dse_231

ATATGTTTAAATAAAAAAGAACGAATGTATGAAGTTAAAAAACGAAATCATGCTAGATCAAGAACAAATATCATGTAAATTGCTTTTTTACATAAAATACAGGATATTCGTTCTTGAGCTTAATGGTTATAGAGCTGCAAGAAAAATTGTGAAATTTTTTACAAATATTAAGAA *********************************..........((((((...((.((((((((.(((((((((((((.......))))))).........)))))).)))))))).))..))))))...........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V113 male body	V115 head	V114 embryo	M054 female body
..............................................................................................AAATACAGGATATTCGTTCTT...........................................................	21	0	2	89.00	178	119	31	20	8
..............................................................................................AAATACAGGATATTCGTTCTTG..........................................................	22	0	2	78.50	157	115	5	9	28
...............................................................................................AATACAGGATATTCGTTCTTG..........................................................	21	0	2	30.50	61	52	3	3	3
...............................................................................................AATACAGGATATTCGTTCTTGA.........................................................	22	0	2	29.00	58	50	3	5	0
..............................................................................................AAATACAGGATATTCGTTCTTGT.........................................................	23	1	2	13.50	27	23	4	0	0
.................................................................................................TACAGGATATTCGTTCTTGAGC.......................................................	22	0	2	12.00	24	8	3	11	2
...............................................................................................AATACAGGATATTCGTTCTTGT.........................................................	22	1	2	7.50	15	12	1	1	1
..............................................................................................AAATACAGGATATTCGTTCT............................................................	20	0	2	5.50	11	6	5	0	0
...............................................................................................AATACAGGATATTCGTTCTT...........................................................	20	0	2	4.50	9	6	3	0	0
...............................................................................................AATACAGGATATTCGTTCTTGAA........................................................	23	1	2	4.00	8	6	1	1	0
..............................................................................................AAATACAGGATATTCGTTCTTT..........................................................	22	1	2	3.50	7	7	0	0	0
...............................................................................................AATACAGGATATTCGTTCTTGAT........................................................	23	1	2	2.50	5	5	0	0	0
..............................................................................................AAATACAGGATATTCGTTCTTGTA........................................................	24	2	2	2.00	4	4	0	0	0
.................................................................................................TACAGGATATTCGTTCTTGAG........................................................	21	0	2	2.00	4	2	1	0	1
...............................................................................................AATACAGGATATTCGTTCTTGAG........................................................	23	0	2	1.50	3	2	0	0	1
...............................................................................................AATACAGGATATTCGTTCTTGAAA.......................................................	24	2	2	1.50	3	1	1	0	1
..............................................................................................AAATACAGGATATTCGTTCTTGA.........................................................	23	0	2	1.50	3	3	0	0	0
.................................................................................................TACAGGATATTCGTTCTTGAGTTT.....................................................	24	1	2	1.00	2	2	0	0	0
..............................................................................................AAATACAGGACATTCGTTCTTG..........................................................	22	1	2	1.00	2	2	0	0	0
.................................................................................................TACAGGATATTCGTTCTTGAGTT......................................................	23	1	2	1.00	2	1	1	0	0
....................................................................................TCTTTACATAAAATACAGGATATTCG................................................................	26	1	1	1.00	1	0	0	1	0
..............................................................................................AAATACAGGATATTCGCTGTT...........................................................	21	2	2	0.50	1	1	0	0	0
...............................................................................................ACTACAGGATATTCGTTCTCG..........................................................	21	2	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGTTATT...........................................................	21	1	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCATTCTTG..........................................................	22	1	2	0.50	1	0	0	0	1
.................................................................................................TACAGGATATTCGTTCTTGAGTAT.....................................................	24	2	2	0.50	1	1	0	0	0
..............................................................................................ACATCCAAGATATTCGTTCTTG..........................................................	22	3	2	0.50	1	0	1	0	0
.................................................................................................TACAGGATATTCGTTCTTGAGTTTT....................................................	25	2	2	0.50	1	0	1	0	0
...............................................................................................AATACAGGATATTCGCTCTTGA.........................................................	22	1	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGCTGTTG..........................................................	22	2	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGTTCTTGAA........................................................	24	1	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGTTGTTG..........................................................	22	1	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGTTCTTGAAT.......................................................	25	2	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGTTC.............................................................	19	0	2	0.50	1	0	1	0	0
..............................................................................................AAATACAGGATATTCGTTGTT...........................................................	21	1	2	0.50	1	1	0	0	0
...............................................................................................AATACGGGATATTCGTTCTTG..........................................................	21	1	2	0.50	1	0	0	1	0
.................................................................................................TACAGGATATTCGTTCTTGAGTA......................................................	23	2	2	0.50	1	1	0	0	0
...............................................................................................AATACAGGATATTCGTTCTTGAGC.......................................................	24	0	2	0.50	1	0	0	1	0
.................................................................................................TACAGGATATTCGTTCTTGAGCTA.....................................................	24	1	2	0.50	1	1	0	0	0
...............................................................................................AATACAGGATATTCGTTCTTAA.........................................................	22	1	2	0.50	1	1	0	0	0
.................................................................................................TACAGGATATTCGTTCTTGAGCTT.....................................................	24	0	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGTTCCTGT.........................................................	23	2	2	0.50	1	1	0	0	0
................................................................................................ATACAGGATATTCGTTCTT...........................................................	19	0	2	0.50	1	0	0	1	0
...............................................................................................AATACAGGATATTCGTTCGTGA.........................................................	22	1	2	0.50	1	1	0	0	0
..............................................................................................AAATCCAGGATATTCGTTCTT...........................................................	21	1	2	0.50	1	1	0	0	0
...............................................................................................AATACAGGATATTCGTTGTTGA.........................................................	22	1	2	0.50	1	1	0	0	0
.................................................................................................TACTGGATATTCGTTCTTGAGC.......................................................	22	1	2	0.50	1	1	0	0	0
................................................................................................ATACAGGATATTCGTTCTTGAGTACA....................................................	26	3	2	0.50	1	1	0	0	0
.................................................................................................TACAGGATATTCGTTCTTGAGCTTTT...................................................	26	2	2	0.50	1	1	0	0	0
...............................................................................................AATACAGGATATTCGGTCTTG..........................................................	21	1	2	0.50	1	0	0	0	1
..............................................................................................AAATACAGGATATTCGTTCTTGAT........................................................	24	1	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGTTTTTG..........................................................	22	1	2	0.50	1	1	0	0	0
..............................................................................................AGATACAGGATATTCGTTCTT...........................................................	21	1	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATATCCGTTCTTGT.........................................................	23	2	2	0.50	1	1	0	0	0
.................................................................................................TACAGGATATTCGTTCTTGAGT.......................................................	22	1	2	0.50	1	1	0	0	0
..............................................................................................AAATACAGGATCTTCGTTCTTG..........................................................	22	1	2	0.50	1	1	0	0	0
...............................................................................................AATACAGGATATTCGTTA.............................................................	18	1	3	0.33	1	0	1	0	0
...............................................................................................AAATCAGGATATTCGTTCTTGAA........................................................	23	3	3	0.33	1	1	0	0	0
..............................................................................................AAATACAGGATATTCGTTATTGT.........................................................	23	2	3	0.33	1	1	0	0	0

TATACAAATTTATTTTTTCTTGCTTACATACTTCAATTTTTTGCTTTAGTACGATCTAGTTCTTGTTTATAGTACATTTAACGAAAAAATGTATTTTATGTCCTATAAGCAAGAACTCGAATTACCAATATCTCGACGTTCTTTTTAACACTTTAAAAAATGTTTATAATTCTT *********************************..........((((((...((.((((((((.(((((((((((((.......))))))).........)))))).)))))))).))..))))))...........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V113 male body	V114 embryo
..........TGTTTTATCTTGCTTATATAC...............................................................................................................................................	21	3	15	0.13	2	1	1

Species	Coordinate	ID	Type	Alignment
droSec2	scaffold_4:2464959-2465132 +	dse_231	candidate-rescued	ATATGTTTAAATAAAAAAGAA-------------------------------------CGA--------------ATGTATGAAGTTAAAA----------------------------------A---ACGAAATCATGCTAGATCAAGAACAAATATCATGTAAATTGCTTTTTTACATAAAATACAGGATATTCGTTCTTGAGCTTAATGGTTATAGAGCTGCAAGAAAAATTGTGA--------------AATTTTTTACAA------ATATTAAGAA-----
droSim2	x:3953731-3953901 -	dsi-mir-982b	known	TT---TTTGAATAAAAAGGAA-------------------------------------CGA--------------GTGTATGAAGTTAAAA----------------------------------A---ACAAAATCATGCTAGATCAAGAACAAATATCATGTAAATTGATTTTTTAAATCAACTACACGATATTCGTTCTTGAGCTTAATGGTTCTAGAGCTGCAAGAAAAATTGTGC--------------AATTTTTTACAA------ATATTAAGAA-----
dm3	chrX:4259806-4259973 -	dme-mir-982	Known_mirbase	ACATTTCTGAATAAAAAGGAA-------------------------------------CGA--------------ATATATCAAGTTAAAA----------------------------------A---ACGAAATCATGTTAGATCCTGGACAAATATGAAGTAAATTGTTTTTATGCATCAATTACTTGATATTCATCCTTGAACTAAATGGTTTTAGAGCTGCAAGAAAAATTGTGC--------------TATTTTTT------------CTGACAAA-----
droEre2	scaffold_4690:1630173-1630394 -	der_170	novel	ATATGATATTTTAGTCCACACAATATATAGACAAGTAATTTTGTAGGAACGAAATAAAACGATCGAACGAAATAAAAATATCAAGTTAAAA----------------------------------ATATATAAAATCATTCTAAATCATGGAAAAATATCAATTAAATTGTTT-TATTCATCAATTCATTGCTATTT-TTCGTGAATGAAATGGTTTTAGTGCTGCAACA----GTGTGTTAAAATAAATGAAAACTTTTTT-------------------------
droYak3	X:4178311-4178511 +	dya_142	candidate-rescued	ATATAAT--TTCCGTCCACAA--CA--AATACAAGTGATTTT-TAGGGACAAAATAAACCA--------------ATATATCAAGTTCAGA----------------------------------A-ATATAAAATCATGCTAGATCTTGGAAAAATATCTAATAGATGGTTTTTATACATCAATCAATTGATATTTTTCCTTGAACTAAATGGGTTTAGTGCTGCAGCAAAAATGGTGA--------------C-----TTAAAA------ATATGCCAAA-----
droEle1	scf7180000491011:2115288-2115364 +			ATACAAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACTATTGTTCTCAATTGAAATGTCAATACATTTAAAAATATAT--------------AGCTTTACATTA------ACATTTTGATGTGTA
droRho1	scf7180000779334:418790-418931 +			ATTGTATTACTTCTGCAATAA-------------------------------------TGC--------------ATATATGAAATTAAATTATTAAGAAAGATTATACTGTTTGTATTCTATACA---ATAAAATCCAAATCCATCCAATAAAAAT------------------------------------------------------------------------ACAAATGGCGC--------------TCTTCATTACACGACCTTTTATCAATAA-----

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSec2

ATATGTTTAAATAAAAAAGAA-------------------------------------CGA--------------ATGTATGAAGTTAAAA----------------------------------A---ACGAAATCATGCTAGATCAAGAACAAATATCATGTAAATTGCTTTTTTACATAAAATACAGGATATTCGTTCTTGAGCTTAATGGTTATAGAGCTGCAAGAAAAATTGTGA--------------AATTTTTTACAA------ATATTAAGAA-----	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
......................................................................................................................................................................................AAATACAGGATATTCGTTCTT....................................................................................	21	2	89.00	178	8	119	20	31
......................................................................................................................................................................................AAATACAGGATATTCGTTCTTG...................................................................................	22	2	78.50	157	28	115	9	5
.......................................................................................................................................................................................AATACAGGATATTCGTTCTTG...................................................................................	21	2	30.50	61	3	52	3	3
.......................................................................................................................................................................................AATACAGGATATTCGTTCTTGA..................................................................................	22	2	29.00	58	0	50	5	3
......................................................................................................................................................................................AAATACAGGATATTCGTTCTTGT..................................................................................	23	2	13.50	27	0	23	0	4
.........................................................................................................................................................................................TACAGGATATTCGTTCTTGAGC................................................................................	22	2	12.00	24	2	8	11	3
.......................................................................................................................................................................................AATACAGGATATTCGTTCTTGT..................................................................................	22	2	7.50	15	1	12	1	1
......................................................................................................................................................................................AAATACAGGATATTCGTTCT.....................................................................................	20	2	5.50	11	0	6	0	5
.......................................................................................................................................................................................AATACAGGATATTCGTTCTT....................................................................................	20	2	4.50	9	0	6	0	3
.......................................................................................................................................................................................AATACAGGATATTCGTTCTTGAA.................................................................................	23	2	4.00	8	0	6	1	1
......................................................................................................................................................................................AAATACAGGATATTCGTTCTTT...................................................................................	22	2	3.50	7	0	7	0	0
.......................................................................................................................................................................................AATACAGGATATTCGTTCTTGAT.................................................................................	23	2	2.50	5	0	5	0	0
......................................................................................................................................................................................AAATACAGGATATTCGTTCTTGTA.................................................................................	24	2	2.00	4	0	4	0	0
.........................................................................................................................................................................................TACAGGATATTCGTTCTTGAG.................................................................................	21	2	2.00	4	1	2	0	1
.......................................................................................................................................................................................AATACAGGATATTCGTTCTTGAG.................................................................................	23	2	1.50	3	1	2	0	0
.......................................................................................................................................................................................AATACAGGATATTCGTTCTTGAAA................................................................................	24	2	1.50	3	1	1	0	1
......................................................................................................................................................................................AAATACAGGATATTCGTTCTTGA..................................................................................	23	2	1.50	3	0	3	0	0
......................................................................................................................................................................................AAATACAGGATATTCGTTCTTGAA.................................................................................	24	2	0.50	1	0	1	0	0
......................................................................................................................................................................................AAATACAGGATATTCGTTCTTGAAT................................................................................	25	2	0.50	1	0	1	0	0
......................................................................................................................................................................................AAATACAGGATATTCGTTC......................................................................................	19	2	0.50	1	0	0	0	1
.........................................................................................................................................................................................TACAGGATATTCGTTCTTGAGTA...............................................................................	23	2	0.50	1	0	1	0	0
.......................................................................................................................................................................................AATACAGGATATTCGTTCTTGAGC................................................................................	24	2	0.50	1	0	0	1	0
.........................................................................................................................................................................................TACAGGATATTCGTTCTTGAGCTA..............................................................................	24	2	0.50	1	0	1	0	0
.........................................................................................................................................................................................TACAGGATATTCGTTCTTGAGCTT..............................................................................	24	2	0.50	1	0	1	0	0
........................................................................................................................................................................................ATACAGGATATTCGTTCTT....................................................................................	19	2	0.50	1	0	0	1	0
.........................................................................................................................................................................................TACAGGATATTCGTTCTTGAGCTTTT............................................................................	26	2	0.50	1	0	1	0	0
......................................................................................................................................................................................AAATACAGGATATTCGTTCTTGAT.................................................................................	24	2	0.50	1	0	1	0	0
.........................................................................................................................................................................................TACAGGATATTCGTTCTTGAGT................................................................................	22	2	0.50	1	0	1	0	0
.......................................................................................................................................................................................AATACAGGATATTCGTTA......................................................................................	18	3	0.33	1	0	0	0	1

droSim2

TT---TTTGAATAAAAAGGAA-------------------------------------CGA--------------GTGTATGAAGTTAAAA----------------------------------A---ACAAAATCATGCTAGATCAAGAACAAATATCATGTAAATTGATTTTTTAAATCAACTACACGATATTCGTTCTTGAGCTTAATGGTTCTAGAGCTGCAAGAAAAATTGTGC--------------AATTTTTTACAA------ATATTAAGAA-----	Size	Hit Count	Total Norm	Total	M023 Head	M024 Male-body	M025 Embryo	M053 Female-body	O001 Testis	O002 Head	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary	V044 Embryo	SRR902008 Ovary	SRR902009 Testis	SRR1275487 Male larvae	SRR1275485 Male prepupae	SRR1275483 Male prepupae
......................................................................................................................................................................................AACTACACGATATTCGTTCTTG...................................................................................	22	1	7339.00	7339	140	4416	1450	8	265	4	44	38	22	22	561	38	0	331	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTGT..................................................................................	23	1	140.00	140	5	110	7	0	0	0	0	0	0	0	13	0	0	5	0	0	0
..........................................................................................................................................................................................ACACGATATTCGTTCTTG...................................................................................	18	1	135.00	135	0	0	0	0	1	0	0	0	0	0	134	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTT....................................................................................	21	1	131.00	131	0	3	0	1	23	1	6	6	0	2	55	1	0	33	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTC......................................................................................	19	1	115.00	115	0	0	0	0	106	1	0	0	0	0	7	0	0	1	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCT.....................................................................................	20	1	103.00	103	0	2	1	0	54	1	0	0	0	0	41	1	0	3	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTCTTG...................................................................................	21	1	93.00	93	0	31	0	0	48	0	0	1	0	0	6	0	0	7	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTGA..................................................................................	23	1	69.00	69	1	8	0	0	35	1	1	0	1	0	0	0	0	22	0	0	0
.....................................................................................................................................................................................CAACTACACGATATTCGTTCTTG...................................................................................	23	1	57.00	57	2	15	9	0	1	0	0	4	1	1	0	0	0	24	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTCTTGA..................................................................................	22	1	39.00	39	0	1	0	0	9	0	0	2	0	3	2	0	0	22	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGT........................................................................................	17	1	39.00	39	0	0	0	0	0	0	0	0	0	0	39	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTT.......................................................................................	18	1	23.00	23	0	0	0	0	11	0	0	0	0	0	12	0	0	0	0	0	0
...........................................................................................................................................................................................CACGATATTCGTTCTTG...................................................................................	17	1	22.00	22	0	0	0	0	0	0	0	1	0	0	21	0	0	0	0	0	0
..........................................................................................................................................................................................ACACGATATTCGTTCTT....................................................................................	17	1	21.00	21	0	0	0	0	0	0	0	0	0	0	21	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTGG..................................................................................	23	1	17.00	17	0	15	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAATTGA....................................................................................................................	23	1	16.00	16	0	0	0	0	15	0	0	0	0	0	0	0	0	1	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTCTTGT..................................................................................	22	1	14.00	14	0	6	1	0	0	0	0	0	0	1	4	0	0	2	0	0	0
.........................................................................................................................................................................................TACACGATATTCGTTCTTG...................................................................................	19	1	12.00	12	0	1	1	0	0	0	0	0	0	0	10	0	0	0	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTC......................................................................................	18	1	11.00	11	0	0	0	0	11	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................ACGATATTCGTTCTTG...................................................................................	16	1	11.00	11	0	0	0	0	0	0	0	0	0	0	11	0	0	0	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTCT.....................................................................................	19	1	7.00	7	0	0	0	0	7	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAATTG.....................................................................................................................	22	1	7.00	7	0	0	0	0	5	0	0	0	0	1	0	0	0	1	0	0	0
.............................................................................................................................................................................................CGATATTCGTTCTTG...................................................................................	15	1	7.00	7	0	0	0	0	0	0	1	1	1	0	4	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTT...................................................................................	22	1	6.00	6	0	3	0	0	0	0	1	0	0	0	1	1	0	0	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAATT......................................................................................................................	21	1	5.00	5	0	0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................ACACGATATTCGTTCT.....................................................................................	16	1	5.00	5	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTCTTGTA.................................................................................	23	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTGC..................................................................................	23	1	4.00	4	0	2	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0
........................................................................................................................................................................................CTACACGATATTCGTTCTTG...................................................................................	20	1	3.00	3	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAA.........................................................................................................................	18	1	3.00	3	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAATTGC....................................................................................................................	23	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTA....................................................................................	21	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTA...................................................................................	22	1	3.00	3	0	2	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTG......................................................................................	19	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0
.....................................................................................................................................................................................CAACTACACGATATTCGTTCTT....................................................................................	22	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTCTT....................................................................................	20	1	3.00	3	0	0	0	0	2	0	0	0	0	0	1	0	0	0	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTCTTGC..................................................................................	22	1	3.00	3	0	0	1	0	0	0	0	0	0	0	0	0	0	2	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAAT.......................................................................................................................	20	1	2.00	2	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTCTTGAA.................................................................................	23	1	2.00	2	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCC.....................................................................................	20	1	2.00	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
..........................................................................................................................................................................................ACACGATATTCGTTCTTGT..................................................................................	19	1	2.00	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
...........................................................................................................................................................................................CACGATATTCGTTCTT....................................................................................	16	1	2.00	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
....................................................................................................................................................................................TCAACTACACGATATTCGTTCT.....................................................................................	22	1	2.00	2	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................AATATCATGTAAATTGA....................................................................................................................	17	1	2.00	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTGAA.................................................................................	24	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTGAAA................................................................................	25	1	2.00	2	0	0	0	0	0	0	1	0	0	0	0	0	0	1	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAATTGCA...................................................................................................................	24	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTA......................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTGAAAA...............................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................CTACACGATATTCGTTCTTGAA.................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTTGTT.................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
........................................................................................................................................................................................CTACACGATATTCGTTCT.....................................................................................	18	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................CACGATATTCGTTCT.....................................................................................	15	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGG........................................................................................	17	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................................................................................................................................................TACACGATATTCGTTCTTGAA.................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.....................................................................................................................................................................................CAACTACACGATATTCGTTCTTGA..................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.........................................................................................................................................................................................TACACGATATTCGTTCT.....................................................................................	17	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAATA......................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
..........................................................................................................................................................................................ACACGATATTCGTTC......................................................................................	15	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAA........................................................................................................................	19	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................AGAACAAATATCATGTAAATTGAAA..................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................CACGATATTCGTTCTTA...................................................................................	17	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTC..........................................................................................	15	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................................................TCAACTACACGATATTCGTTC......................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTTCTC....................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................CACGATATTCGTTCTTGT..................................................................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................ACACGATATTCGTTCTTGAA.................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.....................................................................................................................................................................................CAACTACACGATATTCGTTCT.....................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
....................................................................................................................................................................................TCAACTACACGATATTCGTTCTTG...................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTA.......................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
......................................................................................................................................................................................AACTACACGATATTCGTAA......................................................................................	19	3	0.67	2	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0
.......................................................................................................................................................................................ACTACACGATATTCGTTAA.....................................................................................	19	4	0.25	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0

dm3

ACATTTCTGAATAAAAAGGAA-------------------------------------CGA--------------ATATATCAAGTTAAAA----------------------------------A---ACGAAATCATGTTAGATCCTGGACAAATATGAAGTAAATTGTTTTTATGCATCAATTACTTGATATTCATCCTTGAACTAAATGGTTTTAGAGCTGCAAGAAAAATTGTGC--------------TATTTTTT------------CTGACAAA-----	Size	Hit Count	Total Norm	Total	GSM154618 Ovary	GSM154620 Ovary	GSM154621 Ovary	GSM154622 Ovary	GSM180328 Head	GSM180329 Mixed-body	GSM180330 Embryo	GSM180331 Embryo	GSM180332 Embryo	GSM180333 Embryo	GSM180334 Larvae	GSM180335 Disc	GSM180336 Pupae	GSM180337 S2	GSM239041 Head	GSM239050 Head	GSM239051 S2	GSM239052 S2	GSM246084 Head	GSM266765 S2	GSM280082 Ovary	GSM280083 Ovary	GSM280084 Ovary	GSM280085 Testis	GSM280086 Ovary	GSM280087 S2-NP	GSM280088 S2-NP	GSM312995 Head	GSM313160 Head	GSM313161 Head	GSM313162 Head	GSM313163 Head	GSM313164 Head	GSM313165 Head	GSM343287 Embryo	GSM379050 Ovary	GSM379051 Ovary	GSM379052 Ovary	GSM379053 Ovary	GSM379054 Ovary	GSM379055 Ovary	GSM379056 Ovary	GSM379057 Ovary	GSM379058 Ovary	GSM379059 Ovary	GSM379060 Ovary	GSM379061 Ovary	GSM379062 Ovary	GSM379063 Ovary	GSM379064 Ovary	GSM379065 Ovary	GSM379066 Ovary	GSM379067 Ovary	GSM424739 S2	GSM424740 S2	GSM424741 S2	GSM467729 Female-body	GSM467730 Female-body	GSM467731 Female-body	M002 CS	M003 Male-body	M004 Male-body	M005 ML-DmD32	M006 ML-DmD32	M029 OSC	M030 OSC	M031 OSC	M032 S2-R+	M033 S2-R+	M034 S2-R+	M035 S2-R+	M036 S2-R+	M037 S2-R+	M038 S2-R+	M039 S2-R+	M048 S2-R+	OSS2 OSS	OSS6 OSS	OSS7 OSS	OSS8 OSS	S1 Head	S10 Embryo	S11 Embryo	S12 Embryo	S13 Embryo	S14 Embryo	S15 S2-GMR	S16 Kc	S17 Larvae	S18 Larvae	S19 Pupae	S2 Head	S20 Pupae	S21 Disc	S22 Head	S23 Female-body	S24 Male-body	S25 Larvae	S26 Larvae	S27 Pupae	S28 Pupae	S29 Head	S3 Male-body	S30 S2-GMR	S31 S2	S32 S2	S33 Kc	S34 Kc	S35 Kc	S4 Female-body	S5 Disc	S6 Embryo	S7 Embryo	S8 S2	S9 Embryo	SRR001337 Head	SRR001338 Head	SRR001339 Head	SRR001340 Head	SRR001341 Head	SRR001342 Head	SRR001343 Head	SRR001344 Head	SRR001345 Head	SRR001346 Head	SRR001347 Head	SRR001348 Head	SRR001349 Head	SRR001664 Head	SRR010951 Ovary	SRR010952 Ovary	SRR010953 Ovary	SRR010954 Ovary	SRR010955 Ovary	SRR010956 Ovary	SRR010957 Ovary	SRR010958 Ovary	SRR010959 Ovary	SRR010960 Ovary	SRR014268 Embryo	SRR014269 Embryo	SRR014270 Embryo	SRR014271 Embryo	SRR014272 Embryo	SRR014273 Ovary	SRR014274 Ovary	SRR014275 Ovary	SRR014276 Ovary	SRR014277 Ovary	SRR014278 Ovary	SRR014279 Ovary	SRR014280 Ovary	SRR014281 Ovary	SRR014282 Ovary	SRR023197 S2	SRR023399 S2	SRR023400 S2	SRR023402 S2	SRR023407 S2	SRR029028 S2	SRR029029 S2	SRR029030 S2	SRR029031 S2	SRR029032 S2	SRR029033 S2	SRR029608 Head	SRR029633 Head	SRR030145 gb3	SRR031692 Head	SRR031693 Head	SRR031694 Head	SRR031696 Head	SRR031697 Head	SRR031698 Head	SRR031699 Head	SRR031700 Head	SRR031701 Head	SRR031702 Head	SRR031703 Head	SRR031704 Head	SRR032092 S2	SRR032093 S2	SRR032094 S2	SRR032095 S2-NP	SRR032096 S2-NP	SRR032152 Head	SRR060643 Testis	SRR060644 Ovary	SRR060645 Testis	SRR060646 Ovary	SRR060647 Ovary	SRR060648 Ovary	SRR060649 Ovary	SRR060650 Testis	SRR060651 Ovary	SRR060652 Testis	SRR060653 Ovary	SRR065151 Ovary	SRR065152 Ovary	SRR065153 Ovary	SRR065154 Ovary	SRR065155 Ovary	SRR065800 Ovary	SRR065801 Ovary	SRR065802 Ovary	SRR065803 Ovary	SRR065804 Ovary	SRR065805 Ovary	SRR065806 Ovary	SRR065807 Ovary	SRR097865 S2-NP	SRR097866 S2-NP	SRR097867 S2-NP	SRR298536 Ovary	SRR298537 Ovary	SRR298711 Ovary	SRR298712 Ovary	SRR317110 Ovary	SRR317111 Ovary	SRR317112 Ovary	SRR317113 Ovary	SRR317114 Ovary	SRR317115 Ovary	SRR317116 Ovary	SRR317117 Ovary	SRR341115 S2	SRR341116 S2	SRR341117 S2	SRR341118 S2	SRR351332 Mixed-body	SRR351333 Mixed-body	T004 OSC	T005 CME-L1	V001 Embryo	V002 Embryo	V003 S2	V006 Female-body	V007 Head	V008 S2	V009 CME-L1	V010 ML-DmD20-C5	V011 Sg4	V012 Male-body	V013 Head	V014 DTT	V015 DreRFHV	V018 Kc167	V019 GM2	V020 S2-R+	V021 ML-DmD21	V022 ML-DmD32	V023 Head	V024 Kc167	V025 S2-R+	V026 1182-2H	V027 ML-DmD21	V028 CME-W1-Cl.8+	V029 ML-DmD9	V030 ML-DmD8	V031 GM2	V032 S1	V033 CME-W1-Cl.8+	V034 ML-DmD16-C3	V035 ML-DmD32	V036 ML-DmD20-C5	V037 S2	V038 S2	V063 Ovary	V0632 Ovary	V064 Ovary	V0642 Ovary	V065 Ovary	V0652 Ovary	V066 Ovary	V0662 Ovary	V067 S2-NP	V073 mbn2	V074 S3	V075 ML-DmBG1-C1	V076 ML-DmBG3-C2	V077 Head	V078 Head	V079 Head	V080 Head	V081 Embryo	V082 Embryo	V083 Male-body	V084 Female-body	V085 CME-W2	V086 Female-body	V088 Ovary	V0882 Ovary	V089 Ovary	V0892 Ovary	V090 Male-body	V091 fGS/OSS	V092 Male-body	V093 Male-body	V094 S2-R+	V095 S2-R+	V096 Ovary	V097 Ovary	V098 Ovary	V125 ML-DmD9	V126 CME-L1	V127 G2	V128 S3	V129 ML-DmBG1-C1	V130 ML-DmBG3-C2	V131 ML-DmD16-C3	V132 ML-DmD32	V133 Sg4	V134 ML-DmD8	V135 CME-W2	V136 Male-body	V137 Head	V138 Male-body	V139 Female-body	V140 Female-body	V141 Female-body	V142 Female-body	V144 OSC	V145 S2	V146 S1	V147 1182-2H	V148 mbn2	GSM1528798 follicle cells
.................................................................................................................................................TCCTGGACAAATATGAAGTAAAT.......................................................................................................................	23	1	12829.00	12829	0	0	0	0	0	0	0	0	0	0	0	12	0	1	0	0	0	0	0	0	15	0	0	39	0	0	3	0	0	0	0	0	0	0	0	1	2	0	1	0	0	3	3	1	0	1	0	0	3	1	8	7	1	0	14	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	9	7	5	5	1	2	0	1	0	1	0	4	1	3	7	0	0	80	0	0	31	0	0	2	20	0	5	2	1	7	0	1	2	0	109	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	1	0	1	1	4	3	9	5	0	1	0	1	0	0	7	0	0	0	1	3	1	2	0	0	0	0	1	6	0	1	0	1	0	7	0	0	4	0	6	0	0	346	4	825	2	0	0	0	272	0	889	1	0	0	0	0	0	12	14	0	0	0	0	0	0	21	0	0	4	6	453	19	6	11	8	27	16	9	32	26	29	0	0	42	2	0	0	0	5	4	2	1	0	0	1	0	0	7	0	0	2	6	0	0	6	3	0	34	0	9	18	1	287	0	2	18	1	8	18	5	0	0	56	99	12	42	126	395	27	86	0	5	5	7	3269	0	6	0	2	202	62	39	14	0	0	15	28	21	21	101	9	66	90	1	13	0	38	74	2226	11	21	8	3	1383	19	16	1	10	0	9	2	32	2	1	4	1	3	12	18	101	4	0
.................................................................................................................................................TCCTGGACAAATATGAAGTAAATT......................................................................................................................	24	1	11056.00	11056	0	0	0	0	0	0	0	0	0	1	0	10	0	0	0	0	0	0	0	0	23	1	0	0	0	0	2	0	0	0	0	0	0	0	0	0	1	2	2	1	1	1	11	4	0	1	2	4	3	3	35	11	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	7	5	4	8	0	5	0	0	9	0	0	2	1	0	4	1	0	106	1	1	14	1	0	5	3	0	1	5	0	11	0	3	7	0	66	0	2	0	11	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	2	0	0	0	0	0	1	1	0	2	1	2	0	5	0	3	3	8	7	4	0	1	2	0	0	0	0	0	0	0	9	3	1	0	1	0	0	1	10	2	0	0	1	0	7	0	0	0	0	0	0	1	277	0	357	4	0	0	0	54	0	355	0	0	0	0	0	0	18	10	0	0	0	0	0	0	16	11	0	3	30	371	11	29	35	19	37	66	27	46	39	29	0	0	56	3	0	0	0	1	6	0	6	0	1	3	0	1	1	0	4	0	19	0	0	5	5	0	28	0	5	14	1	281	0	2	14	0	8	26	3	0	0	33	55	9	23	105	349	43	136	0	1	3	4	2784	1	1	1	1	103	22	8	22	2	0	16	34	11	16	21	1	16	29	0	8	1	39	59	3364	2	20	3	3	691	5	9	0	4	0	4	0	18	4	4	4	4	3	8	35	88	0	0
.................................................................................................................................................TCCTGGACAAATATGAAGTAAA........................................................................................................................	22	1	4439.00	4439	0	0	0	0	0	1	0	0	0	0	0	3	0	0	0	0	0	0	0	0	3	2	0	24	0	0	2	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	2	5	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	2	1	1	2	0	1	0	0	0	0	0	1	2	3	2	1	1	21	0	0	35	0	0	0	6	2	2	2	0	1	3	0	1	0	21	1	0	0	7	0	0	0	0	0	0	0	0	0	0	0	0	1	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	2	0	0	0	0	1	0	0	0	0	6	0	0	1	0	0	0	1	0	0	0	0	0	3	0	2	0	0	0	3	0	0	0	0	2	0	1	124	1	321	0	0	0	0	138	0	297	0	0	0	0	0	0	1	6	0	0	0	0	0	0	3	1	1	0	1	135	0	2	7	4	23	6	8	9	11	9	0	0	23	1	0	0	0	0	0	0	0	0	0	2	1	1	4	0	0	1	3	0	0	2	0	0	7	0	7	4	1	102	0	0	11	0	0	2	2	0	0	13	32	9	14	26	104	12	38	2	2	0	3	1230	2	0	0	0	48	21	19	2	0	0	1	5	5	5	42	4	27	32	0	3	1	9	29	659	4	5	1	0	469	3	4	0	1	0	6	0	21	0	1	0	0	0	2	7	43	2	0
.................................................................................................................................................TCCTGGACAAATATGAAGTAA.........................................................................................................................	21	1	2677.00	2677	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	11	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	2	4	2	1	0	3	0	0	0	0	0	3	1	0	2	1	0	15	0	0	20	0	0	2	6	0	4	4	4	2	10	1	0	0	11	0	0	2	3	0	1	0	0	0	0	0	0	0	0	0	0	2	1	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	6	0	0	0	0	6	0	1	0	0	0	0	0	6	0	1	0	1	0	0	0	0	0	0	0	0	0	73	1	165	1	0	0	0	41	0	97	5	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	4	29	1	0	3	3	10	3	10	3	7	5	0	0	8	0	0	0	0	0	0	0	1	0	0	0	0	1	1	0	0	0	4	0	0	1	1	0	4	0	2	3	0	97	0	1	6	1	1	3	0	0	0	9	12	3	4	8	16	4	3	0	0	0	1	939	2	2	1	1	6	9	5	0	0	0	0	1	0	1	10	7	5	8	0	0	0	1	0	449	0	3	0	1	379	0	7	1	0	1	0	0	2	0	0	0	0	6	0	5	23	2	0
.................................................................................................................................................TCCTGGACAAATATGAAGTA..........................................................................................................................	20	1	1342.00	1342	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	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	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	2	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	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	2	0	0	4	0	17	0	0	0	0	3	0	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	16	1	0	0	0	1	1	2	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	5	0	0	0	0	0	3	0	2	0	0	79	0	1	6	0	1	2	1	0	0	2	2	0	0	0	9	0	3	0	1	0	0	414	3	0	1	3	1	2	0	0	0	0	1	0	0	0	6	2	1	3	0	2	0	0	0	426	2	0	1	0	261	4	2	0	0	0	1	1	1	0	0	0	1	1	0	2	18	0	0
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...................................................................................................................................................CTGGACAAATATGAAGTAA.........................................................................................................................	19	1	6.00	6	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	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	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	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	2	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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.................................................................................................................................................TCCTGGACAAATATGAAGTT..........................................................................................................................	20	1	5.00	5	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	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	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	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	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	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0

droEre2

ATATGATATTTTAGTCCACACAATATATAGACAAGTAATTTTGTAGGAACGAAATAAAACGATCGAACGAAATAAAAATATCAAGTTAAAA----------------------------------ATATATAAAATCATTCTAAATCATGGAAAAATATCAATTAAATTGTTT-TATTCATCAATTCATTGCTATTT-TTCGTGAATGAAATGGTTTTAGTGCTGCAACA----GTGTGTTAAAATAAATGAAAACTTTTTT-------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
........................................................................................................................................................................................TTCATTGCTATTT-TTCGTGAAT................................................................................	22	1	41.00	41	11	1	1	1	19	8	0
........................................................................................................................................................................................TTCATTGCTATTT-TTCGTGA..................................................................................	20	1	6.00	6	0	0	0	0	4	2	0
........................................................................................................................................................................................TTCATTGCTATTT-TTCGTGAA.................................................................................	21	1	2.00	2	0	0	0	0	1	1	0
.......................................................................................................................................................................................ATTCATTGCTATTT-TTCGTGA..................................................................................	21	1	2.00	2	0	0	0	0	1	1	0
........................................................................................................................................................................................TTCATTGCTATTT-TTCGTGAATA...............................................................................	23	1	2.00	2	0	0	0	0	1	1	0
........................................................................................................................................................................................TTCATTGCTATTT-TTCGTGAATT...............................................................................	23	1	1.00	1	0	0	0	0	0	1	0
........................................................................................................................................................................................TTCATTGCTATTT-TTCGTG...................................................................................	19	1	1.00	1	0	0	0	0	0	1	0

droYak3

ATATAAT--TTCCGTCCACAA--CA--AATACAAGTGATTTT-TAGGGACAAAATAAACCA--------------ATATATCAAGTTCAGA----------------------------------A-ATATAAAATCATGCTAGATCTTGGAAAAATATCTAATAGATGGTTTTTATACATCAATCAATTGATATTTTTCCTTGAACTAAATGGGTTTAGTGCTGCAGCAAAAATGGTGA--------------C-----TTAAAA------ATATGCCAAA-----	Size	Hit Count	Total Norm	Total	M026 Head	M043 Female-body	M056 Embryo	V046 Embryo	V052 Head	V058 Head	V120 Male-body	SRR1275488 Male larvae	SRR1275486 Male prepupae	SRR1275484 Male prepupae	GSM1528802 follicle cells
.........................................................................................................................................................................................CAATTGATATTTTTCCTTGAAC................................................................................	22	1	9.00	9	0	1	8	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................AATTGATATTTTTCCTTGAAC................................................................................	21	1	6.00	6	0	1	4	1	0	0	0	0	0	0	0
.................................................................................................................................................TCTTGGAAAAATATCTAATAGAT.......................................................................................................................	23	1	3.00	3	0	1	2	0	0	0	0	0	0	0	0
.................................................................................................................................................TCTTGGAAAAATATCTAATAGATA......................................................................................................................	24	1	2.00	2	0	0	2	0	0	0	0	0	0	0	0
............................................................................................................................................................................................TTGATATTTTTCCTTGAAC................................................................................	19	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................TCTTGGAAAAATATCTAATAGAC.......................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................CTTGGAAAAATATCTAATAGATGGT....................................................................................................................	25	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................CAATTGATATTTTTCCTTGAAA................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................CAATTGATATTTTTCCTTGAA.................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................TCAATTGATATTTTTCCTTGAAA................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0

droEle1

ATACAAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACTATTGTTCTCAATTGAAATGTCAATACATTTAAAAATATAT--------------AGCTTTACATTA------ACATTTTGATGTGTA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

ATTGTATTACTTCTGCAATAA-------------------------------------TGC--------------ATATATGAAATTAAATTATTAAGAAAGATTATACTGTTTGTATTCTATACA---ATAAAATCCAAATCCATCCAATAAAAAT------------------------------------------------------------------------ACAAATGGCGC--------------TCTTCATTACACGACCTTTTATCAATAA-----	Size	Hit Count	Total Norm	Total
No Reads

dse_231

scaffold_4:2465009-2465082 +

Known Ortholog

Testes-restricted

3pUTR

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

-22.0	-21.9	-21.7