dmo_520

exon [dmoj_GLEANR_16806:1]; CDS [Dmoj\GI16067-cds]; CDS [Dmoj\GI16067-cds]; exon [dmoj_GLEANR_16806:2]; intron [Dmoj\GI16067-in]

Name	Class	Family	Strand
Howilli1	DNA	hAT-Ac	+

----------########################################-----------------------------------------------------------------------------------------------------------------------------------------------################################################## GTGCGCCAAAATGAGCCATATTGAAGGAGCTAGCTCAGTGGCTCAGTTTAGTGAGCCATTCATTTTGGCTCACTCACTCATGAGCTACCCAAGTCTAAAGTCTAATAGCGTTCAATGACTGCACACAAAGCAAATAAATGTACAAAATGTATATACATATTGCTAATTATTGCAATAACTGGAAGCGGCACAGTTAATGGCATTGAGCCAATATCAGCGATTACAGGCACCGCAATAGTTACC ***********************************************************************************.......((....((((..............))))....))..............*****************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V056 head	M060 embryo	V041 embryo	V110 male body
.....................................................................................TACCCAAGTCTAAAGTCTAATAGCG.....................................................................................................................................	25	0	1	2.00	2	2	0	0	0	0
..........................................................................................................................................................................................................TTGAGCGACTATCAGCGACTACA..................	23	3	1	1.00	1	0	1	0	0	0
.....................................................................................................................ACTGCACACAAAGCAAATAAATG.......................................................................................................	23	0	1	1.00	1	0	0	1	0	0
.......................................................................................................AATAGCGTTCAATGACTGCACACA....................................................................................................................	24	0	1	1.00	1	1	0	0	0	0
......................................................................................................TAATAGCGTTCAATGACTGC.........................................................................................................................	20	0	1	1.00	1	0	0	1	0	0
...................................................................................................................................................................................TGGAAGGGGCACTGTTAAGGGCA.........................................	23	3	1	1.00	1	0	0	0	1	0
...................................................................................................................................................................................TGGAAGGGGCACTGTTAAGGGC..........................................	22	3	1	1.00	1	0	1	0	0	0
........................................................................................................................................................................ATTGCAATAACTGGAAGCGGCACAGT.................................................	26	0	1	1.00	1	0	0	0	0	1
...................................................................................................................................................................................TGGAAGGGGCACTGATAATGGC..........................................	22	3	1	1.00	1	0	0	0	1	0
.........................................................................................................................................................................................................ATTGAGCCAATATCAGCGATTACAGGC...............	27	0	1	1.00	1	1	0	0	0	0
.........................................................................................................................................................................................................AGTGAGCCAATATCAGCGATT.....................	21	1	1	1.00	1	0	0	1	0	0
........................................................................................................................................................................................................CATTGAGCCAATATCAGC.........................	18	0	1	1.00	1	1	0	0	0	0
.......................................................................................................................................................................................................GCATTGAGCCAATATCAGC.........................	19	0	1	1.00	1	0	1	0	0	0
...................................................................................................................................................................................TGGAAGGAGCACTGTTAATGGC..........................................	22	3	2	0.50	1	0	0	0	1	0
...................................................................................................................................................................................TGGACGGGGCACTGTTAATGGC..........................................	22	3	2	0.50	1	0	1	0	0	0
...................................................................................................................................................................................TGGAAGCAGCACCGTTAAGGG...........................................	21	3	2	0.50	1	0	1	0	0	0
...................................................................................................................................................................................TGGCAGGGGCACTGTTAATGGC..........................................	22	3	2	0.50	1	0	1	0	0	0
...................................................................................................................................................................................TGGAAGGGGCACTGTTAAGGG...........................................	21	3	3	0.33	1	0	1	0	0	0
........AAATGAGCCATATTGAAGGAGCT....................................................................................................................................................................................................................	23	0	3	0.33	1	1	0	0	0	0
.......................................................CCAATCATTTTGGCTCACTCACT.....................................................................................................................................................................	23	1	4	0.25	1	0	0	1	0	0
................................................................................................................................................................................................................CATTATCAGCGATTCCAGGGA..............	21	3	4	0.25	1	0	0	0	0	1
...........................................................TCATTTTGGCTCACTCACTCATGAGC..............................................................................................................................................................	26	0	5	0.20	1	1	0	0	0	0
...................................................................................................................................................................................TGGAAGGGGCACTGTTGATGG...........................................	21	3	5	0.20	1	0	0	0	1	0
...........................................................................................................................................................................................................................ATGACTGGTACCGCAATAGT....	20	3	6	0.17	1	0	1	0	0	0
......................................................................CACTCACTCATGAGCTACCCAAGTCT...................................................................................................................................................	26	0	17	0.12	2	2	0	0	0	0
....................................................................CTCACTCACTCATGAGCTACCCAAGTC....................................................................................................................................................	27	0	17	0.12	2	2	0	0	0	0
.................................................................................................................................................................................................................ATTATCAGCGATTAGAGACA..............	20	3	16	0.06	1	0	0	0	0	1
.......................................................................ACTCACTCATGAGCTACCCAAG......................................................................................................................................................	22	0	17	0.06	1	0	0	1	0	0
.....................................................................TGACTCACTCATGAGCTACCCAAGTC....................................................................................................................................................	26	1	17	0.06	1	0	0	1	0	0
......................................................................CACTCACTCATGAGCTACCCA........................................................................................................................................................	21	0	17	0.06	1	1	0	0	0	0
....................................................................CTCACTCACTCATGAGCTACCCAAGT.....................................................................................................................................................	26	0	17	0.06	1	1	0	0	0	0
.........................................................................TCACTCATGAGCTACCCAAGT.....................................................................................................................................................	21	0	18	0.06	1	1	0	0	0	0
...........................................................TTATTTTCGCTCCCTCACTCATGAGC..............................................................................................................................................................	26	3	18	0.06	1	0	0	1	0	0
........................................................................CTCACTCATGAGATACCCAAGTCT...................................................................................................................................................	24	1	18	0.06	1	0	0	1	0	0
............................................................................CTCATGAGCTACCCAAGTC....................................................................................................................................................	19	0	20	0.05	1	1	0	0	0	0

CACGCGGTTTTACTCGGTATAACTTCCTCGATCGAGTCACCGAGTCAAATCACTCGGTAAGTAAAACCGAGTGAGTGAGTACTCGATGGGTTCAGATTTCAGATTATCGCAAGTTACTGACGTGTGTTTCGTTTATTTACATGTTTTACATATATGTATAACGATTAATAACGTTATTGACCTTCGCCGTGTCAATTACCGTAACTCGGTTATAGTCGCTAATGTCCGTGGCGTTATCAATGG *****************************************************************************************************.......((....((((..............))))....))..............***********************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	M060 embryo
.......................................................................................................................................................................GTAGCGTTATTGACCTTC..........................................................	18	2	5	0.20	1	0	1
...................................................................CGAGTGAGTGAGTACTCGATGGGTT.......................................................................................................................................................	25	0	17	0.18	3	3	0
......................................................................................................................................................................................TTCGCCGTGTCAGTTTCCG..........................................	19	2	6	0.17	1	1	0
........................................................................GAGTGAGTACTCGAGGGGTTCAGATT.................................................................................................................................................	26	1	8	0.13	1	1	0
.............................................................................................................................GTTTCCTTTATTTAAATGTTTTAT..............................................................................................	24	3	15	0.07	1	1	0
......................................................................GTGAGTGAGTACTCGATGGGTTCAG....................................................................................................................................................	25	0	17	0.06	1	1	0
.......................................................................TGAGTGAGTACTCGATGGGTTCAGAT..................................................................................................................................................	26	0	17	0.06	1	1	0
...................................................................CGAGTGAGTGAGTACTCGATGGGT........................................................................................................................................................	24	0	17	0.06	1	1	0
.........................................................................AGTGAGTACTCGATGGGTTCAG....................................................................................................................................................	22	0	18	0.06	1	1	0

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6328:3542112-3542354 -	dmo_520	GTGCGCCAAAAT-----------------GAGCCATATTGAAGGAGCTA----GCTCAGTGGCTCAGTTTAGTGAGCCATTCATTTTGGCTCACTCACTCATGAGCTACCCAAGTCTAAAGTCTAATAGCG--TTCAATGACTGCACACAAAGCAAATAA----ATGT-------------------ACAAAATGTATATACATATTGCTAATTATTGCAATAACTGGAAGCGGCACAGTTAATGGCATTGAGCCAATATCAGCGAT---TACAGGCACCGCAATAGTTACC
droVir3	scaffold_13042:1659230-1659354 -		AGTGTAAAA---------------------------------------------------------------------------------------------------------------------------------TGCCGTTTACAAATGCATTTAA----AATG-------------------ATTAAATTTCGATTTTTATTGCTTATTGTTGTTATAAATAGCATTAGTATAGTCAACTGCATAGAGCCCATATCGATCGG---------------CATTGCTGCC
droGri2	scaffold_15081:2599346-2599466 -		AAAT----------------------------------AGACGGAATAT----AGGCAATTACATA-------------------------------------------------------------------------------------------------------------------------------------TATTTCTATTTGATTGTTGGTATTATTATTCCTAAAACAGTTACAGCGATAGAGCCAATAAGCATTGGTGTTTTGGGCACCTCTATTGGATTA
droWil2	scf2_1100000004909:227565-227764 +		GTGAGCCAAAAT-----------------GAGCCATATTGAAGGACCCA----GCTCAGTGGCTCAGTCCAGTGAGCCATTCATTTTAGTTCACTCACTCATGAGCTACCCAAGTCTACTACAA---------------------------ATCAAATATCCAACTTTACTTTATTTCGATTGGTTAACCAAACGCTTTTACATACTTACATATATTATTATA-----------CACATGTATAGGTATTAAGTTAATA---------------------------------
dp5	Unknown_group_11:40223-40326 +		GTGAACAAAAAA-----------------GAACAACTTGGAAGAAACAT----GTTCAGTTGCTCACTTAAGTGAACAACTCTTTTTTGTTCACTCACTCATGAGCAACACAACACTAAAGCGT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------A
droPer2	scaffold_62:118384-118547 -		GTGAACAAAAAG-----------------GAACAGCTTGGAAGGAACAT----GTTCAGTTGCTCACTTAAGTGAACAACTCTTTTTTGTTCACTCACTCATGGGCAACACAACACTAATCGGC---AGCT--CTTAATG--TGAAAACAGAAAAATTAC----ATAT-------------------AC---AAGCATATTTTCATGCATATATGT--------------------------------------------------------------------------AT
droAna3	scaffold_12905:505168-505264 +		GTGAACAAAAAA-----------------GAACAAAAAGGAAGGAACAT----GTTCACTCGCTCAGTTGAGTGAACAACTCTTTTTTGTTCACTCACTCATGAGCAACCCAACACTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBip1	scf7180000393604:2467-2648 -		GTGAACAAAAAA-----------------GAACAAAAAGGAAGGAACCA----GTTCGCTCACTCAGTTGAGTGAACAACTCTTTTTTGTTCACTCACTCATGAGCAACCCAACACTACCGTG-----ACG--TTTG-------------------------------------------------------------ATCTTT--TATTATTTATTGT---GCAAGAAAAAGGTACAGTACAAAGTATAAGGTTACAATTAACAGT---------------TACTAT-AAT
droKik1	scf7180000302300:74096-74110 -		ACCGCCATAGGC-----------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TC
droFic1	scf7180000452663:10151-10247 +		ATGAACAATAAA-----------------GAACTAAAAGGAAGGAATAT----ATTCGCTCGCTCAGTTTAGTGAGCAACTCTTTTTTGTTCACTCACTCATGAGCAACACAACACTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000491199:505496-505598 +		CTGAGCAAG--T-------GAGCAAAAAAACACA----------ATTATTTAGTTTCACTCACTCACTTAAGTGAACAACTCTTTTTTGTTCACTCATTCATGAGCAACCCAACTCTAGAAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1	scf7180000769164:518-614 -		GTGAACAAAAAA-----------------GAACAAGTTCGAAGGAACAC----GTTCACTCACTCAGTTCTGTGAGCAACTCTTTTTTGTTCACTCACTCATGAGCAACCCAACACTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droTak1	scf7180000410491:20119-20302 -		GTGAGCAAAAATGAACAAGGAACAATAAAGAACAAGTTCGAAGGAACAT----GTTCACTCACTCAGTTTAGTGAGCAACTCGTTTTTGTTCACTCACTCATGAGCAACCCAAAACTAATAGGA----ACGGTCGAAAAA--TTAAATGGAAATTATTA-------GG-------------------AAAAAAATTATATCTTTGTTGATTTTTATTACA------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

GTGCGCCAAAAT-----------------GAGCCATATTGAAGGAGCTA----GCTCAGTGGCTCAGTTTAGTGAGCCATTCATTTTGGCTCACTCACTCATGAGCTACCCAAGTCTAAAGTCTAATAGCG--TTCAATGACTGCACACAAAGCAAATAA----ATGT-------------------ACAAAATGTATATACATATTGCTAATTATTGCAATAACTGGAAGCGGCACAGTTAATGGCATTGAGCCAATATCAGCGAT---TACAGGCACCGCAATAGTTACC	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..........................................................................................................TACCCAAGTCTAAAGTCTAATAGCG--...............................................................................................................................................................	25	1	2.00	2	2	0	0	0	0	0
............................................................................................................................................ACTGCACACAAAGCAAATAA----ATG.............................................................................................................................	23	1	1.00	1	0	0	0	0	1	0
............................................................................................................................AATAGCG--TTCAATGACTGCACACA..............................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
...........................................................................................................................TAATAGCG--TTCAATGACTGC...................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0
......................................................................................................................................................................................................................ATTGCAATAACTGGAAGCGGCACAGT....................................................	26	1	1.00	1	0	0	0	0	0	1
.......................................................................................................................................................................................................................................................ATTGAGCCAATATCAGCGAT---TACAGGC...............	27	1	1.00	1	1	0	0	0	0	0
......................................................................................................................................................................................................................................................CATTGAGCCAATATCAGC............................	18	1	1.00	1	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................GCATTGAGCCAATATCAGC............................	19	1	1.00	1	0	0	0	1	0	0
........AAAT-----------------GAGCCATATTGAAGGAGCT....................................................................................................................................................................................................................................................	23	3	0.33	1	1	0	0	0	0	0
................................................................................TCATTTTGGCTCACTCACTCATGAGC..........................................................................................................................................................................................	26	5	0.20	1	1	0	0	0	0	0
...........................................................................................CACTCACTCATGAGCTACCCAAGTCT...............................................................................................................................................................................	26	17	0.12	2	2	0	0	0	0	0
.........................................................................................CTCACTCACTCATGAGCTACCCAAGTC................................................................................................................................................................................	27	17	0.12	2	2	0	0	0	0	0
............................................................................................ACTCACTCATGAGCTACCCAAG..................................................................................................................................................................................	22	17	0.06	1	0	0	0	0	1	0
...........................................................................................CACTCACTCATGAGCTACCCA....................................................................................................................................................................................	21	17	0.06	1	1	0	0	0	0	0
.........................................................................................CTCACTCACTCATGAGCTACCCAAGT.................................................................................................................................................................................	26	17	0.06	1	1	0	0	0	0	0
..............................................................................................TCACTCATGAGCTACCCAAGT.................................................................................................................................................................................	21	18	0.06	1	1	0	0	0	0	0
.................................................................................................CTCATGAGCTACCCAAGTC................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0

droVir3

AGTGTAAAA---------------------------------------------------------------------------------------------------------------------------------TGCCGTTTACAAATGCATTTAA----AATG-------------------ATTAAATTTCGATTTTTATTGCTTATTGTTGTTATAAATAGCATTAGTATAGTCAACTGCATAGAGCCCATATCGATCGG---------------CATTGCTGCC	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
.........................................................................................................................................................................................................................................................AGAGCCCATATCGATCGG---------------C.........	19	1	2.00	2	0	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	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
..............................................................................................................................................................................................................TGCTTATTGTTGTTATAAATAGCATTAG..........................................................	28	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	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
.....................................................................................................................................................................................................................................................GCATAGAGCCCATATCGATCGG---------------CAT.......	25	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	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
.....................................................................................................................................................................................................................................ATTAGTATAGTCAACTGCATAGAGCC.....................................	26	1	1.00	1	0	0	0	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

droGri2

AAAT----------------------------------AGACGGAATAT----AGGCAATTACATA-------------------------------------------------------------------------------------------------------------------------------------TATTTCTATTTGATTGTTGGTATTATTATTCCTAAAACAGTTACAGCGATAGAGCCAATAAGCATTGGTGTTTTGGGCACCTCTATTGGATTA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
AAAT----------------------------------AGACGGAATAT----AGGCAATTAC.....................................................................................................................................................................................................................................	25	1	1.00	1	0	1

droWil2

GTGAGCCAAAAT-----------------GAGCCATATTGAAGGACCCA----GCTCAGTGGCTCAGTCCAGTGAGCCATTCATTTTAGTTCACTCACTCATGAGCTACCCAAGTCTACTACAA---------------------------ATCAAATATCCAACTTTACTTTATTTCGATTGGTTAACCAAACGCTTTTACATACTTACATATATTATTATA-----------CACATGTATAGGTATTAAGTTAATA---------------------------------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
..................................................................GTCCAGTGAGCCATTCATTTTAGT..........................................................................................................................................................................................................	24	1	1.00	1	0	0	1	0	0

dp5

GTGAACAAAAAA-----------------GAACAACTTGGAAGAAACAT----GTTCAGTTGCTCACTTAAGTGAACAACTCTTTTTTGTTCACTCACTCATGAGCAACACAACACTAAAGCGT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------A	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
..............................................................................................TCACTCATGAGCAACACAACACTAAAGCG.........................................................................................................................................................................	29	1	8.00	8	0	7	1	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACACTAAAGC..........................................................................................................................................................................	28	1	4.00	4	0	1	3	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACACTAA.............................................................................................................................................................................	25	10	2.10	21	0	21	0	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACACTAAAG...........................................................................................................................................................................	27	1	2.00	2	0	1	1	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACACT...............................................................................................................................................................................	23	20	1.05	21	0	19	1	0	1	0	0	0	0	0
..........................................GAAACAT----GTTCAGTTGCTCACTTAAT............................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
....................................TTGGAAGAAACAT----GTTCAGTTGCTCACT................................................................................................................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................CACTCATGAGCAACACAACACTAAAG...........................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACACTAAA............................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
........AAAA-----------------GAACAACTTGGAAGAAACAT----GT.............................................................................................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACACTA..............................................................................................................................................................................	24	20	0.70	14	0	14	0	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACAC................................................................................................................................................................................	22	20	0.65	13	0	13	0	0	0	0	0	0	0	0
..........................................GAAACAT----GTTCAGTTGCTCACTTAAGC...........................................................................................................................................................................................................................	27	3	0.33	1	0	0	1	0	0	0	0	0	0	0
.TGAACAAAAAA-----------------GAACAACTTGG............................................................................................................................................................................................................................................................	22	10	0.20	2	0	2	0	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACA.................................................................................................................................................................................	21	20	0.15	3	0	3	0	0	0	0	0	0	0	0
...AACAAAAAA-----------------GAACAACTTGG............................................................................................................................................................................................................................................................	20	10	0.10	1	0	1	0	0	0	0	0	0	0	0
.TGAACAAAAAA-----------------GAACAACTTGGAAG.........................................................................................................................................................................................................................................................	25	10	0.10	1	0	1	0	0	0	0	0	0	0	0
....................................................................TAAGTGAACAACTCTTTTTTGTTCA.......................................................................................................................................................................................................	25	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..GAACAAAAAA-----------------GAACAACTTGGAA..........................................................................................................................................................................................................................................................	23	10	0.10	1	0	1	0	0	0	0	0	0	0	0
....ACAAAAAA-----------------GAACAACTTGGA...........................................................................................................................................................................................................................................................	20	10	0.10	1	0	1	0	0	0	0	0	0	0	0
.TGAACAAAAAA-----------------GAACAACTTGGA...........................................................................................................................................................................................................................................................	23	10	0.10	1	0	0	0	0	0	0	0	0	1	0
...............................................................................................CACTCATGAGCAACACAACACT...............................................................................................................................................................................	22	20	0.10	2	0	2	0	0	0	0	0	0	0	0
................................................T----GTTCAGTTGCTCACTTAAGTGAACA......................................................................................................................................................................................................................	26	20	0.10	2	0	0	0	0	0	0	0	0	2	0
.......................................................TCAGTTGCTCACTTAAGTGAACAACTC..................................................................................................................................................................................................................	27	20	0.10	2	0	0	0	0	0	0	0	0	2	0
....................................................................TAAGTGAACAACTCTTTTTTG...........................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................TTCACTCACTCATGAGCAACACAAC..................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................TGTTCACTCACTCATGAGC..........................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
............................................................................................ACTCACTCATGAGCAACACAACACTA..............................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.......................................................TCAGTTGCTCACTTAAGTGAACAAC....................................................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...............................................................TCACTTAAGTGAACAACTCTTT...............................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................CACTCATGAGCAACACAACAC................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................CACTCACTCATGAGCAACACAACA.................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................TTCAGTTGCTCACTTAAGTGAACAAC....................................................................................................................................................................................................................	26	20	0.05	1	0	0	1	0	0	0	0	0	0	0
......................................................................................TTGTTCACTCACTCATGAGC..........................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................ACTTAAGTGAACAACTCTTTT..............................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................TCACTCACTCATGAGCAACACAACAC................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................TCACTCATGAGCAACACAACACC...............................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0
......................................................TTCAGTTGCTCACTTAAGTGAACAACT...................................................................................................................................................................................................................	27	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...................................................................................TTTTTGTTCACTCACTCATGA............................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................TTTTTGTTCACTCACTCATGAGCAA........................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................T----GTTCAGTTGCTCACTTAAGTGAA........................................................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	1	0
..............................................................................................TCACTCATGAGCAACACAACACA...............................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................................ACTCTTTTTTGTTCACTCACTCATGAGC..........................................................................................................................................................................................	28	20	0.05	1	0	0	1	0	0	0	0	0	0	0
....................................................................TAAGTGAACAACTCTTTTTTGTTCAC......................................................................................................................................................................................................	26	20	0.05	1	0	0	1	0	0	0	0	0	0	0
.......................................................TCAGTTGCTCACTTAAGTGAACAA.....................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................CACTTAAGTGAACAACTCTTTTTT............................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................CACTCATGAGCAACACAACACTA..............................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................TTCACTCACTCATGAGCAACAC.....................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

GTGAACAAAAAG-----------------GAACAGCTTGGAAGGAACAT----GTTCAGTTGCTCACTTAAGTGAACAACTCTTTTTTGTTCACTCACTCATGGGCAACACAACACTAATCGGC---AGCT--CTTAATG--TGAAAACAGAAAAATTAC----ATAT-------------------AC---AAGCATATTTTCATGCATATATGT--------------------------------------------------------------------------AT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...............................................................................................................AACACTAATCGGC---AGCT--CTT............................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0
...............................ACAGCTTGGAAGGAACAT----GTTCAG.........................................................................................................................................................................................................................................	24	19	0.11	2	0	0	0	0	0	2
..................................GCTTGGAAGGAACAT----GTTCAGTTGCTCA..................................................................................................................................................................................................................................	28	20	0.10	2	0	0	0	0	0	2
..............................AACAGCTTGGAAGGAACAT----G..............................................................................................................................................................................................................................................	20	19	0.05	1	0	0	0	0	0	1
.......................................GAAGGAACAT----GTTCAGTTGC.....................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1
...............................ACAGCTTGGAAGGAACAT----GA.............................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1

droAna3

GTGAACAAAAAA-----------------GAACAAAAAGGAAGGAACAT----GTTCACTCGCTCAGTTGAGTGAACAACTCTTTTTTGTTCACTCACTCATGAGCAACCCAACACTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.................................AAAAAGGAAGGAACAT----GTTCACTCGC.....................................................................................................................................................................................................................................	26	2	1.00	2	0	0	0	0	2	0
.........AAA-----------------GAACAAAAAGGAAGGAACAT----G..............................................................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
.........AAA-----------------GAACAAAAAGGAAGGAACAT----...............................................................................................................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0
..........AA-----------------GAACAAAAAGGAAGGA.......................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0
...............................ACAAAAAGGAAGGAACAC----C..............................................................................................................................................................................................................................................	19	5	0.20	1	0	1	0	0	0	0

droBip1

GTGAACAAAAAA-----------------GAACAAAAAGGAAGGAACCA----GTTCGCTCACTCAGTTGAGTGAACAACTCTTTTTTGTTCACTCACTCATGAGCAACCCAACACTACCGTG-----ACG--TTTG-------------------------------------------------------------ATCTTT--TATTATTTATTGT---GCAAGAAAAAGGTACAGTACAAAGTATAAGGTTACAATTAACAGT---------------TACTAT-AAT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

ACCGCCATAGGC-----------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

ATGAACAATAAA-----------------GAACTAAAAGGAAGGAATAT----ATTCGCTCGCTCAGTTTAGTGAGCAACTCTTTTTTGTTCACTCACTCATGAGCAACACAACACTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

CTGAGCAAG--T-------GAGCAAAAAAACACA----------ATTATTTAGTTTCACTCACTCACTTAAGTGAACAACTCTTTTTTGTTCACTCATTCATGAGCAACCCAACTCTAGAAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GTGAACAAAAAA-----------------GAACAAGTTCGAAGGAACAC----GTTCACTCACTCAGTTCTGTGAGCAACTCTTTTTTGTTCACTCACTCATGAGCAACCCAACACTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GTGAGCAAAAATGAACAAGGAACAATAAAGAACAAGTTCGAAGGAACAT----GTTCACTCACTCAGTTTAGTGAGCAACTCGTTTTTGTTCACTCACTCATGAGCAACCCAAAACTAATAGGA----ACGGTCGAAAAA--TTAAATGGAAATTATTA-------GG-------------------AAAAAAATTATATCTTTGTTGATTTTTATTACA------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dmo_520

scaffold_6328:3542162-3542304 -

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

-2.5	-2.2	-2.2