0	0	1
...........................................................................................TGGGTCGGTCAACTTGCTCA.....................................................	20	0	1	1.00	1	0	1	0	0	0	0	0
..................................................TAAACAAGTGTCGAGACTCAAGGGGC........................................................................................	26	1	1	1.00	1	0	1	0	0	0	0	0
..................................................TGAACAAGTGTCGAGACTCAAGGT..........................................................................................	24	1	1	1.00	1	0	1	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACGTGCTCAGC...................................................	23	1	1	1.00	1	1	0	0	0	0	0	0
...............................GTAACGATGGCGGCGCTGG..................................................................................................................	19	1	1	1.00	1	0	0	1	0	0	0	0
...........................................................................................TGGGTCGGTCAACTTGCTT......................................................	19	1	1	1.00	1	0	1	0	0	0	0	0
..........................................GGCGCTGGTGAACAAGTGTC......................................................................................................	20	0	1	1.00	1	0	0	0	1	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCTCAA....................................................	22	1	1	1.00	1	1	0	0	0	0	0	0
...............GCAGGCACTAAGAGAAGTAACG...............................................................................................................................	22	0	1	1.00	1	0	0	0	0	1	0	0
.........................................................................................ATTGGGTCGGTCAACTTGCTC......................................................	21	0	1	1.00	1	0	1	0	0	0	0	0
..........................................................................................TTGGGTCGGTCAACTTGCTCAGCC..................................................	24	1	1	1.00	1	1	0	0	0	0	0	0
..................................................TGAACAAGTGTCGAGACTCAA.............................................................................................	21	0	1	1.00	1	0	1	0	0	0	0	0
..............................................CTGGTGAACAAGAATCGAGC..................................................................................................	20	3	5	0.80	4	0	0	0	0	0	0	0
..............................CGTAACGATGGCGGCGCTG...................................................................................................................	19	2	2	0.50	1	0	0	0	0	0	0	0
................................TAACGATGGCGGCGCTGT..................................................................................................................	18	2	5	0.20	1	0	0	0	1	0	0	0
...................................CGTTGGAGGCGCTGGT.................................................................................................................	16	1	8	0.13	1	0	0	0	0	0	0	1
...............................GTAACGATGGCGGCG......................................................................................................................	15	1	12	0.08	1	0	0	0	0	0	0	0
................................TAACGATCGAGACTCTGG..................................................................................................................	18	3	20	0.05	1	0	0	0	0	0	0	0

TAGGTGTTTAGTGCAAAGATTGTGGTGGGTGGATGAGTAGTTGAAGGTCCAGCTGAGCAAGTTGACCGACCCAATTGTGCGATTTTACGCCCCTTGAGTCTCGACACTTGTTCACCAGCGCCTCCATCGTTACTTCTCTTAGTGCCTGCGGTAGCATTAGCTAT **********************************.....((((((.((((.(((.(((((.....(((((((....(((......)))...))))))).....))))).)))))))..))))))...*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
.........................TCGGTGGATTAGTAGTT..........................................................................................................................	17	2	15	0.13	2
...........................GGTGGATTAGTAGTTAA........................................................................................................................	17	2	14	0.07	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	3L:11195176-11195339 -	dsi_36	AT---------------------------------------------------AGCTAATGCTAC---------------------CGCAGGCACTAAGAGAAGTAACGATGGAGGCGCTGGTGAACAAGTGTCGAGACTCAAGGGGCGTAAAATCGCACAA------------------------TTGGGTCGGTCA------ACTTG----------------------CTCAGCTGGACCTTCAACTACTCATCCACC-------CACCACAATCTTTGCACTAAACACCTA
droSec2	scaffold_0:4015584-4015747 -		AT---------------------------------------------------AGCTAATGCTAC---------------------CGCAGGCACTAAGAGAAGTAACGATGGAGGCGCTGGTGAACAAGTGTCGAGGCTCAAGGGGCGTAAAATCGCACAA------------------------TTGGATCGGTCA------ACTTG----------------------CTCAGCTGGACCTTCAACTACTCATCCACC-------CACCACAATCTTTGCACTAAACACCTA
dm3	chr3L:11829578-11829762 -		AT---------------------------------------------------AACTAATGCTACCACAACAGAAGGGAATCGAATCTCAGGCACTAAAAGAAGTAACGATGGAGGCGCTGGTGAACAAGAGTCGAGACCCAAACAGCGTACAATCGCACAA------------------------TTGGATCGTTCA------ACTTG----------------------CTCAGCTGGACCTTCAACAACTCATCCATC-------CACTACAATCTTTGCACTAAACACCTA
droYak3	3L:11839375-11839395 +		A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATCTTCAAACTGAACACCTA
droEug1	scf7180000409554:3289823-3290067 +		AGTGTAGGTGCAAGAAGTGAAGGGGCAGGAGAAGAAGCAATAAGTGAGCAAAAAGCTCTAACTACCACTTCGGAAGAGAATCAAAATTCCTGCGCAAAGAGAAAGATCGACGGAGAATTTGATGAACATGTTTTAAGTTCAAAGCGGCCAGATTTAGTAATT------------------------GGGGATCA-ACA------AATTGCAAAGGAAAATAA------------AGAGAGAGCCTCGTCTTCTAAGACACC-------ACACAAAATCTTCGCACTGGACACCTA
droBia1	scf7180000302188:1829847-1830019 -		GA------------------------------------------------------------------------AGAGAATCTAAACGCGGGCACAAAGAGAAAAACCGAAGAAGATGCTTCGGAAAATGCTTTTGTAGCCATACGATTAAAGAAG------GATGACTCTCCGGCTTCGGTAACAGA---------A------AATTCCC-GGGAAAATCA----------------------------ACACATCCATTTTTCAGATACAACTATCTTCGCACTGAACACTGA
droTak1	scf7180000415705:584843-585057 -		AA---------------------------------------------------AGCTTTAGCTACCTCATCGGAAGAGAGTCGGAGTGCCGGAACAAAGAGAAAGAACGAAGAAAATGATTGTGTA------------GCCAAGCGGCGGAAAGAGACAAAAGACGACTCTTCGGTTTTGGTATCAGAGGAACA-AGCGAATGGGATTTCCGAGAAAAATAACGAGGGAACTTTTACTGGATCTTC---------GCCTCC-------CACAACTATCCTCGCCTTAAACGTCTA
droEle1	scf7180000491273:348123-348282 +		ATGG-------------------------------------------------TGAAAAAGCTTT---------------------AGCAAGAACAAAGAGAAAACCCGAAGCAGAAGCTTCTGAAAATGTTTCAAGTGCAAAGCGGCGTGAAAAAGCAGAA------------------------CAAGATGGGAC----------------------------------CTCTACCGGATCTTCTCTCCCTAAAACACC-------AACAACTATATTCTCCCTGAACACCTA
droFic1	scf7180000453924:799882-800060 +		G---------------------------------------------------------------------------------------CTGGCACATCGAGAAAAAATGATTCAGAAGCTTGTGAAGGTGTTCCGGGAACAAAGCTTAGCAAAGTCGCAGTCGAAAATTGTTCGGCTTCAGTACCA-------------------ATTTCCCAGGGAAATGAAGAGAAAAACCCAGCTGCATCTTTGGCTCCGAAAATACC-------C---GAAATCTTTTTACTGAACACCTG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

AT---------------------------------------------------AGCTAATGCTAC---------------------CGCAGGCACTAAGAGAAGTAACGATGGAGGCGCTGGTGAACAAGTGTCGAGACTCAAGGGGCGTAAAATCGCACAA------------------------TTGGGTCGGTCA------ACTTG----------------------CTCAGCTGGACCTTCAACTACTCATCCACC-------CACCACAATCTTTGCACTAAACACCTA	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
..........................................................................................................................................................................................TTGGGTCGGTCA------ACTTG----------------------CTCAGC..........................................................	23	1	155.00	155	0	90	62	2	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................TGGGTCGGTCA------ACTTG----------------------CTCAGC..........................................................	22	1	35.00	35	0	25	10	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TTGGGTCGGTCA------ACTTG----------------------CTCA............................................................	21	1	19.00	19	0	11	8	0	0	0	0	0	0	0	0	0
..........................................................................................................................TGAACAAGTGTCGAGACTCAAG.......................................................................................................................................................	22	1	12.00	12	0	5	7	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TTGGGTCGGTCA------ACTTG----------------------CT..............................................................	19	1	7.00	7	0	3	4	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TTGGGTCGGTCA------ACTTG----------------------CTCAGCT.........................................................	24	1	5.00	5	0	4	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................TGAACAAGTGTCGAGACT...........................................................................................................................................................	18	1	4.00	4	0	1	3	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TTGGGTCGGTCA------ACTTG----------------------CTC.............................................................	20	1	4.00	4	0	1	2	0	0	0	1	0	0	0	0	0
..............................................................................................................................................................................................................TTG----------------------CTCAGCTGGACCTTCAACT.............................................	22	1	3.00	3	0	3	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................A------------------------TTGGGTCGGTCA------ACTTG----------------------CTCAGC..........................................................	24	1	3.00	3	0	0	2	1	0	0	0	0	0	0	0	0
..........................................................................................................................TGAACAAGTGTCGAGACTCAAGGG.....................................................................................................................................................	24	1	2.00	2	0	0	2	0	0	0	0	0	0	0	0	0
..........................................................................................................................TGAACAAGTGTCGAGACTCAAGG......................................................................................................................................................	23	1	2.00	2	0	0	2	0	0	0	0	0	0	0	0	0
.............................................................CTAC---------------------CGCAGGCACTAAGAGA.................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................ACAA------------------------TTGGGTCGGTCA------ACT........................................................................................	19	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................GTAAAATCGCACAA------------------------TTGGGTC......................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................A------------------------TTGGGTCGGTCA------ACTTG----------------------CTCAG...........................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................GCACAA------------------------TTGGGTCGGTCA------ACT........................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................AGTGTCGAGACTCAAGGGGCGT.................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................TGGGTCGGTCA------ACTTG----------------------CTCA............................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
..................................................................................................................GGCGCTGGTGAACAAGTGTC.................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
.......................................................................................GCAGGCACTAAGAGAAGTAACG..........................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................A------------------------TTGGGTCGGTCA------ACTTG----------------------CTC.............................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................TGAACAAGTGTCGAGACTCAA........................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0

droSec2

AT---------------------------------------------------AGCTAATGCTAC---------------------CGCAGGCACTAAGAGAAGTAACGATGGAGGCGCTGGTGAACAAGTGTCGAGGCTCAAGGGGCGTAAAATCGCACAA------------------------TTGGATCGGTCA------ACTTG----------------------CTCAGCTGGACCTTCAACTACTCATCCACC-------CACCACAATCTTTGCACTAAACACCTA	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
..........................................................................................................................................................................................TTGGATCGGTCA------ACTTG----------------------CTCAGC..........................................................	23	1	5.00	5	2	1	2	0
..................................................................................................GAGAAGTAACGATGGAGGCGC................................................................................................................................................................................	21	1	1.00	1	0	0	1	0
..........................................................................................................................................................................................TTGGATCGGTCA------ACTTG----------------------CTCAG...........................................................	22	1	1.00	1	1	0	0	0

droYak3

A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATCTTCAAACTGAACACCTA	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
No Reads

droEug1

AGTGTAGGTGCAAGAAGTGAAGGGGCAGGAGAAGAAGCAATAAGTGAGCAAAAAGCTCTAACTACCACTTCGGAAGAGAATCAAAATTCCTGCGCAAAGAGAAAGATCGACGGAGAATTTGATGAACATGTTTTAAGTTCAAAGCGGCCAGATTTAGTAATT------------------------GGGGATCA-ACA------AATTGCAAAGGAAAATAA------------AGAGAGAGCCTCGTCTTCTAAGACACC-------ACACAAAATCTTCGCACTGGACACCTA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

GA------------------------------------------------------------------------AGAGAATCTAAACGCGGGCACAAAGAGAAAAACCGAAGAAGATGCTTCGGAAAATGCTTTTGTAGCCATACGATTAAAGAAG------GATGACTCTCCGGCTTCGGTAACAGA---------A------AATTCCC-GGGAAAATCA----------------------------ACACATCCATTTTTCAGATACAACTATCTTCGCACTGAACACTGA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AA---------------------------------------------------AGCTTTAGCTACCTCATCGGAAGAGAGTCGGAGTGCCGGAACAAAGAGAAAGAACGAAGAAAATGATTGTGTA------------GCCAAGCGGCGGAAAGAGACAAAAGACGACTCTTCGGTTTTGGTATCAGAGGAACA-AGCGAATGGGATTTCCGAGAAAAATAACGAGGGAACTTTTACTGGATCTTC---------GCCTCC-------CACAACTATCCTCGCCTTAAACGTCTA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

ATGG-------------------------------------------------TGAAAAAGCTTT---------------------AGCAAGAACAAAGAGAAAACCCGAAGCAGAAGCTTCTGAAAATGTTTCAAGTGCAAAGCGGCGTGAAAAAGCAGAA------------------------CAAGATGGGAC----------------------------------CTCTACCGGATCTTCTCTCCCTAAAACACC-------AACAACTATATTCTCCCTGAACACCTA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

G---------------------------------------------------------------------------------------CTGGCACATCGAGAAAAAATGATTCAGAAGCTTGTGAAGGTGTTCCGGGAACAAAGCTTAGCAAAGTCGCAGTCGAAAATTGTTCGGCTTCAGTACCA-------------------ATTTCCCAGGGAAATGAAGAGAAAAACCCAGCTGCATCTTTGGCTCCGAAAATACC-------C---GAAATCTTTTTACTGAACACCTG	Size	Hit Count	Total Norm	Total
No Reads

dsi_36

3L:11195226-11195289 -

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