dvi_2109

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TCCAACAGCCCATTGCCACTTCGCTGCAAATGGCTGAATCCAGGTTTAGGGTATATCGTCTCGGACAAATCGAAGACGGATTCAAACACTCCAAAACTTGGCTTTGGGTCGAATGACTGGTACTGACTGAGACGTCAGAAACTCTACCTTGAACAAAGACCTCTAAATTAAGACTACTGACAGCCAAGTCGGATCATTCGCCAACCTGTACAACGAACGCTTGCAGCAAGGCCTAATTGAGAGGTGTGCAG ************************************************.....((((((..((....))..))))))..........(((...((((((((...((((........(((((((((......)))))......)))).........))))(((......)))........)))))))).)))........************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M061 embryo	SRR1106730 embryo_16-30h	M047 female body	SRR060682 9x140_0-2h_embryos_total	GSM1528803 follicle cells	M027 male body	SRR060684 140x9_0-2h_embryos_total
........................................................................................................................................AGAATCTCTACCATGAACAAAA.............................................................................................	22	3	2	1.00	2	1	1	0	0	0	0	0
......AGCCCATTGCCACTTCGCTGCA...............................................................................................................................................................................................................................	22	0	7	0.14	1	0	0	1	0	0	0	0
.......................................................................................................................................................................................CAATGTCGGATCATTCTCC.................................................	19	3	20	0.10	2	0	0	0	0	0	1	1
....................................................................................................................................................................................................TACGCCAACCTGTTCACCG....................................	19	3	10	0.10	1	0	0	1	0	0	0	0
..................................................................................................................................................................................GACAGTCAAGACGGTTCAT......................................................	19	3	14	0.07	1	0	0	0	1	0	0	0
..................................................................................................................................................CCTTTAAGAAGGACCTCTA......................................................................................	19	3	20	0.05	1	0	0	0	0	1	0	0

AGGTTGTCGGGTAACGGTGAAGCGACGTTTACCGACTTAGGTCCAAATCCCATATAGCAGAGCCTGTTTAGCTTCTGCCTAAGTTTGTGAGGTTTTGAACCGAAACCCAGCTTACTGACCATGACTGACTCTGCAGTCTTTGAGATGGAACTTGTTTCTGGAGATTTAATTCTGATGACTGTCGGTTCAGCCTAGTAAGCGGTTGGACATGTTGCTTGCGAACGTCGTTCCGGATTAACTCTCCACACGTC ************************************************.....((((((..((....))..))))))..........(((...((((((((...((((........(((((((((......)))))......)))).........))))(((......)))........)))))))).)))........************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V116 male body	SRR060668 160x9_males_carcasses_total	SRR060664 9_males_carcasses_total	V053 head	SRR060682 9x140_0-2h_embryos_total	SRR060676 9xArg_ovaries_total	SRR060673 9_ovaries_total	SRR060662 9x160_0-2h_embryos_total	SRR060681 Argx9_testes_total	M047 female body	SRR060655 9x160_testes_total	SRR060658 140_ovaries_total	M027 male body	M028 head
........................CCGTTTACCGACTTAGGTCCAA.............................................................................................................................................................................................................	22	1	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................TTTGAGATGGAGCTTGAT...............................................................................................	18	2	4	1.00	4	0	0	0	0	0	2	1	1	0	0	0	0	0	0
.................................................................................................................................................................................................................TGTTGCTTGCGAACGTCGTTC.....................	21	0	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................ACATGTTGCTTGCGGACGTCGTT......................	23	1	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................CTGCAGTCTTTGAGATGGAAC....................................................................................................	21	0	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0
................................................CCCTTATAGCAGCTCCTGTTT......................................................................................................................................................................................	21	3	2	0.50	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................CAGTCTTTGAAATGGAAGTTC.................................................................................................	21	3	3	0.33	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................................................CAGTCTTTGAAATGGAAGT...................................................................................................	19	2	3	0.33	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0
........GGGTAACGGTGAAGCGACGTT..............................................................................................................................................................................................................................	21	0	8	0.25	2	0	0	0	0	0	0	0	0	0	0	1	1	0	0
........................................................................................................................................TCTTGGAGATGGTACTGGTT...............................................................................................	20	3	4	0.25	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................GTGCAGTCTTTGCGATGC.......................................................................................................	18	3	20	0.20	4	1	1	0	0	0	0	0	0	0	0	0	0	1	1
.......................................................................................................................................CTCTTAGAGATGGTACTTGT................................................................................................	20	3	5	0.20	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0
.......CTGGTAACGGTGAAGCGACGTT..............................................................................................................................................................................................................................	22	1	7	0.14	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0
..................................................................................................................................................................................CTGTCGTTTCAGCCTAGTAA.....................................................	20	1	8	0.13	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0
........GGGTAACGGTGAAGCGACGT...............................................................................................................................................................................................................................	20	0	8	0.13	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0
...TGGTCGGGTAAGGATGAAGC....................................................................................................................................................................................................................................	20	3	8	0.13	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................ATCGAAATTGTTTCCGGAGA.......................................................................................	20	3	9	0.11	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0

Species	Coordinate	ID	Alignment
droVir3	scaffold_12736:358875-359125 +	dvi_2109	TCCAACAGCCCATTGCCACTTCGCTGCAAA-------------------TGGCTGAATCCAGGTTTAGGGTATATCGTCTCGGACAAATCGAAGACGGATTCAAACACTCCAAAACTTGGCTTTGGGTCGAATGACTGGTACTGACTGAGACGTCAGAAACTCTACCTTGAACAAAGACCTCTAAATTAAGACTACTGACAGCCAAGTCGGATCATTCGCCAACCTGTACAACGAACGCTTGC-AGCAAG---------GCCTAATTGAGAGGTGTGCAG
droMoj3	scaffold_6680:24185896-24186086 +		C-----------------------------------------------------------AAGTTTGGGGAGTCGCCGCAAAGAGTAACCGACAAAAGATCCAGATAATGCAGAACAAGGCCTTGCGCCAAATCACTGGATGCCCCTGGTTCGTAAGAAACTCTTCCTTGCATAGAGATCTCAAAATGGATTCAGTGGAAGAGCAGATCTCATTTCATTCAAGCCGGTATAATGACCGCCTCA-AGTCCCA-----------------------------
droWil2	scf2_1100000004902:2369136-2369314 -		C-----------------------------------------------------------AGATCTGGGGAATTTCGGCTCAATCCAACTACAAACGCATACAGGTGCTCCAAAATCGCGCTGCGCGGCAAATAACGAACTGTCCATGGTATGTGCGTGGATCCACACTACACCGTGACCTCAACCTGCACACAGTGGAGGAACAGATCGGTAGACACACCAGCAGATATAGCGACCG------------------------------------------
dp5	Unknown_group_108:9257-9430 -		C-----------------------------------------------------------AGATTTGGGGTATAGCTGCAAAAACGAACTACAAACGGATACAGGTCCTGCAGAATCGCGCCATGCGGCAAATAACGAACT--GCCTGATACGTGCGAGGCTCCACCCTACATCGGGACTTGAATCTGCATACAGTAGAGGAGCAGATTGGAAGACACACCAGCAGATACAGTGA---------------------------------------------
droPer2	scaffold_43:296703-296822 -		C-----------------------------------------------------------AGATTTGGGGTATAGCTGCAAAAACGAACTACAAACGGATACAGGTCCTGCAGAATCGCGCCATGCGGCAAATAACGAACT--GCCTGGTACGTGCGAGGCTCCACCCTACATCGGGACTT---------------------------------------------------------------------------------------------------
droAna3	scaffold_621:871-1058 +		T-----------------------------------------------------GCATTCAGATATGGGGCATGGCTTCTGACACAAATGTCATGAAAGTGCAAAAAACCCAAAACCGAGCGCTTCCCATGATGGCAAACGCGCCTTGGTATGTTCGAAACGACCCCCTAACAAATGATCTCCACATTCCCTCCATTAAAAAACAGATCAACCGTCACTCCAGTCGCCACAACGATCGCCT---------------------------------------
droKik1	scf7180000302809:3211-3425 +		TCAATTG-----TTGTGCCTTCGA---------------------TGACTTACTGCATCCAATTGTGGGGCATGGCTTCTGACTCGAACGTCATGAAGGTGCAAAGAGTCCAAAACCGGGCGCTGCGCTTGATTGCTAATGCCCCCTGGTACGTTAGAAATAAAGCCTTGGCAAGTGACCTCCACATTCCCTCTATCAGGGAGCAGATCAACCGGCATTCAAGTCGGTATAACGAACGTCT---------------------------------------
droRho1	scf7180000774055:2413-2598 -		CT----------------------------------------------------GCATCCAATTATGGGCCATGGCTTCAGACTCTAATGTGGTTAAAGTTCAAAGAGTCCAAAACCGGGCGCTGCGAAGGATTGCAAATGCGCCATGGTACATCAGGAACGACGCCCTAGGAAATGACCTCCACATTCCTTCTGTCAGGGAACAGATAAACCGCCACTCGAGTCGGTAGAACGATCG------------------------------------------
droBia1	scf7180000302113:1605710-1605896 +		G------------------------------------------------------AATCCAAATTTGGGGAGTGGCGGCTGCGTCCCACCGAAAACGTTTCCAAACCGTCCAGAACAAAACATTAAGACGAATCACTGGCTGTGAGTGGTTCGTTAGCGGCCAAACGCTTCACAATGACCTAAACCTGAGTCTTGTTGAAGACCAAATATCGTTCTTCTCAAGCAGGTACAACGACCGTCT---------------------------------------
droTak1	scf7180000415403:42619-42807 +		CT----------------------------------------------------GCATCCAACTTTGGGGCATGGCTTCCGACTCTAACGTCATGAAGGTCCAAAGAGTCCAAAATAGGGCGCTGCGAACAATCACGAATGCGCCGTGGTACGTCAGAAACATAGACCTAGCCAACGATCTCCACATGCCCTCGGTCAGGGATCAGATTAACCGGCACTCGAGTCGGTACAACGAACGCCT---------------------------------------
droEug1	scf7180000407587:3869-4017 +		A--------------------------------------------------------------------------------------------------TTCAAAAGGTTCAAAGCCGGGCGTTGCGCATGATTGCAAATGCGCCTTGGTACGTCAGAAACAAAGCTCTAGAAGATGACCTCCACATTCCCTCTATTAGGGAACAGATAAACAGGCACTCGAGTCGGTACAACGAACGTCTCACAGC---------------------------------
dm3	chrX:22128192-22128376 -		G------------------------------------------------------GATCCAGATTTGGGGAATTGCAGCCAAATCT----TAATCCAAATCCAGGTGATGCAAAATCGTGCATTACGACAAACAACCAACTGTGACTGGTATGCACGTAACTCCACACTCCATAAAGACCTCAATCTTCACACAGTTGAGGCACAAATTGGGAGACCCACAAGTCGATACAGTGACAGATTAC-------------------------------------
droSim2	node_15426:1000-1181 +		A--------------------------------------------------------TCCAAATTTGGGGAGTGGCGGCTGCGTCCCACCGAAAACGATTCCAAACCGTCCAGAACAAAACATTAAGACAAATCACTGGCTGTGACTGGTTCGTTAGCGGCCAAACGCTTCACAATGATTTAAACCTGAGCCTTGTTGAAGACCAAATCTCGTTCTTCTCAAGCAGATACAACGATCG------------------------------------------
droSec2	scaffold_112:70340-70563 -		ATGG---------------------------------------------------TTGTCAGATTTGGGGCTTGGCTTGCGACAGGTAAATTCGCCGCATTCAGGCTGCCCAAAACAAAATCGCCAGGACAATTACCGGCTGCGAATGGTACGTAAGGAACTCAACCCTGCACAAAGACCATAAGCTAGCCACTGTCTTTGAGGCAATAAACATGCACTCTAGCCGGTACCACGACAGGCTAG-AGCGCCACAGAAATCGCCTAGCCAAG----GCACTG
droYak3	2L:19414168-19414349 -		A--------------------------------------------------------TCCAAATTTGGGGAGTGGCGGCTGCGTCCCACCGAAAACGATTCCAAACCGTCCAGAACAAAACATTAAGACAAATCACTGGCTGTGACTGGTTCGTTAGCGGCCAAACGCTTCACAAAGATTTAAACCTGAGCCTTGTTGAAGACCAAATCTCGTTCTTCTCAAGCAGATACAACGACCG------------------------------------------
droEre2	scaffold_4929:25423898-25424073 -		TCGCGCAGTACATTGTCACTCTCCAACAAGTTGACAATTTACAAACAGATTATAGCAC-CAAACTGAAAGTACGGGTG----------------CCAAATCCAGGCTATACAAAACAAGGTCTCAAGACTCATCACCGTCTGCGAGTGGCTTGTGCGAAACACCACCCTGCACAGAGACCTCAAAGTCGCGAC---------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

TCCAACAGCCCATTGCCACTTCGCTGCAAA-------------------TGGCTGAATCCAGGTTTAGGGTATATCGTCTCGGACAAATCGAAGACGGATTCAAACACTCCAAAACTTGGCTTTGGGTCGAATGACTGGTACTGACTGAGACGTCAGAAACTCTACCTTGAACAAAGACCTCTAAATTAAGACTACTGACAGCCAAGTCGGATCATTCGCCAACCTGTACAACGAACGCTTGC-AGCAAG---------GCCTAATTGAGAGGTGTGCAG	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
......AGCCCATTGCCACTTCGCTGCA............................................................................................................................................................................................................................................................	22	7	0.14	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

droMoj3

C-----------------------------------------------------------AAGTTTGGGGAGTCGCCGCAAAGAGTAACCGACAAAAGATCCAGATAATGCAGAACAAGGCCTTGCGCCAAATCACTGGATGCCCCTGGTTCGTAAGAAACTCTTCCTTGCATAGAGATCTCAAAATGGATTCAGTGGAAGAGCAGATCTCATTTCATTCAAGCCGGTATAATGACCGCCTCA-AGTCCCA-----------------------------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.................................................................................................................................................CTGGTTCGTAAGAAACTCTTCCTTG..............................................................................................................	25	1	7.00	7	7	0	0	0	0	0
.................................................................................................................................................CTGGTTCGTAAGAAACTCTTCCTTGC.............................................................................................................	26	1	4.00	4	3	1	0	0	0	0
.................................................................................................................................................CTGGTTCGTAAGAAACTCTTCCTTGCA............................................................................................................	27	1	4.00	4	4	0	0	0	0	0
..................................................................................................................................................TGGTTCGTAAGAAACTCTTCCTTGC.............................................................................................................	25	1	2.00	2	2	0	0	0	0	0
.............................................................................................AAAAGATCCAGATAATGCAGAACAAGG................................................................................................................................................................	27	10	1.10	11	11	0	0	0	0	0
.................................................................................................................................................CTGGTTCGTAAGAAACTCTTCCTTGCACC..........................................................................................................	29	1	1.00	1	1	0	0	0	0	0
.................................................................................................................................................CTGGTTCGTAAGAAACTCTTCCTTC..............................................................................................................	25	1	1.00	1	1	0	0	0	0	0
..............................................................................................................................................CCCCTGGTTCGTAAGAAACTCTTCC.................................................................................................................	25	1	1.00	1	1	0	0	0	0	0
..................................................................................................................................................TGGTTCGTAAGAAACTCTTCCTTG..............................................................................................................	24	1	1.00	1	1	0	0	0	0	0
.................................................................................................................................................CTGGTTCGTAAGAAACTCTTCCTT...............................................................................................................	24	1	1.00	1	0	0	0	0	0	1
.............................................................................................AAAAGATCCAGATAATGCAGAACA...................................................................................................................................................................	24	10	0.90	9	9	0	0	0	0	0
..............................................................................................................................................................................................TTCAGTGGAAGAGCAGATCTCATT..................................................................	24	9	0.56	5	5	0	0	0	0	0
..........................................................................................................................................................................................................GCAGATCTCATTTCATTCAAGCCG......................................................	24	9	0.56	5	5	0	0	0	0	0
.............................................................................................AAAAGATCCAGATAATGCAGAACAAGGCC..............................................................................................................................................................	29	10	0.50	5	5	0	0	0	0	0
.............................................................................................AAAAGATCCAGATAATGCAGAACAAGGC...............................................................................................................................................................	28	10	0.50	5	4	0	0	0	1	0
..........................................................................................................................................................................................................GCAGATCTCATTTCATTCAAGCCGG.....................................................	25	9	0.44	4	4	0	0	0	0	0
.............................................................................................AAAAGATCCAGATAATGCAGAAC....................................................................................................................................................................	23	10	0.40	4	3	0	0	0	1	0
.............................................................................................AAAAGATCCAGATAATGCAGAACAAG.................................................................................................................................................................	26	10	0.30	3	3	0	0	0	0	0
..........................................................................................................................................................................................................GCAGATCTCATTTCATTCAAGC........................................................	22	9	0.22	2	2	0	0	0	0	0
..................................................................................................................................................................................TCTCAAAATGGATTCAGTGGAAGA..............................................................................	24	9	0.22	2	2	0	0	0	0	0
..........................................................................................................................................................................................................GCAGATCTCATTTCATTCAAGCCGGTC...................................................	27	9	0.22	2	2	0	0	0	0	0
..............................................................................................................................................................................................TTCAGTGGAAGAGCAGATCTCAT...................................................................	23	9	0.22	2	1	0	0	0	0	1
..................................................................................................................................................................................TCTCAAAATGGATTCAGTGGAAGAGCAG..........................................................................	28	9	0.11	1	1	0	0	0	0	0
..........................................................................................................................................................................................................GCAGATCTCATTTCATTCAAGCCGA.....................................................	25	9	0.11	1	1	0	0	0	0	0
....................................................................................................................................................................................................................TTTCATTCAAGCCGGTATAATG..............................................	22	9	0.11	1	1	0	0	0	0	0
....................................................................................................................................................................................TCAAAATGGATTCAGTGGAAGAGCAG..........................................................................	26	9	0.11	1	0	0	0	0	0	1
.............................................................AGTTTGGGGAGTCGCCGCAAAGA....................................................................................................................................................................................................	23	9	0.11	1	1	0	0	0	0	0
................................................................................................................................................................................GATCTCAAAATGGATTCAGTGGA.................................................................................	23	9	0.11	1	1	0	0	0	0	0
...............................................................................................................................................................................AGATCTCAAAATGGATTCAGTGGAAGA..............................................................................	27	9	0.11	1	1	0	0	0	0	0
................................................................................................................................................................................GATCTCAAAATGGATTCAGTGG..................................................................................	22	9	0.11	1	1	0	0	0	0	0
.................................................................................................................................................................................................................TCATTTCATTCAAGCCGG.....................................................	18	9	0.11	1	1	0	0	0	0	0
............................................................................................................................................................................................................AGATCTCATTTCATTCAAGCCGGTA...................................................	25	9	0.11	1	1	0	0	0	0	0
...........................................................................................................................................................................................................CAGATCTCATTTCATTCAAGCCGG.....................................................	24	9	0.11	1	1	0	0	0	0	0
...............................................................TTTGGGGAGTCGCCGCAAAGAGTAACC..............................................................................................................................................................................................	27	9	0.11	1	1	0	0	0	0	0
.............................................................................................................................................................................................ATTCAGTGGAAGAGCAGATCTCA....................................................................	23	9	0.11	1	1	0	0	0	0	0
.....................................................................................................................................................................................CAAAATGGATTCAGTGGAAGAGCAG..........................................................................	25	9	0.11	1	1	0	0	0	0	0
..............................................................................................................................................................................................TTCAGTGGAAGAGCAGATCTC.....................................................................	21	9	0.11	1	0	0	0	0	1	0
............................................................................................................................................................................TAGAGATCTCAAAATGGATTCAGTGGAA................................................................................	28	9	0.11	1	1	0	0	0	0	0
..............................................................................................................................................................................................TTCAGTGGAAGAGCAGATCT......................................................................	20	9	0.11	1	1	0	0	0	0	0
...............................................................................................................................................................................................TCAGTGGAAGAGCAGATCTCATTTC................................................................	25	9	0.11	1	1	0	0	0	0	0
....................................................................................................................................................................TCCTTGCATAGAGATCTCAAAATGGAT.........................................................................................	27	9	0.11	1	1	0	0	0	0	0
........................................................................................................................................................................................AATGGATTCAGTGGAAGAGC............................................................................	20	9	0.11	1	1	0	0	0	0	0
............................................................................................................TGCAGAACAAGGCCTTGCGCCAAA....................................................................................................................................................	24	9	0.11	1	1	0	0	0	0	0
...............................................................................................................................................................................................................TCTCATTTCATTCAAGCCGGTATAAT...............................................	26	9	0.11	1	1	0	0	0	0	0
.....................................................................................................CAGATAATGCAGAACAAGGCCA.............................................................................................................................................................	22	10	0.10	1	1	0	0	0	0	0
.........................................................................................CGACAAAAGATCCAGATAATGC.........................................................................................................................................................................	22	10	0.10	1	1	0	0	0	0	0
.............................................................................................AAAAGATCCAGATAATGCAGAACAA..................................................................................................................................................................	25	10	0.10	1	1	0	0	0	0	0
..................................................................................................ATCCAGATAATGCAGAACAAGG................................................................................................................................................................	22	10	0.10	1	1	0	0	0	0	0
...........................................................................................................................TGCGCCAAATCACTGGATGCCCCTGG...................................................................................................................................	26	10	0.10	1	1	0	0	0	0	0
..............................................................................................AAAGATCCAGATAATGCAGAACAAGGCC..............................................................................................................................................................	28	10	0.10	1	1	0	0	0	0	0
...........................................................................................................................TGCGCCAAATCACTGGATGCCCCTGGTT.................................................................................................................................	28	10	0.10	1	1	0	0	0	0	0
...........................................................................................................................TGCGCCAAATCACTGGATGCCCCTGGT..................................................................................................................................	27	10	0.10	1	1	0	0	0	0	0
..................................................................................................................................AATCACTGGATGCCCCTGGTTC................................................................................................................................	22	11	0.09	1	1	0	0	0	0	0

droWil2

C-----------------------------------------------------------AGATCTGGGGAATTTCGGCTCAATCCAACTACAAACGCATACAGGTGCTCCAAAATCGCGCTGCGCGGCAAATAACGAACTGTCCATGGTATGTGCGTGGATCCACACTACACCGTGACCTCAACCTGCACACAGTGGAGGAACAGATCGGTAGACACACCAGCAGATATAGCGACCG------------------------------------------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
No Reads

dp5

C-----------------------------------------------------------AGATTTGGGGTATAGCTGCAAAAACGAACTACAAACGGATACAGGTCCTGCAGAATCGCGCCATGCGGCAAATAACGAACT--GCCTGATACGTGCGAGGCTCCACCCTACATCGGGACTTGAATCTGCATACAGTAGAGGAGCAGATTGGAAGACACACCAGCAGATACAGTGA---------------------------------------------	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
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATTG......................................................................	23	9	21.89	197	0	160	0	0	8	0	16	13	0	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATTGG.....................................................................	24	9	20.22	182	0	136	2	0	1	0	3	33	7	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATTGGA....................................................................	25	9	11.56	104	0	40	0	0	1	0	3	51	9	0
........................................................................................................................................................................TACATCGGGACTTGAATCTGCATACAG.....................................................................................	27	2	6.50	13	0	2	0	0	0	0	0	8	3	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATT.......................................................................	22	9	6.33	57	0	47	2	0	2	0	3	3	0	0
.............................................................................................................................................................................CGGGACTTGAATCTGCATACAGTAGA.................................................................................	26	2	5.50	11	0	0	0	0	0	0	0	3	8	0
........................................................................................................................................................................TACATCGGGACTTGAATCTGCATACA......................................................................................	26	2	4.00	8	0	1	0	0	0	0	0	7	0	0
.............................................................................................................................................................................CGGGACTTGAATCTGCATACAGTAG..................................................................................	25	2	3.50	7	0	0	0	0	0	0	0	3	4	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGAT........................................................................	21	9	3.44	31	0	25	0	0	2	0	2	2	0	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGA.........................................................................	20	9	2.56	23	0	15	1	0	2	0	0	5	0	0
................................................................................................................................................................CTCCACCCTACATCGGGACTTGAATC..............................................................................................	26	2	2.50	5	0	3	0	0	1	0	0	1	0	0
............................................................................................................................................................................TCGGGACTTGAATCTGCATACAGTAGA.................................................................................	27	2	2.50	5	0	0	0	0	0	0	0	4	1	0
....................................................................................................................................TAACGAACT--GCCTGATACGTGCGA..........................................................................................................................	24	1	2.00	2	0	0	0	0	0	0	0	0	2	0
.................................................................................................................................................................TCCACCCTACATCGGGACTTGAATC..............................................................................................	25	2	2.00	4	0	3	0	0	0	0	0	1	0	0
................................................................................................................................................................................................CAGTAGAGGAGCAGATTGGAAGACAC..............................................................	26	1	2.00	2	0	0	0	0	0	0	0	2	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGATTGG.....................................................................	23	9	1.67	15	0	8	0	0	0	0	0	6	1	0
............................................................................................................................................................................TCGGGACTTGAATCTGCATACAGTA...................................................................................	25	3	1.67	5	0	0	0	0	0	0	0	4	1	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATTGGAA...................................................................	26	9	1.67	15	0	8	0	0	0	0	0	7	0	0
..........................................................................................................................................................................................TGCATACAGTAGAGGAGCAGATTGGA....................................................................	26	9	1.56	14	0	0	0	0	0	0	0	9	5	0
..........................................................................................................................................................................CATCGGGACTTGAATCTGCATACAGTA...................................................................................	27	2	1.50	3	0	0	0	0	0	0	0	3	0	0
........................................................................................................................................................................TACATCGGGACTTGAATCTGCATAC.......................................................................................	25	2	1.50	3	0	1	0	0	0	0	0	0	2	0
...........................................................................................................................................................................ATCGGGACTTGAATCTGCATACAG.....................................................................................	24	2	1.50	3	0	0	0	0	0	0	0	3	0	0
..............................................................................................................................................................................GGGACTTGAATCTGCATACAGTAGAGG...............................................................................	27	2	1.50	3	0	0	0	0	0	0	0	3	0	0
.................................................................................................................................................................TCCACCCTACATCGGGACTTGAATCTG............................................................................................	27	2	1.50	3	0	3	0	0	0	0	0	0	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGATTG......................................................................	22	9	1.33	12	0	12	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TGCATACAGTAGAGGAGCAGATTGG.....................................................................	25	9	1.11	10	0	0	0	0	1	0	0	7	2	0
..............................................................................................................................................................................GGGACTTGAATCTGCATACAGTAG..................................................................................	24	2	1.00	2	0	0	0	0	0	0	0	2	0	0
...................................................................................................................................ATAACGAACT--GCCTGATACGTG.............................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................CGGGACTTGAATCTGCATACAGTAGAG................................................................................	27	2	1.00	2	0	0	0	0	0	0	0	0	2	0
...................................................................................................................................................................................................TAGAGGAGCAGATTGGAAGA.................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................TACATCGGGACTTGAATCTGCATACAGT....................................................................................	28	2	1.00	2	0	1	0	0	0	0	0	0	1	0
............................................................................................................................................................................TCGGGACTTGAATCTGCATACAGTAG..................................................................................	26	2	1.00	2	0	0	0	0	0	0	0	2	0	0
....................................................................................................................................TAACGAACT--GCCTGATACGT..............................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................CACCCTACATCGGGACTTGAATCTG............................................................................................	25	2	1.00	2	0	2	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATTGGAAG..................................................................	27	9	1.00	9	0	9	0	0	0	0	0	0	0	0
........................................................................................................................................................................TACATCGGGACTTGAATCTGCAT.........................................................................................	23	2	1.00	2	0	1	0	0	0	0	0	0	1	0
.............................................................................................................................................................................CGGGACTTGAATCTGCATACAGTA...................................................................................	24	3	1.00	3	0	0	0	0	0	0	0	3	0	0
....................................................................................................................................TAACGAACT--GCCTGATACGTGCGAGG........................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................TAACGAACT--GCCTGATACGTGCGAGGC.......................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................CATCGGGACTTGAATCTGCATACAG.....................................................................................	25	2	1.00	2	0	0	0	0	0	0	0	2	0	0
..............................................................................................................................................................................................TACAGTAGAGGAGCAGATTGG.....................................................................	21	9	0.56	5	0	0	0	0	0	0	0	4	1	0
....................................................................................................................................................................................TGAATCTGCATACAGTAGAGGAGC............................................................................	24	9	0.56	5	0	4	0	0	1	0	0	0	0	0
..........................................................................................................................................................................................TGCATACAGTAGAGGAGCAGATTG......................................................................	24	9	0.56	5	0	5	0	0	0	0	0	0	0	0
............................................................................................................................................................GAGGCTCCACCCTACATCGGGACTT...................................................................................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................CACCCTACATCGGGACTTGAATCTGC...........................................................................................	26	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................ACATCGGGACTTGAATCTGC...........................................................................................	20	2	0.50	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................GAGGCTCCACCCTACATCGGGAC.....................................................................................................	23	2	0.50	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................CTCCACCCTACATCGGGACTTGA.................................................................................................	23	2	0.50	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................CTCCACCCTACATCGGGACTTGAA................................................................................................	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................ATCGGGACTTGAATCT.............................................................................................	16	2	0.50	1	0	0	0	0	0	0	0	1	0	0
...........................................................................................................................................................................ATCGGGACTTGAATCTGCATACA......................................................................................	23	2	0.50	1	0	0	0	0	0	0	0	1	0	0
.............................................................................................................................................................................CGGGACTTGAATCTGCATACAGTAGAGG...............................................................................	28	2	0.50	1	0	0	0	0	0	0	0	0	1	0
......................................................................................................................................................................CCTACATCGGGACTTGAATCT.............................................................................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................GCTCCACCCTACATCGGGACTTGAA................................................................................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................TGCGAGGCTCCACCCTACATCGGGACTT...................................................................................................	28	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................ACATCGGGACTTGAATCTGCAT.........................................................................................	22	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................CGGGACTTGAATCTGCATACAGTAGAGGA..............................................................................	29	2	0.50	1	0	0	0	0	0	0	0	0	1	0
.......................................................................................................................................................................CTACATCGGGACTTGAATCTGCATACAG.....................................................................................	28	2	0.50	1	0	0	0	0	0	0	0	1	0	0
................................................................................................................................................................CTCCACCCTACATCGGGACTTGAAT...............................................................................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................CCACCCTACATCGGGACTTGAATCTG............................................................................................	26	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................CATCGGGACTTGAATCTGCAT.........................................................................................	21	2	0.50	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................CGAGGCTCCACCCTACATCGGGACT....................................................................................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................GGGACTTGAATCTGCATACAGTAGA.................................................................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................TACAGTAGAGGAGCAGATTGGAAG..................................................................	24	9	0.44	4	0	2	0	0	0	0	0	1	1	0
.............................................................................................................................................................................................ATACAGTAGAGGAGCAGATTGG.....................................................................	22	9	0.44	4	0	2	0	0	0	0	1	0	1	0
....................................................................................................................................................................................TGAATCTGCATACAGTAGAGGAGCAG..........................................................................	26	9	0.44	4	0	4	0	0	0	0	0	0	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGATTGGA....................................................................	24	9	0.44	4	0	3	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATA.......................................................................	22	9	0.44	4	0	3	0	0	0	0	0	1	0	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGAA........................................................................	21	9	0.33	3	0	3	0	0	0	0	0	0	0	0
............................................................................................AAACGGATACAGGTCCTGCAGAAT....................................................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................TGAATCTGCATACAGTAGAGG...............................................................................	21	9	0.33	3	0	1	0	0	0	0	0	0	2	0
.............................................................................................................................................................................CGGGACTTGAATCTGCATACAG.....................................................................................	22	3	0.33	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATTGGAAA..................................................................	27	9	0.33	3	0	3	0	0	0	0	0	0	0	0
.....................................................................................................................................................TACGTGCGAGGCTCCACCCTACAT...........................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................TCGGGACTTGAATCTGCATACAGTAGAA................................................................................	28	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAG..........................................................................	19	9	0.33	3	0	3	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................TACAGTAGAGGAGCAGATTGGA....................................................................	22	9	0.33	3	0	1	0	0	0	0	0	2	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGATT.......................................................................	21	9	0.33	3	0	3	0	0	0	0	0	0	0	0
....................................................................................................ACAGGTCCTGCAGAATCGCGCC..............................................................................................................................................................	22	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................ATACAGTAGAGGAGCAGATTGGA....................................................................	23	9	0.33	3	0	0	0	0	0	0	0	3	0	0
.........................................................................................................................................................TGCGAGGCTCCACCCTACATCGGG.......................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................TCGGGACTTGAATCTGCATACAGT....................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TGCATACAGTAGAGGAGCAGATTGGAA...................................................................	27	9	0.33	3	0	0	0	0	0	0	0	0	3	0
............................................................................................................................................................................TCGGGACTTGAATCTGCATACAG.....................................................................................	23	3	0.33	1	0	0	0	0	0	0	0	1	0	0
..................................................................................................................................................................................CTTGAATCTGCATACAGTAGAGGAA.............................................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................TGCGAGGCTCCACCCTACATCGGGA......................................................................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................CAAACGGATACAGGTCCTGCAGAAT....................................................................................................................................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGA.........................................................................	19	9	0.22	2	0	2	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................GAATCTGCATACAGTAGAGGAGC............................................................................	23	9	0.22	2	0	2	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................ACAGTAGAGGAGCAGATTGGAAG..................................................................	23	9	0.22	2	0	0	0	0	0	0	0	0	2	0
.......................................................................................................................................................................................ATCTGCATACAGTAGAGGAGC............................................................................	21	9	0.22	2	0	2	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TGCATACAGTAGAGGAGCAGATTGGAAA..................................................................	28	9	0.11	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATTGA.....................................................................	24	9	0.11	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGATA.......................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................ACAGTAGAGGAGCAGATTGGAA...................................................................	22	9	0.11	1	0	0	0	0	0	0	0	0	1	0
..............................................................................................................................................................................................TACAGTAGAGGAGCAGATTGGAA...................................................................	23	9	0.11	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATTGGT....................................................................	25	9	0.11	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................TGAATCTGCATACAGTAGAGGA..............................................................................	22	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................ATACAGTAGAGGAGCAGATTGGAAG..................................................................	25	9	0.11	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................AGAGGAGCAGATTGGAAG..................................................................	18	9	0.11	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TGCATACAGTAGAGGAGCA...........................................................................	19	9	0.11	1	0	0	0	0	0	0	0	1	0	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCAGATAA......................................................................	23	9	0.11	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................ACAGTAGAGGAGCAGATTGGA....................................................................	21	9	0.11	1	0	0	0	0	0	0	0	0	1	0
.....................................................................................................................................................................................GAATCTGCATACAGTAGAGGAGA............................................................................	23	9	0.11	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................GTAGAGGAGCAGATTGGAAG..................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGATTGGAAG..................................................................	26	9	0.11	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGAT........................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................ATACAGTAGAGGAGCAGATTG......................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................CATACAGTAGAGGAGCAGATTGGAA...................................................................	25	9	0.11	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................GCATACAGTAGAGGAGCA...........................................................................	18	9	0.11	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................TGAATCTGCATACAGTAGAG................................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................AATCTGCATACAGTAGAGGAGC............................................................................	22	9	0.11	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................CAGTAGAGGAGCAGATTGGA....................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TGCATACAGTAGAGGAGCAGATTGGAAG..................................................................	28	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................GAATCTGCATACAGTAGAGGAGCAG..........................................................................	25	9	0.11	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................CAGTAGAGGAGCAGATTGGAA...................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................TTGAATCTGCATACAGTAGAGGAGCAGA.........................................................................	28	9	0.11	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................TCTGCATACAGTAGAGGAGC............................................................................	20	10	0.10	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................TGAATCTGCATACAGTAGA.................................................................................	19	10	0.10	1	0	1	0	0	0	0	0	0	0	0

droPer2

C-----------------------------------------------------------AGATTTGGGGTATAGCTGCAAAAACGAACTACAAACGGATACAGGTCCTGCAGAATCGCGCCATGCGGCAAATAACGAACT--GCCTGGTACGTGCGAGGCTCCACCCTACATCGGGACTT---------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
....................................................................................................................................TAACGAACT--GCCTGGTACGTGCGAGG........................................................................................................................	26	2	1.50	3	0	3	0	0	0	0
....................................................................................................................................TAACGAACT--GCCTGGTACGTGCGAGGC.......................................................................................................................	27	2	1.50	3	1	2	0	0	0	0
....................................................................................................................................TAACGAACT--GCCTGGTACGTGCGA..........................................................................................................................	24	2	1.00	2	0	2	0	0	0	0
....................................................................................................................................TAACGAACT--GCCTGGTACGTGCGAG.........................................................................................................................	25	2	1.00	2	0	2	0	0	0	0
...........................................................................................................................TGCGGCAAATAACGAACT--GCCTGGTACG...............................................................................................................................	28	2	0.50	1	0	1	0	0	0	0
......................................................................................................................................ACGAACT--GCCTGGTACGTGCGAGGC.......................................................................................................................	25	2	0.50	1	0	1	0	0	0	0
.....................................................................................GAACTACAAACGGATACAGGTCCTGCA........................................................................................................................................................................	27	3	0.33	1	0	1	0	0	0	0
...........................................................................................CAAACGGATACAGGTCCTGCAGA......................................................................................................................................................................	23	4	0.25	1	0	1	0	0	0	0

droAna3

T-----------------------------------------------------GCATTCAGATATGGGGCATGGCTTCTGACACAAATGTCATGAAAGTGCAAAAAACCCAAAACCGAGCGCTTCCCATGATGGCAAACGCGCCTTGGTATGTTCGAAACGACCCCCTAACAAATGATCTCCACATTCCCTCCATTAAAAAACAGATCAACCGTCACTCCAGTCGCCACAACGATCGCCT---------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
............................................................................................................................TCCCATGATGGCAAACGCGCCTTGG...................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0
............................................................................................................................TCCCATGATGGCAAACGCGCC.......................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
.......................................................CATTCAGATATGGGGCATGGCTT..........................................................................................................................................................................................................	23	20	0.15	3	2	1	0	0	0	0
T-----------------------------------------------------GCATTCAGATATGGGGCATGGC............................................................................................................................................................................................................	23	20	0.15	3	3	0	0	0	0	0
........................................................ATTCAGATATGGGGCATGGCTTCT........................................................................................................................................................................................................	24	20	0.10	2	1	1	0	0	0	0
.................................................................................................................................TGATGGCAAACGCGCCTTGGTATG...............................................................................................................................	24	20	0.10	2	0	2	0	0	0	0
............................................................................................................................................................................AAATGATCTCCACATTCCCTCC......................................................................................	22	20	0.10	2	1	1	0	0	0	0
.............................................................GATATGGGGCATGGCTTCTGACACA..................................................................................................................................................................................................	25	20	0.10	2	0	0	0	0	0	2
.......................................................CATTCAGATATGGGGCATGG.............................................................................................................................................................................................................	20	20	0.10	2	1	1	0	0	0	0
.......................................................CATTCAGATATGGGGCATGGCTTCTG.......................................................................................................................................................................................................	26	20	0.10	2	2	0	0	0	0	0
T-----------------------------------------------------GCATTCAGATATGGGGCATGGCTT..........................................................................................................................................................................................................	25	20	0.10	2	2	0	0	0	0	0
.......................................................CATTCAGATATGGGGCATGGCTTC.........................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
...............................................................................................................................CATGATGGCAAACGCGCCTTGGTAT................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0
..................................................................................................................................GATGGCAAACGCGCCTTGGTATGTTC............................................................................................................................	26	20	0.05	1	0	1	0	0	0	0
T-----------------------------------------------------GCATTCAGATATGGGGCATGG.............................................................................................................................................................................................................	22	20	0.05	1	1	0	0	0	0	0
.........................................................TTCAGATATGGGGCATGGC............................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
.........................................................TTCAGATATGGGGCATGGCTTCTGA......................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0
.......................................................CATTCAGATATGGGGCATGGC............................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
...............................................................TATGGGGCATGGCTTCTGACAC...................................................................................................................................................................................................	22	20	0.05	1	1	0	0	0	0	0
....................................................................GGCATGGCTTCTGACACAAATGTC............................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0

droKik1

TCAATTG-----TTGTGCCTTCGA---------------------TGACTTACTGCATCCAATTGTGGGGCATGGCTTCTGACTCGAACGTCATGAAGGTGCAAAGAGTCCAAAACCGGGCGCTGCGCTTGATTGCTAATGCCCCCTGGTACGTTAGAAATAAAGCCTTGGCAAGTGACCTCCACATTCCCTCTATCAGGGAGCAGATCAACCGGCATTCAAGTCGGTATAACGAACGTCT---------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CT----------------------------------------------------GCATCCAATTATGGGCCATGGCTTCAGACTCTAATGTGGTTAAAGTTCAAAGAGTCCAAAACCGGGCGCTGCGAAGGATTGCAAATGCGCCATGGTACATCAGGAACGACGCCCTAGGAAATGACCTCCACATTCCTTCTGTCAGGGAACAGATAAACCGCCACTCGAGTCGGTAGAACGATCG------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

G------------------------------------------------------AATCCAAATTTGGGGAGTGGCGGCTGCGTCCCACCGAAAACGTTTCCAAACCGTCCAGAACAAAACATTAAGACGAATCACTGGCTGTGAGTGGTTCGTTAGCGGCCAAACGCTTCACAATGACCTAAACCTGAGTCTTGTTGAAGACCAAATATCGTTCTTCTCAAGCAGGTACAACGACCGTCT---------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CT----------------------------------------------------GCATCCAACTTTGGGGCATGGCTTCCGACTCTAACGTCATGAAGGTCCAAAGAGTCCAAAATAGGGCGCTGCGAACAATCACGAATGCGCCGTGGTACGTCAGAAACATAGACCTAGCCAACGATCTCCACATGCCCTCGGTCAGGGATCAGATTAACCGGCACTCGAGTCGGTACAACGAACGCCT---------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

A--------------------------------------------------------------------------------------------------TTCAAAAGGTTCAAAGCCGGGCGTTGCGCATGATTGCAAATGCGCCTTGGTACGTCAGAAACAAAGCTCTAGAAGATGACCTCCACATTCCCTCTATTAGGGAACAGATAAACAGGCACTCGAGTCGGTACAACGAACGTCTCACAGC---------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

G------------------------------------------------------GATCCAGATTTGGGGAATTGCAGCCAAATCT----TAATCCAAATCCAGGTGATGCAAAATCGTGCATTACGACAAACAACCAACTGTGACTGGTATGCACGTAACTCCACACTCCATAAAGACCTCAATCTTCACACAGTTGAGGCACAAATTGGGAGACCCACAAGTCGATACAGTGACAGATTAC-------------------------------------	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	GSM231091 Ovary	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
.........................................................TCCAGATTTGGGGAATTGCAGCCAAA.....................................................................................................................................................................................................	26	3	4.00	12	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	2	0	0	0	0	0	0	0	0	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	2	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	1	0	0	0	0	0	0	0	0	0
.................................................................................................AATCCAGGTGATGCAAAATCG..................................................................................................................................................................	21	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................GAGACCCACAAGTCGAGC...................................................	18	5	1.40	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	1	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	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................ATCCAGATTTGGGGAATTGCAGCCAAA.....................................................................................................................................................................................................	27	3	1.33	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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
...................................................................................................TCCAGGTGATGCAAAATCGTGC...............................................................................................................................................................	22	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................GGGGAATTGCAGCCAAATCT----TAATCC........................................................................................................................................................................................	26	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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.......................................................GATCCAGATTTGGGGAATTG.............................................................................................................................................................................................................	20	7	0.14	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................ATCCAGATTTGGGGAATTGAT...........................................................................................................................................................................................................	21	7	0.14	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................CAGATTTGGGGAATTGCAG..........................................................................................................................................................................................................	19	8	0.13	1	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................GAGACCCACAAGTCGAGCA..................................................	19	20	0.05	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSim2

A--------------------------------------------------------TCCAAATTTGGGGAGTGGCGGCTGCGTCCCACCGAAAACGATTCCAAACCGTCCAGAACAAAACATTAAGACAAATCACTGGCTGTGACTGGTTCGTTAGCGGCCAAACGCTTCACAATGATTTAAACCTGAGCCTTGTTGAAGACCAAATCTCGTTCTTCTCAAGCAGATACAACGATCG------------------------------------------

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

No Reads

droSec2

ATGG---------------------------------------------------TTGTCAGATTTGGGGCTTGGCTTGCGACAGGTAAATTCGCCGCATTCAGGCTGCCCAAAACAAAATCGCCAGGACAATTACCGGCTGCGAATGGTACGTAAGGAACTCAACCCTGCACAAAGACCATAAGCTAGCCACTGTCTTTGAGGCAATAAACATGCACTCTAGCCGGTACCACGACAGGCTAG-AGCGCCACAGAAATCGCCTAGCCAAG----GCACTG	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
.........................................................................................................................................................TAAGGAACTCAACCCTGCACAAAGACCA...................................................................................................	28	1	1.00	1	1	0	0	0
...................................................................................................TTCAGGCTGCCCAAAACAAAATCGC............................................................................................................................................................	25	1	1.00	1	1	0	0	0
...................................................................................................................................................................................................................................TACCACGACAGGCTAG-AGCGC...............................	21	2	0.50	1	0	0	1	0
.........................................................................................................................................................................................................................................................CACAGAAATCGCCTAGCCAAG----GCAC..	25	2	0.50	1	1	0	0	0
............................................................................................................................................................................................................CAATAAACATGCACTCTAGCCGGTAC..................................................	26	3	0.33	1	1	0	0	0
.....................................................................................................................................................TACGTAAGGAACTCAACCCTGCA............................................................................................................	23	10	0.30	3	3	0	0	0
.TGG---------------------------------------------------TTGTCAGATTTGGGGCTT...............................................................................................................................................................................................................	21	4	0.25	1	0	1	0	0
.......................................................TTGTCAGATTTGGGGCTTGGT............................................................................................................................................................................................................	21	5	0.20	1	0	1	0	0
........................................................TGTCAGATTTGGGGCTTGGCTTGC........................................................................................................................................................................................................	24	5	0.20	1	1	0	0	0
.....................................................................................................................................................TACGTAAGGAACTCAACCCTGCAC...........................................................................................................	24	10	0.20	2	2	0	0	0
................................................................................................................................................................................................................................................TAG-AGCGCCACAGAAATCGCCT.................	22	7	0.14	1	0	0	1	0
...............................................................................................................................................................................................................TAAACATGCACTCTAGCCGGT....................................................	21	7	0.14	1	1	0	0	0
..........................................................................................................................................................................................................................................ACAGGCTAG-AGCGCCACAGAAATCGC...................	26	8	0.13	1	1	0	0	0
................................................................................................................................ACAATTACCGGCTGCGAATGG...................................................................................................................................	21	9	0.11	1	1	0	0	0
........................................................................................................................................................GTAAGGAACTCAACCCTGCACAAAGA......................................................................................................	26	10	0.10	1	1	0	0	0
.....................................................................................................................................................TACGTAAGGAACTCAACCCTGCACA..........................................................................................................	25	10	0.10	1	1	0	0	0

droYak3

A--------------------------------------------------------TCCAAATTTGGGGAGTGGCGGCTGCGTCCCACCGAAAACGATTCCAAACCGTCCAGAACAAAACATTAAGACAAATCACTGGCTGTGACTGGTTCGTTAGCGGCCAAACGCTTCACAAAGATTTAAACCTGAGCCTTGTTGAAGACCAAATCTCGTTCTTCTCAAGCAGATACAACGACCG------------------------------------------	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
..............................................................................................................................................................................AAGATTTAAACCTGAGCCTTGT....................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................AAAGATTTAAACCTGAGCCTTGTAT..................................................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...................................................................................................................CAAAACATTAAGACAAATCACTGGC............................................................................................................................................	25	20	0.55	11	0	10	1	0	0	0	0	0	0	0	0
.........................................................TCCAAATTTGGGGAGTGGCGGCTGCG.....................................................................................................................................................................................................	26	20	0.30	6	0	2	0	0	0	0	0	0	0	0	4
...................................................................................................................CAAAACATTAAGACAAATCACTGG.............................................................................................................................................	24	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................TAAACCTGAGCCTTGTTGAAGACCAAA.........................................................................	27	20	0.15	3	0	2	1	0	0	0	0	0	0	0	0
........................................................................................CCGAAAACGATTCCAAACCGTCCAGA......................................................................................................................................................................	26	16	0.13	2	0	2	0	0	0	0	0	0	0	0	0
........................................................................................................................CATTAAGACAAATCACTGGCTGTGAC......................................................................................................................................	26	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
........................................................................................................................................TGGCTGTGACTGGTTCGTTAGCGGC.......................................................................................................................	25	20	0.10	2	0	1	1	0	0	0	0	0	0	0	0
...........................................................................................................................TAAGACAAATCACTGGCTGTGACTGG...................................................................................................................................	26	20	0.10	2	0	1	1	0	0	0	0	0	0	0	0
......................................................................................CACCGAAAACGATTCCAAACCGTCCAGAA.....................................................................................................................................................................	29	16	0.06	1	0	0	1	0	0	0	0	0	0	0	0
...................................................................................TCCCACCGAAAACGATTCCAAACCGTC..........................................................................................................................................................................	27	16	0.06	1	0	0	1	0	0	0	0	0	0	0	0
........................................................................................CCGAAAACGATTCCAAACCGTCCAGAA.....................................................................................................................................................................	27	16	0.06	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................TCCCACCGAAAACGATTCCAAACCG............................................................................................................................................................................	25	16	0.06	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................ACGATTCCAAACCGTCCAGAAC....................................................................................................................................................................	22	17	0.06	1	0	1	0	0	0	0	0	0	0	0	0
..................................................................................................TTCCAAACCGTCCAGAACAAAA................................................................................................................................................................	22	18	0.06	1	1	0	0	0	0	0	0	0	0	0	0
.........................................................TCCAAATTTGGGGAGTGGC............................................................................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
...................................................................................................................CAAAACATTAAGACAAATCACTGGCTG..........................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
..............................................................................CTGCGTCCCACCGAAAACGATTCCA.................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................TGCGTCCCACCGAAAACGATTCCAAAC..............................................................................................................................................................................	27	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
................................................................................................................GAACAAAACATTAAGACAAATCACT...............................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
...............................................................TTTGGGGAGTGGCGGCTGCGTCCC.................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................TCCAAATTTGGGGAGTGGCGGG.........................................................................................................................................................................................................	22	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0
................................................................................................................................................................................GATTTAAACCTGAGCCTTGTTGAAGACC............................................................................	28	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................TGGCTGTGACTGGTTCGTTAGCGG........................................................................................................................	24	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.............................................................AATTTGGGGAGTGGCGGCTGCGTC...................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................CGGCTGCGTCCCACCGAAAA.........................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................TGACTGGTTCGTTAGCGGCCAAACG.................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................TGAGCCTTGTTGAAGACCAAATCTCG....................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................TGTGACTGGTTCGTTAGCGGCCAAA...................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................TTCTCAAGCAGATACAACGACC...........................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
....................................................................................................................AAAACATTAAGACAAATCACTGGCTG..........................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................TGGCGGCTGCGTCCCACCGAAAAC........................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................AGACAAATCACTGGCTGTGACT.....................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0

droEre2

TCGCGCAGTACATTGTCACTCTCCAACAAGTTGACAATTTACAAACAGATTATAGCAC-CAAACTGAAAGTACGGGTG----------------CCAAATCCAGGCTATACAAAACAAGGTCTCAAGACTCATCACCGTCTGCGAGTGGCTTGTGCGAAACACCACCCTGCACAGAGACCTCAAAGTCGCGAC---------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.............................................................................................................................AGACTCATCACCGTCTGCGAGTGG...................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	1
.......................................................................................................................................................TGTGCGAAACACCACCCTGCACAGAGAC.....................................................................................................	28	20	0.40	8	0	0	0	0	0	0	8
.......................................................................................................................................................TGTGCGAAACACCACCCTGCACAGAGACC....................................................................................................	29	20	0.05	1	0	0	0	0	0	0	1

dvi_2109

scaffold_12736:358925-359075 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads