dan_150

TTTTTAATATTTGAAAAAAATGTGTCTTTTCTTTTTAAAGGTGTTGCCTTTTGGTGTTCAGCACATTGGCGGCTGCCTCGTTTTCTTATTTTTATTTTTCTGATTTAAAAATTGGCATGTCAAAGGTTGTTTTACCGAGGCATGTTTTAACGATATCACCGTGGTTTCTTATTGTGGGTCATTGGTGTATC *********************************.....(((((((((..(((((..((((...((((((..((((..(((((...(((...........)))...))))).))))))))))..))))...))))))))))..........))))*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V105 male body	V106 head	M044 female body	M058 embryo	V055 head
..................................................TTGGTGTTCAGCACATTGGCGGCTG....................................................................................................................	25	0	1	20.00	20	5	12	3	0	0
..................................................TTGGTGTTCAGCACATTGGCGGCT.....................................................................................................................	24	0	1	9.00	9	7	2	0	0	0
........................................................TTCAGCACATTGGCGGCTGCCTCGT..............................................................................................................	25	0	1	4.00	4	3	0	1	0	0
..................................................TTGGTGTTCAGCACATTGGCGGCTGC...................................................................................................................	26	0	1	4.00	4	1	0	3	0	0
..................................................TTGGTGTTCAGCACATTGGCGGC......................................................................................................................	23	0	1	4.00	4	3	1	0	0	0
..................................................TTGGTGTTCAGCACATTGGCGGCTGT...................................................................................................................	26	1	1	4.00	4	3	1	0	0	0
.................................................................................................................................................................TGGTTTCTTATTGTGGGTCATTGGTG....	26	0	1	3.00	3	3	0	0	0	0
..................................................TTGGTGTTCAGCACATTGGCGGCTGTT..................................................................................................................	27	2	1	2.00	2	0	2	0	0	0
.......................................................................................................................TCAAAGGTTGTTTTACCGAGGCATGT..............................................	26	0	1	2.00	2	2	0	0	0	0
................................................TTTTGGTGTTCAGCACATTGGCGGC......................................................................................................................	25	0	1	2.00	2	2	0	0	0	0
.......................................................................................................................TCAAAGGTTGTTTTACCGAGGCATGTT.............................................	27	0	1	2.00	2	2	0	0	0	0
.................................................TTTGGTGTTCAGCACATTGGCGGCTG....................................................................................................................	26	0	1	2.00	2	0	2	0	0	0
...................................................................................................................................................TAACGATATCACCGTGGTTTCT......................	22	0	1	1.00	1	1	0	0	0	0
..................................................TTGGTGTTCAGCACATTGGCGGATGT...................................................................................................................	26	2	1	1.00	1	0	1	0	0	0
..................................................TTGGTGTTCAGCACATTGGCGGA......................................................................................................................	23	1	1	1.00	1	0	1	0	0	0
...................................................TGGTGTTCAGCACATTGGCGGC......................................................................................................................	22	0	1	1.00	1	0	0	1	0	0
................................TTTTAAAGGTGTTGCCTTTTGGTGTT.....................................................................................................................................	26	0	1	1.00	1	0	1	0	0	0
..................................................TTGGTGTTCAGCACATTGGCGGCTCC...................................................................................................................	26	1	1	1.00	1	1	0	0	0	0
........................................................................................................................................................................TTATTGTGGGTCATTGGTGTA..	21	0	1	1.00	1	1	0	0	0	0
..................................................TTGGTGTTCAGCACATTGGCTGCTG....................................................................................................................	25	1	1	1.00	1	1	0	0	0	0
.................................................TTTGGTGTTCAGCACATTGGCGGCT.....................................................................................................................	25	0	1	1.00	1	0	1	0	0	0
....................TGTGTCTTTTCTTTTTAAAGGTGTTGC................................................................................................................................................	27	0	1	1.00	1	0	1	0	0	0
.......................................................................................................................TCAAAGGTTGTCTTACCGAGGCATGTTT............................................	28	1	1	1.00	1	1	0	0	0	0
..................................................TTGGTGTTCGGCACATTGGCGGCTG....................................................................................................................	25	1	1	1.00	1	0	1	0	0	0
..................................TTAAAGGTGTTGCCTTTTGGTGTTCAGT.................................................................................................................................	28	1	1	1.00	1	1	0	0	0	0
...................................TAAAGGTGTTGCCTTTTGGTGTTCAGCA................................................................................................................................	28	0	1	1.00	1	0	0	1	0	0
........................................................................................................................................................................TTATTGTGGGTCATTGGTGTT..	21	1	1	1.00	1	1	0	0	0	0
................................................................................................................................................TTTTAACGATATCACCGTGGTTTCTTA....................	27	0	1	1.00	1	0	0	1	0	0
................................................TTTTGGTGTTCAGCACATTGGCGGCT.....................................................................................................................	26	0	1	1.00	1	0	1	0	0	0
.......................................................................................................................TCAAAGGTTGTTTTACCGAGGCATGTTT............................................	28	0	1	1.00	1	1	0	0	0	0
..................................................TTTGTGTTCAGCACATTGGCGGCT.....................................................................................................................	24	1	1	1.00	1	0	1	0	0	0
..................................................TTGGTGTTCAGCCCATTGGCGGCTGC...................................................................................................................	26	1	1	1.00	1	1	0	0	0	0
..................................................TTGGTGTTCAGCACATTGGCGGCTT....................................................................................................................	25	1	1	1.00	1	0	1	0	0	0
........................................................................................................................................................................TTATTGTGTGTCATTGGTGTA..	21	1	1	1.00	1	1	0	0	0	0
.................................................TTTGGTGTTCAGCACATTGGCGGC......................................................................................................................	24	0	1	1.00	1	0	1	0	0	0
..................................................TTGGTGTTCAGCACATTGGCGGCTGCT..................................................................................................................	27	1	1	1.00	1	0	1	0	0	0
.........................................................................................................................................................TATCACAGTGGCTTCTTTTT..................	20	3	19	0.32	6	0	0	0	6	0
.................................................................................................................................................TTTCAGGATATCAACGTGGT..........................	20	3	8	0.13	1	0	0	0	0	1
......................................................................................................................................CGGAGGAATGGTTTAACG.......................................	18	3	20	0.05	1	0	0	0	0	1
.........................................................................................................................................................TATCACAGTGGCTTCTTTT...................	19	3	20	0.05	1	0	0	0	1	0
.........................................................................................................................................AGGCATGGATTCACGATAT...................................	19	3	20	0.05	1	0	0	0	0	1

AAAAATTATAAACTTTTTTTACACAGAAAAGAAAAATTTCCACAACGGAAAACCACAAGTCGTGTAACCGCCGACGGAGCAAAAGAATAAAAATAAAAAGACTAAATTTTTAACCGTACAGTTTCCAACAAAATGGCTCCGTACAAAATTGCTATAGTGGCACCAAAGAATAACACCCAGTAACCACATAG *********************************.....(((((((((..(((((..((((...((((((..((((..(((((...(((...........)))...))))).))))))))))..))))...))))))))))..........))))*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	V039 embryo
...............................................GGAAACCACAGGTCGTGTAACCGG........................................................................................................................	24	3	1	1.00	1	0	1
.....................................................................CCCGACACAGCAAAAGAATAAA....................................................................................................	22	3	2	0.50	1	1	0
................................................................................................................................................................CACCAAGCAATAACACCCAGA..........	21	3	3	0.33	1	1	0
.......................................CCACCACGGGAAACCACAA.....................................................................................................................................	19	2	4	0.25	1	1	0
.............................................................................AGCAAAGGAAGAAAAATAAAAAG...........................................................................................	23	2	4	0.25	1	1	0
.................................................................................................................................................................ACCAAAGGGTAACCCCCAGTA.........	21	3	5	0.20	1	1	0
..................................................................................................................................................................CCAAAGGGTAACCCCCAGTA.........	20	3	12	0.17	2	2	0
...............................................................................................................................ACCACATGGCTCTGTACAAA............................................	20	3	8	0.13	1	1	0
.................................................................................................................................................................ACCAAAGAATAACAAACAG...........	19	2	12	0.08	1	0	1
...............................................................................................AAAAGTCTGAATTTTTAAC.............................................................................	19	2	20	0.05	1	1	0
................................................................................................................................................................CACCCAAGAAGAACACACAG...........	20	3	20	0.05	1	1	0
...............................................................................................................................................................CCACCAAAGAAAAACACGCA............	20	3	20	0.05	1	1	0

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droAna3	scaffold_13335:319355-319545 +	dan_150	TTTTTAATATTTGAAAAAAATGTGT----CTTTTCTTTTTAAAGGTGTTGCCTTTTGGTGTT------CAGCACATTGGCGGCTGCCTCGT---------------TTTC-----------TTATTTTTATTTTTCTGATTTAAAAA---TTGGCATGTCAAAGGT-------TGTTTTACCGA------GGCATGTTTTAACG------ATATCACCGTGGTTTCTTATTGTGGGTCATTGG---------------------------------------------------------------------------------------------------------------------------------------------------TGTATC
droBip1	scf7180000396484:102110-102327 -		ATTTTATTCTT------------GA----CTTTTCT--------------CCTTTTTTTATTTCGGAATGGAACCTCAAAGGTTAACTCAAACTGAAGTGGTTTGTTTTTTATTTTTTAATTTATATTTACTTTTTTTATTTTAAAGTATATGGCTTTTCTGATTCTGGTGTATATTTTGCCTAACTGTTGTCATAATTTAATTATTTTTAAATAAACCTGGTTTCTCAATATGTGGCAGTGG----------------------------------------------------------------------------------------------------------------------------------------------------AGATG
droKik1	scf7180000302696:161248-161262 +		TTTTTAATACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAA-----------------------------------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000491212:2213209-2213214 +		TGTAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1	scf7180000779855:3789-3837 -		CTCTTAGTATTTGTAAAAAATGTATAATTATTTTCGTTGTAAAAGCTTT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBia1	scf7180000302075:4795893-4795904 -		TTTGTAAAGTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T--------------------------------------------------------------------------------------------------------------------------------------------------------
droEug1	scf7180000408659:1125-1288 -		TTTTTAATATT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTAAATATTTTTAAATATTTTTTAAATATTTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAANATTTTTTAAATATT
droEre2	scaffold_4784:10472041-10472081 +		TTTTTTTTTTT-----------------------------------------------------------------------------------------------------------------------TTTTTTTGATTTAGGTA---TTTGCGCGTCAAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

TTTTTAATATTTGAAAAAAATGTGT----CTTTTCTTTTTAAAGGTGTTGCCTTTTGGTGTT------CAGCACATTGGCGGCTGCCTCGT---------------TTTC-----------TTATTTTTATTTTTCTGATTTAAAAA---TTGGCATGTCAAAGGT-------TGTTTTACCGA------GGCATGTTTTAACG------ATATCACCGTGGTTTCTTATTGTGGGTCATTGG---------------------------------------------------------------------------------------------------------------------------------------------------TGTATC	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
......................................................TTGGTGTT------CAGCACATTGGCGGCTG.......................................................................................................................................................................................................................................................................................................................	25	1	20.00	20	3	0	0	0	5	12
......................................................TTGGTGTT------CAGCACATTGGCGGCT........................................................................................................................................................................................................................................................................................................................	24	1	9.00	9	0	0	0	0	7	2
............................................................TT------CAGCACATTGGCGGCTGCCTCGT---------------..................................................................................................................................................................................................................................................................................................	25	1	4.00	4	1	0	0	0	3	0
......................................................TTGGTGTT------CAGCACATTGGCGGCTGC......................................................................................................................................................................................................................................................................................................................	26	1	4.00	4	3	0	0	0	1	0
......................................................TTGGTGTT------CAGCACATTGGCGGC.........................................................................................................................................................................................................................................................................................................................	23	1	4.00	4	0	0	0	0	3	1
......................................................TTGGTGTT------CAGCACATTGGCGGCTGT......................................................................................................................................................................................................................................................................................................................	26	1	4.00	4	0	0	0	0	3	1
...........................................................................................................................................................................................................................TGGTTTCTTATTGTGGGTCATTGG---------------------------------------------------------------------------------------------------------------------------------------------------TG....	26	1	3.00	3	0	0	0	0	3	0
......................................................TTGGTGTT------CAGCACATTGGCGGCTGTT.....................................................................................................................................................................................................................................................................................................................	27	1	2.00	2	0	0	0	0	0	2
..............................................................................................................................................................TCAAAGGT-------TGTTTTACCGA------GGCATGT.......................................................................................................................................................................................................	26	1	2.00	2	0	0	0	0	2	0
....................................................TTTTGGTGTT------CAGCACATTGGCGGC.........................................................................................................................................................................................................................................................................................................................	25	1	2.00	2	0	0	0	0	2	0
..............................................................................................................................................................TCAAAGGT-------TGTTTTACCGA------GGCATGTT......................................................................................................................................................................................................	27	1	2.00	2	0	0	0	0	2	0
.....................................................TTTGGTGTT------CAGCACATTGGCGGCTG.......................................................................................................................................................................................................................................................................................................................	26	1	2.00	2	0	0	0	0	0	2
.......................................................................................................................................................................................................TAACG------ATATCACCGTGGTTTCT.........................................................................................................................................................................	22	1	1.00	1	0	0	0	0	1	0
......................................................TTGGTGTT------CAGCACATTGGCGGA.........................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
.......................................................TGGTGTT------CAGCACATTGGCGGC.........................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
....................................TTTTAAAGGTGTTGCCTTTTGGTGTT------........................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1
..................................................................................................................................................................................................................................TTATTGTGGGTCATTGG---------------------------------------------------------------------------------------------------------------------------------------------------TGTA..	21	1	1.00	1	0	0	0	0	1	0
.....................................................TTTGGTGTT------CAGCACATTGGCGGCT........................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	1
....................TGTGT----CTTTTCTTTTTAAAGGTGTTGC.........................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	1
......................................TTAAAGGTGTTGCCTTTTGGTGTT------CAGT....................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0
.......................................TAAAGGTGTTGCCTTTTGGTGTT------CAGCA...................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................TTATTGTGGGTCATTGG---------------------------------------------------------------------------------------------------------------------------------------------------TGTT..	21	1	1.00	1	0	0	0	0	1	0
....................................................................................................................................................................................................TTTTAACG------ATATCACCGTGGTTTCTTA.......................................................................................................................................................................	27	1	1.00	1	1	0	0	0	0	0
....................................................TTTTGGTGTT------CAGCACATTGGCGGCT........................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1
..............................................................................................................................................................TCAAAGGT-------TGTTTTACCGA------GGCATGTTT.....................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0
......................................................TTGGTGTT------CAGCACATTGGCGGCTT.......................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	1
.....................................................TTTGGTGTT------CAGCACATTGGCGGC.........................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	1
......................................................TTGGTGTT------CAGCACATTGGCGGCTGCT.....................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	1

droBip1

ATTTTATTCTT------------GA----CTTTTCT--------------CCTTTTTTTATTTCGGAATGGAACCTCAAAGGTTAACTCAAACTGAAGTGGTTTGTTTTTTATTTTTTAATTTATATTTACTTTTTTTATTTTAAAGTATATGGCTTTTCTGATTCTGGTGTATATTTTGCCTAACTGTTGTCATAATTTAATTATTTTTAAATAAACCTGGTTTCTCAATATGTGGCAGTGG----------------------------------------------------------------------------------------------------------------------------------------------------AGATG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TTTTTAATACT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAA-----------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TGTAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CTCTTAGTATTTGTAAAAAATGTATAATTATTTTCGTTGTAAAAGCTTT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TTTGTAAAGTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T--------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TTTTTAATATT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTAAATATTTTTAAATATTTTTTAAATATTTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAATATTTTTTAAANATTTTTTAAATATT	Size	Hit Count	Total Norm	Total
No Reads

droEre2

TTTTTTTTTTT-----------------------------------------------------------------------------------------------------------------------TTTTTTTGATTTAGGTA---TTTGCGCGTCAAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

-29.4	-29.3	-29.2	-29.1

dan_150

scaffold_13335:319405-319495 +

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